https://launchpad.net/ubuntu/+source/kmer/0~20150903+r2013-6/+build/15629559 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux lgw01-amd64-059 4.4.0-138-generic #164-Ubuntu SMP Tue Oct 2 17:16:02 UTC 2018 x86_64 Buildd toolchain package versions: launchpad-buildd_165 python-lpbuildd_165 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.5 dpkg-dev_1.18.4ubuntu1.5 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 9 Nov 10:23:17 ntpdate[1802]: adjust time server 10.211.37.1 offset -0.000406 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15629559 /home/buildd/filecache-default/b71572c9405b6ce6ff1d1ad001cf764bb07f52ae Creating target for build PACKAGEBUILD-15629559 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15629559 Starting target for build PACKAGEBUILD-15629559 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15629559 'deb http://ftpmaster.internal/ubuntu disco main universe' 'deb http://ftpmaster.internal/ubuntu disco-security main universe' 'deb http://ftpmaster.internal/ubuntu disco-updates main universe' 'deb http://ftpmaster.internal/ubuntu disco-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-15629559 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15629559 Updating target for build PACKAGEBUILD-15629559 Get:1 http://ftpmaster.internal/ubuntu disco InRelease [243 kB] Get:2 http://ftpmaster.internal/ubuntu disco-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu disco-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed InRelease [93.2 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main amd64 Packages [1017 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main Translation-en [513 kB] Get:7 http://ftpmaster.internal/ubuntu disco/universe amd64 Packages [8757 kB] Get:8 http://ftpmaster.internal/ubuntu disco/universe Translation-en [5037 kB] Get:9 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 Packages [153 kB] Get:10 http://ftpmaster.internal/ubuntu disco-proposed/main Translation-en [80.3 kB] Get:11 http://ftpmaster.internal/ubuntu disco-proposed/universe amd64 Packages [350 kB] Get:12 http://ftpmaster.internal/ubuntu disco-proposed/universe Translation-en [229 kB] Fetched 16.6 MB in 5s (3562 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: libgdbm5 libperl5.26 perl-modules-5.26 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libgdbm6 libperl5.28 perl-modules-5.28 The following packages will be upgraded: base-files binutils binutils-common binutils-x86-64-linux-gnu cpp cpp-8 dash dmsetup findutils g++ g++-8 gcc gcc-8 gcc-8-base hostname init init-system-helpers libapparmor1 libasan5 libatomic1 libaudit-common libaudit1 libbinutils libcap-ng0 libcc1-0 libdb5.3 libdevmapper1.02.1 libgcc-8-dev libgcc1 libgdbm-compat4 libgomp1 libgpg-error0 libitm1 libkmod2 liblsan0 libmpx2 libquadmath0 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsqlite3-0 libstdc++-8-dev libstdc++6 libsystemd0 libtsan0 libubsan1 libudev1 linux-libc-dev lockfile-progs perl perl-base sed systemd systemd-sysv tzdata 56 upgraded, 3 newly installed, 0 to remove and 0 not upgraded. Need to get 46.7 MB of archives. After this operation, 48.7 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu disco/main amd64 base-files amd64 10.1ubuntu8 [60.1 kB] Get:2 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 dash amd64 0.5.10.2-1 [89.3 kB] Get:3 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 findutils amd64 4.6.0+git+20181018-1 [295 kB] Get:4 http://ftpmaster.internal/ubuntu disco/main amd64 hostname amd64 3.21 [11.2 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main amd64 perl-modules-5.28 all 5.28.0-3 [2818 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main amd64 libgdbm6 amd64 1.18.1-1 [27.8 kB] Get:7 http://ftpmaster.internal/ubuntu disco/main amd64 libgdbm-compat4 amd64 1.18.1-1 [6148 B] Get:8 http://ftpmaster.internal/ubuntu disco/main amd64 libperl5.28 amd64 5.28.0-3 [3804 kB] Get:9 http://ftpmaster.internal/ubuntu disco/main amd64 perl amd64 5.28.0-3 [204 kB] Get:10 http://ftpmaster.internal/ubuntu disco/main amd64 perl-base amd64 5.28.0-3 [1510 kB] Get:11 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libdb5.3 amd64 5.3.28+dfsg1-0.2 [672 kB] Get:12 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 sed amd64 4.5-2 [186 kB] Get:13 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 init-system-helpers all 1.55 [38.5 kB] Get:14 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 systemd-sysv amd64 239-7ubuntu10.1 [9404 B] Get:15 http://ftpmaster.internal/ubuntu disco/main amd64 libapparmor1 amd64 2.12-4ubuntu10 [29.9 kB] Get:16 http://ftpmaster.internal/ubuntu disco/main amd64 libaudit-common all 1:2.8.3-1ubuntu3 [4068 B] Get:17 http://ftpmaster.internal/ubuntu disco/main amd64 libcap-ng0 amd64 0.7.9-1build1 [10.9 kB] Get:18 http://ftpmaster.internal/ubuntu disco/main amd64 libaudit1 amd64 1:2.8.3-1ubuntu3 [38.8 kB] Get:19 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgpg-error0 amd64 1.32-3 [56.0 kB] Get:20 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libkmod2 amd64 25-1ubuntu1.1 [41.8 kB] Get:21 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 systemd amd64 239-7ubuntu10.1 [2968 kB] Get:22 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libsystemd0 amd64 239-7ubuntu10.1 [211 kB] Get:23 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 init amd64 1.55 [6480 B] Get:24 http://ftpmaster.internal/ubuntu disco/main amd64 libquadmath0 amd64 8.2.0-9ubuntu1 [134 kB] Get:25 http://ftpmaster.internal/ubuntu disco/main amd64 libubsan1 amd64 8.2.0-9ubuntu1 [121 kB] Get:26 http://ftpmaster.internal/ubuntu disco/main amd64 libitm1 amd64 8.2.0-9ubuntu1 [28.1 kB] Get:27 http://ftpmaster.internal/ubuntu disco/main amd64 libasan5 amd64 8.2.0-9ubuntu1 [364 kB] Get:28 http://ftpmaster.internal/ubuntu disco/main amd64 gcc-8-base amd64 8.2.0-9ubuntu1 [18.6 kB] Get:29 http://ftpmaster.internal/ubuntu disco/main amd64 libstdc++6 amd64 8.2.0-9ubuntu1 [399 kB] Get:30 http://ftpmaster.internal/ubuntu disco/main amd64 libgomp1 amd64 8.2.0-9ubuntu1 [76.4 kB] Get:31 http://ftpmaster.internal/ubuntu disco/main amd64 libatomic1 amd64 8.2.0-9ubuntu1 [9076 B] Get:32 http://ftpmaster.internal/ubuntu disco/main amd64 liblsan0 amd64 8.2.0-9ubuntu1 [132 kB] Get:33 http://ftpmaster.internal/ubuntu disco/main amd64 libtsan0 amd64 8.2.0-9ubuntu1 [288 kB] Get:34 http://ftpmaster.internal/ubuntu disco/main amd64 libmpx2 amd64 8.2.0-9ubuntu1 [11.7 kB] Get:35 http://ftpmaster.internal/ubuntu disco/main amd64 cpp-8 amd64 8.2.0-9ubuntu1 [7222 kB] Get:36 http://ftpmaster.internal/ubuntu disco/main amd64 libcc1-0 amd64 8.2.0-9ubuntu1 [39.5 kB] Get:37 http://ftpmaster.internal/ubuntu disco/main amd64 gcc-8 amd64 8.2.0-9ubuntu1 [7999 kB] Get:38 http://ftpmaster.internal/ubuntu disco/main amd64 g++-8 amd64 8.2.0-9ubuntu1 [8115 kB] Get:39 http://ftpmaster.internal/ubuntu disco/main amd64 libstdc++-8-dev amd64 8.2.0-9ubuntu1 [1538 kB] Get:40 http://ftpmaster.internal/ubuntu disco/main amd64 libgcc-8-dev amd64 8.2.0-9ubuntu1 [2304 kB] Get:41 http://ftpmaster.internal/ubuntu disco/main amd64 libgcc1 amd64 1:8.2.0-9ubuntu1 [40.7 kB] Get:42 http://ftpmaster.internal/ubuntu disco/main amd64 libbinutils amd64 2.31.1-7ubuntu1 [483 kB] Get:43 http://ftpmaster.internal/ubuntu disco/main amd64 binutils-common amd64 2.31.1-7ubuntu1 [194 kB] Get:44 http://ftpmaster.internal/ubuntu disco/main amd64 binutils amd64 2.31.1-7ubuntu1 [3392 B] Get:45 http://ftpmaster.internal/ubuntu disco/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-7ubuntu1 [1829 kB] Get:46 http://ftpmaster.internal/ubuntu disco/main amd64 libselinux1 amd64 2.8-1build2 [68.6 kB] Get:47 http://ftpmaster.internal/ubuntu disco/main amd64 libsemanage-common all 2.8-1build2 [6892 B] Get:48 http://ftpmaster.internal/ubuntu disco/main amd64 libsemanage1 amd64 2.8-1build2 [85.1 kB] Get:49 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libudev1 amd64 239-7ubuntu10.1 [53.9 kB] Get:50 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libseccomp2 amd64 2.3.3-3ubuntu2 [38.9 kB] Get:51 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libdevmapper1.02.1 amd64 2:1.02.145-4.1ubuntu4 [127 kB] Get:52 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 dmsetup amd64 2:1.02.145-4.1ubuntu4 [74.6 kB] Get:53 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libsqlite3-0 amd64 3.25.3-1 [529 kB] Get:54 http://ftpmaster.internal/ubuntu disco/main amd64 tzdata all 2018g-1 [188 kB] Get:55 http://ftpmaster.internal/ubuntu disco/main amd64 g++ amd64 4:8.2.0-2ubuntu2 [1608 B] Get:56 http://ftpmaster.internal/ubuntu disco/main amd64 gcc amd64 4:8.2.0-2ubuntu2 [5224 B] Get:57 http://ftpmaster.internal/ubuntu disco/main amd64 cpp amd64 4:8.2.0-2ubuntu2 [27.6 kB] Get:58 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 linux-libc-dev amd64 4.18.0-11.12 [1039 kB] Get:59 http://ftpmaster.internal/ubuntu disco/main amd64 lockfile-progs amd64 0.1.18 [9872 B] debconf: delaying package configuration, since apt-utils is not 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Universal Time is now: Fri Nov 9 10:23:54 UTC 2018. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up init (1.55) ... Setting up libtsan0:amd64 (8.2.0-9ubuntu1) ... Setting up linux-libc-dev:amd64 (4.18.0-11.12) ... Setting up libdevmapper1.02.1:amd64 (2:1.02.145-4.1ubuntu4) ... Setting up liblsan0:amd64 (8.2.0-9ubuntu1) ... Setting up libgdbm6:amd64 (1.18.1-1) ... Setting up binutils-common:amd64 (2.31.1-7ubuntu1) ... Setting up libmpx2:amd64 (8.2.0-9ubuntu1) ... Setting up perl-modules-5.28 (5.28.0-3) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up libsqlite3-0:amd64 (3.25.3-1) ... Setting up dmsetup (2:1.02.145-4.1ubuntu4) ... Setting up libgdbm-compat4:amd64 (1.18.1-1) ... Setting up lockfile-progs (0.1.18) ... Setting up libasan5:amd64 (8.2.0-9ubuntu1) ... Setting up libitm1:amd64 (8.2.0-9ubuntu1) ... Setting up libubsan1:amd64 (8.2.0-9ubuntu1) ... Setting up libbinutils:amd64 (2.31.1-7ubuntu1) ... Setting up libperl5.28:amd64 (5.28.0-3) ... Setting up perl (5.28.0-3) ... Setting up libgcc-8-dev:amd64 (8.2.0-9ubuntu1) ... Setting up binutils-x86-64-linux-gnu (2.31.1-7ubuntu1) ... Setting up libstdc++-8-dev:amd64 (8.2.0-9ubuntu1) ... Setting up binutils (2.31.1-7ubuntu1) ... Setting up gcc-8 (8.2.0-9ubuntu1) ... Setting up g++-8 (8.2.0-9ubuntu1) ... Setting up gcc (4:8.2.0-2ubuntu2) ... Setting up g++ (4:8.2.0-2ubuntu2) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-15629559 amd64 disco-proposed -c chroot:build-PACKAGEBUILD-15629559 --arch=amd64 --dist=disco-proposed --nolog -A 'kmer_0~20150903+r2013-6.dsc' Initiating build PACKAGEBUILD-15629559 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-138-generic #164-Ubuntu SMP Tue Oct 2 17:16:02 UTC 2018 x86_64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lgw01-amd64-059.buildd +==============================================================================+ | kmer 0~20150903+r2013-6 (amd64) 09 Nov 2018 10:23 | +==============================================================================+ Package: kmer Version: 0~20150903+r2013-6 Source Version: 0~20150903+r2013-6 Distribution: disco-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/kmer-JQO3FX/kmer-0~20150903+r2013' with '<>' I: NOTICE: Log filtering will replace 'build/kmer-JQO3FX' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-15629559/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- kmer_0~20150903+r2013-6.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-RtFrxu/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-RtFrxu/apt_archive ./ InRelease Get:2 copy:/<>/resolver-RtFrxu/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-RtFrxu/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-RtFrxu/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-RtFrxu/apt_archive ./ Packages [528 B] Fetched 2861 B in 0s (165 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libgdbm5 libperl5.26 perl-modules-5.26 Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-RtFrxu/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 852 B in 0s (0 B/s) Selecting previously unselected package sbuild-build-depends-core-dummy. (Reading database ... 14539 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper (>= 11~), dh-exec, dh-python, python-all-dev Filtered Build-Depends: debhelper (>= 11~), dh-exec, dh-python, python-all-dev dpkg-deb: building package 'sbuild-build-depends-kmer-dummy' in '/<>/resolver-_cuK13/apt_archive/sbuild-build-depends-kmer-dummy.deb'. Ign:1 copy:/<>/resolver-_cuK13/apt_archive ./ InRelease Get:2 copy:/<>/resolver-_cuK13/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-_cuK13/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-_cuK13/apt_archive ./ Sources [231 B] Get:5 copy:/<>/resolver-_cuK13/apt_archive ./ Packages [551 B] Fetched 2901 B in 0s (134 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install kmer build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: libgdbm5 libperl5.26 perl-modules-5.26 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-exec dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libglib2.0-0 libicu60 libmagic-mgc libmagic1 libmpdec2 libpipeline1 libpython-all-dev libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libtool libxml2 m4 man-db mime-support po-debconf python python-all python-all-dev python-dev python-minimal python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal python3 python3-distutils python3-lib2to3 python3-minimal python3.7 python3.7-minimal Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python-doc python-tk python2-doc python2.7-doc binfmt-support python3-doc python3-tk python3-venv python3.7-venv python3.7-doc Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-exec dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libbsd0 libcroco3 libelf1 libexpat1 libexpat1-dev libfile-stripnondeterminism-perl libglib2.0-0 libicu60 libmagic-mgc libmagic1 libmpdec2 libpipeline1 libpython-all-dev libpython-dev libpython-stdlib libpython2-dev libpython2-stdlib libpython2.7 libpython2.7-dev libpython2.7-minimal libpython2.7-stdlib libpython3-stdlib libpython3.7-minimal libpython3.7-stdlib libsigsegv2 libtool libxml2 m4 man-db mime-support po-debconf python python-all python-all-dev python-dev python-minimal python2 python2-dev python2-minimal python2.7 python2.7-dev python2.7-minimal python3 python3-distutils python3-lib2to3 python3-minimal python3.7 python3.7-minimal sbuild-build-depends-kmer-dummy 0 upgraded, 66 newly installed, 0 to remove and 0 not upgraded. Need to get 58.4 MB of archives. After this operation, 166 MB of additional disk space will be used. 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Setting up libelf1:amd64 (0.170-0.5.0ubuntu1) ... Setting up groff-base (1.22.3-10) ... Setting up libglib2.0-0:amd64 (2.58.1-2) ... No schema files found: doing nothing. Setting up gettext-base (0.19.8.1-8) ... Setting up libpipeline1:amd64 (1.5.0-2) ... Setting up m4 (1.4.18-1ubuntu1) ... Setting up libbsd0:amd64 (0.9.1-1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7ubuntu2) ... Setting up libmagic-mgc (1:5.34-2) ... Setting up libmagic1:amd64 (1:5.34-2) ... Setting up libcroco3:amd64 (0.6.12-2) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up dwz (0.12-2) ... Setting up autotools-dev (20180224.1) ... Setting up libexpat1-dev:amd64 (2.2.6-1) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libpython2.7-stdlib:amd64 (2.7.15-4ubuntu4) ... Setting up autopoint (0.19.8.1-8) ... Setting up libmpdec2:amd64 (2.4.2-2) ... Setting up libfile-stripnondeterminism-perl (0.044-1) ... Setting up libpython3.7-stdlib:amd64 (3.7.1-1) ... Setting up gettext (0.19.8.1-8) ... Setting up python2.7 (2.7.15-4ubuntu4) ... Setting up python3.7 (3.7.1-1) ... Setting up autoconf (2.69-11) ... Setting up file (1:5.34-2) ... Setting up intltool-debian (0.35.0+20060710.4) ... Setting up libpython2.7:amd64 (2.7.15-4ubuntu4) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up man-db (2.8.4-3) ... Not building database; man-db/auto-update is not 'true'. Setting up libpython2-stdlib:amd64 (2.7.15-3) ... Setting up libpython2.7-dev:amd64 (2.7.15-4ubuntu4) ... Setting up python2.7-dev (2.7.15-4ubuntu4) ... Setting up libtool (2.4.6-6) ... Setting up libpython3-stdlib:amd64 (3.7.1-1ubuntu1) ... Setting up po-debconf (1.0.20) ... Setting up python3 (3.7.1-1ubuntu1) ... Setting up python2 (2.7.15-3) ... Setting up libpython2-dev:amd64 (2.7.15-3) ... Setting up libpython-stdlib:amd64 (2.7.15-3) ... Setting up python2-dev (2.7.15-3) ... Setting up python3-lib2to3 (3.7.1-1ubuntu3) ... Setting up python3-distutils (3.7.1-1ubuntu3) ... Setting up python (2.7.15-3) ... Setting up libpython-dev:amd64 (2.7.15-3) ... Setting up python-dev (2.7.15-3) ... Setting up libpython-all-dev:amd64 (2.7.15-3) ... Setting up dh-python (3.20180927ubuntu2) ... Setting up python-all (2.7.15-3) ... Setting up python-all-dev (2.7.15-3) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (0.044-1) ... Setting up debhelper (11.3.2ubuntu1) ... Setting up dh-exec (0.23build1) ... Setting up sbuild-build-depends-kmer-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-138-generic amd64 (x86_64) Toolchain package versions: binutils_2.31.1-7ubuntu1 dpkg-dev_1.19.0.5ubuntu5 g++-8_8.2.0-9ubuntu1 gcc-8_8.2.0-9ubuntu1 libc6-dev_2.28-0ubuntu1 libstdc++-8-dev_8.2.0-9ubuntu1 libstdc++6_8.2.0-9ubuntu1 linux-libc-dev_4.18.0-11.12 Package versions: adduser_3.117ubuntu1 advancecomp_2.1-1 apt_1.7.0 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-8 autotools-dev_20180224.1 base-files_10.1ubuntu8 base-passwd_3.5.45 bash_4.4.18-2ubuntu3 binutils_2.31.1-7ubuntu1 binutils-common_2.31.1-7ubuntu1 binutils-x86-64-linux-gnu_2.31.1-7ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.32-0.1ubuntu2 build-essential_12.5ubuntu2 bzip2_1.0.6-9 ca-certificates_20180409 coreutils_8.28-1ubuntu2 cpp_4:8.2.0-2ubuntu2 cpp-8_8.2.0-9ubuntu1 dash_0.5.10.2-1 debconf_1.5.69 debhelper_11.3.2ubuntu1 debianutils_4.8.6 dh-autoreconf_19 dh-exec_0.23build1 dh-python_3.20180927ubuntu2 dh-strip-nondeterminism_0.044-1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu4 dpkg_1.19.0.5ubuntu5 dpkg-dev_1.19.0.5ubuntu5 dwz_0.12-2 e2fslibs_1.44.4-2 e2fsprogs_1.44.4-2 fakeroot_1.22-2ubuntu1 fdisk_2.32-0.1ubuntu2 file_1:5.34-2 findutils_4.6.0+git+20181018-1 g++_4:8.2.0-2ubuntu2 g++-8_8.2.0-9ubuntu1 gcc_4:8.2.0-2ubuntu2 gcc-8_8.2.0-9ubuntu1 gcc-8-base_8.2.0-9ubuntu1 gettext_0.19.8.1-8 gettext-base_0.19.8.1-8 gpg_2.2.8-3ubuntu1 gpg-agent_2.2.8-3ubuntu1 gpgconf_2.2.8-3ubuntu1 gpgv_2.2.8-3ubuntu1 grep_3.1-2ubuntu1 groff-base_1.22.3-10 gzip_1.6-5ubuntu2 hostname_3.21 init_1.55 init-system-helpers_1.55 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libapparmor1_2.12-4ubuntu10 libapt-pkg5.0_1.7.0 libarchive-zip-perl_1.64-1 libargon2-1_0~20171227-0.1 libasan5_8.2.0-9ubuntu1 libassuan0_2.5.1-2 libatomic1_8.2.0-9ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.3-1ubuntu3 libaudit1_1:2.8.3-1ubuntu3 libbinutils_2.31.1-7ubuntu1 libblkid1_2.32-0.1ubuntu2 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-9 libc-bin_2.28-0ubuntu1 libc-dev-bin_2.28-0ubuntu1 libc6_2.28-0ubuntu1 libc6-dev_2.28-0ubuntu1 libcap-ng0_0.7.9-1build1 libcap2_1:2.25-1.2 libcc1-0_8.2.0-9ubuntu1 libcom-err2_1.44.4-2 libcomerr2_1.44.4-2 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.4-2ubuntu2 libdb5.3_5.3.28+dfsg1-0.2 libdebconfclient0_0.244ubuntu1 libdevmapper1.02.1_2:1.02.145-4.1ubuntu4 libdpkg-perl_1.19.0.5ubuntu5 libelf1_0.170-0.5.0ubuntu1 libexpat1_2.2.6-1 libexpat1-dev_2.2.6-1 libext2fs2_1.44.4-2 libfakeroot_1.22-2ubuntu1 libfdisk1_2.32-0.1ubuntu2 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.044-1 libgcc-8-dev_8.2.0-9ubuntu1 libgcc1_1:8.2.0-9ubuntu1 libgcrypt20_1.8.3-1ubuntu1 libgdbm-compat4_1.18.1-1 libgdbm5_1.14.1-6 libgdbm6_1.18.1-1 libglib2.0-0_2.58.1-2 libgmp10_2:6.1.2+dfsg-3 libgnutls30_3.6.4-2ubuntu1 libgomp1_8.2.0-9ubuntu1 libgpg-error0_1.32-3 libhogweed4_3.4-1 libicu60_60.2-6ubuntu1 libidn11_1.33-2.2ubuntu1 libidn2-0_2.0.5-1 libip4tc0_1.6.1-2ubuntu2 libisl19_0.20-2 libitm1_8.2.0-9ubuntu1 libjson-c3_0.12.1-1.3 libkmod2_25-1ubuntu1.1 liblockfile-bin_1.14-1.1 liblockfile1_1.14-1.1 liblsan0_8.2.0-9ubuntu1 liblz4-1_1.8.2-1ubuntu1 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.34-2 libmagic1_1:5.34-2 libmount1_2.32-0.1ubuntu2 libmpc3_1.1.0-1 libmpdec2_2.4.2-2 libmpfr6_4.0.1-1 libmpx2_8.2.0-9ubuntu1 libncurses6_6.1+20180210-4ubuntu1 libncursesw6_6.1+20180210-4ubuntu1 libnettle6_3.4-1 libnpth0_1.6-1 libp11-kit0_0.23.14-2 libpam-modules_1.1.8-3.6ubuntu2 libpam-modules-bin_1.1.8-3.6ubuntu2 libpam-runtime_1.1.8-3.6ubuntu2 libpam0g_1.1.8-3.6ubuntu2 libpcre3_2:8.39-11 libperl5.26_5.26.2-7 libperl5.28_5.28.0-3 libpipeline1_1.5.0-2 libpng16-16_1.6.34-2 libprocps7_2:3.3.15-2ubuntu1 libpython-all-dev_2.7.15-3 libpython-dev_2.7.15-3 libpython-stdlib_2.7.15-3 libpython2-dev_2.7.15-3 libpython2-stdlib_2.7.15-3 libpython2.7_2.7.15-4ubuntu4 libpython2.7-dev_2.7.15-4ubuntu4 libpython2.7-minimal_2.7.15-4ubuntu4 libpython2.7-stdlib_2.7.15-4ubuntu4 libpython3-stdlib_3.7.1-1ubuntu1 libpython3.7-minimal_3.7.1-1 libpython3.7-stdlib_3.7.1-1 libquadmath0_8.2.0-9ubuntu1 libreadline7_7.0-5 libseccomp2_2.3.3-3ubuntu2 libselinux1_2.8-1build2 libsemanage-common_2.8-1build2 libsemanage1_2.8-1build2 libsepol1_2.8-1 libsigsegv2_2.12-2 libslang2_2.3.2-1ubuntu1 libsmartcols1_2.32-0.1ubuntu2 libsqlite3-0_3.25.3-1 libss2_1.44.4-2 libssl1.1_1.1.1-1ubuntu2 libstdc++-8-dev_8.2.0-9ubuntu1 libstdc++6_8.2.0-9ubuntu1 libsystemd0_239-7ubuntu10.1 libtasn1-6_4.13-3 libtinfo6_6.1+20180210-4ubuntu1 libtool_2.4.6-6 libtsan0_8.2.0-9ubuntu1 libubsan1_8.2.0-9ubuntu1 libudev1_239-7ubuntu10.1 libunistring2_0.9.10-1ubuntu1 libusb-0.1-4_2:0.1.12-32 libuuid1_2.32-0.1ubuntu2 libxml2_2.9.4+dfsg1-7ubuntu2 libzstd1_1.3.5+dfsg-1ubuntu1 linux-libc-dev_4.18.0-11.12 lockfile-progs_0.1.18 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-1ubuntu1 make_4.2.1-1.2 man-db_2.8.4-3 mawk_1.3.3-17ubuntu3 mime-support_3.60ubuntu1 mount_2.32-0.1ubuntu2 multiarch-support_2.28-0ubuntu1 ncurses-base_6.1+20180210-4ubuntu1 ncurses-bin_6.1+20180210-4ubuntu1 openssl_1.1.1-1ubuntu2 optipng_0.7.6-1.1 passwd_1:4.5-1ubuntu1 patch_2.7.6-3 perl_5.28.0-3 perl-base_5.28.0-3 perl-modules-5.26_5.26.2-7 perl-modules-5.28_5.28.0-3 pinentry-curses_1.1.0-1build2 pkgbinarymangler_143 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 procps_2:3.3.15-2ubuntu1 python_2.7.15-3 python-all_2.7.15-3 python-all-dev_2.7.15-3 python-dev_2.7.15-3 python-minimal_2.7.15-3 python2_2.7.15-3 python2-dev_2.7.15-3 python2-minimal_2.7.15-3 python2.7_2.7.15-4ubuntu4 python2.7-dev_2.7.15-4ubuntu4 python2.7-minimal_2.7.15-4ubuntu4 python3_3.7.1-1ubuntu1 python3-distutils_3.7.1-1ubuntu3 python3-lib2to3_3.7.1-1ubuntu3 python3-minimal_3.7.1-1ubuntu1 python3.7_3.7.1-1 python3.7-minimal_3.7.1-1 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-kmer-dummy_0.invalid.0 sed_4.5-2 sensible-utils_0.0.12 systemd_239-7ubuntu10.1 systemd-sysv_239-7ubuntu10.1 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu2 tar_1.30+dfsg-2 tzdata_2018g-1 ubuntu-keyring_2018.09.18.1 util-linux_2.32-0.1ubuntu2 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Mon Aug 27 19:29:44 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tillea@rki.de" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./kmer_0~20150903+r2013-6.dsc dpkg-source: info: extracting kmer in kmer-0~20150903+r2013 dpkg-source: info: unpacking kmer_0~20150903+r2013.orig.tar.gz dpkg-source: info: unpacking kmer_0~20150903+r2013-6.debian.tar.xz dpkg-source: info: applying allow-freebsd-build.patch dpkg-source: info: applying atac-helper-script-paths.patch dpkg-source: info: applying atac-readme.patch dpkg-source: info: applying spelling.patch dpkg-source: info: applying linux-cflags.patch dpkg-source: info: applying fix_wrong_evaluation_order.patch Check disc space ---------------- Sufficient free space for build User Environment ---------------- APT_CONFIG=/var/lib/sbuild/apt.conf DEB_BUILD_OPTIONS=parallel=4 HOME=/sbuild-nonexistent LANG=C.UTF-8 LC_ALL=C.UTF-8 LOGNAME=buildd PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games SCHROOT_ALIAS_NAME=build-PACKAGEBUILD-15629559 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15629559 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15629559 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package kmer dpkg-buildpackage: info: source version 0~20150903+r2013-6 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build kmer-0~20150903+r2013 dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --with python2 debian/rules override_dh_auto_clean make[1]: Entering directory '/<>/kmer-0~20150903+r2013' /usr/bin/make real-clean make[2]: Entering directory '/<>/kmer-0~20150903+r2013' rm -f ESTmapper/*.o ESTmapper/mergeCounts ESTmapper/terminate ESTmapper/Make.depends ESTmapper/mergeCounts.C.d ESTmapper/terminate.C.d ESTmapper/mergeCounts ESTmapper/terminate rm -f atac-driver/libatac/*.o atac-driver/libatac/*~ atac-driver/libatac/libatac.a atac-driver/libatac/Make.depends atac-driver/libatac/atacFeature.C.d atac-driver/libatac/atacFeatureList.C.d atac-driver/libatac/atacFile.C.d atac-driver/libatac/atacFileStreamMerge.C.d atac-driver/libatac/atacMatch.C.d atac-driver/libatac/atacMatchList.C.d atac-driver/libatac/atacMatchOrder.C.d rm -f atac-driver/alignOverlap/*.o atac-driver/alignOverlap/*~ atac-driver/alignOverlap/core atac-driver/alignOverlap/overlap-process1.C atac-driver/alignOverlap/overlap-process2.C atac-driver/alignOverlap/overlap atac-driver/alignOverlap/Make.depends atac-driver/alignOverlap/overlap.C.d atac-driver/alignOverlap/overlap-sort.C.d atac-driver/alignOverlap/overlap-printAnno.C.d atac-driver/alignOverlap/overlap-find.C.d rm -f atac-driver/gapShifter/*.o atac-driver/gapShifter/*~ atac-driver/gapShifter/core atac-driver/gapShifter/gapShifter atac-driver/gapShifter/extractSequence atac-driver/gapShifter/extractUnmapped atac-driver/gapShifter/coalesceMatches atac-driver/gapShifter/correctGaps atac-driver/gapShifter/testAtac atac-driver/gapShifter/cleanAtac atac-driver/gapShifter/projectFeatures atac-driver/gapShifter/Make.depends atac-driver/gapShifter/gapShifter.C.d atac-driver/gapShifter/extractSequence.C.d atac-driver/gapShifter/extractUnmapped.C.d atac-driver/gapShifter/coalesceMatches.C.d atac-driver/gapShifter/correctGaps.C.d atac-driver/gapShifter/testAtac.C.d atac-driver/gapShifter/cleanAtac.C.d atac-driver/gapShifter/projectFeatures.C.d rm -f atac-driver/lengthFilter/*.o atac-driver/lengthFilter/*~ atac-driver/lengthFilter/core atac-driver/lengthFilter/lengthFilter atac-driver/lengthFilter/Make.depends atac-driver/lengthFilter/lengthFilter.C.d rm -f atac-driver/matchExtender/*.o atac-driver/matchExtender/*~ atac-driver/matchExtender/core atac-driver/matchExtender/matchExtender atac-driver/matchExtender/Make.depends atac-driver/matchExtender/matchExtender.C.d atac-driver/matchExtender/matchExtender-dump.C.d atac-driver/matchExtender/matchExtender-func.C.d rm -f atac-driver/mismatchCounter/*.o atac-driver/mismatchCounter/*~ atac-driver/mismatchCounter/core atac-driver/mismatchCounter/mismatchCounter atac-driver/mismatchCounter/Make.depends atac-driver/mismatchCounter/mismatchCounter.C.d rm -f atac-driver/statsGenerator/*.o atac-driver/statsGenerator/*~ atac-driver/statsGenerator/core atac-driver/statsGenerator/statsGenerator atac-driver/statsGenerator/Make.depends atac-driver/statsGenerator/statsGenerator.C.d rm -f atac-driver/uniqueFilter/*.o atac-driver/uniqueFilter/*~ atac-driver/uniqueFilter/core atac-driver/uniqueFilter/uniqueFilter atac-driver/uniqueFilter/Make.depends atac-driver/uniqueFilter/uniqueFilter.C.d rm -f atac-driver/clumpMaker/*.o atac-driver/clumpMaker/*~ atac-driver/clumpMaker/core atac-driver/clumpMaker/clumpMaker atac-driver/clumpMaker/Make.depends atac-driver/clumpMaker/clumpMaker.C.d rm -f atac-driver/chainer/*.o atac-driver/chainer/*/*.o atac-driver/chainer/*.so atac-driver/chainer/python/*.pyc atac-driver/chainer/localAlignerInterfacemodule.so atac-driver/chainer/halignmodule.so atac-driver/chainer/Make.depends atac-driver/chainer/localalign/GF_ALN_dpaligner.C.d atac-driver/chainer/localalign/GF_ALN_local.C.d atac-driver/chainer/localalign/GF_ALN_overlap.C.d atac-driver/chainer/localalign/GF_ALN_loverlapper.C.d atac-driver/chainer/localalign/GF_ALN_pieceOlap.C.d atac-driver/chainer/localalign/localAlignerInterfacemodule.C.d atac-driver/chainer/halign/halign.C.d atac-driver/chainer/halign/halignmodule.C.d rm -f atac-driver/chimera/*.o atac-driver/chimera/*~ atac-driver/chimera/core atac-driver/chimera/happy-clones-span-clumps atac-driver/chimera/Make.depends atac-driver/chimera/happy-clones-span-clumps.C.d rm -f atac-driver/Make.depends rm -f seatac/*.o seatac/seatac seatac/heavychains seatac/filter-nop.so seatac/filter-heavychains.so seatac/Make.depends seatac/seatac.C.d seatac/configuration.C.d seatac/encodedQuery.C.d seatac/hitMatrix.C.d seatac/thr-search.C.d seatac/thr-loader.C.d seatac/thr-deadlock.C.d seatac/hitMatrix-sort.C.d rm -f leaff/*.o leaff/leaff leaff/Make.depends leaff/leaff.C.d leaff/blocks.C.d leaff/dups.C.d leaff/gc.C.d leaff/partition.C.d leaff/simseq.C.d leaff/stats.C.d rm -f meryl/*.o meryl/meryl meryl/simple meryl/mapMers meryl/mapMers-depth meryl/kmer-mask meryl/libmerylguts.a meryl/Make.depends meryl/args.C.d meryl/binaryOp.C.d meryl/build.C.d meryl/build-threads.C.d meryl/dump.C.d meryl/estimate.C.d meryl/merge.C.d meryl/unaryOp.C.d meryl/meryl.C.d meryl/simple.C.d meryl/mapMers.C.d meryl/mapMers-depth.C.d meryl/kmer-mask.C.d rm -f seagen/*.o seagen/seagen seagen/hitConverter seagen/filterEST seagen/filterMRNA seagen/filterNULL seagen/filtertest seagen/sortHits seagen/filterESTsimple seagen/Make.depends seagen/searchGENOME.C.d seagen/configuration.C.d seagen/encodedQuery.C.d seagen/thr-deadlock.C.d seagen/thr-loader.C.d seagen/thr-search.C.d seagen/thr-output.C.d seagen/hitMatrix-sort.C.d seagen/aHit.C.d seagen/hitConverter.C.d seagen/filterEST.C.d seagen/filterEST-complicated.C.d seagen/filterMRNA.C.d seagen/filterNULL.C.d seagen/sortHits.C.d seagen/filtertest.C.d seagen/hitReader.C.d seagen/hitMatrix.C.d rm -f sim4dbutils/*.o sim4dbutils/cleanPolishes sim4dbutils/fixPolishesIID sim4dbutils/comparePolishes sim4dbutils/convertToAtac sim4dbutils/convertToExtent sim4dbutils/convertPolishes sim4dbutils/detectChimera sim4dbutils/depthOfPolishes sim4dbutils/filterPolishes sim4dbutils/headPolishes sim4dbutils/mappedCoverage sim4dbutils/mergePolishes sim4dbutils/parseSNP sim4dbutils/pickBestPolish sim4dbutils/pickBestPair sim4dbutils/pickUniquePolish sim4dbutils/plotCoverageVsIdentity sim4dbutils/removeDuplicate sim4dbutils/sortPolishes sim4dbutils/summarizePolishes sim4dbutils/uniqPolishes sim4dbutils/vennPolishes sim4dbutils/realignPolishes sim4dbutils/removeRedundant sim4dbutils/reportAlignmentDifferences sim4dbutils/Make.depends sim4dbutils/cleanPolishes.C.d sim4dbutils/fixPolishesIID.C.d sim4dbutils/comparePolishes.C.d sim4dbutils/convertToAtac.C.d sim4dbutils/convertToExtent.C.d sim4dbutils/convertPolishes.C.d sim4dbutils/detectChimera.C.d sim4dbutils/depthOfPolishes.C.d sim4dbutils/filterPolishes.C.d sim4dbutils/headPolishes.C.d sim4dbutils/mappedCoverage.C.d sim4dbutils/mergePolishes.C.d sim4dbutils/parseSNP.C.d sim4dbutils/pickBestPolish.C.d sim4dbutils/pickBestPair.C.d sim4dbutils/pickUniquePolish.C.d sim4dbutils/plotCoverageVsIdentity.C.d sim4dbutils/removeDuplicate.C.d sim4dbutils/sortPolishes.C.d sim4dbutils/summarizePolishes.C.d sim4dbutils/uniqPolishes.C.d sim4dbutils/vennPolishes.C.d sim4dbutils/realignPolishes.C.d sim4dbutils/removeRedundant.C.d sim4dbutils/reportAlignmentDifferences.C.d sim4dbutils/s4p_overlap.C.d rm -f sim4db/*.o sim4db/sim4db sim4db/Make.depends sim4db/sim4th.C.d rm -f snapper/*.o snapper/snapper2 snapper/Make.depends snapper/snapper2.C.d snapper/configuration.C.d snapper/thr-search.C.d snapper/thr-filter.C.d snapper/thr-polish.C.d snapper/thr-polish-dp.C.d snapper/hitMatrix.C.d snapper/hitMatrix-sort.C.d rm -f tapper/*.o tapper/tagger tapper/tapper tapper/tapperconvert tapper/tappermerge tapper/tappersort tapper/tappererrorcorrect tapper/Make.depends tapper/tagger.C.d tapper/tapper.C.d tapper/tapperconvert.C.d tapper/tappermerge.C.d tapper/tappersort.C.d tapper/tappererrorcorrect.C.d rm -f /<>/kmer-0~20150903+r2013/libsim4/*.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/*.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/*.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libsim4/Make.depends /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/align.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/extend.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/poly.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/splice.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4core/util.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C.d /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C.d rm -f /<>/kmer-0~20150903+r2013/libkmer/*.o /<>/kmer-0~20150903+r2013/libkmer/existDB /<>/kmer-0~20150903+r2013/libkmer/positionDB /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libkmer/Make.depends /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C.d /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C.d /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C.d /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C.d /<>/kmer-0~20150903+r2013/libkmer/existDB.C.d /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C.d /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C.d /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C.d /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C.d /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C.d /<>/kmer-0~20150903+r2013/libkmer/positionDB.C.d /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C.d /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C.d rm -f /<>/kmer-0~20150903+r2013/libmeryl/*.o /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libmeryl/Make.depends /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C.d rm -f /<>/kmer-0~20150903+r2013/libbio/*.o /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libbio/Make.depends /<>/kmer-0~20150903+r2013/libbio/alphabet.c.d /<>/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.c.d /<>/kmer-0~20150903+r2013/libbio/alphabet-colorspace.c.d /<>/kmer-0~20150903+r2013/libbio/halign.c.d /<>/kmer-0~20150903+r2013/libbio/reversecomplement.c.d /<>/kmer-0~20150903+r2013/libbio/kmer.C.d rm -f /<>/kmer-0~20150903+r2013/libseq/*.o /<>/kmer-0~20150903+r2013/libseq/test-seqCache /<>/kmer-0~20150903+r2013/libseq/test-seqStream /<>/kmer-0~20150903+r2013/libseq/test-merStream /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libseq/Make.depends /<>/kmer-0~20150903+r2013/libseq/fastaFile.C.d /<>/kmer-0~20150903+r2013/libseq/fastaStdin.C.d /<>/kmer-0~20150903+r2013/libseq/fastqFile.C.d /<>/kmer-0~20150903+r2013/libseq/fastqStdin.C.d /<>/kmer-0~20150903+r2013/libseq/seqStore.C.d /<>/kmer-0~20150903+r2013/libseq/sffFile.C.d /<>/kmer-0~20150903+r2013/libseq/seqFactory.C.d /<>/kmer-0~20150903+r2013/libseq/seqCache.C.d /<>/kmer-0~20150903+r2013/libseq/seqStream.C.d /<>/kmer-0~20150903+r2013/libseq/merStream.C.d /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C.d /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C.d /<>/kmer-0~20150903+r2013/libseq/test-merStream.C.d rm -f /<>/kmer-0~20150903+r2013/libutil/mt19937ar/*.o /<>/kmer-0~20150903+r2013/libutil/mt19937ar/test.c /<>/kmer-0~20150903+r2013/libutil/mt19937ar/diffs /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test /<>/kmer-0~20150903+r2013/libutil/mt19937ar/libmt19937ar.a /<>/kmer-0~20150903+r2013/libutil/mt19937ar/Make.depends /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.c.d /<>/kmer-0~20150903+r2013/libutil/mt19937ar/test.c.d /<>/kmer-0~20150903+r2013/libutil/mt19937ar/*.o /<>/kmer-0~20150903+r2013/libutil/mt19937ar/test.c /<>/kmer-0~20150903+r2013/libutil/mt19937ar/diffs /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test rm -f /<>/kmer-0~20150903+r2013/libutil/kazlib/*.o /<>/kmer-0~20150903+r2013/libutil/kazlib/libkaz.a /<>/kmer-0~20150903+r2013/libutil/kazlib/Make.depends /<>/kmer-0~20150903+r2013/libutil/kazlib/dict.c.d /<>/kmer-0~20150903+r2013/libutil/kazlib/except.c.d /<>/kmer-0~20150903+r2013/libutil/kazlib/hash.c.d /<>/kmer-0~20150903+r2013/libutil/kazlib/list.c.d /<>/kmer-0~20150903+r2013/libutil/kazlib/sfx.c.d rm -f /<>/kmer-0~20150903+r2013/libutil/*.o /<>/kmer-0~20150903+r2013/libutil/libutil.a /<>/kmer-0~20150903+r2013/libutil/Make.depends /<>/kmer-0~20150903+r2013/libutil/file.c.d /<>/kmer-0~20150903+r2013/libutil/md5.c.d /<>/kmer-0~20150903+r2013/libutil/palloc.c.d /<>/kmer-0~20150903+r2013/libutil/qsort_mt.c.d /<>/kmer-0~20150903+r2013/libutil/util.c.d /<>/kmer-0~20150903+r2013/libutil/bigQueue.C.d /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.C.d /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C.d /<>/kmer-0~20150903+r2013/libutil/fibonacciNumbers.C.d /<>/kmer-0~20150903+r2013/libutil/readBuffer.C.d /<>/kmer-0~20150903+r2013/libutil/recordFile.C.d /<>/kmer-0~20150903+r2013/libutil/speedCounter.C.d /<>/kmer-0~20150903+r2013/libutil/sweatShop.C.d rm -f Make.depends Make.compilers make[2]: Leaving directory '/<>/kmer-0~20150903+r2013' rm -rf installdir make[1]: Leaving directory '/<>/kmer-0~20150903+r2013' dh_clean debian/rules build dh build --with python2 dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/<>/kmer-0~20150903+r2013' /usr/bin/make install \ CLDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" \ CXXLDFLAGS="-Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/<>/kmer-0~20150903+r2013' making /<>/kmer-0~20150903+r2013/libutil/kazlib/sfx.c.d making /<>/kmer-0~20150903+r2013/libutil/kazlib/list.c.d making /<>/kmer-0~20150903+r2013/libutil/kazlib/hash.c.d making /<>/kmer-0~20150903+r2013/libutil/kazlib/except.c.d making /<>/kmer-0~20150903+r2013/libutil/kazlib/dict.c.d gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o -c /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.c /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.c: In function ‘mtRandomGaussian’: /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.c:166:34: warning: variable ‘y2’ set but not used [-Wunused-but-set-variable] double x1=0, x2=0, w=0, y1=0, y2=0; ^~ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test.o -c /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test.c gcc -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test.o -pthread -ldl -lm /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test | diff - /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.out > /<>/kmer-0~20150903+r2013/libutil/mt19937ar/diffs 2>&1 if test -s /<>/kmer-0~20150903+r2013/libutil/mt19937ar/diffs ; then echo 'MT19937: TEST FAILED'; else echo 'MT19937: Test Passed'; fi MT19937: Test Passed touch /<>/kmer-0~20150903+r2013/libutil/mt19937ar/test.c /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar-test | diff - /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.out making /<>/kmer-0~20150903+r2013/libutil/mt19937ar/test.c.d making /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.c.d making /<>/kmer-0~20150903+r2013/libutil/sweatShop.C.d making /<>/kmer-0~20150903+r2013/libutil/speedCounter.C.d making /<>/kmer-0~20150903+r2013/libutil/recordFile.C.d making /<>/kmer-0~20150903+r2013/libutil/readBuffer.C.d making /<>/kmer-0~20150903+r2013/libutil/fibonacciNumbers.C.d making /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C.d making /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.C.d making /<>/kmer-0~20150903+r2013/libutil/bigQueue.C.d making /<>/kmer-0~20150903+r2013/libutil/util.c.d making /<>/kmer-0~20150903+r2013/libutil/qsort_mt.c.d making /<>/kmer-0~20150903+r2013/libutil/palloc.c.d making /<>/kmer-0~20150903+r2013/libutil/md5.c.d making /<>/kmer-0~20150903+r2013/libutil/file.c.d making /<>/kmer-0~20150903+r2013/libseq/test-merStream.C.d making /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C.d making /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C.d making /<>/kmer-0~20150903+r2013/libseq/merStream.C.d making /<>/kmer-0~20150903+r2013/libseq/seqStream.C.d making /<>/kmer-0~20150903+r2013/libseq/seqCache.C.d making /<>/kmer-0~20150903+r2013/libseq/seqFactory.C.d making /<>/kmer-0~20150903+r2013/libseq/sffFile.C.d making /<>/kmer-0~20150903+r2013/libseq/seqStore.C.d making /<>/kmer-0~20150903+r2013/libseq/fastqStdin.C.d making /<>/kmer-0~20150903+r2013/libseq/fastqFile.C.d making /<>/kmer-0~20150903+r2013/libseq/fastaStdin.C.d making /<>/kmer-0~20150903+r2013/libseq/fastaFile.C.d making /<>/kmer-0~20150903+r2013/libbio/kmer.C.d making /<>/kmer-0~20150903+r2013/libbio/reversecomplement.c.d making /<>/kmer-0~20150903+r2013/libbio/halign.c.d making /<>/kmer-0~20150903+r2013/libbio/alphabet-colorspace.c.d making /<>/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.c.d making /<>/kmer-0~20150903+r2013/libbio/alphabet.c.d making /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C.d making /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C.d making /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C.d making /<>/kmer-0~20150903+r2013/libkmer/positionDB.C.d making /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C.d making /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C.d making /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C.d making /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C.d making /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C.d making /<>/kmer-0~20150903+r2013/libkmer/existDB.C.d making /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C.d making /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C.d making /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C.d making /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/util.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/splice.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/poly.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/extend.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/align.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C.d making /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C.d making tapper/tappererrorcorrect.C.d making tapper/tappersort.C.d making tapper/tappermerge.C.d making tapper/tapperconvert.C.d making tapper/tapper.C.d making tapper/tagger.C.d making snapper/hitMatrix-sort.C.d making snapper/hitMatrix.C.d making snapper/thr-polish-dp.C.d making snapper/thr-polish.C.d making snapper/thr-filter.C.d making snapper/thr-search.C.d making snapper/configuration.C.d making snapper/snapper2.C.d making sim4db/sim4th.C.d making sim4dbutils/s4p_overlap.C.d making sim4dbutils/reportAlignmentDifferences.C.d making sim4dbutils/removeRedundant.C.d making sim4dbutils/realignPolishes.C.d making sim4dbutils/vennPolishes.C.d making sim4dbutils/uniqPolishes.C.d making sim4dbutils/summarizePolishes.C.d making sim4dbutils/sortPolishes.C.d making sim4dbutils/removeDuplicate.C.d making sim4dbutils/plotCoverageVsIdentity.C.d making sim4dbutils/pickUniquePolish.C.d making sim4dbutils/pickBestPair.C.d making sim4dbutils/pickBestPolish.C.d making sim4dbutils/parseSNP.C.d making sim4dbutils/mergePolishes.C.d making sim4dbutils/mappedCoverage.C.d making sim4dbutils/headPolishes.C.d making sim4dbutils/filterPolishes.C.d making sim4dbutils/depthOfPolishes.C.d making sim4dbutils/detectChimera.C.d making sim4dbutils/convertPolishes.C.d making sim4dbutils/convertToExtent.C.d making sim4dbutils/convertToAtac.C.d making sim4dbutils/comparePolishes.C.d making sim4dbutils/fixPolishesIID.C.d making sim4dbutils/cleanPolishes.C.d making seagen/hitMatrix.C.d making seagen/hitReader.C.d making seagen/filtertest.C.d making seagen/sortHits.C.d making seagen/filterNULL.C.d making seagen/filterMRNA.C.d making seagen/filterEST-complicated.C.d making seagen/filterEST.C.d making seagen/hitConverter.C.d making seagen/aHit.C.d making seagen/hitMatrix-sort.C.d making seagen/thr-output.C.d making seagen/thr-search.C.d making seagen/thr-loader.C.d making seagen/thr-deadlock.C.d making seagen/encodedQuery.C.d making seagen/configuration.C.d making seagen/searchGENOME.C.d making meryl/kmer-mask.C.d making meryl/mapMers-depth.C.d making meryl/mapMers.C.d making meryl/simple.C.d making meryl/meryl.C.d making meryl/unaryOp.C.d making meryl/merge.C.d making meryl/estimate.C.d making meryl/dump.C.d making meryl/build-threads.C.d making meryl/build.C.d making meryl/binaryOp.C.d making meryl/args.C.d making leaff/stats.C.d making leaff/simseq.C.d making leaff/partition.C.d making leaff/gc.C.d making leaff/dups.C.d making leaff/blocks.C.d making leaff/leaff.C.d making seatac/hitMatrix-sort.C.d making seatac/thr-deadlock.C.d making seatac/thr-loader.C.d making seatac/thr-search.C.d making seatac/hitMatrix.C.d making seatac/encodedQuery.C.d making seatac/configuration.C.d making seatac/seatac.C.d making atac-driver/chimera/happy-clones-span-clumps.C.d making atac-driver/chainer/halign/halignmodule.C.d making atac-driver/chainer/halign/halign.C.d making atac-driver/chainer/localalign/localAlignerInterfacemodule.C.d making atac-driver/chainer/localalign/GF_ALN_pieceOlap.C.d making atac-driver/chainer/localalign/GF_ALN_loverlapper.C.d making atac-driver/chainer/localalign/GF_ALN_overlap.C.d making atac-driver/chainer/localalign/GF_ALN_local.C.d making atac-driver/chainer/localalign/GF_ALN_dpaligner.C.d making atac-driver/clumpMaker/clumpMaker.C.d making atac-driver/uniqueFilter/uniqueFilter.C.d making atac-driver/statsGenerator/statsGenerator.C.d making atac-driver/mismatchCounter/mismatchCounter.C.d making atac-driver/matchExtender/matchExtender-func.C.d making atac-driver/matchExtender/matchExtender-dump.C.d making atac-driver/matchExtender/matchExtender.C.d making atac-driver/lengthFilter/lengthFilter.C.d making atac-driver/gapShifter/projectFeatures.C.d making atac-driver/gapShifter/cleanAtac.C.d making atac-driver/gapShifter/testAtac.C.d making atac-driver/gapShifter/correctGaps.C.d making atac-driver/gapShifter/coalesceMatches.C.d making atac-driver/gapShifter/extractUnmapped.C.d making atac-driver/gapShifter/extractSequence.C.d making atac-driver/gapShifter/gapShifter.C.d making atac-driver/alignOverlap/overlap-find.C.d making atac-driver/alignOverlap/overlap-printAnno.C.d making atac-driver/alignOverlap/overlap-sort.C.d making atac-driver/alignOverlap/overlap.C.d making atac-driver/libatac/atacMatchOrder.C.d making atac-driver/libatac/atacMatchList.C.d making atac-driver/libatac/atacMatch.C.d making atac-driver/libatac/atacFileStreamMerge.C.d making atac-driver/libatac/atacFile.C.d making atac-driver/libatac/atacFeatureList.C.d making atac-driver/libatac/atacFeature.C.d making ESTmapper/terminate.C.d making ESTmapper/mergeCounts.C.d g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ESTmapper/mergeCounts.o -c ESTmapper/mergeCounts.C ESTmapper/mergeCounts.C: In function ‘int main(int, char**)’: ESTmapper/mergeCounts.C:33:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(buf, 256, Fs[i]); ~~~~~^~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o ESTmapper/mergeCounts ESTmapper/mergeCounts.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ESTmapper/terminate.o -c ESTmapper/terminate.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from ESTmapper/terminate.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from ESTmapper/terminate.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from ESTmapper/terminate.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from ESTmapper/terminate.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ ESTmapper/terminate.C: In member function ‘void iidReaderWriter::load(uint32)’: ESTmapper/terminate.C:82:13: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result] fscanf(inFile, uint32FMT, &iid); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ ESTmapper/terminate.C:85:15: warning: ignoring return value of ‘int fscanf(FILE*, const char*, ...)’, declared with attribute warn_unused_result [-Wunused-result] fscanf(inFile, uint32FMT, &iid); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C: In member function ‘void sim4command::finalize()’: /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:147:6: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wdangling-else] if (_genLo > _genHi) ^ /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C: In member function ‘char* sim4command::getESTheader()’: /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:184:22: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] static char *xxx = "anonymous cDNA sequence"; ^~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C: In member function ‘char* sim4command::getGENheader()’: /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.C:222:15: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] char *xxx = "anonymous genomic sequence"; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.H:8, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C:2: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.H:8, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.H:8, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.H:8, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.C:2: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C: In member function ‘void Sim4::IDISPLAY(sim4polishBuilder&, char*, char*, char*, char*, int, int, int*, int, int, int, Exon*)’: /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:682:71: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] "Empty exon list; no alignment possible!"); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:682:71: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:695:84: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] "Alignment fragment not found; no alignment possible!"); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.C:695:84: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/align.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/align.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/align.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/align.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/align.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/align.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/extend.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/extend.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/extend.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/extend.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/extend.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/extend.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C: In function ‘void readModel(Fixed_Length_ICM_t*, const char*)’: /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:53:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread (line, sizeof (char), ID_STRING_LEN, fp); // skip the text header line ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.C:84:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread ((*fixed).permutation, sizeof (int), (*fixed).length, fp); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/greedy.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/greedy.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C:2: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.C:2: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/poly.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/poly.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/poly.C:2: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/poly.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/poly.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/poly.C:2: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:4: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:4: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C: In function ‘int readtree(Sim4*, char*, tree*, int)’: /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:452:6: warning: variable ‘len’ set but not used [-Wunused-but-set-variable] int len; ^~~ /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C: In function ‘int Is_Cod_NonCod(const int*, double*, int)’: /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.C:751:12: warning: ‘scores’ may be used uninitialized in this function [-Wmaybe-uninitialized] double *scores; ^~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/splice.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/splice.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/splice.C:2: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/splice.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/splice.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/splice.C:2: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.C: In member function ‘void Sim4::bld_table(char*, int, mss_t, int)’: /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.C:112:9: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] if (emer < 0) ^~ /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.C:115:11: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ ecode <<= 2; ^~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4core/util.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4core/util.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/util.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/util.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/util.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4core/util.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:249:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "s4p_compareExons()-- Can't allocate "uint32FMT" + "uint32FMT" words for counting exons.\n%s\n", A->_numExons, B->_numExons, strerror(errno)); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:249:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "s4p_compareExons()-- Can't allocate "uint32FMT" + "uint32FMT" words for counting exons.\n%s\n", A->_numExons, B->_numExons, strerror(errno)); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:365:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "s4p_compareExons()-- Can't allocate "uint32FMT" + "uint32FMT" words for counting exons.\n%s\n", A->_numExons, B->_numExons, strerror(errno)); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.C:365:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "s4p_compareExons()-- Can't allocate "uint32FMT" + "uint32FMT" words for counting exons.\n%s\n", A->_numExons, B->_numExons, strerror(errno)); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:58:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(gpp, "%c"uint32FMT" ", gaptyp, gapcnt); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:68:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(gpp, "%c"uint32FMT" ", gaptyp, gapcnt); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:80:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(gpp, "%c"uint32FMT" ", gaptyp, gapcnt); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:91:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(gpp, "%c"uint32FMT"", gaptyp, gapcnt); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:163:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4reader: Unknown matchOrientation '"uint32FMT"' in printPolish()\n", _matchOrientation); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:176:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4reader: Unknown strandOrientation '"uint32FMT"' in printPolish()\n", _matchOrientation); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:88: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:100: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:181:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "sim4begin\n"uint32FMT"["uint32FMT"-"uint32FMT"-"uint32FMT"] "uint32FMT"["uint32FMT"-"uint32FMT"] <"uint32FMT"-"uint32FMT"-"uint32FMT"-%s-%s>\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:212:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">%s\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:323:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4reader: Unknown strandOrientation '"uint32FMT"' in printPolishGFF3()\n", _matchOrientation); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:346:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:346:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:346:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:350:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "ID=sim4db"uint32FMT";Name="uint32FMT":%s;Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:350:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "ID=sim4db"uint32FMT";Name="uint32FMT":%s;Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:350:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "ID=sim4db"uint32FMT";Name="uint32FMT":%s;Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:350:76: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "ID=sim4db"uint32FMT";Name="uint32FMT":%s;Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:350:91: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "ID=sim4db"uint32FMT";Name="uint32FMT":%s;Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:354:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "targetLen="uint32FMT";pA="uint32FMT";pT="uint32FMT";genRegion="uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:354:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "targetLen="uint32FMT";pA="uint32FMT";pT="uint32FMT";genRegion="uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:354:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "targetLen="uint32FMT";pA="uint32FMT";pT="uint32FMT";genRegion="uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:354:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "targetLen="uint32FMT";pA="uint32FMT";pT="uint32FMT";genRegion="uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:354:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "targetLen="uint32FMT";pA="uint32FMT";pT="uint32FMT";genRegion="uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:363:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:363:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:363:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:368:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;Gap=%s;nMatches="uint32FMT"", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:368:45: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;Gap=%s;nMatches="uint32FMT"", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:368:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;Gap=%s;nMatches="uint32FMT"", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:368:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;Gap=%s;nMatches="uint32FMT"", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:368:91: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;Gap=%s;nMatches="uint32FMT"", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:371:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;nMatches="uint32FMT"", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:371:45: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;nMatches="uint32FMT"", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:371:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;nMatches="uint32FMT"", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:371:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;nMatches="uint32FMT"", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.C:371:91: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(outc, "Parent=sim4db"uint32FMT";Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c;nMatches="uint32FMT"", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:46:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4reader: Got '%s', expecting 'sim4begin' at byte "uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:65:2: warning: #warning LAZY PROGRAMMER did not extend an array [-Wcpp] #warning LAZY PROGRAMMER did not extend an array ^~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:126:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4reader: Got '%s', expecting GFF3 mRNA line at byte "uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.C:150:2: warning: #warning LAZY PROGRAMMER did not extend an array [-Wcpp] #warning LAZY PROGRAMMER did not extend an array ^~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:104: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:42:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint32 r = sscanf(lines[cl], ""uint32FMT"["uint32FMT" "uint32FMT" "uint32FMT"] "uint32FMT"["uint32FMT" "uint32FMT"] <"uint32FMT" "uint32FMT" "uint32FMT" %s %s>", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:55:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishS4DB()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:72:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishS4DB()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishS4DB()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:76: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:127:102: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] while (sscanf(lines[cl], ""uint32FMT"-"uint32FMT" ("uint32FMT"-"uint32FMT") <"uint32FMT"-"uint32FMT"-"uint32FMT">", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:169:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishS4DB()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:243:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:243:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:243:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:243:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\tmRNA\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:246:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishGFF3()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:275:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "ID=sim4db"uint32FMT"", &matchID); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:280:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Name="uint32FMT":%s", &_estID, _estDefLine); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:285:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c", &_estID, _estDefLine, &dummy1, &dummy2, &mOri); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:285:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c", &_estID, _estDefLine, &dummy1, &dummy2, &mOri); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:285:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Target="uint32FMT":%s "uint32FMT" "uint32FMT" %c", &_estID, _estDefLine, &dummy1, &dummy2, &mOri); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:293:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "targetLen="uint32FMT"", &_estLen); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:296:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "pA="uint32FMT"", &_estPolyA); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:299:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "pT="uint32FMT"", &_estPolyT); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:302:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "genRegion="uint32FMT"-"uint32FMT"", &_genRegionOffset, &dummy1); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:302:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "genRegion="uint32FMT"-"uint32FMT"", &_genRegionOffset, &dummy1); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:313:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishGFF3()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:339:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:339:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:339:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:339:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(lines[cl], ""uint32FMT":%s\tsim4db\texon\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t.\t", ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:342:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishGFF3()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:366:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Parent=sim4db"uint32FMT"", &dummy1); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:370:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Target=%s "uint32FMT" "uint32FMT" %c", &dummybuf, &exon._estFrom, &exon._estTo, &mOri); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:370:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "Target=%s "uint32FMT" "uint32FMT" %c", &dummybuf, &exon._estFrom, &exon._estTo, &mOri); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:377:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] r = sscanf(crttok, "nMatches="uint32FMT"", &exon._numMatches); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:403:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishGFF3()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:437:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sim4polish::s4p_linesToPolishGFF3()-- byte "uint32FMT": '%s'\n", startPosition, lines[cl]); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C: In member function ‘void sim4polish::s4p_linesToPolishS4DB(uint32, uint32, char**, uint32*)’: /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:140:61: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘class sim4polishExon’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(nnn, _exons, sizeof(sim4polishExon) * _numExons); ^ In file included from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:49:7: note: ‘class sim4polishExon’ declared here class sim4polishExon { ^~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C: In member function ‘void sim4polish::s4p_linesToPolishGFF3(uint32, uint32, char**, uint32*)’: /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:261:5: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:261:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:262:5: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:262:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:263:5: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:263:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:264:5: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:264:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:265:5: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:265:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:266:5: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:266:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:267:5: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:267:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:268:5: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:268:35: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:346:17: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32’ {aka ‘unsigned int’} [-Wsign-compare] if ((dummy1 != _genID) || strcmp(dummybuf, _genDefLine) || ~~~~~~~^~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:347:40: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] (sOri != '+') && (sOri != '-') && (sOri != '.')) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:352:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:352:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:353:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:353:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:354:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:354:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:355:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:355:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:356:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:356:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:357:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:357:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:358:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:358:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:359:7: warning: this ‘while’ clause does not guard... [-Wmisleading-indentation] while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:359:37: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘while’ while (*clptr!='\t') clptr++; clptr++; ^~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:370:30: warning: format ‘%s’ expects argument of type ‘char*’, but argument 3 has type ‘char (*)[1000]’ [-Wformat=] r = sscanf(crttok, "Target=%s "uint32FMT" "uint32FMT" %c", &dummybuf, &exon._estFrom, &exon._estTo, &mOri); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:383:30: warning: format ‘%s’ expects argument of type ‘char*’, but argument 3 has type ‘char (*)[1000]’ [-Wformat=] r = sscanf(crttok, "intron=%s", &dummybuf); ^~~~~~~~~~~ ~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:414:61: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘class sim4polishExon’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(nnn, _exons, sizeof(sim4polishExon) * _numExons); ^ In file included from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.C:1: /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:49:7: note: ‘class sim4polishExon’ declared here class sim4polishExon { ^~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C:2: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.C:2: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C: In member function ‘sim4polish* sim4polishBuilder::release()’: /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:246:57: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘class sim4polishExon’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(it->_exons + i, ex[i], sizeof(sim4polishExon)); ^ In file included from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.C:7: /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:49:7: note: ‘class sim4polishExon’ declared here class sim4polishExon { ^~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Failed to reposition %s to record "uint32FMT", only "uint32FMT" records\n", _path, ordinal, _polishRecordLen), exit(1); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:120:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Failed to reposition %s to record "uint32FMT", only "uint32FMT" records\n", _path, ordinal, _polishRecordLen), exit(1); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:248:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "polishes: "uint32FMT"\r", _polishRecordLen); ^ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C: In member function ‘void sim4polishFile::loadIndex()’: /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:141:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&magic, sizeof(char), 8, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:145:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_polishRecordLen, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:151:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread( _polishRecord, sizeof(polishRecord), _polishRecordLen, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:152:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread( _polishRecordEST, sizeof(uint32), _polishRecordLen, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:153:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread( _polishRecordGEN, sizeof(uint32), _polishRecordLen, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:155:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_maxEST, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:156:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_maxGEN, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:161:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread( _ESTiidLocation, sizeof(uint32), _maxEST, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.C:162:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread( _GENiidLocation, sizeof(uint32), _maxGEN, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/sim4polish/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.o -c /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ rm -f /<>/kmer-0~20150903+r2013/libsim4/libsim4.a && ar ruvs /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/align.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/extend.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/greedy.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/poly.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/splice.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.o /<>/kmer-0~20150903+r2013/libsim4/sim4core/util.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.o /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /<>/kmer-0~20150903+r2013/libsim4/libsim4.a a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4command.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4parameters.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4string.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/Xtend1.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/align.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/exon_cores.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/extend.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/glimmerSplice.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/greedy.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/mspManager.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/pluri_align.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/poly.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1a.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-1.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-2.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-3.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1-4.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sim4b1_s.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_donor.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_acceptor.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/sites_score.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/splice.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/table.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4core/util.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-compare.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-copy.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-deleteexon.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-exons.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-polishtostring.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-read.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-stringtopolish.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish-updatescores.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishList.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishBuilder.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishFile.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishReader.o a - /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polishWriter.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/fastaFile.o -c /<>/kmer-0~20150903+r2013/libseq/fastaFile.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:151:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastaFile::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:151:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastaFile::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:252:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastaFile::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:252:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastaFile::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/fastaFile.C: In member function ‘void fastaFile::loadIndex(char*)’: /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:357:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_header, sizeof(fastaFileHeader), 1, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:379:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(_index, sizeof(fastaFileIndex), _header._numberOfSequences, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libseq/fastaFile.C:380:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(_names, sizeof(char), _header._namesLength, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/fastaStdin.o -c /<>/kmer-0~20150903+r2013/libseq/fastaStdin.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastaStdin.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastaStdin.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/fastaStdin.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastaStdin.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/fastaStdin.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastaStdin.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/fastaStdin.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastaStdin.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libseq/fastaStdin.C: In member function ‘virtual bool fastaStdin::getSequence(uint32, char*&, uint32&, uint32&, char*&, uint32&, uint32&)’: /<>/kmer-0~20150903+r2013/libseq/fastaStdin.C:110:9: warning: unused variable ‘ret’ [-Wunused-variable] bool ret = true; ^~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/fastqFile.o -c /<>/kmer-0~20150903+r2013/libseq/fastqFile.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastqFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/fastqFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/fastqFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/fastqFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:141:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastqFile::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:141:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastqFile::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:253:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastqFile::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:253:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "fastqFile::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:533:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "REALLOC len="uint32FMT" from "uint32FMT" to "uint32FMT"\n", indexLen, indexMax, indexMax * 2); ^ /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:533:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "REALLOC len="uint32FMT" from "uint32FMT" to "uint32FMT"\n", indexLen, indexMax, indexMax * 2); ^ /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:533:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "REALLOC len="uint32FMT" from "uint32FMT" to "uint32FMT"\n", indexLen, indexMax, indexMax * 2); ^ /<>/kmer-0~20150903+r2013/libseq/fastqFile.C: In member function ‘void fastqFile::loadIndex(char*)’: /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:354:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_header, sizeof(fastqFileHeader), 1, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:374:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(_index, sizeof(fastqFileIndex), _header._numberOfSequences, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libseq/fastqFile.C:375:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(_names, sizeof(char), _header._namesLength, I); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/fastqStdin.o -c /<>/kmer-0~20150903+r2013/libseq/fastqStdin.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastqStdin.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastqStdin.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/fastqStdin.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastqStdin.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/fastqStdin.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastqStdin.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/fastqStdin.H:4, from /<>/kmer-0~20150903+r2013/libseq/fastqStdin.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libseq/fastqStdin.C: In member function ‘virtual bool fastqStdin::getSequence(uint32, char*&, uint32&, uint32&, char*&, uint32&, uint32&)’: /<>/kmer-0~20150903+r2013/libseq/fastqStdin.C:110:9: warning: unused variable ‘ret’ [-Wunused-variable] bool ret = true; ^~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/seqStore.o -c /<>/kmer-0~20150903+r2013/libseq/seqStore.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqStore.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqStore.C:2: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/seqStore.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqStore.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/seqStore.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqStore.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/seqStore.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqStore.C:2: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:129:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:129:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(full)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:197:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:197:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- iid "uint32FMT" more than number of sequences "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:203:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- for iid "uint32FMT"; invalid bgn="uint32FMT" end="uint32FMT"; seqLen="uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:203:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- for iid "uint32FMT"; invalid bgn="uint32FMT" end="uint32FMT"; seqLen="uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:203:96: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- for iid "uint32FMT"; invalid bgn="uint32FMT" end="uint32FMT"; seqLen="uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:203:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStore::getSequence(part)-- for iid "uint32FMT"; invalid bgn="uint32FMT" end="uint32FMT"; seqLen="uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:463:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- sequence %s too long, must be shorter than "uint64FMT" Gbp.\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:467:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- too many sequences, must be fewer than "uint64FMT".\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:620:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- seqStore '%s' constructed ("uint32FMT" sequences, "uint64FMT" ACGT letters, "uint32FMT" ACGT blocks, "uint32FMT" GAP blocks).\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:620:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- seqStore '%s' constructed ("uint32FMT" sequences, "uint64FMT" ACGT letters, "uint32FMT" ACGT blocks, "uint32FMT" GAP blocks).\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:620:102: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- seqStore '%s' constructed ("uint32FMT" sequences, "uint64FMT" ACGT letters, "uint32FMT" ACGT blocks, "uint32FMT" GAP blocks).\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:620:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "constructSeqStore()-- seqStore '%s' constructed ("uint32FMT" sequences, "uint64FMT" ACGT letters, "uint32FMT" ACGT blocks, "uint32FMT" GAP blocks).\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C: In function ‘void constructSeqStore(char*, seqCache*)’: /<>/kmer-0~20150903+r2013/libseq/seqStore.C:410:42: warning: ‘memset’ used with constant zero length parameter; this could be due to transposed parameters [-Wmemset-transposed-args] memset(&HEAD, sizeof(seqStoreHeader), 0); ^ /<>/kmer-0~20150903+r2013/libseq/seqStore.C: In constructor ‘seqStore::seqStore(const char*)’: /<>/kmer-0~20150903+r2013/libseq/seqStore.C:21:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_header, sizeof(seqStoreHeader), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libseq/seqStore.C: In member function ‘virtual seqFile* seqStore::openFile(const char*)’: /<>/kmer-0~20150903+r2013/libseq/seqStore.C:73:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&magic1, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:74:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&magic2, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libseq/seqStore.C: In member function ‘void seqStore::loadIndex()’: /<>/kmer-0~20150903+r2013/libseq/seqStore.C:318:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_header, sizeof(seqStoreHeader), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:329:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread( _index, sizeof(seqStoreIndex), _header._numberOfSequences, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:343:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread( _block, sizeof(seqStoreBlock), _header._numberOfBlocks, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libseq/seqStore.C:347:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread( _names, sizeof(char), _header._namesLength, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/sffFile.o -c /<>/kmer-0~20150903+r2013/libseq/sffFile.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libseq/sffFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/sffFile.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/sffFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/sffFile.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/sffFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/sffFile.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/sffFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/sffFile.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/seqFactory.o -c /<>/kmer-0~20150903+r2013/libseq/seqFactory.C In file included from /<>/kmer-0~20150903+r2013/libseq/seqFactory.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqFactory.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqFactory.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqFactory.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/fastaFile.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqFactory.C:3: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/seqCache.o -c /<>/kmer-0~20150903+r2013/libseq/seqCache.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqCache.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqCache.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqCache.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqCache.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libseq/seqCache.C:171:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqCache::loadAllSequences()-- Failed to load iid "uint32FMT".\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/seqStream.o -c /<>/kmer-0~20150903+r2013/libseq/seqStream.C In file included from /<>/kmer-0~20150903+r2013/libseq/seqFactory.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqStream.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/seqStream.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqStream.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/seqStream.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqStream.C:2: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/seqStream.H:4, from /<>/kmer-0~20150903+r2013/libseq/seqStream.C:2: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:236:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::setRange()-- ERROR: range ("uint64FMT","uint64FMT") too big; only "uint64FMT" positions.\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:236:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::setRange()-- ERROR: range ("uint64FMT","uint64FMT") too big; only "uint64FMT" positions.\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:236:82: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::setRange()-- ERROR: range ("uint64FMT","uint64FMT") too big; only "uint64FMT" positions.\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:268:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::sequenceNumberOfPosition()-- WARNING: position p="uint64FMT" too big; only "uint64FMT" positions.\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:268:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::sequenceNumberOfPosition()-- WARNING: position p="uint64FMT" too big; only "uint64FMT" positions.\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:340:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #1 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:340:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #1 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:340:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #1 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:386:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #2 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:386:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #2 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/seqStream.C:386:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "seqStream::fillBuffer()-- Failed to getSequence(part) #2 iid="uint32FMT" bgn="uint32FMT" end="uint32FMT"\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/merStream.o -c /<>/kmer-0~20150903+r2013/libseq/merStream.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libseq/merStream.H:4, from /<>/kmer-0~20150903+r2013/libseq/merStream.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/merStream.H:4, from /<>/kmer-0~20150903+r2013/libseq/merStream.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/merStream.H:4, from /<>/kmer-0~20150903+r2013/libseq/merStream.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/merStream.H:4, from /<>/kmer-0~20150903+r2013/libseq/merStream.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/test-seqCache.o -c /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C In file included from /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:3: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:7: /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:33:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Using seed "uint32FMT"\n", seed); ^ /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:15:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - empty sequence\n", testID); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:22:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - header differs '%s' vs '%s'\n", testID, S->header(), correctSequence[sid].header); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:26:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - header length differs "uint32FMT" vs "uint32FMT"\n", testID, S->headerLength(), correctSequence[sid].headerLength); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:26:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - header length differs "uint32FMT" vs "uint32FMT"\n", testID, S->headerLength(), correctSequence[sid].headerLength); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:26:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - header length differs "uint32FMT" vs "uint32FMT"\n", testID, S->headerLength(), correctSequence[sid].headerLength); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:30:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence differs\n", testID); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:34:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs strlen "uint32FMT" vs "uint32FMT"\n", testID, (uint32)strlen(S->sequence()), correctSequence[sid].sequenceLength); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:34:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs strlen "uint32FMT" vs "uint32FMT"\n", testID, (uint32)strlen(S->sequence()), correctSequence[sid].sequenceLength); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:34:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs strlen "uint32FMT" vs "uint32FMT"\n", testID, (uint32)strlen(S->sequence()), correctSequence[sid].sequenceLength); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:38:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs "uint32FMT" vs "uint32FMT"\n", testID, S->sequenceLength(), correctSequence[sid].sequenceLength); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:38:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs "uint32FMT" vs "uint32FMT"\n", testID, S->sequenceLength(), correctSequence[sid].sequenceLength); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqCache.C:38:77: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testID:"uint32FMT" - sequence length differs "uint32FMT" vs "uint32FMT"\n", testID, S->sequenceLength(), correctSequence[sid].sequenceLength); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/test-seqStream.o -c /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C In file included from /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:3: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:7: /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:33:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Using seed "uint32FMT"\n", seed); ^ /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:17:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testIndexing()-- numSeq="uint32FMT" sep=%c sepLen="uint32FMT"\n", numSeq, sep, sepLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:17:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testIndexing()-- numSeq="uint32FMT" sep=%c sepLen="uint32FMT"\n", numSeq, sep, sepLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:55:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:55:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:55:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:60:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "startOf "uint32FMT" returned "uint64FMT", not correct "uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:60:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "startOf "uint32FMT" returned "uint64FMT", not correct "uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:60:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "startOf "uint32FMT" returned "uint64FMT", not correct "uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:65:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IIDOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:65:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IIDOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:65:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IIDOf "uint32FMT" returned "uint32FMT", not correct "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:74:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sequenceNumberOfPosition "uint64FMT" returned "uint32FMT", not correct "uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:74:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sequenceNumberOfPosition "uint64FMT" returned "uint32FMT", not correct "uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:74:82: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sequenceNumberOfPosition "uint64FMT" returned "uint32FMT", not correct "uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:95:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "wrong separator at sep "uint32FMT" got %d expected %d\n", x, s, sep); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:124:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- letter wrong got'%c'\n", sp, si, st, ch, chainSeq[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:124:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- letter wrong got'%c'\n", sp, si, st, ch, chainSeq[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:124:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- letter wrong got'%c'\n", sp, si, st, ch, chainSeq[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:128:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqPos wrong got "uint32FMT"\n", sp, si, st, ch, chainSeqPos[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:128:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqPos wrong got "uint32FMT"\n", sp, si, st, ch, chainSeqPos[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:128:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqPos wrong got "uint32FMT"\n", sp, si, st, ch, chainSeqPos[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:128:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqPos wrong got "uint32FMT"\n", sp, si, st, ch, chainSeqPos[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:132:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqIID wrong got"uint32FMT"\n", sp, si, st, ch, chainSeqIID[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:132:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqIID wrong got"uint32FMT"\n", sp, si, st, ch, chainSeqIID[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:132:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqIID wrong got"uint32FMT"\n", sp, si, st, ch, chainSeqIID[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:132:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- seqIID wrong got"uint32FMT"\n", sp, si, st, ch, chainSeqIID[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:136:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- strPos wrong got "uint64FMT"\n", sp, si, st, ch, chainStrPos[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:136:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- strPos wrong got "uint64FMT"\n", sp, si, st, ch, chainStrPos[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:136:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- strPos wrong got "uint64FMT"\n", sp, si, st, ch, chainStrPos[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:136:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sp="uint32FMT" si="uint32FMT" st="uint64FMT" ch=%c -- strPos wrong got "uint64FMT"\n", sp, si, st, ch, chainStrPos[sib]); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:145:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iterated length wrong; sib="uint32FMT" sie="uint32FMT"\n", sib, sie); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:145:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iterated length wrong; sib="uint32FMT" sie="uint32FMT"\n", sib, sie); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:159:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testChaining()-- numSeq="uint32FMT" sep=%c sepLen="uint32FMT"\n", numSeq, sep, sepLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-seqStream.C:159:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "testChaining()-- numSeq="uint32FMT" sep=%c sepLen="uint32FMT"\n", numSeq, sep, sepLen); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libseq/test-merStream.o -c /<>/kmer-0~20150903+r2013/libseq/test-merStream.C In file included from /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libseq/seqCache.H:4, from /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:3: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:7: /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:33:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Using seed "uint32FMT"\n", seed); ^ /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-correctSequence.H:34:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "generateCorrectSequence()-- Generating "uint32FMT" sequences of length "uint32FMT" to "uint32FMT"\n", numSeq, minLen, maxLen); ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:11:2: warning: #warning HOW DO WE TEST IF WE GET ALL THE MERS? [-Wcpp] #warning HOW DO WE TEST IF WE GET ALL THE MERS? ^~~~~~~ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:33:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "MS pos="uint32FMT" posInSeq="uint64FMT" posInStr="uint64FMT" seqNum="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:33:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "MS pos="uint32FMT" posInSeq="uint64FMT" posInStr="uint64FMT" seqNum="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:33:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "MS pos="uint32FMT" posInSeq="uint64FMT" posInStr="uint64FMT" seqNum="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:33:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "MS pos="uint32FMT" posInSeq="uint64FMT" posInStr="uint64FMT" seqNum="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:39:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "MS pos="uint32FMT" failed '%s' != '%s'.\n", pos, testmer, seq + pos); ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:124:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer stream position out of range; at "uint32FMT", range "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:124:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer stream position out of range; at "uint32FMT", range "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:124:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer stream position out of range; at "uint32FMT", range "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C: In function ‘int main(int, char**)’: /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:223:64: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] testMerStreamSimple(MS, 20, "GGGTCAACTCCGCCCGCACTCTAGC", SP); ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:225:64: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] testMerStreamSimple(MS, 20, "GGGTCAACTCCGCCCGCACTCTAGC", SP); ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:228:64: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] testMerStreamSimple(MS, 20, "GGGTCAACTCCGCCCGCACTCTAGC", SP); ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:243:60: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] testMerStreamSimple(MS, 20, "GATCACTCGCGCACTCTAGCA", SP); ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:245:60: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] testMerStreamSimple(MS, 20, "GATCACTCGCGCACTCTAGCA", SP); ^ /<>/kmer-0~20150903+r2013/libseq/test-merStream.C:248:60: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] testMerStreamSimple(MS, 20, "GATCACTCGCGCACTCTAGCA", SP); ^ rm -f /<>/kmer-0~20150903+r2013/libseq/libseq.a && ar ruvs /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libseq/fastaFile.o /<>/kmer-0~20150903+r2013/libseq/fastaStdin.o /<>/kmer-0~20150903+r2013/libseq/fastqFile.o /<>/kmer-0~20150903+r2013/libseq/fastqStdin.o /<>/kmer-0~20150903+r2013/libseq/seqStore.o /<>/kmer-0~20150903+r2013/libseq/sffFile.o /<>/kmer-0~20150903+r2013/libseq/seqFactory.o /<>/kmer-0~20150903+r2013/libseq/seqCache.o /<>/kmer-0~20150903+r2013/libseq/seqStream.o /<>/kmer-0~20150903+r2013/libseq/merStream.o /<>/kmer-0~20150903+r2013/libseq/test-seqCache.o /<>/kmer-0~20150903+r2013/libseq/test-seqStream.o /<>/kmer-0~20150903+r2013/libseq/test-merStream.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /<>/kmer-0~20150903+r2013/libseq/libseq.a a - /<>/kmer-0~20150903+r2013/libseq/fastaFile.o a - /<>/kmer-0~20150903+r2013/libseq/fastaStdin.o a - /<>/kmer-0~20150903+r2013/libseq/fastqFile.o a - /<>/kmer-0~20150903+r2013/libseq/fastqStdin.o a - /<>/kmer-0~20150903+r2013/libseq/seqStore.o a - /<>/kmer-0~20150903+r2013/libseq/sffFile.o a - /<>/kmer-0~20150903+r2013/libseq/seqFactory.o a - /<>/kmer-0~20150903+r2013/libseq/seqCache.o a - /<>/kmer-0~20150903+r2013/libseq/seqStream.o a - /<>/kmer-0~20150903+r2013/libseq/merStream.o a - /<>/kmer-0~20150903+r2013/libseq/test-seqCache.o a - /<>/kmer-0~20150903+r2013/libseq/test-seqStream.o a - /<>/kmer-0~20150903+r2013/libseq/test-merStream.o gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libbio/alphabet.o -c /<>/kmer-0~20150903+r2013/libbio/alphabet.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.o -c /<>/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libbio/alphabet-colorspace.o -c /<>/kmer-0~20150903+r2013/libbio/alphabet-colorspace.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libbio/halign.o -c /<>/kmer-0~20150903+r2013/libbio/halign.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libbio/reversecomplement.o -c /<>/kmer-0~20150903+r2013/libbio/reversecomplement.c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libbio/kmer.o -c /<>/kmer-0~20150903+r2013/libbio/kmer.C In file included from /<>/kmer-0~20150903+r2013/libbio/kmer.H:28, from /<>/kmer-0~20150903+r2013/libbio/kmer.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/kmer.H:29, from /<>/kmer-0~20150903+r2013/libbio/kmer.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/kmer.H:29, from /<>/kmer-0~20150903+r2013/libbio/kmer.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/kmer.H:29, from /<>/kmer-0~20150903+r2013/libbio/kmer.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ rm -f /<>/kmer-0~20150903+r2013/libbio/libbio.a && ar ruvs /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libbio/alphabet.o /<>/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.o /<>/kmer-0~20150903+r2013/libbio/alphabet-colorspace.o /<>/kmer-0~20150903+r2013/libbio/halign.o /<>/kmer-0~20150903+r2013/libbio/reversecomplement.o /<>/kmer-0~20150903+r2013/libbio/kmer.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /<>/kmer-0~20150903+r2013/libbio/libbio.a a - /<>/kmer-0~20150903+r2013/libbio/alphabet.o a - /<>/kmer-0~20150903+r2013/libbio/alphabet-acgtspace.o a - /<>/kmer-0~20150903+r2013/libbio/alphabet-colorspace.o a - /<>/kmer-0~20150903+r2013/libbio/halign.o a - /<>/kmer-0~20150903+r2013/libbio/reversecomplement.o a - /<>/kmer-0~20150903+r2013/libbio/kmer.o gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/file.o -c /<>/kmer-0~20150903+r2013/libutil/file.c /<>/kmer-0~20150903+r2013/libutil/file.c: In function ‘openFile’: /<>/kmer-0~20150903+r2013/libutil/file.c:382:9: warning: variable ‘isRW’ set but not used [-Wunused-but-set-variable] int isRW = 1; ^~~~ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/md5.o -c /<>/kmer-0~20150903+r2013/libutil/md5.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/palloc.o -c /<>/kmer-0~20150903+r2013/libutil/palloc.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/qsort_mt.o -c /<>/kmer-0~20150903+r2013/libutil/qsort_mt.c /<>/kmer-0~20150903+r2013/libutil/qsort_mt.c: In function ‘qsort_algo’: /<>/kmer-0~20150903+r2013/libutil/qsort_mt.c:264:13: warning: variable ‘id’ set but not used [-Wunused-but-set-variable] pthread_t id; ^~ /<>/kmer-0~20150903+r2013/libutil/qsort_mt.c: In function ‘qsort_thread’: /<>/kmer-0~20150903+r2013/libutil/qsort_mt.c:370:13: warning: variable ‘id’ set but not used [-Wunused-but-set-variable] pthread_t id; ^~ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/util.o -c /<>/kmer-0~20150903+r2013/libutil/util.c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/bigQueue.o -c /<>/kmer-0~20150903+r2013/libutil/bigQueue.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libutil/bigQueue.H:4, from /<>/kmer-0~20150903+r2013/libutil/bigQueue.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libutil/bigQueue.H:4, from /<>/kmer-0~20150903+r2013/libutil/bigQueue.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libutil/bigQueue.H:4, from /<>/kmer-0~20150903+r2013/libutil/bigQueue.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libutil/bigQueue.H:4, from /<>/kmer-0~20150903+r2013/libutil/bigQueue.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libutil/bigQueue.C: In member function ‘void bigQueue::mergeTemporaryFiles()’: /<>/kmer-0~20150903+r2013/libutil/bigQueue.C:204:16: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(thing, _objectSize, 1, _temporaryFiles[i]); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/bigQueue.C:255:14: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(thing, _objectSize, 1, _temporaryFiles[fileid]); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/bigQueue.C: In member function ‘bool bigQueue::next()’: /<>/kmer-0~20150903+r2013/libutil/bigQueue.C:302:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(_thingBuffer, _objectSize, 1, _temporaryFiles[0]); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.o -c /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.C:8: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.C:8: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.C:8: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.C:8: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.C:35:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "bitPackedArray::get()-- element index "uint64FMT" is out of range, only "uint64FMT" elements.\n", ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.C:35:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "bitPackedArray::get()-- element index "uint64FMT" is out of range, only "uint64FMT" elements.\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.o -c /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:168:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " at position "uint64HEX"\n", file_offset); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:367:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "bitPackedFile::seekNormal() '%s' seek to pos="uint64FMT" failed: %s\n", ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:376:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "bitPackedFile::seekNormal() '%s' read of "uint64FMT" bytes failed': %s\n", ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C: In constructor ‘bitPackedFile::bitPackedFile(const char*, uint64, bool)’: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:109:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, t, sizeof(char) * 16); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:110:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &at, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:111:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &bt, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C: In member function ‘void bitPackedFile::flushDirty()’: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.C:232:8: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, _bfr, sizeof(uint64) * _bfrmax); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/fibonacciNumbers.o -c /<>/kmer-0~20150903+r2013/libutil/fibonacciNumbers.C In file included from /<>/kmer-0~20150903+r2013/libutil/fibonacciNumbers.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/readBuffer.o -c /<>/kmer-0~20150903+r2013/libutil/readBuffer.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libutil/readBuffer.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libutil/readBuffer.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libutil/readBuffer.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libutil/readBuffer.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libutil/readBuffer.C:132:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "readBuffer::fillBuffer()-- only read "uint64FMT" bytes, couldn't read "uint64FMT" bytes from '%s': %s\n", ^ /<>/kmer-0~20150903+r2013/libutil/readBuffer.C:132:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "readBuffer::fillBuffer()-- only read "uint64FMT" bytes, couldn't read "uint64FMT" bytes from '%s': %s\n", ^ /<>/kmer-0~20150903+r2013/libutil/readBuffer.C:165:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "readBuffer()-- '%s' couldn't seek to position "int64FMT": %s\n", ^ /<>/kmer-0~20150903+r2013/libutil/readBuffer.C:228:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "readBuffer()-- couldn't read "uint64FMT" bytes from '%s': n%s\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/recordFile.o -c /<>/kmer-0~20150903+r2013/libutil/recordFile.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libutil/recordFile.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libutil/recordFile.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libutil/recordFile.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libutil/recordFile.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:227:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "recordFile::seek() '%s' seek to record="uint64FMT" at fileposition="uint64FMT" failed: %s\n", ^ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:227:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "recordFile::seek() '%s' seek to record="uint64FMT" at fileposition="uint64FMT" failed: %s\n", ^ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:233:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "recordFile::seek() '%s' read of "uint64FMT" bytes failed at record "uint64FMT", fileposition "uint64FMT"': %s\n", ^ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:233:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "recordFile::seek() '%s' read of "uint64FMT" bytes failed at record "uint64FMT", fileposition "uint64FMT"': %s\n", ^ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:233:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "recordFile::seek() '%s' read of "uint64FMT" bytes failed at record "uint64FMT", fileposition "uint64FMT"': %s\n", ^ /<>/kmer-0~20150903+r2013/libutil/recordFile.C: In constructor ‘recordFile::recordFile(const char*, uint32, uint32, char)’: /<>/kmer-0~20150903+r2013/libutil/recordFile.C:68:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &recordFileMagic1, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:69:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &recordFileMagic2, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:70:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &_numRecords, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:71:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &_recordSize, sizeof(uint32)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:72:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &_headerSize, sizeof(uint32)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:73:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, _header, sizeof(char) * _headerSize); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:112:9: warning: ignoring return value of ‘ssize_t read(int, void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] read(_file, &m1, sizeof(uint64)); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:113:9: warning: ignoring return value of ‘ssize_t read(int, void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] read(_file, &m2, sizeof(uint64)); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:114:9: warning: ignoring return value of ‘ssize_t read(int, void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] read(_file, &_numRecords, sizeof(uint64)); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:115:9: warning: ignoring return value of ‘ssize_t read(int, void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] read(_file, &_recordSize, sizeof(uint32)); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:116:9: warning: ignoring return value of ‘ssize_t read(int, void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] read(_file, &_headerSize, sizeof(uint32)); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:117:9: warning: ignoring return value of ‘ssize_t read(int, void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] read(_file, _header, sizeof(char) * _headerSize); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C: In destructor ‘recordFile::~recordFile()’: /<>/kmer-0~20150903+r2013/libutil/recordFile.C:151:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &recordFileMagic1, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:152:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &recordFileMagic2, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:153:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &_numRecords, sizeof(uint64)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:154:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &_recordSize, sizeof(uint32)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:155:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, &_headerSize, sizeof(uint32)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C:156:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, _header, sizeof(char) * _headerSize); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C: In member function ‘void recordFile::flushDirty()’: /<>/kmer-0~20150903+r2013/libutil/recordFile.C:197:8: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(_file, _bfr, _recordSize * _rec); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libutil/recordFile.C: In member function ‘void recordFile::seek(uint64, bool)’: /<>/kmer-0~20150903+r2013/libutil/recordFile.C:231:7: warning: ignoring return value of ‘ssize_t read(int, void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] read(_file, _bfr, _recordSize * _bfrmax); ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/speedCounter.o -c /<>/kmer-0~20150903+r2013/libutil/speedCounter.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libutil/speedCounter.C:4: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libutil/speedCounter.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libutil/speedCounter.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libutil/speedCounter.C:4: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/sweatShop.o -c /<>/kmer-0~20150903+r2013/libutil/sweatShop.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libutil/sweatShop.H:7, from /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libutil/sweatShop.H:7, from /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libutil/sweatShop.H:7, from /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libutil/sweatShop.H:7, from /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:127:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sweatShop::setThreadData()-- worker ID "uint32FMT" more than number of workers="uint32FMT"\n", t, _numberOfWorkers), exit(1); ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:127:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sweatShop::setThreadData()-- worker ID "uint32FMT" more than number of workers="uint32FMT"\n", t, _numberOfWorkers), exit(1); ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:390:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" loaded; "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" written; "uint64FMTW(8)" queued for output)\r", ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:390:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" loaded; "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" written; "uint64FMTW(8)" queued for output)\r", ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:390:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" loaded; "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" written; "uint64FMTW(8)" queued for output)\r", ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:390:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" loaded; "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" written; "uint64FMTW(8)" queued for output)\r", ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:390:135: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" loaded; "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" written; "uint64FMTW(8)" queued for output)\r", ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:425:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" queued for output)\n", ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:425:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" queued for output)\n", ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:425:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " %6.1f/s - "uint64FMTW(8)" queued for compute; "uint64FMTW(8)" finished; "uint64FMTW(8)" queued for output)\n", ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:560:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sweatShop::run()-- Failed to launch worker thread "uint32FMT": %s.\n", i, strerror(err)), exit(1); ^ /<>/kmer-0~20150903+r2013/libutil/sweatShop.C:580:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sweatShop::run()-- Failed to join worker thread "uint32FMT": %s.\n", i, strerror(err)), exit(1); ^ gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/kazlib/dict.o -c /<>/kmer-0~20150903+r2013/libutil/kazlib/dict.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/kazlib/except.o -c /<>/kmer-0~20150903+r2013/libutil/kazlib/except.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/kazlib/hash.o -c /<>/kmer-0~20150903+r2013/libutil/kazlib/hash.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/kazlib/list.o -c /<>/kmer-0~20150903+r2013/libutil/kazlib/list.c gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/kazlib/sfx.o -c /<>/kmer-0~20150903+r2013/libutil/kazlib/sfx.c rm -f /<>/kmer-0~20150903+r2013/libutil/libutil.a && ar ruvs /<>/kmer-0~20150903+r2013/libutil/libutil.a /<>/kmer-0~20150903+r2013/libutil/file.o /<>/kmer-0~20150903+r2013/libutil/md5.o /<>/kmer-0~20150903+r2013/libutil/palloc.o /<>/kmer-0~20150903+r2013/libutil/qsort_mt.o /<>/kmer-0~20150903+r2013/libutil/util.o /<>/kmer-0~20150903+r2013/libutil/bigQueue.o /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.o /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.o /<>/kmer-0~20150903+r2013/libutil/fibonacciNumbers.o /<>/kmer-0~20150903+r2013/libutil/readBuffer.o /<>/kmer-0~20150903+r2013/libutil/recordFile.o /<>/kmer-0~20150903+r2013/libutil/speedCounter.o /<>/kmer-0~20150903+r2013/libutil/sweatShop.o /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o /<>/kmer-0~20150903+r2013/libutil/kazlib/dict.o /<>/kmer-0~20150903+r2013/libutil/kazlib/except.o /<>/kmer-0~20150903+r2013/libutil/kazlib/hash.o /<>/kmer-0~20150903+r2013/libutil/kazlib/list.o /<>/kmer-0~20150903+r2013/libutil/kazlib/sfx.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /<>/kmer-0~20150903+r2013/libutil/libutil.a a - /<>/kmer-0~20150903+r2013/libutil/file.o a - /<>/kmer-0~20150903+r2013/libutil/md5.o a - /<>/kmer-0~20150903+r2013/libutil/palloc.o a - /<>/kmer-0~20150903+r2013/libutil/qsort_mt.o a - /<>/kmer-0~20150903+r2013/libutil/util.o a - /<>/kmer-0~20150903+r2013/libutil/bigQueue.o a - /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.o a - /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.o a - /<>/kmer-0~20150903+r2013/libutil/fibonacciNumbers.o a - /<>/kmer-0~20150903+r2013/libutil/readBuffer.o a - /<>/kmer-0~20150903+r2013/libutil/recordFile.o a - /<>/kmer-0~20150903+r2013/libutil/speedCounter.o a - /<>/kmer-0~20150903+r2013/libutil/sweatShop.o a - /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o a - /<>/kmer-0~20150903+r2013/libutil/kazlib/dict.o a - /<>/kmer-0~20150903+r2013/libutil/kazlib/except.o a - /<>/kmer-0~20150903+r2013/libutil/kazlib/hash.o a - /<>/kmer-0~20150903+r2013/libutil/kazlib/list.o a - /<>/kmer-0~20150903+r2013/libutil/kazlib/sfx.o g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o ESTmapper/terminate ESTmapper/terminate.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacFeature.o -c atac-driver/libatac/atacFeature.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacFeature.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeature.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeature.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeature.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacFeature.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacFeature.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFeature.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFeature.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacFeature.C:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Feature longer than sequence (by "uint32FMT"bp): seqLen="uint32FMTW(8)" %s\n", ^ atac-driver/libatac/atacFeature.C:109:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Feature longer than sequence (by "uint32FMT"bp): seqLen="uint32FMTW(8)" %s\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacFeatureList.o -c atac-driver/libatac/atacFeatureList.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacFeatureList.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeatureList.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeatureList.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFeatureList.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacFeatureList.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacFeatureList.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFeatureList.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFeatureList.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacFeatureList.C: In member function ‘void atacFeatureList::add(atacFeature&)’: atac-driver/libatac/atacFeatureList.C:50:52: warning: operation on ‘((atacFeatureList*)this)->atacFeatureList::_featuresLen’ may be undefined [-Wsequence-point] _features[_featuresLen].featureiid = _featuresLen++; ~~~~~~~~~~~~^~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacFile.o -c atac-driver/libatac/atacFile.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacFile.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFile.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFile.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFile.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacFile.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacFile.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFile.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFile.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacFile.C: In member function ‘atacMatch* atacFileStream::nextMatch(char)’: atac-driver/libatac/atacFile.C:76:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(_inLine, 1024, _inFile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/libatac/atacFile.C: In member function ‘atacFeature* atacFileStream::nextFeature(char*)’: atac-driver/libatac/atacFile.C:105:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(_inLine, 1024, _inFile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/libatac/atacFile.C: In constructor ‘atacFile::atacFile(const char*)’: atac-driver/libatac/atacFile.C:171:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, inFile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~ atac-driver/libatac/atacFile.C: In member function ‘void atacFileBase::readHeader(char*, FILE*)’: atac-driver/libatac/atacFile.C:206:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, in); ~~~~~^~~~~~~~~~~~~~~~~~ atac-driver/libatac/atacFile.C:245:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, in); ~~~~~^~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacFileStreamMerge.o -c atac-driver/libatac/atacFileStreamMerge.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacFileStreamMerge.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFileStreamMerge.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFileStreamMerge.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacFileStreamMerge.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacFileStreamMerge.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacFileStreamMerge.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFileStreamMerge.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacFileStreamMerge.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacFileStreamMerge.C: In member function ‘void atacFileStreamMerge::addFile(const char*)’: atac-driver/libatac/atacFileStreamMerge.C:86:47: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘class afsm’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(F, _files, sizeof(afsm) * _filesLen); ^ atac-driver/libatac/atacFileStreamMerge.C:27:7: note: ‘class afsm’ declared here class afsm { ^~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacMatch.o -c atac-driver/libatac/atacMatch.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atac.H:26, from atac-driver/libatac/atacMatch.C:19: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atac.H:26, from atac-driver/libatac/atacMatch.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atac.H:26, from atac-driver/libatac/atacMatch.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atac.H:26, from atac-driver/libatac/atacMatch.C:19: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacMatch.C:19: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacMatch.C:19: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatch.C:19: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatch.C:19: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacMatch.C:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Match longer than sequence (by "uint32FMT"bp) in 1: seqLen="uint32FMTW(8)" %s\n", ^ atac-driver/libatac/atacMatch.C:131:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Match longer than sequence (by "uint32FMT"bp) in 1: seqLen="uint32FMTW(8)" %s\n", ^ atac-driver/libatac/atacMatch.C:139:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Match longer than sequence (by "uint32FMT"bp) in 2: seqLen="uint32FMTW(8)" %s\n", ^ atac-driver/libatac/atacMatch.C:139:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Match longer than sequence (by "uint32FMT"bp) in 2: seqLen="uint32FMTW(8)" %s\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacMatchList.o -c atac-driver/libatac/atacMatchList.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacMatchList.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchList.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchList.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchList.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacMatchList.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacMatchList.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatchList.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatchList.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/libatac/atacMatchOrder.o -c atac-driver/libatac/atacMatchOrder.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/libatac/atacMatchOrder.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchOrder.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchOrder.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/libatac/atacMatchOrder.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from atac-driver/libatac/atac.H:30, from atac-driver/libatac/atacMatchOrder.C:24: atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from atac-driver/libatac/atac.H:34, from atac-driver/libatac/atacMatchOrder.C:24: atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatchOrder.C:24: atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from atac-driver/libatac/atac.H:37, from atac-driver/libatac/atacMatchOrder.C:24: atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/libatac/atacMatchOrder.C:38:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(n.matchuid, "merge"uint32FMT, mergeuid); ^ rm -f atac-driver/libatac/libatac.a && ar ruvs atac-driver/libatac/libatac.a atac-driver/libatac/atacFeature.o atac-driver/libatac/atacFeatureList.o atac-driver/libatac/atacFile.o atac-driver/libatac/atacFileStreamMerge.o atac-driver/libatac/atacMatch.o atac-driver/libatac/atacMatchList.o atac-driver/libatac/atacMatchOrder.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating atac-driver/libatac/libatac.a a - atac-driver/libatac/atacFeature.o a - atac-driver/libatac/atacFeatureList.o a - atac-driver/libatac/atacFile.o a - atac-driver/libatac/atacFileStreamMerge.o a - atac-driver/libatac/atacMatch.o a - atac-driver/libatac/atacMatchList.o a - atac-driver/libatac/atacMatchOrder.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap.o -c atac-driver/alignOverlap/overlap.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap.C:19: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap.C:19: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ atac-driver/alignOverlap/overlap.C:123:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unmapped: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.unmapped.getSum(), statsB.unmapped.getSum()); ^ atac-driver/alignOverlap/overlap.C:123:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unmapped: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.unmapped.getSum(), statsB.unmapped.getSum()); ^ atac-driver/alignOverlap/overlap.C:124:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unique mapping 1: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.map1unique.getSum(), statsB.map1unique.getSum()); ^ atac-driver/alignOverlap/overlap.C:124:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unique mapping 1: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.map1unique.getSum(), statsB.map1unique.getSum()); ^ atac-driver/alignOverlap/overlap.C:125:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unique mapping 2: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.map2unique.getSum(), statsB.map2unique.getSum()); ^ atac-driver/alignOverlap/overlap.C:125:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "unique mapping 2: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.map2unique.getSum(), statsB.map2unique.getSum()); ^ atac-driver/alignOverlap/overlap.C:126:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "different: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.different.getSum(), statsB.different.getSum()); ^ atac-driver/alignOverlap/overlap.C:126:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "different: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.different.getSum(), statsB.different.getSum()); ^ atac-driver/alignOverlap/overlap.C:127:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "wild diff: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.wilddiff.getSum(), statsB.wilddiff.getSum()); ^ atac-driver/alignOverlap/overlap.C:127:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "wild diff: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.wilddiff.getSum(), statsB.wilddiff.getSum()); ^ atac-driver/alignOverlap/overlap.C:128:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "same: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.same.getSum(), statsB.same.getSum()); ^ atac-driver/alignOverlap/overlap.C:128:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "same: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.same.getSum(), statsB.same.getSum()); ^ atac-driver/alignOverlap/overlap.C:129:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "inconsistent: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.inconsistent.getSum(), statsB.inconsistent.getSum()); ^ atac-driver/alignOverlap/overlap.C:129:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "inconsistent: A:"uint32FMTW(10)" B:"uint32FMTW(10)"\n", statsA.inconsistent.getSum(), statsB.inconsistent.getSum()); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-find.o -c atac-driver/alignOverlap/overlap-find.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-find.C:19: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-find.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-find.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-find.C:19: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-find.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-find.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-find.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-find.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-find.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-find.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ atac-driver/alignOverlap/overlap-find.C:45:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "isolated Unique: map1: "uint32FMT" map2: "uint32FMT"\n", sumA, sumB); ^ atac-driver/alignOverlap/overlap-find.C:45:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "isolated Unique: map1: "uint32FMT" map2: "uint32FMT"\n", sumA, sumB); ^ atac-driver/alignOverlap/overlap-find.C:59:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "got invalid type; "uint32FMT" -- %c\n", type, (char)type), exit(1); ^ atac-driver/alignOverlap/overlap-find.C:91:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s: "uint32FMT" len:"uint32FMT"\n", msg, count, len); ^ atac-driver/alignOverlap/overlap-find.C:91:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s: "uint32FMT" len:"uint32FMT"\n", msg, count, len); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-matchTree.o -c atac-driver/alignOverlap/overlap-matchTree.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-matchTree.C:19: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-matchTree.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-matchTree.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-matchTree.C:19: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-matchTree.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-matchTree.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-matchTree.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-matchTree.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-matchTree.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-matchTree.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-printAnno.o -c atac-driver/alignOverlap/overlap-printAnno.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-printAnno.C:19: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-printAnno.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-printAnno.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-printAnno.C:19: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-printAnno.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-printAnno.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-printAnno.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-printAnno.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-printAnno.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-printAnno.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ atac-driver/alignOverlap/overlap-printAnno.C:46:14: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c "uint32FMTW(4)":"uint32FMTW(09)"-"uint32FMTW(09)"["uint32FMTW(6)"] ", ^ atac-driver/alignOverlap/overlap-printAnno.C:46:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c "uint32FMTW(4)":"uint32FMTW(09)"-"uint32FMTW(09)"["uint32FMTW(6)"] ", ^ atac-driver/alignOverlap/overlap-printAnno.C:46:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c "uint32FMTW(4)":"uint32FMTW(09)"-"uint32FMTW(09)"["uint32FMTW(6)"] ", ^ atac-driver/alignOverlap/overlap-printAnno.C:46:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c "uint32FMTW(4)":"uint32FMTW(09)"-"uint32FMTW(09)"["uint32FMTW(6)"] ", ^ atac-driver/alignOverlap/overlap-printAnno.C:63:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:63:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:63:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:65:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid1, m1->pos1 + off1, m1->pos1 + off1 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:65:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid1, m1->pos1 + off1, m1->pos1 + off1 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:65:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m1->iid1, m1->pos1 + off1, m1->pos1 + off1 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:69:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ atac-driver/alignOverlap/overlap-printAnno.C:69:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ atac-driver/alignOverlap/overlap-printAnno.C:69:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ atac-driver/alignOverlap/overlap-printAnno.C:85:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:85:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:85:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid2, sta, end); ^ atac-driver/alignOverlap/overlap-printAnno.C:87:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid1, m2->pos1 + off2, m2->pos1 + off2 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:87:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid1, m2->pos1 + off2, m2->pos1 + off2 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:87:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", m2->iid1, m2->pos1 + off2, m2->pos1 + off2 + len); ^ atac-driver/alignOverlap/overlap-printAnno.C:91:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ atac-driver/alignOverlap/overlap-printAnno.C:91:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ atac-driver/alignOverlap/overlap-printAnno.C:91:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "("uint32FMTW(8)": "uint32FMTW(9)"-"uint32FMTW(9)") ", uint32ZERO, uint32ZERO, uint32ZERO); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-sort.o -c atac-driver/alignOverlap/overlap-sort.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-sort.C:19: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-sort.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-sort.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-sort.C:19: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-sort.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-sort.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-sort.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-sort.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-sort.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-sort.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ ln -f /<>/kmer-0~20150903+r2013/atac-driver/alignOverlap/overlap-process.C /<>/kmer-0~20150903+r2013/atac-driver/alignOverlap/overlap-process1.C g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -DINDEX=1 -DNAME=process1 -DPOS1=pos1 -DPOS2=pos2 -DLEN2=len2 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-process1.o -c atac-driver/alignOverlap/overlap-process1.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process1.C:19: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process1.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process1.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process1.C:19: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process1.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process1.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process1.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process1.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-process1.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-process1.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ ln -f /<>/kmer-0~20150903+r2013/atac-driver/alignOverlap/overlap-process.C /<>/kmer-0~20150903+r2013/atac-driver/alignOverlap/overlap-process2.C g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -DINDEX=2 -DNAME=process2 -DPOS1=pos2 -DPOS2=pos1 -DLEN2=len1 -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/alignOverlap/overlap-process2.o -c atac-driver/alignOverlap/overlap-process2.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process2.C:19: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process2.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process2.C:19: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/alignOverlap/overlap.H:26, from atac-driver/alignOverlap/overlap-process2.C:19: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process2.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process2.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process2.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/alignOverlap/overlap.H:28, from atac-driver/alignOverlap/overlap-process2.C:19: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ In file included from atac-driver/alignOverlap/overlap.H:41, from atac-driver/alignOverlap/overlap-process2.C:19: atac-driver/alignOverlap/overlap-span.H:75:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ atac-driver/alignOverlap/overlap-span.H:75:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "span_t::split()-- _beg="uint32FMT" _end="uint32FMT" postition="uint32FMT"?\n", _beg, _end, position); ^ In file included from atac-driver/alignOverlap/overlap.H:45, from atac-driver/alignOverlap/overlap-process2.C:19: atac-driver/alignOverlap/overlap-stats.H:64:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint32FMT" "uint32FMT"\n", i, hist[i]); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/alignOverlap/overlap atac-driver/alignOverlap/overlap.o atac-driver/alignOverlap/overlap-find.o atac-driver/alignOverlap/overlap-matchTree.o atac-driver/alignOverlap/overlap-printAnno.o atac-driver/alignOverlap/overlap-sort.o atac-driver/alignOverlap/overlap-process1.o atac-driver/alignOverlap/overlap-process2.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/gapShifter.o -c atac-driver/gapShifter/gapShifter.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/gapShifter.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/gapShifter.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/gapShifter.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/gapShifter.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/gapShifter.C:23: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/gapShifter.C:23: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/gapShifter.C:23: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/gapShifter.C:23: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:203:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iid1 "uint32FMT", iid2 "uint32FMT"\n", iid1, iid2); ^ atac-driver/gapShifter/gapShifter.C:203:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iid1 "uint32FMT", iid2 "uint32FMT"\n", iid1, iid2); ^ atac-driver/gapShifter/gapShifter.C:223:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iid1 "uint32FMT", iid2 "uint32FMT"\n", iid1, iid2); ^ atac-driver/gapShifter/gapShifter.C:223:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "iid1 "uint32FMT", iid2 "uint32FMT"\n", iid1, iid2); ^ atac-driver/gapShifter/gapShifter.C:510:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:510:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:510:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:510:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:510:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:515:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:515:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:515:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:515:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:515:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:523:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:523:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:523:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:523:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:523:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s\t%s\t%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\t", ^ atac-driver/gapShifter/gapShifter.C:528:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:528:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:528:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:528:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:528:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "%s:"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t->\t"uint32FMT"\t"uint32FMT"\n", ^ atac-driver/gapShifter/gapShifter.C:738:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Shifting gaps of length at most "uint32FMT" bases, to the %s.\n", gapLimit, (shiftRight) ? "right" : "left"); ^ atac-driver/gapShifter/gapShifter.C:750:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numShifted = "uint32FMT"\n", numShifted); ^ atac-driver/gapShifter/gapShifter.C:751:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numNotShifted = "uint32FMT"\n", numNotShifted); ^ atac-driver/gapShifter/gapShifter.C:752:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numDiffSeq = "uint32FMT"\n", numDiffSeq); ^ atac-driver/gapShifter/gapShifter.C:753:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numDiffOri = "uint32FMT"\n", numDiffOri); ^ atac-driver/gapShifter/gapShifter.C:754:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numZeroLen = "uint32FMT"\n", numZeroLen); ^ atac-driver/gapShifter/gapShifter.C:755:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numOutOfOrder = "uint32FMT"\n", numOutOfOrder); ^ atac-driver/gapShifter/gapShifter.C:756:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numNotAdjacent = "uint32FMT"\n", numNotAdjacent); ^ atac-driver/gapShifter/gapShifter.C:757:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numNoGap = "uint32FMT"\n", numNoGap); ^ atac-driver/gapShifter/gapShifter.C:758:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numGapTooBig = "uint32FMT"\n", numGapTooBig); ^ atac-driver/gapShifter/gapShifter.C:759:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numOverlapping = "uint32FMT"\n", numOverlapping); ^ atac-driver/gapShifter/gapShifter.C:762:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "amountShifted["uint32FMT"] = "uint32FMT" (number of gaps shifted by [number of bases])\n", x, amountShifted[x]); ^ atac-driver/gapShifter/gapShifter.C:762:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "amountShifted["uint32FMT"] = "uint32FMT" (number of gaps shifted by [number of bases])\n", x, amountShifted[x]); ^ atac-driver/gapShifter/gapShifter.C:764:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shifted "uint32FMT" out of "uint32FMT" (%6.2f%%)\n", gapsShifted, ML.numMatches(), (double)gapsShifted / (double)ML.numMatches() * 100.0); ^ atac-driver/gapShifter/gapShifter.C:764:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shifted "uint32FMT" out of "uint32FMT" (%6.2f%%)\n", gapsShifted, ML.numMatches(), (double)gapsShifted / (double)ML.numMatches() * 100.0); ^ atac-driver/gapShifter/gapShifter.C:780:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/gapShifter.C:780:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/gapShifter.C:780:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/gapShifter.C:780:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/gapShifter.C:780:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/gapShifter.C:780:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/gapShifter atac-driver/gapShifter/gapShifter.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/extractSequence.o -c atac-driver/gapShifter/extractSequence.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/extractSequence.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/extractSequence.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/extractSequence.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/gapShifter/extractSequence.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/extractSequence.C:23: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/extractSequence.C:23: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/extractSequence.C:23: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/extractSequence.C:23: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/extractSequence.C:110:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Aoutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ atac-driver/gapShifter/extractSequence.C:110:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Aoutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ atac-driver/gapShifter/extractSequence.C:110:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Aoutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ atac-driver/gapShifter/extractSequence.C:121:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Boutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ atac-driver/gapShifter/extractSequence.C:121:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Boutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ atac-driver/gapShifter/extractSequence.C:121:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(Boutput, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" match %s(%s)\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/extractSequence atac-driver/gapShifter/extractSequence.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/extractUnmapped.o -c atac-driver/gapShifter/extractUnmapped.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/extractUnmapped.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/extractUnmapped.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/extractUnmapped.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/extractUnmapped.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/extractUnmapped.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/extractUnmapped.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/extractUnmapped.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/extractUnmapped.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/extractUnmapped.C:105:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(output, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" between match %s(%s) and %s(%s)\n", ^ atac-driver/gapShifter/extractUnmapped.C:105:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(output, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" between match %s(%s) and %s(%s)\n", ^ atac-driver/gapShifter/extractUnmapped.C:105:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(output, "%s extracted from iid "uint32FMT" pos "uint32FMT" "uint32FMT" between match %s(%s) and %s(%s)\n", ^ atac-driver/gapShifter/extractUnmapped.C:583:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Done masking. "uint32FMT" in A, "uint32FMT" in B.\n", stats[0], stats[1]); ^ atac-driver/gapShifter/extractUnmapped.C:583:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Done masking. "uint32FMT" in A, "uint32FMT" in B.\n", stats[0], stats[1]); ^ atac-driver/gapShifter/extractUnmapped.C: In function ‘int main(int, char**)’: atac-driver/gapShifter/extractUnmapped.C:541:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(L, 1024, F); ~~~~~^~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/extractUnmapped atac-driver/gapShifter/extractUnmapped.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/coalesceMatches.o -c atac-driver/gapShifter/coalesceMatches.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/coalesceMatches.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/coalesceMatches.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/coalesceMatches.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/coalesceMatches.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/coalesceMatches.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/coalesceMatches.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/coalesceMatches.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/coalesceMatches.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/coalesceMatches atac-driver/gapShifter/coalesceMatches.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/correctGaps.o -c atac-driver/gapShifter/correctGaps.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/correctGaps.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/correctGaps.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/correctGaps.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/correctGaps.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/correctGaps.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/correctGaps.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/correctGaps.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/correctGaps.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/correctGaps.C:138:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "HEY! F gap of size "uint32FMT" not in a run?\n", gap1); ^ atac-driver/gapShifter/correctGaps.C:200:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "HEY! R gap of size "uint32FMT" not in a run?\n", gap1); ^ atac-driver/gapShifter/correctGaps.C:222:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "CLOSE "uint32FMT"----------------------------------------\n", gap1); ^ atac-driver/gapShifter/correctGaps.C:235:22: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "At gapSize="uint32FMT" closed "uint32FMT" f-gaps and "uint32FMT" r-gaps.\n", gapsize, fgaps, rgaps); ^ atac-driver/gapShifter/correctGaps.C:235:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "At gapSize="uint32FMT" closed "uint32FMT" f-gaps and "uint32FMT" r-gaps.\n", gapsize, fgaps, rgaps); ^ atac-driver/gapShifter/correctGaps.C:235:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, "At gapSize="uint32FMT" closed "uint32FMT" f-gaps and "uint32FMT" r-gaps.\n", gapsize, fgaps, rgaps); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/correctGaps atac-driver/gapShifter/correctGaps.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/testAtac.o -c atac-driver/gapShifter/testAtac.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/testAtac.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/testAtac.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/testAtac.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/testAtac.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/testAtac.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/testAtac.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/testAtac.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/testAtac.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/testAtac.C:89:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "match "uint32FMT" is only %6.2f%% identity: ", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/testAtac atac-driver/gapShifter/testAtac.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/cleanAtac.o -c atac-driver/gapShifter/cleanAtac.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/cleanAtac.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/cleanAtac.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/cleanAtac.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/cleanAtac.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/cleanAtac.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/cleanAtac.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/cleanAtac.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/cleanAtac.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/cleanAtac.C:149:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "match "uint32FMT" is only %6.2f%% identity and "uint32FMT" long: ", ^ atac-driver/gapShifter/cleanAtac.C:149:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "match "uint32FMT" is only %6.2f%% identity and "uint32FMT" long: ", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/cleanAtac atac-driver/gapShifter/cleanAtac.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/gapShifter/projectFeatures.o -c atac-driver/gapShifter/projectFeatures.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/gapShifter/projectFeatures.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/projectFeatures.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/projectFeatures.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/gapShifter/projectFeatures.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/gapShifter/projectFeatures.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/gapShifter/projectFeatures.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/projectFeatures.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/gapShifter/projectFeatures.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/gapShifter/projectFeatures.C:72:2: warning: #warning BROKEN [-Wcpp] #warning BROKEN ^~~~~~~ atac-driver/gapShifter/projectFeatures.C:132:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:132:124: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Aprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:146:124: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Bprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:171:124: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Cprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:112: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/gapShifter/projectFeatures.C:192:124: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u Dprojected"uint32FMT" %s.%s %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/gapShifter/projectFeatures atac-driver/gapShifter/projectFeatures.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/lengthFilter/lengthFilter.o -c atac-driver/lengthFilter/lengthFilter.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from atac-driver/lengthFilter/lengthFilter.C:24: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from atac-driver/lengthFilter/lengthFilter.C:24: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from atac-driver/lengthFilter/lengthFilter.C:24: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from atac-driver/lengthFilter/lengthFilter.C:24: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ atac-driver/lengthFilter/lengthFilter.C:46:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(inLine, "/globalMatchMinSize="uint32FMT"\n", minLength); ^ atac-driver/lengthFilter/lengthFilter.C:57:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "/globalMatchMinSize="uint32FMT"\n", minLength); ^ atac-driver/lengthFilter/lengthFilter.C:114:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthFilter: Discarded "uint32FMTW(8)" matches with total length "uint32FMTW(10)", %7.3f%% of the sequence in matches.\n", ^ atac-driver/lengthFilter/lengthFilter.C:114:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthFilter: Discarded "uint32FMTW(8)" matches with total length "uint32FMTW(10)", %7.3f%% of the sequence in matches.\n", ^ atac-driver/lengthFilter/lengthFilter.C:116:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthFilter: Saved "uint32FMTW(8)" matches with total length "uint32FMTW(10)", %7.3f%% of the sequence in matches.\n", ^ atac-driver/lengthFilter/lengthFilter.C:116:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lengthFilter: Saved "uint32FMTW(8)" matches with total length "uint32FMTW(10)", %7.3f%% of the sequence in matches.\n", ^ atac-driver/lengthFilter/lengthFilter.C: In function ‘void readHeader(char*, FILE*, uint32&, FILE*)’: atac-driver/lengthFilter/lengthFilter.C:34:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, in); ~~~~~^~~~~~~~~~~~~~~~~~ atac-driver/lengthFilter/lengthFilter.C:53:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, in); ~~~~~^~~~~~~~~~~~~~~~~~ atac-driver/lengthFilter/lengthFilter.C: In function ‘int main(int, char**)’: atac-driver/lengthFilter/lengthFilter.C:111:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, stdin); ~~~~~^~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/lengthFilter/lengthFilter atac-driver/lengthFilter/lengthFilter.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/matchExtender/matchExtender.o -c atac-driver/matchExtender/matchExtender.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/matchExtender/matchExtender.C:27: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/matchExtender/matchExtender.C:27: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/matchExtender/matchExtender.C:27: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/matchExtender/matchExtender.C:27: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/matchExtender/matchExtender.C:27: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/matchExtender/matchExtender.C:27: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/matchExtender.C:27: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/matchExtender.C:27: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/matchExtender/matchExtender.C:192:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:192:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:192:60: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:192:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:192:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:192:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" 1\n", ^ atac-driver/matchExtender/matchExtender.C:201:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ atac-driver/matchExtender/matchExtender.C:201:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ atac-driver/matchExtender/matchExtender.C:201:60: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ atac-driver/matchExtender/matchExtender.C:201:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ atac-driver/matchExtender/matchExtender.C:201:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ atac-driver/matchExtender/matchExtender.C:201:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u %s . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" -1\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/matchExtender/matchExtender-dump.o -c atac-driver/matchExtender/matchExtender-dump.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/matchExtender/matchExtender-dump.C:25: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-dump.C:25: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-dump.C:25: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-dump.C:25: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/matchExtender/match.H:8, from atac-driver/matchExtender/matchExtender-dump.C:26: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/matchExtender/match.H:8, from atac-driver/matchExtender/matchExtender-dump.C:26: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/match.H:8, from atac-driver/matchExtender/matchExtender-dump.C:26: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/match.H:8, from atac-driver/matchExtender/matchExtender-dump.C:26: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/matchExtender/matchExtender-dump.C:31:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s: ID:%s range1:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT")\n", ^ atac-driver/matchExtender/matchExtender-dump.C:31:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s: ID:%s range1:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT")\n", ^ atac-driver/matchExtender/matchExtender-dump.C:31:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s: ID:%s range1:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT")\n", ^ atac-driver/matchExtender/matchExtender-dump.C:31:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s: ID:%s range1:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT")\n", ^ atac-driver/matchExtender/matchExtender-dump.C:34:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s ID:%s range2:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT") diag:"uint32FMT" %s\n", ^ atac-driver/matchExtender/matchExtender-dump.C:34:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s ID:%s range2:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT") diag:"uint32FMT" %s\n", ^ atac-driver/matchExtender/matchExtender-dump.C:34:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s ID:%s range2:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT") diag:"uint32FMT" %s\n", ^ atac-driver/matchExtender/matchExtender-dump.C:34:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s ID:%s range2:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT") diag:"uint32FMT" %s\n", ^ atac-driver/matchExtender/matchExtender-dump.C:34:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "%s ID:%s range2:"uint32FMT","uint32FMT" _pos="uint32FMT" (seqlen="uint32FMT") diag:"uint32FMT" %s\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/matchExtender/matchExtender-func.o -c atac-driver/matchExtender/matchExtender-func.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/matchExtender/matchExtender-func.C:26: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-func.C:26: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-func.C:26: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/matchExtender/matchExtender-func.C:26: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/matchExtender/matchExtender-func.C:27: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/matchExtender/matchExtender-func.C:27: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/matchExtender-func.C:27: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/matchExtender/matchExtender-func.C:27: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/matchExtender/matchExtender atac-driver/matchExtender/matchExtender.o atac-driver/matchExtender/matchExtender-dump.o atac-driver/matchExtender/matchExtender-func.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/mismatchCounter/mismatchCounter.o -c atac-driver/mismatchCounter/mismatchCounter.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from atac-driver/mismatchCounter/mismatchCounter.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/mismatchCounter/mismatchCounter.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/mismatchCounter/mismatchCounter.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from atac-driver/mismatchCounter/mismatchCounter.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/mismatchCounter/mismatchCounter.C:25: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/mismatchCounter/mismatchCounter.C:25: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/mismatchCounter/mismatchCounter.C:25: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/mismatchCounter/mismatchCounter.C:25: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/mismatchCounter/mismatchCounter.C:197:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "globalSequence = "uint32FMT"\n", globalSequence); ^ atac-driver/mismatchCounter/mismatchCounter.C:198:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "globalMismatches = "uint32FMT"\n", globalMismatches); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/mismatchCounter/mismatchCounter atac-driver/mismatchCounter/mismatchCounter.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/statsGenerator/statsGenerator.o -c atac-driver/statsGenerator/statsGenerator.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/statsGenerator/statsGenerator.C:26: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/statsGenerator/statsGenerator.C:26: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/statsGenerator/statsGenerator.C:26: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/statsGenerator/statsGenerator.C:26: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/statsGenerator/statsGenerator.C:26: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/statsGenerator/statsGenerator.C:26: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/statsGenerator/statsGenerator.C:26: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/statsGenerator/statsGenerator.C:26: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/statsGenerator/statsGenerator.C:91:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "histogram %s "uint32FMT" items %8.3f average %8.3f std.dev.\n", ^ atac-driver/statsGenerator/statsGenerator.C:102:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint64FMT" "uint32FMT"\n", i * _b, _h[i]); ^ atac-driver/statsGenerator/statsGenerator.C:103:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, ">"uint64FMT" "uint32FMT"\n", _m, _l); ^ atac-driver/statsGenerator/statsGenerator.C:103:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, ">"uint64FMT" "uint32FMT"\n", _m, _l); ^ atac-driver/statsGenerator/statsGenerator.C:133:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "plot [0:"uint64FMT"][0:"uint64FMT"] \"%s.%s.histogramdat\" using 2 with lines\n", ^ atac-driver/statsGenerator/statsGenerator.C:133:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "plot [0:"uint64FMT"][0:"uint64FMT"] \"%s.%s.histogramdat\" using 2 with lines\n", ^ atac-driver/statsGenerator/statsGenerator.C:136:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "plot [0:"uint64FMT"][0:"uint64FMT"] \"%s.%s.histogramdat\" using 2 with lines\n", ^ atac-driver/statsGenerator/statsGenerator.C:136:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "plot [0:"uint64FMT"][0:"uint64FMT"] \"%s.%s.histogramdat\" using 2 with lines\n", ^ atac-driver/statsGenerator/statsGenerator.C:172:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength %s "uint64FMT" %s "uint64FMT" # all letters, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:172:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength %s "uint64FMT" %s "uint64FMT" # all letters, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:193:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength %s "uint64FMT" %s "uint64FMT" # ACGT only\n", ^ atac-driver/statsGenerator/statsGenerator.C:193:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength %s "uint64FMT" %s "uint64FMT" # ACGT only\n", ^ atac-driver/statsGenerator/statsGenerator.C:282:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT"\n", (uint64)ifa.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:283:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength "uint64FMT" # sum of lengths of all features\n", ifa.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:285:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT" # after merging overlapping regions\n", (uint64)ifa.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:286:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength "uint64FMT" # sequence covered by a feature, including N\n", ifa.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:287:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength "uint64FMT" # sequence covered by a feature, ACGT only\n", tandemRepeatACGTLength(ifa, offset1, A)); ^ atac-driver/statsGenerator/statsGenerator.C:289:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT" # after merging overlapping regions, only in matches\n", (uint64)mma.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:290:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "inMatches "uint64FMT" # sequence covered by a feature and in a match, including N\n", mma.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:291:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "inMatches "uint64FMT" # sequence covered by a feature and in a match, ACGT only\n", tandemRepeatACGTLength(mma, offset1, A)); ^ atac-driver/statsGenerator/statsGenerator.C:295:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT"\n", (uint64)ifb.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:296:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totalLength "uint64FMT" # sum of lengths of all features\n", ifb.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:298:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT" # after merging overlapping regions\n", (uint64)ifb.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:299:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength "uint64FMT" # sequence covered by a feature, including N\n", ifb.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:300:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength "uint64FMT" # sequence covered by a feature, ACGT only\n", tandemRepeatACGTLength(ifb, offset2, B)); ^ atac-driver/statsGenerator/statsGenerator.C:302:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT" # after merging overlapping regions, only in matches\n", (uint64)mmb.numberOfIntervals()); ^ atac-driver/statsGenerator/statsGenerator.C:303:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "inMatches "uint64FMT" # sequence covered by a feature and in a match, including N\n", mmb.sumOfLengths()); ^ atac-driver/statsGenerator/statsGenerator.C:304:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "inMatches "uint64FMT" # sequence covered by a feature and in a match, ACGT only\n", tandemRepeatACGTLength(mmb, offset2, B)); ^ atac-driver/statsGenerator/statsGenerator.C:335:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numberOfItems "uint64FMT"\n", (uint64)matches.numberOfMatches()); ^ atac-driver/statsGenerator/statsGenerator.C:337:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "matchLength %s "uint64FMT" %s "uint64FMT" # Sum of lengths of sequence in matches\n", ^ atac-driver/statsGenerator/statsGenerator.C:337:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "matchLength %s "uint64FMT" %s "uint64FMT" # Sum of lengths of sequence in matches\n", ^ atac-driver/statsGenerator/statsGenerator.C:349:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength %s "uint64FMT" %s "uint64FMT" # sequence covered by a match, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:349:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength %s "uint64FMT" %s "uint64FMT" # sequence covered by a match, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:353:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength %s "uint64FMT" %s "uint64FMT" # sequence covered by a match, ACGT only (new)\n", ^ atac-driver/statsGenerator/statsGenerator.C:353:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "coveredLength %s "uint64FMT" %s "uint64FMT" # sequence covered by a match, ACGT only (new)\n", ^ atac-driver/statsGenerator/statsGenerator.C:409:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, uint64FMT" "uint32FMT"\n", n, n50[iter-1]); ^ atac-driver/statsGenerator/statsGenerator.C:507:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "chrCoveredLength["uint32FMTW(2)"] %s "uint64FMT" "uint64FMT" %6.2f%% "uint64FMT" "uint64FMT" %6.2f%% # seqCov, totalSeq for both ALL and ACGTonly\n", ^ atac-driver/statsGenerator/statsGenerator.C:507:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "chrCoveredLength["uint32FMTW(2)"] %s "uint64FMT" "uint64FMT" %6.2f%% "uint64FMT" "uint64FMT" %6.2f%% # seqCov, totalSeq for both ALL and ACGTonly\n", ^ atac-driver/statsGenerator/statsGenerator.C:507:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "chrCoveredLength["uint32FMTW(2)"] %s "uint64FMT" "uint64FMT" %6.2f%% "uint64FMT" "uint64FMT" %6.2f%% # seqCov, totalSeq for both ALL and ACGTonly\n", ^ atac-driver/statsGenerator/statsGenerator.C:507:82: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "chrCoveredLength["uint32FMTW(2)"] %s "uint64FMT" "uint64FMT" %6.2f%% "uint64FMT" "uint64FMT" %6.2f%% # seqCov, totalSeq for both ALL and ACGTonly\n", ^ atac-driver/statsGenerator/statsGenerator.C:507:104: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "chrCoveredLength["uint32FMTW(2)"] %s "uint64FMT" "uint64FMT" %6.2f%% "uint64FMT" "uint64FMT" %6.2f%% # seqCov, totalSeq for both ALL and ACGTonly\n", ^ atac-driver/statsGenerator/statsGenerator.C:516:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(label, "chr"uint32FMTW(02)"full", c); ^ atac-driver/statsGenerator/statsGenerator.C:520:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(label, "chr"uint32FMTW(02)"acgt", c); ^ atac-driver/statsGenerator/statsGenerator.C:628:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "runMissingFull %s "uint64FMT" %s "uint64FMT" # sequence in run, not covered, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:628:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "runMissingFull %s "uint64FMT" %s "uint64FMT" # sequence in run, not covered, including N\n", ^ atac-driver/statsGenerator/statsGenerator.C:631:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "runMissingFull %s "uint64FMT" %s "uint64FMT" # sequence in run, not covered, ACGT only\n", ^ atac-driver/statsGenerator/statsGenerator.C:631:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "runMissingFull %s "uint64FMT" %s "uint64FMT" # sequence in run, not covered, ACGT only\n", ^ atac-driver/statsGenerator/statsGenerator.C: In function ‘void tandemRepeatStats(atacFileStream&, atacFileStream&, atacFile&, seqCache*, seqCache*)’: atac-driver/statsGenerator/statsGenerator.C:267:41: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] while ((f = featuresA.nextFeature("tr")) != 0L) ^ atac-driver/statsGenerator/statsGenerator.C:269:41: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] while ((f = featuresB.nextFeature("tr")) != 0L) ^ atac-driver/statsGenerator/statsGenerator.C: In function ‘void MappedByChromosome(atacFile&, atacMatchList&, seqCache*, seqCache*, char*)’: atac-driver/statsGenerator/statsGenerator.C:99:23: warning: ‘.histogramdat’ directive writing 13 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(filename, "%s.%s.histogramdat", prefix, label); ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output 15 or more bytes (assuming 1038) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:127:23: warning: ‘.histogram.gnuplot’ directive writing 18 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(filename, "%s.%s.histogram.gnuplot", prefix, label); ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output 20 or more bytes (assuming 1043) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:140:23: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=] sprintf(filename, "gnuplot < %s.%s.histogram.gnuplot", prefix, label); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:518:32: hist1full[c]->plot(prefix, label); ~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output 30 or more bytes (assuming 1053) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:99:23: warning: ‘.histogramdat’ directive writing 13 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(filename, "%s.%s.histogramdat", prefix, label); ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output 15 or more bytes (assuming 1038) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:127:23: warning: ‘.histogram.gnuplot’ directive writing 18 bytes into a region of size between 0 and 1023 [-Wformat-overflow=] sprintf(filename, "%s.%s.histogram.gnuplot", prefix, label); ^~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output 20 or more bytes (assuming 1043) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:140:23: warning: ‘%s’ directive writing up to 1023 bytes into a region of size 1013 [-Wformat-overflow=] sprintf(filename, "gnuplot < %s.%s.histogram.gnuplot", prefix, label); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/statsGenerator/statsGenerator.C:522:32: hist1acgt[c]->plot(prefix, label); ~~~~~ In file included from /usr/include/stdio.h:873, from atac-driver/statsGenerator/statsGenerator.C:21: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output 30 or more bytes (assuming 1053) into a destination of size 1024 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/statsGenerator/statsGenerator atac-driver/statsGenerator/statsGenerator.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/uniqueFilter/uniqueFilter.o -c atac-driver/uniqueFilter/uniqueFilter.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from atac-driver/uniqueFilter/uniqueFilter.C:23: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from atac-driver/uniqueFilter/uniqueFilter.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from atac-driver/uniqueFilter/uniqueFilter.C:23: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from atac-driver/uniqueFilter/uniqueFilter.C:23: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/uniqueFilter/uniqueFilter.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/uniqueFilter/uniqueFilter.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/uniqueFilter/uniqueFilter.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/uniqueFilter/uniqueFilter.C:24: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:226:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Sorting error -- have negative coverage (axis="uint32FMT" position="uint32FMT")!\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:226:80: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Sorting error -- have negative coverage (axis="uint32FMT" position="uint32FMT")!\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:236:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "offsetsToCoverage()-- Found "uint64FMT" bases at coverage "uint32FMT" or greater.\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:236:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "offsetsToCoverage()-- Found "uint64FMT" bases at coverage "uint32FMT" or greater.\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:370:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Got fwd intersection on i="uint32FMT" matchNumber="uint32FMT"\n", i, matchNumber); ^ atac-driver/uniqueFilter/uniqueFilter.C:370:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Got fwd intersection on i="uint32FMT" matchNumber="uint32FMT"\n", i, matchNumber); ^ atac-driver/uniqueFilter/uniqueFilter.C:371:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:371:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:371:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:371:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:374:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--key1 beg="uint32FMT" end="uint32FMT"\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:374:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--key1 beg="uint32FMT" end="uint32FMT"\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:379:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Got rev intersection on i="uint32FMT" matchNumber="uint32FMT"\n", i, matchNumber); ^ atac-driver/uniqueFilter/uniqueFilter.C:379:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Got rev intersection on i="uint32FMT" matchNumber="uint32FMT"\n", i, matchNumber); ^ atac-driver/uniqueFilter/uniqueFilter.C:380:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:380:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:380:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:380:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--"uint32FMT" "uint32FMT" 1 "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:383:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--key2 beg="uint32FMT" end="uint32FMT"\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:383:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "--key2 beg="uint32FMT" end="uint32FMT"\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:418:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define D08D2 uint32FMTW(8)" "uint32FMTW(8) ^ atac-driver/uniqueFilter/uniqueFilter.C:419:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY1THING "key1 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:419:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY1THING "key1 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:419:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY1THING "key1 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:419:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY1THING "key1 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:419:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY1THING "key1 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:420:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY2THING "key2 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:420:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY2THING "key2 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:420:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY2THING "key2 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:420:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY2THING "key2 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:420:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define KEY2THING "key2 = "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" thing = "D08D2" "D08D2"\n" ^ atac-driver/uniqueFilter/uniqueFilter.C:818:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "match "uint32FMT" is outside the extent!\n", i); ^ atac-driver/uniqueFilter/uniqueFilter.C:828:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M %s %s."uint32FMT" . %s "uint32FMT" "uint32FMT" 1 %s "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:828:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M %s %s."uint32FMT" . %s "uint32FMT" "uint32FMT" 1 %s "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:828:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M %s %s."uint32FMT" . %s "uint32FMT" "uint32FMT" 1 %s "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:828:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M %s %s."uint32FMT" . %s "uint32FMT" "uint32FMT" 1 %s "uint32FMT" "uint32FMT" %d\n", ^ atac-driver/uniqueFilter/uniqueFilter.C:828:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M %s %s."uint32FMT" . %s "uint32FMT" "uint32FMT" 1 %s "uint32FMT" "uint32FMT" %d\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/uniqueFilter/uniqueFilter atac-driver/uniqueFilter/uniqueFilter.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/clumpMaker/clumpMaker.o -c atac-driver/clumpMaker/clumpMaker.C In file included from atac-driver/clumpMaker/clumpMaker.C:4: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/clumpMaker/clumpMaker.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/clumpMaker/clumpMaker.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:26, from atac-driver/clumpMaker/clumpMaker.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:30, from atac-driver/clumpMaker/clumpMaker.C:5: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacMatch.H:64:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "M %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT" %d %s:"uint32FMT" "uint32FMT" "uint32FMT" %d\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:34, from atac-driver/clumpMaker/clumpMaker.C:5: /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/atacFeature.H:71:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "F %s %s %s %s:"uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/clumpMaker/clumpMaker.C:5: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:12:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "%s-- position "uint32FMT" larger than length "uint32FMT"\n", \ ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:107:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::setRange()-- base="uint32FMT" and length="uint32FMT" exceed sequence length of "uint32FMT"\n", ^ In file included from /<>/kmer-0~20150903+r2013/atac-driver/libatac/atac.H:37, from atac-driver/clumpMaker/clumpMaker.C:5: /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:127:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "operator[]-- Tried to access to "uint32FMT", but range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:144:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "setPosition()-- Tried to set to "uint32FMT", but range is "uint32FMT"-"uint32FMT".\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:166:136: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendLeft()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/atac-driver/libatac/fasta-accessor.H:180:137: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "FastAAccessor::extendRight()-- extend by "int32FMT" makes invalid: length is "uint32FMT", new range is "uint32FMT"-"uint32FMT"\n", ^ atac-driver/clumpMaker/clumpMaker.C:341:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(C.matchuid, "clump"int32FMTW(06), cc); ^ atac-driver/clumpMaker/clumpMaker.C:377:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(hits[mm].match.parentuid, "clump"int32FMTW(06), cc); ^ atac-driver/clumpMaker/clumpMaker.C: In function ‘int main(int, char**)’: atac-driver/clumpMaker/clumpMaker.C:220:12: warning: variable ‘isSorted’ set but not used [-Wunused-but-set-variable] bool isSorted = false; ^~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/clumpMaker/clumpMaker atac-driver/clumpMaker/clumpMaker.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/localalign/GF_ALN_dpaligner.o -c atac-driver/chainer/localalign/GF_ALN_dpaligner.C g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/localalign/GF_ALN_local.o -c atac-driver/chainer/localalign/GF_ALN_local.C atac-driver/chainer/localalign/GF_ALN_local.C: In function ‘void Align_Recursion(const char*, int, const char*, int, const Trapezoid*, int, int, int, double, int)’: atac-driver/chainer/localalign/GF_ALN_local.C:872:15: warning: variable ‘indel’ set but not used [-Wunused-but-set-variable] int j, mid, indel; ^~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/localalign/GF_ALN_overlap.o -c atac-driver/chainer/localalign/GF_ALN_overlap.C atac-driver/chainer/localalign/GF_ALN_overlap.C: In function ‘void AVLinit()’: atac-driver/chainer/localalign/GF_ALN_overlap.C:93:33: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] OutOfMemory("Candidate list"); ^ atac-driver/chainer/localalign/GF_ALN_overlap.C: In function ‘AVLnode* NEW(AVLnode*, Candidate*, AVLnode*)’: atac-driver/chainer/localalign/GF_ALN_overlap.C:125:37: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] OutOfMemory("Candidate list"); ^ atac-driver/chainer/localalign/GF_ALN_overlap.C: In function ‘Local_Overlap* Find_Local_Overlap(int, int, int, int, Local_Segment*, int, int, double)’: atac-driver/chainer/localalign/GF_ALN_overlap.C:396:40: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] OutOfMemory("Overlap Trace Array"); ^ atac-driver/chainer/localalign/GF_ALN_overlap.C:662:39: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] OutOfMemory("Overlap descriptor"); ^ atac-driver/chainer/localalign/GF_ALN_overlap.C:614:20: warning: variable ‘beg’ set but not used [-Wunused-but-set-variable] int best, end, beg; ^~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/localalign/GF_ALN_loverlapper.o -c atac-driver/chainer/localalign/GF_ALN_loverlapper.C g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/localalign/GF_ALN_pieceOlap.o -c atac-driver/chainer/localalign/GF_ALN_pieceOlap.C g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -I/usr/include/python2.7 -o atac-driver/chainer/localalign/localAlignerInterfacemodule.o -c atac-driver/chainer/localalign/localAlignerInterfacemodule.C atac-driver/chainer/localalign/localAlignerInterfacemodule.C: In function ‘PyObject* spam_syntenicSegments(PyObject*, PyObject*)’: atac-driver/chainer/localalign/localAlignerInterfacemodule.C:176:18: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] char *Aseq = "undefined"; ^~~~~~~~~~~ atac-driver/chainer/localalign/localAlignerInterfacemodule.C:179:18: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] char *Bseq = "undefined"; ^~~~~~~~~~~ rm -f atac-driver/chainer/localAlignerInterfacemodule.so && g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o atac-driver/chainer/localAlignerInterfacemodule.so atac-driver/chainer/localalign/GF_ALN_dpaligner.o atac-driver/chainer/localalign/GF_ALN_local.o atac-driver/chainer/localalign/GF_ALN_overlap.o atac-driver/chainer/localalign/GF_ALN_loverlapper.o atac-driver/chainer/localalign/GF_ALN_pieceOlap.o atac-driver/chainer/localalign/localAlignerInterfacemodule.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chainer/halign/halign.o -c atac-driver/chainer/halign/halign.C atac-driver/chainer/halign/halign.C: In function ‘int diff(const char*, const char*, int, int, int*, int*, int*, int*, int, int, int, int, int, int, int, int, int, EditScript**, EditScript**)’: atac-driver/chainer/halign/halign.C:295:9: warning: variable ‘cost1’ set but not used [-Wunused-but-set-variable] int cost1, cost2; ^~~~~ atac-driver/chainer/halign/halign.C:295:16: warning: variable ‘cost2’ set but not used [-Wunused-but-set-variable] int cost1, cost2; ^~~~~ atac-driver/chainer/halign/halign.C:345:9: warning: variable ‘cost1’ set but not used [-Wunused-but-set-variable] int cost1, cost2; ^~~~~ atac-driver/chainer/halign/halign.C:345:16: warning: variable ‘cost2’ set but not used [-Wunused-but-set-variable] int cost1, cost2; ^~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -I/usr/include/python2.7 -o atac-driver/chainer/halign/halignmodule.o -c atac-driver/chainer/halign/halignmodule.C rm -f atac-driver/chainer/halignmodule.so && g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o atac-driver/chainer/halignmodule.so atac-driver/chainer/halign/halign.o atac-driver/chainer/halign/halignmodule.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/atac-driver/libatac/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o atac-driver/chimera/happy-clones-span-clumps.o -c atac-driver/chimera/happy-clones-span-clumps.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from atac-driver/chimera/happy-clones-span-clumps.C:7: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from atac-driver/chimera/happy-clones-span-clumps.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from atac-driver/chimera/happy-clones-span-clumps.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from atac-driver/chimera/happy-clones-span-clumps.C:7: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ atac-driver/chimera/happy-clones-span-clumps.C:202:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: increase scaffoldsMax "uint32FMT"\n", scaffoldid); ^ atac-driver/chimera/happy-clones-span-clumps.C:229:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Deleted "uint32FMT" scaffolds with less than 2 clumps.\n", deleted); ^ atac-driver/chimera/happy-clones-span-clumps.C:230:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Remain "uint32FMT" scaffolds with more than 2 clumps.\n", remain); ^ atac-driver/chimera/happy-clones-span-clumps.C:248:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" begin "uint32FMT" end "uint32FMT"\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:248:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" begin "uint32FMT" end "uint32FMT"\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:248:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" begin "uint32FMT" end "uint32FMT"\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:248:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" begin "uint32FMT" end "uint32FMT"\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:255:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and clump "uint32FMT" OVERLAP\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:255:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and clump "uint32FMT" OVERLAP\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:255:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and clump "uint32FMT" OVERLAP\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:263:31: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and "uint32FMT" confirmed by "uint32FMT" clones.\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:263:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and "uint32FMT" confirmed by "uint32FMT" clones.\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:263:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and "uint32FMT" confirmed by "uint32FMT" clones.\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:263:85: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold "uint32FMT" clump "uint32FMT" and "uint32FMT" confirmed by "uint32FMT" clones.\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:449:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s spans clump in scaffold %s,"uint32FMT"\n", ina, A[7], scfa); ^ atac-driver/chimera/happy-clones-span-clumps.C:453:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s spans clump in scaffold %s,"uint32FMT" \n", inb, B[7], scfb); ^ atac-driver/chimera/happy-clones-span-clumps.C:464:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold %s,"uint32FMT" clump "uint32FMT" "uint32FMT" confirmed by %s\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:464:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold %s,"uint32FMT" clump "uint32FMT" "uint32FMT" confirmed by %s\n", ^ atac-driver/chimera/happy-clones-span-clumps.C:464:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "scaffold %s,"uint32FMT" clump "uint32FMT" "uint32FMT" confirmed by %s\n", ^ atac-driver/chimera/happy-clones-span-clumps.C: In function ‘int main(int, char**)’: atac-driver/chimera/happy-clones-span-clumps.C:393:24: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] char *uidmapName = "/project/huref6/assembly/fasta/HUREF6A.info"; ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C: In function ‘atacClumpCoordTree* buildCoordTree(char*)’: atac-driver/chimera/happy-clones-span-clumps.C:313:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inl, 1024, inf); ~~~~~^~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:340:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inl, 1024, inf); ~~~~~^~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C: In function ‘int main(int, char**)’: atac-driver/chimera/happy-clones-span-clumps.C:402:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(L, 1024, F); ~~~~~^~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:409:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(L, 1024, F); ~~~~~^~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:426:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(ina, 1024, inf); chomp(ina); ~~~~~^~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:427:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inb, 1024, inf); chomp(inb); ~~~~~^~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:473:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(ina, 1024, inf); chomp(ina); ~~~~~^~~~~~~~~~~~~~~~ atac-driver/chimera/happy-clones-span-clumps.C:474:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inb, 1024, inf); chomp(inb); ~~~~~^~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o atac-driver/chimera/happy-clones-span-clumps atac-driver/chimera/happy-clones-span-clumps.o /<>/kmer-0~20150903+r2013/atac-driver/libatac/libatac.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/seatac.o -c seatac/seatac.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/seatac.C:4: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/seatac.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/seatac.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/seatac.C:4: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/seatac.C:4: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/seatac.C:4: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/seatac.C:4: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/seatac.C:4: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/seatac.C:201:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "O:"uint32FMTW(7)" S:"uint32FMTW(7)" I:"uint32FMTW(7)" T:"uint32FMTW(7)" (%5.1f%%; %8.3f/sec) Finish in %5.2f seconds.\r", ^ seatac/seatac.C:201:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "O:"uint32FMTW(7)" S:"uint32FMTW(7)" I:"uint32FMTW(7)" T:"uint32FMTW(7)" (%5.1f%%; %8.3f/sec) Finish in %5.2f seconds.\r", ^ seatac/seatac.C:201:52: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "O:"uint32FMTW(7)" S:"uint32FMTW(7)" I:"uint32FMTW(7)" T:"uint32FMTW(7)" (%5.1f%%; %8.3f/sec) Finish in %5.2f seconds.\r", ^ seatac/seatac.C:201:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "O:"uint32FMTW(7)" S:"uint32FMTW(7)" I:"uint32FMTW(7)" T:"uint32FMTW(7)" (%5.1f%%; %8.3f/sec) Finish in %5.2f seconds.\r", ^ seatac/seatac.C:239:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\n"uint32FMTW(7)" sequences (%5.1f%%; %8.3f/sec) %5.2f seconds.\n", ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/seatac.C:4: seatac/filterObj.H: In member function ‘void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)’: seatac/filterObj.H:146:21: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/seatac.C:4: seatac/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seatac/hitMatrix.H:82:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/configuration.o -c seatac/configuration.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/configuration.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/configuration.C:1: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/configuration.C:1: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/configuration.C:1: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/configuration.C:259:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacNumSearchThreads="uint32FMT"\n", _numSearchThreads); ^ seatac/configuration.C:260:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacLoaderHighWaterMark="uint32FMT"\n", _loaderHighWaterMark); ^ seatac/configuration.C:264:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacWriterHighWaterMark="uint32FMT"\n", _writerHighWaterMark); ^ seatac/configuration.C:267:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacMaxDiagonal="uint32FMT"\n", _maxDiagonal); ^ seatac/configuration.C:268:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacMaxGap="uint32FMT"\n", _maxGap); ^ seatac/configuration.C:269:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacQsOverlap="uint32FMT"\n", _qsOverlap); ^ seatac/configuration.C:270:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacDsOverlap="uint32FMT"\n", _dsOverlap); ^ seatac/configuration.C:271:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacMinLength="uint32FMT"\n", _minLength + _merSize); ^ seatac/configuration.C:272:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacMerSize="uint32FMT"\n", _merSize); ^ seatac/configuration.C:273:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "/seatacMerSkip="uint32FMT"\n", _merSkip); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/configuration.C:1: seatac/filterObj.H: In member function ‘void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)’: seatac/filterObj.H:146:21: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/configuration.C:1: seatac/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seatac/hitMatrix.H:82:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/encodedQuery.o -c seatac/encodedQuery.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/encodedQuery.C:3: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/encodedQuery.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/encodedQuery.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/encodedQuery.C:3: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/encodedQuery.C:3: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/encodedQuery.C:3: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/encodedQuery.C:3: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/encodedQuery.C:3: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/encodedQuery.C:3: seatac/filterObj.H: In member function ‘void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)’: seatac/filterObj.H:146:21: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/encodedQuery.C:3: seatac/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seatac/hitMatrix.H:82:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/hitMatrix.o -c seatac/hitMatrix.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/hitMatrix.C:1: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/hitMatrix.C:1: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/hitMatrix.C:1: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/hitMatrix.C:1: seatac/filterObj.H: In member function ‘void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)’: seatac/filterObj.H:146:21: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/hitMatrix.C:1: seatac/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seatac/hitMatrix.H:82:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/thr-search.o -c seatac/thr-search.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/thr-search.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-search.C:1: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-search.C:1: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/thr-search.C:1: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/thr-search.C:3:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] char const *srchGbye = "[%ld] computed: "uint64FMTW(8)" blocked: "uint64FMTW(4)"/"uint64FMTW(4)" encodeTime: %7.2f searchTime: %7.2f processTime: %7.2f\n"; ^ seatac/thr-search.C:3:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] char const *srchGbye = "[%ld] computed: "uint64FMTW(8)" blocked: "uint64FMTW(4)"/"uint64FMTW(4)" encodeTime: %7.2f searchTime: %7.2f processTime: %7.2f\n"; ^ seatac/thr-search.C:3:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] char const *srchGbye = "[%ld] computed: "uint64FMTW(8)" blocked: "uint64FMTW(4)"/"uint64FMTW(4)" encodeTime: %7.2f searchTime: %7.2f processTime: %7.2f\n"; ^ seatac/thr-search.C:130:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, uint64FMT" Blocked by output (idx = "uint32FMT", outputPos = "uint32FMT").\n", (long)U, idx, outputPos); ^ seatac/thr-search.C:130:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, uint64FMT" Blocked by output (idx = "uint32FMT", outputPos = "uint32FMT").\n", (long)U, idx, outputPos); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-search.C:1: seatac/filterObj.H: In member function ‘void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)’: seatac/filterObj.H:146:21: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/thr-search.C:1: seatac/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seatac/hitMatrix.H:82:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/thr-loader.o -c seatac/thr-loader.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/thr-loader.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-loader.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-loader.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-loader.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/thr-loader.C:5: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-loader.C:5: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-loader.C:5: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/thr-loader.C:5: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-loader.C:5: seatac/filterObj.H: In member function ‘void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)’: seatac/filterObj.H:146:21: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/thr-loader.C:5: seatac/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seatac/hitMatrix.H:82:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ seatac/thr-loader.C: In function ‘void* loaderThread(void*)’: seatac/thr-loader.C:68:21: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/thr-deadlock.o -c seatac/thr-deadlock.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/seatac.H:20, from seatac/thr-deadlock.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-deadlock.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-deadlock.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/seatac.H:20, from seatac/thr-deadlock.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/seatac.H:25, from seatac/thr-deadlock.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-deadlock.C:1: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-deadlock.C:1: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/seatac.H:27, from seatac/thr-deadlock.C:1: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ In file included from seatac/hitMatrix.H:10, from seatac/seatac.H:27, from seatac/thr-deadlock.C:1: seatac/filterObj.H: In member function ‘void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)’: seatac/filterObj.H:146:21: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/seatac.H:27, from seatac/thr-deadlock.C:1: seatac/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seatac/hitMatrix.H:82:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/hitMatrix-sort.o -c seatac/hitMatrix-sort.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from seatac/hitMatrix.H:8, from seatac/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/hitMatrix.H:8, from seatac/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/hitMatrix.H:8, from seatac/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seatac/hitMatrix.H:8, from seatac/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/hitMatrix.H:9, from seatac/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seatac/hitMatrix.H:10, from seatac/hitMatrix-sort.C:1: seatac/filterObj.H:148:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ seatac/filterObj.H:148:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT" bytes.\n", theOutputPos, theOutputMax); ^ In file included from seatac/hitMatrix.H:10, from seatac/hitMatrix-sort.C:1: seatac/filterObj.H:157:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:157:111: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x ############ . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filterObj.H:212:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: there isn't enough space in the match to insert the match id "uint64FMT" '%s'!\n", ^ In file included from seatac/hitMatrix-sort.C:1: seatac/hitMatrix.H:84:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seatac/hitMatrix.H:84:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ In file included from seatac/hitMatrix.H:10, from seatac/hitMatrix-sort.C:1: seatac/filterObj.H: In member function ‘void filterObj::addHit(char, uint32, uint32, uint32, uint32, uint32, uint32, uint32)’: seatac/filterObj.H:146:21: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ In file included from seatac/hitMatrix-sort.C:1: seatac/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seatac/hitMatrix.H:82:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.o -c /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:136:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromFastA()-- hashTable is "uint64FMT"MB\n", _hashTableWords >> 17); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:137:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromFastA()-- buckets is "uint64FMT"MB\n", _bucketsWords >> 17); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:139:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromFastA()-- counts is "uint64FMT"MB\n", _countsWords >> 17); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:239:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:239:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.C:239:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.o -c /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:27:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- ERROR: requested merSize ("uint32FMT") is different than merSize in meryl database ("uint32FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:27:78: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- ERROR: requested merSize ("uint32FMT") is different than merSize in meryl database ("uint32FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:54:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- tableSizeInEntries "uint64FMT"\n", tableSizeInEntries); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:55:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- count range "uint32FMT"-"uint32FMT"\n", lo, hi); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:55:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- count range "uint32FMT"-"uint32FMT"\n", lo, hi); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:104:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "createFromMeryl()-- numberOfMers "uint64FMT"\n", numberOfMers); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:116:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- Found "uint64FMT" mers between count of "uint32FMT" and "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:116:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- Found "uint64FMT" mers between count of "uint32FMT" and "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:116:101: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- Found "uint64FMT" mers between count of "uint32FMT" and "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:135:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- hashTable is "uint64FMT"MB\n", _hashTableWords >> 17); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:136:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- buckets is "uint64FMT"MB\n", _bucketsWords >> 17); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.C:138:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromMeryl()-- counts is "uint64FMT"MB\n", _countsWords >> 17); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.o -c /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:136:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromSequence()-- hashTable is "uint64FMT"MB\n", _hashTableWords >> 17); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:137:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromSequence()-- buckets is "uint64FMT"MB\n", _bucketsWords >> 17); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:139:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::createFromSequence()-- counts is "uint64FMT"MB\n", _countsWords >> 17); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:239:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:239:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.C:239:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Compressed from "uint64FMT" to "uint64FMT" ("uint64FMT" bits)\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/existDB-state.o -c /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:169:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "merSizeInBases: "uint32FMT"\n", _merSizeInBases); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:170:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "tableBits "uint32FMT"\n", 2 * _merSizeInBases - _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:172:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_hashTableWords "uint64FMT" ("uint64FMT" KB)\n", _hashTableWords, _hashTableWords >> 7); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:172:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_hashTableWords "uint64FMT" ("uint64FMT" KB)\n", _hashTableWords, _hashTableWords >> 7); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:173:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_bucketsWords "uint64FMT" ("uint64FMT" KB)\n", _bucketsWords, _bucketsWords >> 7); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:173:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_bucketsWords "uint64FMT" ("uint64FMT" KB)\n", _bucketsWords, _bucketsWords >> 7); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:174:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_countsWords "uint64FMT" ("uint64FMT" KB)\n", _countsWords, _countsWords >> 7); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:174:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_countsWords "uint64FMT" ("uint64FMT" KB)\n", _countsWords, _countsWords >> 7); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:176:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_shift1: "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:177:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_shift2 "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:178:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_mask1 "uint64HEX"\n", _mask1); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:179:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_mask2 "uint64HEX"\n", _mask2); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:183:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_hshWidth "uint32FMT"\n", _hshWidth); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:191:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_chkWidth "uint32FMT"\n", _chkWidth); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:199:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "_cntWidth "uint32FMT"\n", _cntWidth); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C: In member function ‘bool existDB::loadState(const char*, bool, bool)’: /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:80:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(cigam, sizeof(char), 16, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:124:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_merSizeInBases, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:125:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_shift1, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:126:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_shift2, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:127:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_mask1, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:128:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_mask2, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:129:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_hshWidth, sizeof(uint32), 1, F); // only valid if _compressedHash ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:130:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_chkWidth, sizeof(uint32), 1, F); // only valid if _compressedBucket ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:131:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_cntWidth, sizeof(uint32), 1, F); // only valid if _compressedCounts ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:133:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_hashTableWords, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:134:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_bucketsWords, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:135:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&_countsWords, sizeof(uint64), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:148:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(_hashTable, sizeof(uint64), _hashTableWords, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:149:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(_buckets, sizeof(uint64), _bucketsWords, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/existDB-state.C:152:12: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(_counts, sizeof(uint64), _countsWords, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/existDB.o -c /<>/kmer-0~20150903+r2013/libkmer/existDB.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/existDB.H:7, from /<>/kmer-0~20150903+r2013/libkmer/existDB.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libkmer/existDB.C:44:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::existDB()-- Got "uint32FMT", expected "uint32FMT"\n", _merSizeInBases, merSize); ^ /<>/kmer-0~20150903+r2013/libkmer/existDB.C:44:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "existDB::existDB()-- Got "uint32FMT", expected "uint32FMT"\n", _merSizeInBases, merSize); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.o -c /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:2: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:22:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::get()-- Can't allocate space for more positions, requested "uint64FMT" uint64's.\n", posnMax); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:215:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtering out kmers less than "uint64FMT" and more than "uint64FMT"\n", lo, hi); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:215:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtering out kmers less than "uint64FMT" and more than "uint64FMT"\n", lo, hi); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:339:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtered "uint64FMT" kmers less than "uint64FMT"\n", loCount, lo); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:339:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtered "uint64FMT" kmers less than "uint64FMT"\n", loCount, lo); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:340:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtered "uint64FMT" kmers more than "uint64FMT"\n", hiCount, hi); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:340:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Filtered "uint64FMT" kmers more than "uint64FMT"\n", hiCount, hi); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:341:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::filter()-- Saved "uint64FMT" kmers with acceptable count\n", okCount); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C: In member function ‘void positionDB::filter(uint64, uint64)’: /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.C:204:11: warning: unused variable ‘vv’ [-Wunused-variable] uint64 vv; ^~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.o -c /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:4: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:4: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:4: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:25:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "B "uint64FMT" "uint64FMT"-"uint64FMT"\n", h, st, ed); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:25:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "B "uint64FMT" "uint64FMT"-"uint64FMT"\n", h, st, ed); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:25:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "B "uint64FMT" "uint64FMT"-"uint64FMT"\n", h, st, ed); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:32:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c chk="uint64HEX" pos="uint64FMT" siz="uint64FMT, ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:32:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c chk="uint64HEX" pos="uint64FMT" siz="uint64FMT, ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:32:52: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%c chk="uint64HEX" pos="uint64FMT" siz="uint64FMT, ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.C:40:22: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, " "uint64FMT, getDecodedValue(_positions, pos, _posnWidth)); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.o -c /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:197:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "merSizeInBases: "uint32FMT"\n", _merSizeInBases); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:198:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "merSkipInBases: "uint32FMT"\n", _merSkipInBases); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:199:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "tableSizeInBits: "uint32FMT"\n", _tableSizeInBits); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:200:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "tableSizeInEntries: "uint64FMT"\n", _tableSizeInEntries); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:201:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "hashWidth: "uint32FMT"\n", _hashWidth); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:202:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "chckWidth: "uint32FMT"\n", _chckWidth); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:203:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "posnWidth: "uint32FMT"\n", _posnWidth); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:204:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "numberOfMers: "uint64FMT"\n", _numberOfMers); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:205:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "numberOfPositions: "uint64FMT"\n", _numberOfPositions); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:206:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "numberOfDistinct: "uint64FMT"\n", _numberOfDistinct); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:207:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "numberOfUnique: "uint64FMT"\n", _numberOfUnique); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:208:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "numberOfEntries: "uint64FMT"\n", _numberOfEntries); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:209:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stream, "maximumEntries: "uint64FMT"\n", _maximumEntries); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C: In member function ‘void positionDB::saveState(const char*)’: /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:63:73: warning: cast to pointer from integer of different size [-Wint-to-pointer-cast] _hashTable_FW = (uint32 *)((_hashTable_FW) ? uint32ONE : uint32ZERO); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:37:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(F, magic, sizeof(char) * 16); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:39:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(F, faild, sizeof(char) * 16); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.C:95:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(F, magic, sizeof(char) * 16); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.o -c /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.C:324:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB::getUpToNMismatches()-- Can't allocate space for initial positions, requested "uint64FMT" uint64's.\n", posnMax); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.o -c /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:5, from /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:37:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: Bucket "uint64FMT" starts at "uint64FMT" ends at "uint64FMT"?\n", b, st, ed); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:37:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: Bucket "uint64FMT" starts at "uint64FMT" ends at "uint64FMT"?\n", b, st, ed); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:37:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: Bucket "uint64FMT" starts at "uint64FMT" ends at "uint64FMT"?\n", b, st, ed); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:78:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: unset posn bucket="uint64FMT" t="int64FMT" le="uint32FMT"\n", b, t, le); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:78:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: unset posn bucket="uint64FMT" t="int64FMT" le="uint32FMT"\n", b, t, le); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:78:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: unset posn bucket="uint64FMT" t="int64FMT" le="uint32FMT"\n", b, t, le); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:86:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(4)"] chck="uint64HEX" posn="uint64FMT"\n", t, _sortedChck[t], _sortedPosn[t]); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:86:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(4)"] chck="uint64HEX" posn="uint64FMT"\n", t, _sortedChck[t], _sortedPosn[t]); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:110:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: bucket="uint64FMT" t="uint32FMT" le="uint32FMT": "uint64HEX" > "uint64HEX"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:110:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: bucket="uint64FMT" t="uint32FMT" le="uint32FMT": "uint64HEX" > "uint64HEX"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:110:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: bucket="uint64FMT" t="uint32FMT" le="uint32FMT": "uint64HEX" > "uint64HEX"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:110:77: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: bucket="uint64FMT" t="uint32FMT" le="uint32FMT": "uint64HEX" > "uint64HEX"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.C:110:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "ERROR: bucket="uint64FMT" t="uint32FMT" le="uint32FMT": "uint64HEX" > "uint64HEX"\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/positionDB.o -c /<>/kmer-0~20150903+r2013/libkmer/positionDB.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:7: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:46:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but mer size is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:46:107: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but mer size is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:52:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but mer skip is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:52:107: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but mer skip is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:58:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but max number of mismatches is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:58:123: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- Tried to read state from '%s', but max number of mismatches is wrong (found "uint32FMT", wanted "uint32FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:127:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " sm = "uint64FMT"\n", sm); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:128:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " lg = "uint64FMT"\n", lg); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:129:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " merSize = "uint32FMT" bits\n", 2 * merSize); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:130:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " approxMers = "uint64FMT" mers\n", approxMers); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:131:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " posnWidth = "uint64FMT" bits\n", posnWidth); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:142:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "potential configurations for approximately "uint64FMT" "uint32FMT"-mers (posnW="uint64FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:142:77: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "potential configurations for approximately "uint64FMT" "uint32FMT"-mers (posnW="uint64FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:142:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "potential configurations for approximately "uint64FMT" "uint32FMT"-mers (posnW="uint64FMT").\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:200:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint64FMTW(2)" shifts="uint32FMTW(02)","uint32FMTW(02)" -- size %8.3fGB -- work %8.3f%s\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:200:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint64FMTW(2)" shifts="uint32FMTW(02)","uint32FMTW(02)" -- size %8.3fGB -- work %8.3f%s\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:200:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint64FMTW(2)" shifts="uint32FMTW(02)","uint32FMTW(02)" -- size %8.3fGB -- work %8.3f%s\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:217:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:217:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:217:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:217:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:217:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:217:122: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tblBits="uint32FMT" s1="uint32FMT" s2="uint32FMT" -- merSize="uint32FMT" bits + posnWidth="uint64FMT" bits (est "uint64FMT" mers) FINAL\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:326:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- bktAlloc = new uint64 ["uint64FMT"]\n", _tableSizeInEntries / 2 + 4); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:348:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated bucket size counting space with total size "uint64FMT" KB\n", _tableSizeInEntries >> 8); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:392:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Found "uint64FMT" mers (max position = "uint64FMT")\n", _numberOfMers, _numberOfPositions); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:392:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Found "uint64FMT" mers (max position = "uint64FMT")\n", _numberOfMers, _numberOfPositions); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:430:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMT"KB for buckets ("uint64FMT" 64-bit words)\n", bucketsSpace >> 7, bucketsSpace); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:430:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMT"KB for buckets ("uint64FMT" 64-bit words)\n", bucketsSpace >> 7, bucketsSpace); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:435:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- _countingBuckets = new uint64 ["uint64FMT"]\n", bucketsSpace); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:553:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Sorting and repacking buckets ("uint64FMT" buckets).\n", _tableSizeInEntries); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:565:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" total mers\n" ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:566:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" distinct mers\n" ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:567:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" unique mers\n" ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:568:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Need "uint64FMT" non-unique position list entries ("uint64FMT" maximum count)\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:568:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Need "uint64FMT" non-unique position list entries ("uint64FMT" maximum count)\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:637:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for hash table ("uint64FMT" 64-bit words)\n", hs >> 7, hs); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:637:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for hash table ("uint64FMT" 64-bit words)\n", hs >> 7, hs); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:643:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- _hashTable_BP = new uint64 ["uint64FMT"]\n", hs); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:662:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Reusing bucket space; Have: "uint64FMT" Need: "uint64FMT" (64-bit words)\n", bucketsSpace, bs); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:662:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Reusing bucket space; Have: "uint64FMT" Need: "uint64FMT" (64-bit words)\n", bucketsSpace, bs); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:669:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for buckets ("uint64FMT" 64-bit words)\n", bs >> 7, bs); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:669:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for buckets ("uint64FMT" 64-bit words)\n", bs >> 7, bs); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:674:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- _buckets = new uint64 ["uint64FMT"]\n", bs); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:680:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for positions ("uint64FMT" 64-bit words)\n", ps >> 7, ps); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:680:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocated "uint64FMTW(10)"KB for positions ("uint64FMT" 64-bit words)\n", ps >> 7, ps); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:685:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- _positions = new uint64 ["uint64FMT"\n", ps); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:695:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Transferring to final structure ("uint64FMT" buckets).\n", _tableSizeInEntries); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:878:31: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- ERROR: Got position "uint64FMT", but only "uint64FMT" available!\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:878:78: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "positionDB()-- ERROR: Got position "uint64FMT", but only "uint64FMT" available!\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:916:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Avail: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (64-bit words)\n", bs, ps); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:916:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Avail: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (64-bit words)\n", bs, ps); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:917:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Avail: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (entries)\n", _numberOfDistinct, _numberOfEntries); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:917:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Avail: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (entries)\n", _numberOfDistinct, _numberOfEntries); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:918:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Used: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (64-bit words)\n", currentBbit / 64, currentPbit / 64); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:918:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Used: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (64-bit words)\n", currentBbit / 64, currentPbit / 64); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:928:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Used: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (entries)\n", _numberOfDistinct, _numberOfEntries); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:928:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Used: Bucket "uint64FMTW(12)" Position "uint64FMTW(12)" (entries)\n", _numberOfDistinct, _numberOfEntries); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:930:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" total mers\n" ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:931:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" distinct mers\n" ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:932:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Found "uint64FMTW(12)" unique mers\n" ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:933:13: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Need "uint64FMT" non-unique position list entries ("uint64FMT" maximum count)\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:933:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " Need "uint64FMT" non-unique position list entries ("uint64FMT" maximum count)\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:955:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Rebuilding the hash table, from "uint32FMT" bits wide to "uint32FMT" bits wide.\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:955:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Rebuilding the hash table, from "uint32FMT" bits wide to "uint32FMT" bits wide.\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:990:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Loading "uint64FMT" mercounts.\n", counts->numberOfDistinctMers()); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:1013:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Loaded "uint64FMT" mercounts; largest is "uint64FMT".\n", countsLoaded, largestMerylCount); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:1013:45: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Loaded "uint64FMT" mercounts; largest is "uint64FMT".\n", countsLoaded, largestMerylCount); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:1017:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Compress sizes from "uint32FMT" bits to "uint32FMT" bits.\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:1017:60: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Compress sizes from "uint32FMT" bits to "uint32FMT" bits.\n", ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C: In member function ‘void positionDB::build(merStream*, existDB*, existDB*, merylStreamReader*, uint32, uint32, bool)’: /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:324:17: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:433:17: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:641:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:672:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ /<>/kmer-0~20150903+r2013/libkmer/positionDB.C:683:17: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ rm -f /<>/kmer-0~20150903+r2013/libkmer/libkmer.a && ar ruvs /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.o /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.o /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.o /<>/kmer-0~20150903+r2013/libkmer/existDB-state.o /<>/kmer-0~20150903+r2013/libkmer/existDB.o /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.o /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.o /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.o /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.o /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.o /<>/kmer-0~20150903+r2013/libkmer/positionDB.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /<>/kmer-0~20150903+r2013/libkmer/libkmer.a a - /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-fasta.o a - /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-meryl.o a - /<>/kmer-0~20150903+r2013/libkmer/existDB-create-from-sequence.o a - /<>/kmer-0~20150903+r2013/libkmer/existDB-state.o a - /<>/kmer-0~20150903+r2013/libkmer/existDB.o a - /<>/kmer-0~20150903+r2013/libkmer/positionDB-access.o a - /<>/kmer-0~20150903+r2013/libkmer/positionDB-dump.o a - /<>/kmer-0~20150903+r2013/libkmer/positionDB-file.o a - /<>/kmer-0~20150903+r2013/libkmer/positionDB-mismatch.o a - /<>/kmer-0~20150903+r2013/libkmer/positionDB-sort.o a - /<>/kmer-0~20150903+r2013/libkmer/positionDB.o g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.o -c /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.H:4, from /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.H:4, from /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.H:4, from /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.H:4, from /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:72:2: warning: #warning not checking pmagic [-Wcpp] #warning not checking pmagic ^~~~~~~ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:134:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "merylStreamReader()-- ERROR: User requested mersize "uint32FMT" but '%s' is mersize "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:134:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "merylStreamReader()-- ERROR: User requested mersize "uint32FMT" but '%s' is mersize "uint32FMT"\n", ^ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:6:24: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] static char *ImagicV = "merylStreamIv03\n"; ^~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:7:24: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] static char *ImagicX = "merylStreamIvXX\n"; ^~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:8:24: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] static char *DmagicV = "merylStreamDv03\n"; ^~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:9:24: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] static char *DmagicX = "merylStreamDvXX\n"; ^~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:10:24: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] static char *PmagicV = "merylStreamPv03\n"; ^~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:11:24: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] static char *PmagicX = "merylStreamPvXX\n"; ^~~~~~~~~~~~~~~~~~~ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C: In constructor ‘merylStreamReader::merylStreamReader(const char*, uint32)’: /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:42:11: warning: variable ‘Pmagic’ set but not used [-Wunused-but-set-variable] char Pmagic[16] = {0}; ^~~~~~ /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C: In member function ‘void merylStreamWriter::addMer(uint64, uint32, uint64, uint32, uint32, uint32*)’: /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.C:469:31: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] (prefix <= _thisMerPre) && (mer < _thisMerMer)) { ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ rm -f /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a && ar ruvs /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a a - /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.o g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o seatac/seatac seatac/seatac.o seatac/configuration.o seatac/encodedQuery.o seatac/hitMatrix.o seatac/thr-search.o seatac/thr-loader.o seatac/thr-deadlock.o seatac/hitMatrix-sort.o /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/heavychains-driver.o -c seatac/heavychains-driver.C In file included from seatac/heavychains.H:11, from seatac/heavychains-driver.C:24: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from seatac/heavychains-driver.C:24: seatac/heavychains.H: In member function ‘double DPTree::matchScore(DPTree::kd_node, Match&)’: seatac/heavychains.H:374:19: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] if ( (flo.X() && node[flo.intv].lo <= p.xlo || ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/heavychains.o -c seatac/heavychains.C In file included from seatac/heavychains.H:11, from seatac/heavychains.C:22: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ seatac/heavychains.C:96:22: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr,"HeavyChains: filtering strands "uint32FMT" "uint32FMT" "uint32FMT"\n", iid1, iid2, Plen); ^ seatac/heavychains.C:96:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr,"HeavyChains: filtering strands "uint32FMT" "uint32FMT" "uint32FMT"\n", iid1, iid2, Plen); ^ seatac/heavychains.C:96:76: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr,"HeavyChains: filtering strands "uint32FMT" "uint32FMT" "uint32FMT"\n", iid1, iid2, Plen); ^ seatac/heavychains.C:164:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "heavychains: out "uint32FMTW(8)" %8d %8d -- "uint32FMTW(8)" %8d %8d\n", ^ seatac/heavychains.C:164:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "heavychains: out "uint32FMTW(8)" %8d %8d -- "uint32FMTW(8)" %8d %8d\n", ^ seatac/heavychains.C:169:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(outF, "M x H"uint64FMT" . %s:"uint32FMT" %d %d %d %s:"uint32FMT" %d %d %d > /hf=%.1f /hr=%.1f\n", ^ seatac/heavychains.C:169:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(outF, "M x H"uint64FMT" . %s:"uint32FMT" %d %d %d %s:"uint32FMT" %d %d %d > /hf=%.1f /hr=%.1f\n", ^ seatac/heavychains.C:169:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(outF, "M x H"uint64FMT" . %s:"uint32FMT" %d %d %d %s:"uint32FMT" %d %d %d > /hf=%.1f /hr=%.1f\n", ^ seatac/heavychains.C:186:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HeavyChains: finished strands "uint32FMTW(8)" "uint32FMTW(8)" maxlen1=%f maxlen2=%f maxScoreFwd=%f maxScoreRef=%f\n", ^ seatac/heavychains.C:186:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HeavyChains: finished strands "uint32FMTW(8)" "uint32FMTW(8)" maxlen1=%f maxlen2=%f maxScoreFwd=%f maxScoreRef=%f\n", ^ In file included from seatac/heavychains.C:22: seatac/heavychains.H: In member function ‘double DPTree::matchScore(DPTree::kd_node, Match&)’: seatac/heavychains.H:374:19: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] if ( (flo.X() && node[flo.intv].lo <= p.xlo || ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o seatac/heavychains seatac/heavychains-driver.o seatac/heavychains.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/filter-nop.o -c seatac/filter-nop.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seatac/filter-nop.C:9: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seatac/filter-nop.C:10: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seatac/filter-nop.C:10: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seatac/filter-nop.C:10: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ seatac/filter-nop.C:67:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:78: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:90: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C:67:102: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "M x . . %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s "uint32FMT"\n", ^ seatac/filter-nop.C: In function ‘void* construct(char*)’: seatac/filter-nop.C:116:16: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] char *seq1 = "UNK"; ^~~~~ seatac/filter-nop.C:117:16: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] char *seq2 = "UNK"; ^~~~~ rm -f seatac/filter-nop.so && g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o seatac/filter-nop.so seatac/filter-nop.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seatac/filter-heavychains.o -c seatac/filter-heavychains.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from seatac/filter-heavychains.C:24: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seatac/filter-heavychains.C:24: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seatac/filter-heavychains.C:24: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seatac/filter-heavychains.C:24: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seatac/filter-heavychains.C:25: seatac/heavychains.H: In member function ‘double DPTree::matchScore(DPTree::kd_node, Match&)’: seatac/heavychains.H:374:19: warning: suggest parentheses around ‘&&’ within ‘||’ [-Wparentheses] if ( (flo.X() && node[flo.intv].lo <= p.xlo || ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rm -f seatac/filter-heavychains.so && g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -o seatac/filter-heavychains.so seatac/filter-heavychains.o seatac/heavychains.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/leaff.o -c leaff/leaff.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/leaff.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/leaff.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/leaff.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/leaff.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/leaff.C:311:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: Didn't find sequence with iid '"uint32FMT"'\n", sid); ^ leaff/leaff.C:400:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "G\tseq\t%s:"uint32FMT"\t"uint32FMT"\t%s\n", ^ leaff/leaff.C:400:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "G\tseq\t%s:"uint32FMT"\t"uint32FMT"\t%s\n", ^ leaff/leaff.C:469:22: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(def, "random"uint32FMTW(06), i); ^ leaff/leaff.C:727:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Couldn't read "uint64FMT" bytes from '%s': %s\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/blocks.o -c leaff/blocks.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/blocks.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/blocks.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/blocks.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/blocks.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/blocks.C:32:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:32:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:32:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:32:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:40:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:40:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:40:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:40:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ leaff/blocks.C:42:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ". "uint32FMT" "uint32FMT" "uint32FMT"\n", s, pos, uint32ZERO); ^ leaff/blocks.C:42:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ". "uint32FMT" "uint32FMT" "uint32FMT"\n", s, pos, uint32ZERO); ^ leaff/blocks.C:42:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ". "uint32FMT" "uint32FMT" "uint32FMT"\n", s, pos, uint32ZERO); ^ leaff/blocks.C: In function ‘void dumpBlocks(char*)’: leaff/blocks.C:7:16: warning: unused variable ‘S’ [-Wunused-variable] seqInCore *S = 0L; ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/dups.o -c leaff/dups.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/dups.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/dups.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/dups.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/dups.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/dups.C:26:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT" <-> "uint32FMT"\n", sa->getIID(), sb->getIID()); ^ leaff/dups.C:28:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "COLLISION DETECTED BETWEEN %s:"uint32FMT" AND %s:"uint32FMT"!\nPLEASE REPORT THIS TO bri@walenz.org!\n", ^ leaff/dups.C:28:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "COLLISION DETECTED BETWEEN %s:"uint32FMT" AND %s:"uint32FMT"!\nPLEASE REPORT THIS TO bri@walenz.org!\n", ^ leaff/dups.C:52:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Internal error: found two copies of the same sequence iid ("uint32FMT")!\n", result[idx].i); ^ leaff/dups.C:60:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT":%s\n"uint32FMT":%s\n\n", ^ leaff/dups.C:64:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "COLLISION DETECTED BETWEEN IID "uint32FMT" AND "uint32FMT"!\nPLEASE REPORT THIS TO bri@walenz.org!\n", ^ leaff/dups.C:64:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "COLLISION DETECTED BETWEEN IID "uint32FMT" AND "uint32FMT"!\nPLEASE REPORT THIS TO bri@walenz.org!\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/gc.o -c leaff/gc.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/gc.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/gc.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/gc.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/gc.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/gc.C:68:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/partition.o -c leaff/partition.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/partition.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/partition.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/partition.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/partition.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/partition.C:55:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Failed to partition "uint32FMT"\n", i); ^ leaff/partition.C:62:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s-"uint32FMTW(03)".fasta", prefix, o); ^ leaff/partition.C:77:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Huh? '%s' "uint32FMT" != "uint32FMT"\n", S->header(), S->sequenceLength(), p[i].length); ^ leaff/partition.C:77:51: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Huh? '%s' "uint32FMT" != "uint32FMT"\n", S->header(), S->sequenceLength(), p[i].length); ^ leaff/partition.C:96:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"]("uint32FMT")", o, sizeP); ^ leaff/partition.C:99:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, " "uint32FMT"("uint32FMT")", p[i].index, p[i].length); ^ leaff/partition.C:99:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, " "uint32FMT"("uint32FMT")", p[i].index, p[i].length); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/simseq.o -c leaff/simseq.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from leaff/simseq.C:7: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o leaff/stats.o -c leaff/stats.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from leaff/stats.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/stats.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/stats.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from leaff/stats.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ leaff/stats.C:110:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "numSeqs "uint32FMT"\n", numSeq); ^ leaff/stats.C:112:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "SPAN (smallest "uint32FMT" largest "uint32FMT")\n", Ls[numSeq-1], Ls[0]); ^ leaff/stats.C:112:45: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "SPAN (smallest "uint32FMT" largest "uint32FMT")\n", Ls[numSeq-1], Ls[0]); ^ leaff/stats.C:114:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50s[i], l50s[i]); ^ leaff/stats.C:114:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50s[i], l50s[i]); ^ leaff/stats.C:114:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50s[i], l50s[i]); ^ leaff/stats.C:115:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totLen "uint64FMTW(10)"\n", Ss); ^ leaff/stats.C:116:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "refLen "uint64FMTW(10)"\n", Rs); ^ leaff/stats.C:118:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "BASES (smallest "uint32FMT" largest "uint32FMT")\n", Lb[numSeq-1], Lb[0]); ^ leaff/stats.C:118:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "BASES (smallest "uint32FMT" largest "uint32FMT")\n", Lb[numSeq-1], Lb[0]); ^ leaff/stats.C:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50b[i], l50b[i]); ^ leaff/stats.C:120:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50b[i], l50b[i]); ^ leaff/stats.C:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "n"uint32FMT" "uint32FMT" at index "uint32FMT"\n", 10 * i, n50b[i], l50b[i]); ^ leaff/stats.C:121:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "totLen "uint64FMTW(10)"\n", Sb); ^ leaff/stats.C:122:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "refLen "uint64FMTW(10)"\n", Rb); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o leaff/leaff leaff/leaff.o leaff/blocks.o leaff/dups.o leaff/gc.o leaff/partition.o leaff/simseq.o leaff/stats.o /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/meryl.o -c meryl/meryl.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/meryl.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/args.o -c meryl/args.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/args.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/args.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/args.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/args.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/args.C:26:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "writeString()-- Failed to write string of length "uint32FMT": %s\n", len, strerror(errno)); ^ meryl/args.C: In function ‘char* readString(FILE*)’: meryl/args.C:40:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&len, sizeof(uint32), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ meryl/args.C:50:10: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(str, sizeof(char), len, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ meryl/args.C: In constructor ‘merylArgs::merylArgs(const char*)’: meryl/args.C:513:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(magic, sizeof(char), 16, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ meryl/args.C:521:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(this, sizeof(merylArgs), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/binaryOp.o -c meryl/binaryOp.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/meryl.H:4, from meryl/binaryOp.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/binaryOp.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/binaryOp.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/binaryOp.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/binaryOp.C:43:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR - mersize of '%s' is "uint32FMT"\n", args->mergeFiles[0], A->merSize()); ^ meryl/binaryOp.C:44:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR - mersize of '%s' is "uint32FMT"\n", args->mergeFiles[1], B->merSize()); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/build.o -c meryl/build.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/build.C:7: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build.C:7: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/build.C:153:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(cmd, "qsub -t 1-"uint64FMT" -cwd -b n -j y -o %s-count-\\$TASK_ID.err %s -N mc%s %s-count.sh", ^ meryl/build.C:156:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(cmd, "qsub -t 1-"uint64FMT" -cwd -b n -j y -o %s-count-\\$TASK_ID.err -N mc%s %s-count.sh", ^ meryl/build.C:238:2: warning: #warning not submitting prepareBatch to grid [-Wcpp] #warning not submitting prepareBatch to grid ^~~~~~~ meryl/build.C:293:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numMersActual = "uint64FMT"\n", args->numMersActual); ^ meryl/build.C:294:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " mersPerBatch = "uint64FMT"\n", args->mersPerBatch); ^ meryl/build.C:295:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " basesPerBatch = "uint64FMT"\n", args->basesPerBatch); ^ meryl/build.C:296:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numBuckets = "uint64FMT" ("uint32FMT" bits)\n", args->numBuckets, args->numBuckets_log2); ^ meryl/build.C:296:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numBuckets = "uint64FMT" ("uint32FMT" bits)\n", args->numBuckets, args->numBuckets_log2); ^ meryl/build.C:297:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " bucketPointerWidth = "uint32FMT"\n", args->bucketPointerWidth); ^ meryl/build.C:298:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " merDataWidth = "uint32FMT"\n", args->merDataWidth); ^ meryl/build.C:305:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:305:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:305:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:305:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:310:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:310:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:310:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:310:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^ meryl/build.C:314:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numMersActual = "uint64FMT"\n", args->numMersActual); ^ meryl/build.C:315:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " mersPerBatch = "uint64FMT"\n", args->mersPerBatch); ^ meryl/build.C:316:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " basesPerBatch = "uint64FMT"\n", args->basesPerBatch); ^ meryl/build.C:317:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numBuckets = "uint64FMT" ("uint32FMT" bits)\n", args->numBuckets, args->numBuckets_log2); ^ meryl/build.C:317:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " numBuckets = "uint64FMT" ("uint32FMT" bits)\n", args->numBuckets, args->numBuckets_log2); ^ meryl/build.C:318:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " bucketPointerWidth = "uint32FMT"\n", args->bucketPointerWidth); ^ meryl/build.C:319:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " merDataWidth = "uint32FMT"\n", args->merDataWidth); ^ meryl/build.C:342:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s.batch"uint64FMT".mcdat", args->outputFile, segment); ^ meryl/build.C:346:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found result for batch "uint64FMT" in %s.\n", segment, filename); ^ meryl/build.C:352:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing segment "uint64FMT" of "uint64FMT".\n", segment+1, args->segmentLimit); ^ meryl/build.C:352:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Computing segment "uint64FMT" of "uint64FMT".\n", segment+1, args->segmentLimit); ^ meryl/build.C:365:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for mer storage ("uint32FMT" bits wide).\n", ^ meryl/build.C:365:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for mer storage ("uint32FMT" bits wide).\n", ^ meryl/build.C:384:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for mer position storage.\n", ^ meryl/build.C:390:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for bucket pointer table ("uint32FMT" bits wide).\n", ^ meryl/build.C:390:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for bucket pointer table ("uint32FMT" bits wide).\n", ^ meryl/build.C:396:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Allocating "uint64FMT"MB for counting the size of each bucket.\n", args->numBuckets >> 18); ^ meryl/build.C:477:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Releasing "uint64FMT"MB from counting the size of each bucket.\n", args->numBuckets >> 18); ^ meryl/build.C:532:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(batchOutputFile, "%s.batch"uint64FMT, args->outputFile, segment); ^ meryl/build.C:552:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: In segment "uint64FMT"\n", segment); ^ meryl/build.C:553:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Bucket "uint64FMT" (out of "uint64FMT") ends before it starts!\n", ^ meryl/build.C:553:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Bucket "uint64FMT" (out of "uint64FMT") ends before it starts!\n", ^ meryl/build.C:555:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: start="uint64FMT"\n", st); ^ meryl/build.C:556:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: end ="uint64FMT"\n", ed); ^ meryl/build.C:561:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: In segment "uint64FMT"\n", segment); ^ meryl/build.C:562:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Bucket "uint64FMT" (out of "uint64FMT") is HUGE!\n", ^ meryl/build.C:562:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Bucket "uint64FMT" (out of "uint64FMT") is HUGE!\n", ^ meryl/build.C:564:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: start="uint64FMT"\n", st); ^ meryl/build.C:565:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: end ="uint64FMT"\n", ed); ^ meryl/build.C:667:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Segment "uint64FMT" finished.\n", segment); ^ meryl/build.C:705:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s -countbatch "uint64FMT" -o %s\n", args->execName, s, args->outputFile); ^ meryl/build.C:783:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(argv[argc], "%s.batch"uint32FMT, args->outputFile, i); ^ meryl/build.C:807:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s.batch"uint32FMT".mcidx", args->outputFile, i); ^ meryl/build.C:809:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s.batch"uint32FMT".mcdat", args->outputFile, i); ^ meryl/build.C:811:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s.batch"uint32FMT".mcpos", args->outputFile, i); ^ meryl/build.C: In function ‘void prepareBatch(merylArgs*)’: meryl/build.C:310:23: warning: format ‘%u’ expects argument of type ‘unsigned int’, but argument 4 has type ‘uint64’ {aka ‘long unsigned int’} [-Wformat=] fprintf(stderr, "Computing "uint64FMT" segments using "uint32FMT" threads and "uint64FMT"MB memory ("uint64FMT"MB if in one batch).\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ meryl/build.C:312:15: estimateMemory(args->merSize, args->numMersActual, args->positionsEnabled)); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ meryl/build.C:310:23: warning: format ‘%lu’ expects a matching ‘long unsigned int’ argument [-Wformat=] meryl/build.C:310:23: warning: format ‘%lu’ expects a matching ‘long unsigned int’ argument [-Wformat=] meryl/build.C: In function ‘void runSegment(merylArgs*, uint64)’: meryl/build.C:585:59: warning: ‘void bzero(void*, size_t)’ clearing an object of type ‘class sortedList_t’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] bzero(sortedList, sizeof(sortedList_t) * sortedListLen); ^ meryl/build.C:26:7: note: ‘class sortedList_t’ declared here class sortedList_t { ^~~~~~~~~~~~ meryl/build.C:412:8: warning: unused variable ‘mstring’ [-Wunused-variable] char mstring[256]; ^~~~~~~ meryl/build.C: In function ‘void build(merylArgs*)’: meryl/build.C:769:41: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] arga[argc] = false; argv[argc++] = "meryl-build-merge"; ^~~~~~~~~~~~~~~~~~~ meryl/build.C:770:41: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] arga[argc] = false; argv[argc++] = "-M"; ^~~~ meryl/build.C:771:41: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] arga[argc] = false; argv[argc++] = "merge"; ^~~~~~~ meryl/build.C:775:22: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] argv[argc++] = "-v"; ^~~~ meryl/build.C:780:22: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] argv[argc++] = "-s"; ^~~~ meryl/build.C:787:41: warning: ISO C++ forbids converting a string constant to ‘char*’ [-Wwrite-strings] arga[argc] = false; argv[argc++] = "-o"; ^~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/build-threads.o -c meryl/build-threads.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/build-threads.C:7: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build-threads.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build-threads.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/build-threads.C:7: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/dump.o -c meryl/dump.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/meryl.H:4, from meryl/dump.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/dump.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/dump.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/dump.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/dump.C:17:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint64FMT"\n%s\n", ^ meryl/dump.C:35:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint64FMT, M->theCount()); ^ meryl/dump.C:37:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, " "uint32FMT, M->getPosition(i)); ^ meryl/dump.C:50:2: warning: #warning make this a test [-Wcpp] #warning make this a test ^~~~~~~ meryl/dump.C:72:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Found "uint64FMT" mers.\n", M->numberOfTotalMers()); ^ meryl/dump.C:73:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Found "uint64FMT" distinct mers.\n", M->numberOfDistinctMers()); ^ meryl/dump.C:74:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Found "uint64FMT" unique mers.\n", M->numberOfUniqueMers()); ^ meryl/dump.C:87:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint64FMT" mers.\n", M->numberOfTotalMers()); ^ meryl/dump.C:88:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint64FMT" distinct mers.\n", M->numberOfDistinctMers()); ^ meryl/dump.C:89:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint64FMT" unique mers.\n", M->numberOfUniqueMers()); ^ meryl/dump.C:91:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Largest mercount is "uint64FMT"; "uint64FMT" mers are too big for histogram.\n", ^ meryl/dump.C:91:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Largest mercount is "uint64FMT"; "uint64FMT" mers are too big for histogram.\n", ^ meryl/dump.C:101:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint64FMT"\t%.4f\t%.4f\n", ^ meryl/dump.C:148:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, uint32FMT"\t"uint64FMT"\n", d, hist[d]); ^ meryl/dump.C:151:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "huge\t"uint64FMT"\n", histHuge); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/estimate.o -c meryl/estimate.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/estimate.C:4: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/estimate.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/estimate.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/estimate.C:4: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/estimate.C:54:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Can fit "uint64FMT" mers into table with prefix of "uint64FMT" bits, using %.3fMB (%.3fMB for positions)\n", ^ meryl/estimate.C:54:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Can fit "uint64FMT" mers into table with prefix of "uint64FMT" bits, using %.3fMB (%.3fMB for positions)\n", ^ meryl/estimate.C:162:28: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, uint64FMT" "uint32FMT"-mers can be computed using "uint64FMT"MB memory.\n", ^ meryl/estimate.C:162:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, uint64FMT" "uint32FMT"-mers can be computed using "uint64FMT"MB memory.\n", ^ meryl/estimate.C: In function ‘uint64 estimateMemory(uint32, uint64, bool)’: meryl/estimate.C:77:13: warning: unused variable ‘N’ [-Wunused-variable] uint64 N = logBaseTwo64(numMers); // Width of the bucket pointer table ^ meryl/estimate.C:73:11: warning: variable ‘tMin’ set but not used [-Wunused-but-set-variable] uint64 tMin = tMax; ^~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/merge.o -c meryl/merge.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/meryl.H:4, from meryl/merge.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/merge.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/merge.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/merge.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/merge.C:14:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR - must have at least two databases (you gave "uint32FMT")!\n", args->mergeFilesLen); ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/unaryOp.o -c meryl/unaryOp.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/meryl.H:4, from meryl/unaryOp.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/unaryOp.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/unaryOp.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/meryl.H:4, from meryl/unaryOp.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ rm -f meryl/libmerylguts.a && ar ruvs meryl/libmerylguts.a meryl/args.o meryl/binaryOp.o meryl/build.o meryl/build-threads.o meryl/dump.o meryl/estimate.o meryl/merge.o meryl/unaryOp.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating meryl/libmerylguts.a a - meryl/args.o a - meryl/binaryOp.o a - meryl/build.o a - meryl/build-threads.o a - meryl/dump.o a - meryl/estimate.o a - meryl/merge.o a - meryl/unaryOp.o g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o meryl/meryl meryl/meryl.o meryl/libmerylguts.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/simple.o -c meryl/simple.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/simple.C:8: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/simple.C:8: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/simple.C:8: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/simple.C:8: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/simple.C:98:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Guessing "uint64FMT" mers in input '%s'\n", numMers, inName); ^ meryl/simple.C:99:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Allocating "uint64FMT"MB for mer storage.\n", numMers * 8 >> 20); ^ meryl/simple.C:129:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint64FMT" mers in input '%s'\n", theMersLen, inName); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o meryl/simple meryl/simple.o /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/mapMers.o -c meryl/mapMers.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/mapMers.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/mapMers.C:135:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:135:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:76: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:136:102: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t" ^ meryl/mapMers.C:137:24: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:76: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:137:102: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:165:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:165:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:165:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:171:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\tuncovered\n", S->header(), MS->thePositionInSequence()); ^ meryl/mapMers.C:176:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:176:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:176:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", S->header(), beg, end+merSize, end+merSize - beg); ^ meryl/mapMers.C:178:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numCovReg: "uint64FMT"\n", numCovReg); ^ meryl/mapMers.C:179:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "lenCovReg: "uint64FMT"\n", lenCovReg); ^ meryl/mapMers.C:193:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:193:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:193:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:193:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C:193:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t%s\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\t"uint64FMT"\n", ^ meryl/mapMers.C: In function ‘int main(int, char**)’: meryl/mapMers.C:21:13: warning: variable ‘beVerbose’ set but not used [-Wunused-but-set-variable] bool beVerbose = false; ^~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o meryl/mapMers meryl/mapMers.o /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/mapMers-depth.o -c meryl/mapMers-depth.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from meryl/mapMers-depth.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers-depth.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers-depth.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from meryl/mapMers-depth.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o meryl/mapMers-depth meryl/mapMers-depth.o /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o meryl/kmer-mask.o -c meryl/kmer-mask.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from meryl/kmer-mask.C:4: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from meryl/kmer-mask.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from meryl/kmer-mask.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from meryl/kmer-mask.C:4: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ meryl/kmer-mask.C:754:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aClean "FW"\n", g->thresholdCounts[0][0]); ^ meryl/kmer-mask.C:755:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMurky "FW"\n", g->thresholdCounts[1][0]); ^ meryl/kmer-mask.C:756:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMatch "FW"\n", g->thresholdCounts[2][0]); ^ meryl/kmer-mask.C:757:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMixed "FW"\n", g->thresholdCounts[3][0]); ^ meryl/kmer-mask.C:760:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aClean "FW" "FW" "FW" "FW"\n", g->thresholdCounts[0][0], g->thresholdCounts[0][1], g->thresholdCounts[0][2], g->thresholdCounts[0][3]); ^ meryl/kmer-mask.C:760:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aClean "FW" "FW" "FW" "FW"\n", g->thresholdCounts[0][0], g->thresholdCounts[0][1], g->thresholdCounts[0][2], g->thresholdCounts[0][3]); ^ meryl/kmer-mask.C:760:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aClean "FW" "FW" "FW" "FW"\n", g->thresholdCounts[0][0], g->thresholdCounts[0][1], g->thresholdCounts[0][2], g->thresholdCounts[0][3]); ^ meryl/kmer-mask.C:760:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aClean "FW" "FW" "FW" "FW"\n", g->thresholdCounts[0][0], g->thresholdCounts[0][1], g->thresholdCounts[0][2], g->thresholdCounts[0][3]); ^ meryl/kmer-mask.C:761:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMurky "FW" "FW" "FW" "FW"\n", g->thresholdCounts[1][0], g->thresholdCounts[1][1], g->thresholdCounts[1][2], g->thresholdCounts[1][3]); ^ meryl/kmer-mask.C:761:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMurky "FW" "FW" "FW" "FW"\n", g->thresholdCounts[1][0], g->thresholdCounts[1][1], g->thresholdCounts[1][2], g->thresholdCounts[1][3]); ^ meryl/kmer-mask.C:761:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMurky "FW" "FW" "FW" "FW"\n", g->thresholdCounts[1][0], g->thresholdCounts[1][1], g->thresholdCounts[1][2], g->thresholdCounts[1][3]); ^ meryl/kmer-mask.C:761:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMurky "FW" "FW" "FW" "FW"\n", g->thresholdCounts[1][0], g->thresholdCounts[1][1], g->thresholdCounts[1][2], g->thresholdCounts[1][3]); ^ meryl/kmer-mask.C:762:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMatch "FW" "FW" "FW" "FW"\n", g->thresholdCounts[2][0], g->thresholdCounts[2][1], g->thresholdCounts[2][2], g->thresholdCounts[2][3]); ^ meryl/kmer-mask.C:762:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMatch "FW" "FW" "FW" "FW"\n", g->thresholdCounts[2][0], g->thresholdCounts[2][1], g->thresholdCounts[2][2], g->thresholdCounts[2][3]); ^ meryl/kmer-mask.C:762:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMatch "FW" "FW" "FW" "FW"\n", g->thresholdCounts[2][0], g->thresholdCounts[2][1], g->thresholdCounts[2][2], g->thresholdCounts[2][3]); ^ meryl/kmer-mask.C:762:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMatch "FW" "FW" "FW" "FW"\n", g->thresholdCounts[2][0], g->thresholdCounts[2][1], g->thresholdCounts[2][2], g->thresholdCounts[2][3]); ^ meryl/kmer-mask.C:763:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMixed "FW" "FW" "FW" "FW"\n", g->thresholdCounts[3][0], g->thresholdCounts[3][1], g->thresholdCounts[3][2], g->thresholdCounts[3][3]); ^ meryl/kmer-mask.C:763:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMixed "FW" "FW" "FW" "FW"\n", g->thresholdCounts[3][0], g->thresholdCounts[3][1], g->thresholdCounts[3][2], g->thresholdCounts[3][3]); ^ meryl/kmer-mask.C:763:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMixed "FW" "FW" "FW" "FW"\n", g->thresholdCounts[3][0], g->thresholdCounts[3][1], g->thresholdCounts[3][2], g->thresholdCounts[3][3]); ^ meryl/kmer-mask.C:763:46: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "aMixed "FW" "FW" "FW" "FW"\n", g->thresholdCounts[3][0], g->thresholdCounts[3][1], g->thresholdCounts[3][2], g->thresholdCounts[3][3]); ^ meryl/kmer-mask.C: In member function ‘bool fastqRecord::load(FILE*, FILE*)’: meryl/kmer-mask.C:69:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(a1, 1024, FASTQ1); chomp(a1); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:70:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(a2, maxLength, FASTQ1); chomp(a2); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:71:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(a3, 1024, FASTQ1); chomp(a3); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:72:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(a4, maxLength, FASTQ1); chomp(a4); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:83:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(b1, 1024, FASTQ2); chomp(b1); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:84:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(b2, maxLength, FASTQ2); chomp(b2); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:85:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(b3, 1024, FASTQ2); chomp(b3); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ meryl/kmer-mask.C:86:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(b4, maxLength, FASTQ2); chomp(b4); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o meryl/kmer-mask meryl/kmer-mask.o /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/hitMatrix.o -c seagen/hitMatrix.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/hitMatrix.C:1: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.C:642:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:80: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/hitMatrix.C:642:107: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(line, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ In file included from seagen/searchGENOME.H:25, from seagen/hitMatrix.C:1: seagen/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seagen/hitMatrix.H:126:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/searchGENOME.o -c seagen/searchGENOME.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/searchGENOME.C:4: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/searchGENOME.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/searchGENOME.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/searchGENOME.C:4: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/searchGENOME.C:4: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/searchGENOME.C:4: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seagen/hitMatrix.H:126:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/configuration.o -c seagen/configuration.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/configuration.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/configuration.C:1: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/configuration.C:84:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\n"uint32FMTW(7)" sequences in %5.2f seconds, %8.3f per second.\n", nq, tm, nq/tm); ^ In file included from seagen/searchGENOME.H:25, from seagen/configuration.C:1: seagen/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seagen/hitMatrix.H:126:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/encodedQuery.o -c seagen/encodedQuery.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from seagen/encodedQuery.H:6, from seagen/encodedQuery.C:3: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/encodedQuery.H:6, from seagen/encodedQuery.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/encodedQuery.H:6, from seagen/encodedQuery.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/encodedQuery.H:6, from seagen/encodedQuery.C:3: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ seagen/encodedQuery.C:142:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- mersAvail incorrect: Recomputed:"uint32FMT" Real:"uint32FMT"\n", _mersAvail, _r_mersAvail); ^ seagen/encodedQuery.C:142:88: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- mersAvail incorrect: Recomputed:"uint32FMT" Real:"uint32FMT"\n", _mersAvail, _r_mersAvail); ^ seagen/encodedQuery.C:152:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- skip["uint32FMTW(4)"] incorrect: Acc:%d Real:%d\n", i, getSkip(i, true), _r_skip[i]); ^ seagen/encodedQuery.C:160:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- mers["uint32FMTW(4)"] incorrect: Acc:"uint64HEX" %s Real:"uint64HEX" %s\n", ^ seagen/encodedQuery.C:160:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- mers["uint32FMTW(4)"] incorrect: Acc:"uint64HEX" %s Real:"uint64HEX" %s\n", ^ seagen/encodedQuery.C:160:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::test()-- mers["uint32FMTW(4)"] incorrect: Acc:"uint64HEX" %s Real:"uint64HEX" %s\n", ^ seagen/encodedQuery.C:209:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::addOutput()-- from "uint32FMT" to "uint32FMT" bytes.\n", ^ seagen/encodedQuery.C:209:67: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "encodedQuery::addOutput()-- from "uint32FMT" to "uint32FMT" bytes.\n", ^ seagen/encodedQuery.C: In member function ‘void encodedQuery::addOutput(void*, uint32)’: seagen/encodedQuery.C:207:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/thr-deadlock.o -c seagen/thr-deadlock.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/thr-deadlock.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/thr-deadlock.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/thr-deadlock.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/thr-deadlock.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/thr-deadlock.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/thr-deadlock.C:1: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seagen/hitMatrix.H:126:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/thr-loader.o -c seagen/thr-loader.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/thr-loader.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/thr-loader.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/thr-loader.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/thr-loader.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/thr-loader.C:5: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/thr-loader.C:5: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seagen/hitMatrix.H:126:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ seagen/thr-loader.C: In function ‘void* loaderThread(void*)’: seagen/thr-loader.C:14:17: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/thr-search.o -c seagen/thr-search.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/thr-search.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/thr-search.C:1: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seagen/hitMatrix.H:126:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/thr-output.o -c seagen/thr-output.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from seagen/searchGENOME.H:20, from seagen/thr-output.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/searchGENOME.H:20, from seagen/thr-output.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/searchGENOME.H:20, from seagen/thr-output.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/searchGENOME.H:20, from seagen/thr-output.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/searchGENOME.H:22, from seagen/thr-output.C:5: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/searchGENOME.H:25, from seagen/thr-output.C:5: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seagen/hitMatrix.H:126:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ seagen/thr-output.C: In function ‘void* writerThread(void*, void*)’: seagen/thr-output.C:48:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(config._outputFile, query->theOutput(), query->theOutputLength()); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ seagen/thr-output.C:62:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(config._matchCountsFile, str, strlen(str)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/hitMatrix-sort.o -c seagen/hitMatrix-sort.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from seagen/hitMatrix.H:8, from seagen/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/hitMatrix.H:8, from seagen/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/hitMatrix.H:8, from seagen/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from seagen/hitMatrix.H:8, from seagen/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/hitMatrix.H:9, from seagen/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from seagen/hitMatrix-sort.C:1: seagen/hitMatrix.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H:128:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ seagen/hitMatrix.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64)’: seagen/hitMatrix.H:126:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/aHit.o -c seagen/aHit.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/aHit.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/aHit.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/aHit.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/aHit.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ seagen/aHit.C:20:14: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C:20:98: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "-%c -e "uint32FMT" -D "uint32FMT" "uint32FMT" "uint32FMT" -M "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/aHit.C: In function ‘void ahit_readBinary(aHit*, FILE*)’: seagen/aHit.C:12:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(a, sizeof(aHit), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o seagen/seagen seagen/hitMatrix.o seagen/searchGENOME.o seagen/configuration.o seagen/encodedQuery.o seagen/thr-deadlock.o seagen/thr-loader.o seagen/thr-search.o seagen/thr-output.o seagen/hitMatrix-sort.o seagen/aHit.o /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/hitConverter.o -c seagen/hitConverter.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/hitConverter.C:3: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/hitConverter.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/hitConverter.C:3: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/hitConverter.C:3: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ seagen/hitConverter.C: In function ‘void asc2bin(FILE*, FILE*)’: seagen/hitConverter.C:39:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(b, 1024, I); ~~~~~^~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o seagen/hitConverter seagen/hitConverter.o seagen/aHit.o /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filterEST.o -c seagen/filterEST.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/filterEST.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/filterEST.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/filterEST.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/filterEST.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/filterEST.C:7: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/filterEST.C:76:11: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " hits saved:"uint32FMTW(8)"/"uint32FMTW(8)" = %6.3f%%\r", ^ seagen/filterEST.C:76:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " hits saved:"uint32FMTW(8)"/"uint32FMTW(8)" = %6.3f%%\r", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filterEST-complicated.o -c seagen/filterEST-complicated.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/filterEST-complicated.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/filterEST-complicated.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/filterEST-complicated.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/filterEST-complicated.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/filterEST-complicated.C:7: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/filterEST-complicated.C:67:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] unique: aggressively filtered to "uint32FMT" hits out of "uint32FMT" hits.\n", ^ seagen/filterEST-complicated.C:67:79: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] unique: aggressively filtered to "uint32FMT" hits out of "uint32FMT" hits.\n", ^ seagen/filterEST-complicated.C:115:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] knee: filtered "uint32FMT" hits down to "uint32FMT" hits using threshold %f\n", ^ seagen/filterEST-complicated.C:115:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] knee: filtered "uint32FMT" hits down to "uint32FMT" hits using threshold %f\n", ^ seagen/filterEST-complicated.C:139:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] uniform: uniform signal strength, saving the first "uint32FMT" hits out of "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:139:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] uniform: uniform signal strength, saving the first "uint32FMT" hits out of "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:174:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] diff: has no clear signal knee, saving the first "uint32FMT" hits out of "uint32FMT" hits, best=%f, worst=%f, largestdiff=%f\n", ^ seagen/filterEST-complicated.C:174:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] diff: has no clear signal knee, saving the first "uint32FMT" hits out of "uint32FMT" hits, best=%f, worst=%f, largestdiff=%f\n", ^ seagen/filterEST-complicated.C:228:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] spike: at "uint32FMT", "uint32FMT" hits saved: thresh=%f, "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:228:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] spike: at "uint32FMT", "uint32FMT" hits saved: thresh=%f, "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:228:69: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] spike: at "uint32FMT", "uint32FMT" hits saved: thresh=%f, "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:277:31: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] is an unclassified signal, "uint32FMT" hits saved out of "uint32FMT" hits, best=%f, worst=%f\n", ^ seagen/filterEST-complicated.C:277:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(logFile, uint32FMT"] is an unclassified signal, "uint32FMT" hits saved out of "uint32FMT" hits, best=%f, worst=%f\n", ^ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/hitReader.o -c seagen/hitReader.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/hitReader.H:7, from seagen/hitReader.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/hitReader.H:8, from seagen/hitReader.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/hitReader.H:8, from seagen/hitReader.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/hitReader.H:8, from seagen/hitReader.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/hitReader.C:1: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o seagen/filterEST seagen/filterEST.o seagen/filterEST-complicated.o seagen/hitReader.o seagen/aHit.o /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filterMRNA.o -c seagen/filterMRNA.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/filterMRNA.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/filterMRNA.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/filterMRNA.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/filterMRNA.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/filterMRNA.C:7: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/filterMRNA.C:53:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " scores at least %4.2f AND at least "uint32FMT" bases covered are always output\n", MC, ML); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o seagen/filterMRNA seagen/filterMRNA.o seagen/hitReader.o seagen/aHit.o /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filterNULL.o -c seagen/filterNULL.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/filterNULL.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/filterNULL.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/filterNULL.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/filterNULL.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/filterNULL.C:2: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o seagen/filterNULL seagen/filterNULL.o seagen/hitReader.o seagen/aHit.o /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filtertest.o -c seagen/filtertest.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/filtertest.C:7: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ seagen/filtertest.C:180:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "reading hits "uint32FMT"\r", hitsLen); ^ seagen/filtertest.C:186:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "reading hits "uint32FMT"\n", hitsLen); ^ seagen/filtertest.C:308:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%f %f %f %6.4f %6.4f "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/filtertest.C:308:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%f %f %f %6.4f %6.4f "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/filtertest.C:308:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%f %f %f %6.4f %6.4f "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/filtertest.C:308:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%f %f %f %6.4f %6.4f "uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"\n", ^ seagen/filtertest.C: In function ‘void ahit_readBinary(aHit*, FILE*)’: seagen/filtertest.C:39:8: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(a, sizeof(aHit), 1, F); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ seagen/filtertest.C: In function ‘int main(int, char**)’: seagen/filtertest.C:162:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(hitLine, 1024, stdin); ~~~~~^~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o seagen/filtertest seagen/filtertest.o -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/sortHits.o -c seagen/sortHits.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/sortHits.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/sortHits.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/sortHits.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/sortHits.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ seagen/sortHits.C: In member function ‘bool aHitReader::readHit(aHit&)’: seagen/sortHits.C:52:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(buffer, 1024, theFile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~ seagen/sortHits.C: In member function ‘void aHitTemporary::nextHit()’: seagen/sortHits.C:119:12: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread(&hit, sizeof(aHit), 1, theFile); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o seagen/sortHits seagen/sortHits.o seagen/aHit.o /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o seagen/filterESTsimple.o -c seagen/filterESTsimple.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from seagen/aHit.H:4, from seagen/filterESTsimple.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from seagen/aHit.H:5, from seagen/filterESTsimple.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from seagen/aHit.H:5, from seagen/filterESTsimple.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from seagen/aHit.H:5, from seagen/filterESTsimple.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from seagen/filterESTsimple.C:12: seagen/hitReader.H:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ seagen/hitReader.H:62:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitReader::operator[]()-- ERROR: asked for hit "uint32FMT" out of "uint32FMT".\n", x, _listLen); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o seagen/filterESTsimple seagen/filterESTsimple.o seagen/hitReader.o seagen/aHit.o /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/cleanPolishes.o -c sim4dbutils/cleanPolishes.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/cleanPolishes.C:7: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/cleanPolishes.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/cleanPolishes.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/cleanPolishes.C:7: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/cleanPolishes.C:178:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "A big intron is one that is at least "uint32FMT"bp long.\n", intronLimit); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/cleanPolishes sim4dbutils/cleanPolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/fixPolishesIID.o -c sim4dbutils/fixPolishesIID.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/fixPolishesIID.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/fixPolishesIID.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/fixPolishesIID.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/fixPolishesIID.C:7: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/fixPolishesIID sim4dbutils/fixPolishesIID.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/comparePolishes.o -c sim4dbutils/comparePolishes.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/comparePolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/comparePolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/comparePolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/comparePolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/comparePolishes.C:308:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:118: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:145: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:308:158: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"OLAPTFMT"\t%f\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%8.3f\t%8.3f\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/comparePolishes.C:452:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR! inA="uint32FMT" inB="uint32FMT"\n", inA, inB); ^ sim4dbutils/comparePolishes.C:452:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR! inA="uint32FMT" inB="uint32FMT"\n", inA, inB); ^ sim4dbutils/comparePolishes.C:484:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:484:156: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID:"uint32FMTW(8)" good:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\r", ^ sim4dbutils/comparePolishes.C:520:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C:520:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C:520:64: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C:520:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C:520:110: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C:520:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\ngood:"uint32FMTW(4)" Anovel:"uint32FMTW(4)" Amulti:"uint32FMTW(4)" Bnovel:"uint32FMTW(4)" Bmulti:"uint32FMTW(4)" hairy:"uint32FMTW(4)"\n", ^ sim4dbutils/comparePolishes.C: In function ‘int main(int, char**)’: sim4dbutils/comparePolishes.C:74:20: warning: variable ‘doGFF3’ set but not used [-Wunused-but-set-variable] bool doGFF3; ^~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/s4p_overlap.o -c sim4dbutils/s4p_overlap.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from sim4dbutils/s4p_overlap.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from sim4dbutils/s4p_overlap.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from sim4dbutils/s4p_overlap.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from sim4dbutils/s4p_overlap.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/comparePolishes sim4dbutils/comparePolishes.o sim4dbutils/s4p_overlap.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/convertToAtac.o -c sim4dbutils/convertToAtac.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToAtac.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToAtac.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToAtac.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToAtac.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/convertToAtac.C:279:31: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:122: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:279:134: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:31: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:122: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:286:134: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M u dupr"uint32FMT" dupp"uint32FMT" %s:"uint32FMT" "uint32FMT" "uint32FMT" 1 %s:"uint32FMT" "uint32FMT" "uint32FMT" %s\n", ^ sim4dbutils/convertToAtac.C:330:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Fixed "uint32FMT" indel/mismatches.\n", totalFixed); ^ sim4dbutils/convertToAtac.C: In function ‘int main(int, char**)’: sim4dbutils/convertToAtac.C:241:12: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wdangling-else] if (e->_estAlignment[aPos] != '-') ^ sim4dbutils/convertToAtac.C:310:16: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wdangling-else] if (e->_estAlignment[aPos] != '-') ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/convertToAtac sim4dbutils/convertToAtac.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/convertToExtent.o -c sim4dbutils/convertToExtent.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToExtent.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToExtent.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToExtent.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertToExtent.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/convertToExtent.C:43:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:88: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:43:118: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C:50:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t%s\t"uint32FMT"\t"uint32FMT"\t%6.3f\t%6.3f\n", ^ sim4dbutils/convertToExtent.C: In function ‘int main(int, char**)’: sim4dbutils/convertToExtent.C:59:8: warning: variable ‘beVerbose’ set but not used [-Wunused-but-set-variable] bool beVerbose = false; ^~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/convertToExtent sim4dbutils/convertToExtent.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/convertPolishes.o -c sim4dbutils/convertPolishes.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/convertPolishes.C:7: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertPolishes.C:8: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertPolishes.C:8: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/convertPolishes.C:8: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/convertPolishes sim4dbutils/convertPolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/detectChimera.o -c sim4dbutils/detectChimera.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/detectChimera.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/detectChimera.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/detectChimera.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/detectChimera.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/detectChimera.C:129:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)"-"uint32FMTW(3)" %s%s ("uint32FMT","uint32FMT")\n", ^ sim4dbutils/detectChimera.C:129:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)"-"uint32FMTW(3)" %s%s ("uint32FMT","uint32FMT")\n", ^ sim4dbutils/detectChimera.C:129:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)"-"uint32FMTW(3)" %s%s ("uint32FMT","uint32FMT")\n", ^ sim4dbutils/detectChimera.C:153:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "first "uint32FMT" alignments.\n", maxPts); ^ sim4dbutils/detectChimera.C: In function ‘int main(int, char**)’: sim4dbutils/detectChimera.C:19:10: warning: variable ‘beVerbose’ set but not used [-Wunused-but-set-variable] bool beVerbose = false; ^~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/detectChimera sim4dbutils/detectChimera.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/depthOfPolishes.o -c sim4dbutils/depthOfPolishes.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/depthOfPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/depthOfPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/depthOfPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/depthOfPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/depthOfPolishes.C:103:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\t%.2f\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/depthOfPolishes sim4dbutils/depthOfPolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/filterPolishes.o -c sim4dbutils/filterPolishes.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/filterPolishes.C:7: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/filterPolishes.C:8: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/filterPolishes.C:8: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/filterPolishes.C:8: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/filterPolishes.C:178:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering at "uint32FMT"%% coverage and "uint32FMT"%% identity and "uint32FMT"bp.\n", minC, minI, minL); ^ sim4dbutils/filterPolishes.C:178:45: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering at "uint32FMT"%% coverage and "uint32FMT"%% identity and "uint32FMT"bp.\n", minC, minI, minL); ^ sim4dbutils/filterPolishes.C:178:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering at "uint32FMT"%% coverage and "uint32FMT"%% identity and "uint32FMT"bp.\n", minC, minI, minL); ^ sim4dbutils/filterPolishes.C:181:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering for cDNA idx "uint32FMT" and genomic idx "uint32FMT"\n", cdna, geno); ^ sim4dbutils/filterPolishes.C:181:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering for cDNA idx "uint32FMT" and genomic idx "uint32FMT"\n", cdna, geno); ^ sim4dbutils/filterPolishes.C:183:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering for cDNA idx "uint32FMT".\n", cdna); ^ sim4dbutils/filterPolishes.C:185:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Filtering for genomic idx "uint32FMT".\n", geno); ^ sim4dbutils/filterPolishes.C:259:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed) ("uint64FMT" failed/intractable)\r", ^ sim4dbutils/filterPolishes.C:259:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed) ("uint64FMT" failed/intractable)\r", ^ sim4dbutils/filterPolishes.C:264:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed)\r", ^ sim4dbutils/filterPolishes.C:274:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed) ("uint64FMT" failed/intractable)\n", ^ sim4dbutils/filterPolishes.C:274:52: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed) ("uint64FMT" failed/intractable)\n", ^ sim4dbutils/filterPolishes.C:279:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " Filter: %6.2f%% ("uint64FMT" matches processed)\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/filterPolishes sim4dbutils/filterPolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/headPolishes.o -c sim4dbutils/headPolishes.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/headPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/headPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/headPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/headPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/headPolishes sim4dbutils/headPolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/mappedCoverage.o -c sim4dbutils/mappedCoverage.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/mappedCoverage.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/mappedCoverage.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/mappedCoverage.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/mappedCoverage.C:7: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/mappedCoverage.C:94:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint32FMT" sequences in the input file.\n", covMax); ^ sim4dbutils/mappedCoverage.C:130:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Found iid "uint32FMT", but only allocated "uint32FMT" places!\n", ^ sim4dbutils/mappedCoverage.C:130:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Found iid "uint32FMT", but only allocated "uint32FMT" places!\n", ^ sim4dbutils/mappedCoverage.C:153:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Found iid "uint32FMT", but only allocated "uint32FMT" places!\n", ^ sim4dbutils/mappedCoverage.C:153:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Found iid "uint32FMT", but only allocated "uint32FMT" places!\n", ^ sim4dbutils/mappedCoverage.C:219:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: range "uint32FMT"-"uint32FMT" out of bounds (seqLen = "uint32FMT")\n", ^ sim4dbutils/mappedCoverage.C:219:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: range "uint32FMT"-"uint32FMT" out of bounds (seqLen = "uint32FMT")\n", ^ sim4dbutils/mappedCoverage.C:219:66: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: range "uint32FMT"-"uint32FMT" out of bounds (seqLen = "uint32FMT")\n", ^ sim4dbutils/mappedCoverage.C:242:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(C, uint32FMT"\t"uint32FMT"\t%5.3f\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/mappedCoverage.C:242:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(C, uint32FMT"\t"uint32FMT"\t%5.3f\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/mappedCoverage.C:242:60: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(C, uint32FMT"\t"uint32FMT"\t%5.3f\t"uint32FMT"\t"uint32FMT"\n", ^ sim4dbutils/mappedCoverage.C: In function ‘int main(int, char**)’: sim4dbutils/mappedCoverage.C:106:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(inLine, 1024, stdin); ~~~~~^~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/mappedCoverage sim4dbutils/mappedCoverage.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/mergePolishes.o -c sim4dbutils/mergePolishes.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/mergePolishes.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/mergePolishes.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/mergePolishes.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/mergePolishes.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/mergePolishes sim4dbutils/mergePolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/parseSNP.o -c sim4dbutils/parseSNP.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/parseSNP.C:9: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/parseSNP.C:10: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/parseSNP.C:10: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/parseSNP.C:10: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/parseSNP.C:229:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:63: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:75: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:229:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" %c/%c %s global["uint32FMT" "uint32FMT"] exon["uint32FMT" "uint32FMT" "uint32FMT" "uint32FMT"]\n", ^ sim4dbutils/parseSNP.C:269:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:98: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:113: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:269:143: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%s %s "uint32FMT" sa=%c ga=%c mo=%c pi="uint32FMT" pc="uint32FMT" nb="uint32FMT" bl="uint32FMT" bp="uint32FMT" bi="uint32FMT" bc="uint32FMT"\n", ^ sim4dbutils/parseSNP.C:538:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Polishes not sorted by SNP idx! this="uint32FMT", looking for "uint32FMT"\n", ^ sim4dbutils/parseSNP.C:538:80: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Polishes not sorted by SNP idx! this="uint32FMT", looking for "uint32FMT"\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/parseSNP sim4dbutils/parseSNP.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/pickBestPolish.o -c sim4dbutils/pickBestPolish.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/pickBestPolish.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPolish.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPolish.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPolish.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/pickBestPolish.C:35:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(4)" "uint32FMTW(4), ^ sim4dbutils/pickBestPolish.C:35:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(4)" "uint32FMTW(4), ^ sim4dbutils/pickBestPolish.C:35:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(4)" "uint32FMTW(4), ^ sim4dbutils/pickBestPolish.C:39:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, " ("uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(3)")", ^ sim4dbutils/pickBestPolish.C:39:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, " ("uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(3)")", ^ sim4dbutils/pickBestPolish.C:39:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, " ("uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(3)")", ^ sim4dbutils/pickBestPolish.C:39:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, " ("uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(3)")", ^ sim4dbutils/pickBestPolish.C:39:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(O, " ("uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(6)"/"uint32FMTW(6)" "uint32FMTW(3)")", ^ sim4dbutils/pickBestPolish.C:69:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Picking Best for estID="uint32FMT" with %5d choices.\r", p[0]->_estID, pNum); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/pickBestPolish sim4dbutils/pickBestPolish.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/pickBestPair.o -c sim4dbutils/pickBestPair.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/pickBestPair.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPair.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPair.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickBestPair.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/pickBestPair.C:546:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:52: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:80: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:546:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:52: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:80: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:569:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(LOG, "%c "uint32FMT" "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s ("uint32FMT","uint32FMT") "uint32FMT" %s\n", ^ sim4dbutils/pickBestPair.C:584:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(STA, "alignments: "uint32FMT" "uint32FMT"\n", mr1END, mr2END); ^ sim4dbutils/pickBestPair.C:584:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(STA, "alignments: "uint32FMT" "uint32FMT"\n", mr1END, mr2END); ^ sim4dbutils/pickBestPair.C: In function ‘int main(int, char**)’: sim4dbutils/pickBestPair.C:266:19: warning: variable ‘minIdent’ set but not used [-Wunused-but-set-variable] double minIdent = 0; ^~~~~~~~ sim4dbutils/pickBestPair.C:267:19: warning: variable ‘minLength’ set but not used [-Wunused-but-set-variable] double minLength = 0; ^~~~~~~~~ sim4dbutils/pickBestPair.C:268:19: warning: variable ‘minCoverage’ set but not used [-Wunused-but-set-variable] double minCoverage = 0; ^~~~~~~~~~~ sim4dbutils/pickBestPair.C: In function ‘bool readMR(FILE*, mapResult&)’: sim4dbutils/pickBestPair.C:54:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:57:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C: In function ‘bool readMRcoords(FILE*, mapResult&)’: sim4dbutils/pickBestPair.C:123:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:124:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:125:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:126:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:129:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C: In function ‘bool readMRcoords(FILE*, mapResult&, bool&)’: sim4dbutils/pickBestPair.C:189:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:190:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:191:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:192:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:195:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(line, 1024, in); ~~~~~^~~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C: In function ‘int main(int, char**)’: sim4dbutils/pickBestPair.C:354:12: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(LL, 10240, IN); ~~~~~^~~~~~~~~~~~~~~ sim4dbutils/pickBestPair.C:365:14: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(LL, 10240, IN); ~~~~~^~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/pickBestPair sim4dbutils/pickBestPair.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/pickUniquePolish.o -c sim4dbutils/pickUniquePolish.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from sim4dbutils/pickUniquePolish.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickUniquePolish.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickUniquePolish.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/pickUniquePolish.C:7: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/pickUniquePolish sim4dbutils/pickUniquePolish.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/plotCoverageVsIdentity.o -c sim4dbutils/plotCoverageVsIdentity.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/plotCoverageVsIdentity.C:7: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/plotCoverageVsIdentity.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/plotCoverageVsIdentity.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/plotCoverageVsIdentity.C:7: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/plotCoverageVsIdentity.C:32:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(S, uint32FMT" "uint32FMT"\n", p->_percentIdentity, p->_querySeqIdentity); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/plotCoverageVsIdentity sim4dbutils/plotCoverageVsIdentity.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/removeDuplicate.o -c sim4dbutils/removeDuplicate.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/removeDuplicate.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/removeDuplicate.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/removeDuplicate.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/removeDuplicate.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/removeDuplicate sim4dbutils/removeDuplicate.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/sortPolishes.o -c sim4dbutils/sortPolishes.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/sortPolishes.C:87:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Read: "uint32FMTW(8)" polishes -- "uint32FMTW(5)" temporary files -- "uint64FMTW(5)"MB / "uint64FMTW(5)"MB -- "uint64FMTW(5)" bytes/polish\r", ^ sim4dbutils/sortPolishes.C:87:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Read: "uint32FMTW(8)" polishes -- "uint32FMTW(5)" temporary files -- "uint64FMTW(5)"MB / "uint64FMTW(5)"MB -- "uint64FMTW(5)" bytes/polish\r", ^ sim4dbutils/sortPolishes.C:87:70: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Read: "uint32FMTW(8)" polishes -- "uint32FMTW(5)" temporary files -- "uint64FMTW(5)"MB / "uint64FMTW(5)"MB -- "uint64FMTW(5)" bytes/polish\r", ^ sim4dbutils/sortPolishes.C:87:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Read: "uint32FMTW(8)" polishes -- "uint32FMTW(5)" temporary files -- "uint64FMTW(5)"MB / "uint64FMTW(5)"MB -- "uint64FMTW(5)" bytes/polish\r", ^ sim4dbutils/sortPolishes.C:87:125: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Read: "uint32FMTW(8)" polishes -- "uint32FMTW(5)" temporary files -- "uint64FMTW(5)"MB / "uint64FMTW(5)"MB -- "uint64FMTW(5)" bytes/polish\r", ^ sim4dbutils/sortPolishes.C: In function ‘sim4polish* savePolish(sim4polish*, uint64*)’: sim4dbutils/sortPolishes.C:39:34: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘class sim4polish’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(r, q, sizeof(sim4polish)); ^ In file included from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:99:7: note: ‘class sim4polish’ declared here class sim4polish { ^~~~~~~~~~ sim4dbutils/sortPolishes.C:59:69: warning: ‘void* memcpy(void*, const void*, size_t)’ writing to an object of non-trivially copyable type ‘class sim4polishExon’; use copy-assignment or copy-initialization instead [-Wclass-memaccess] memcpy(r->_exons, q->_exons, sizeof(sim4polishExon) * q->_numExons); ^ In file included from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/sortPolishes.C:7: /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:49:7: note: ‘class sim4polishExon’ declared here class sim4polishExon { ^~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/sortPolishes sim4dbutils/sortPolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/summarizePolishes.o -c sim4dbutils/summarizePolishes.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/summarizePolishes.C:4: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/summarizePolishes.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/summarizePolishes.C:4: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/summarizePolishes.C:4: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/summarizePolishes.C:167:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "numSeqs: "uint32FMT"\n", numSeqs); ^ sim4dbutils/summarizePolishes.C:169:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ids: "uint32FMT" -- ", idLen); ^ sim4dbutils/summarizePolishes.C:171:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " "uint32FMT"", id[i]); ^ sim4dbutils/summarizePolishes.C:173:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "cvs: "uint32FMT" -- ", cvLen); ^ sim4dbutils/summarizePolishes.C:175:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " "uint32FMT"", cv[i]); ^ sim4dbutils/summarizePolishes.C:244:34: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:244:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:244:60: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:244:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:244:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:247:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)" "uint32FMTW(3)": mapped="uint32FMTW(8)" notmapped="uint32FMTW(8)" est="uint32FMTW(8)" gen="uint32FMTW(8)"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:247:54: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)" "uint32FMTW(3)": mapped="uint32FMTW(8)" notmapped="uint32FMTW(8)" est="uint32FMTW(8)" gen="uint32FMTW(8)"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:247:78: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)" "uint32FMTW(3)": mapped="uint32FMTW(8)" notmapped="uint32FMTW(8)" est="uint32FMTW(8)" gen="uint32FMTW(8)"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:247:104: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)" "uint32FMTW(3)": mapped="uint32FMTW(8)" notmapped="uint32FMTW(8)" est="uint32FMTW(8)" gen="uint32FMTW(8)"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ sim4dbutils/summarizePolishes.C:247:125: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, uint32FMTW(3)" "uint32FMTW(3)": mapped="uint32FMTW(8)" notmapped="uint32FMTW(8)" est="uint32FMTW(8)" gen="uint32FMTW(8)"\n", id[i], cv[c], mapped, notmapped, uniqest, uniqgen); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/summarizePolishes sim4dbutils/summarizePolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/uniqPolishes.o -c sim4dbutils/uniqPolishes.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/uniqPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/uniqPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/uniqPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/uniqPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/uniqPolishes sim4dbutils/uniqPolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/vennPolishes.o -c sim4dbutils/vennPolishes.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/vennPolishes.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/vennPolishes.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/vennPolishes.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/vennPolishes.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/vennPolishes.C:115:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: You gave me "uint32FMT" files! That's pretty big. I don't know\n", numFiles); ^ sim4dbutils/vennPolishes.C:175:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, " "uint32FMTW(8)" ", counts[index]); ^ sim4dbutils/vennPolishes.C:183:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%c = ("uint32FMTW(8)" total) %s\n", 'A' + (char)i, sizes[i], argv[i+numArgs]); ^ sim4dbutils/vennPolishes.C:189:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "] "uint32FMT"\n", counts[index]); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/vennPolishes sim4dbutils/vennPolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/realignPolishes.o -c sim4dbutils/realignPolishes.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/realignPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/realignPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/realignPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/realignPolishes.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/realignPolishes.C:160:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "MERGE: "uint32FMTW(4)"-"uint32FMTW(4)" (%6.2f,%6.2f) "uint32FMTW(4)"-"uint32FMTW(4) ^ sim4dbutils/realignPolishes.C:160:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "MERGE: "uint32FMTW(4)"-"uint32FMTW(4)" (%6.2f,%6.2f) "uint32FMTW(4)"-"uint32FMTW(4) ^ sim4dbutils/realignPolishes.C:160:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "MERGE: "uint32FMTW(4)"-"uint32FMTW(4)" (%6.2f,%6.2f) "uint32FMTW(4)"-"uint32FMTW(4) ^ sim4dbutils/realignPolishes.C:160:89: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "MERGE: "uint32FMTW(4)"-"uint32FMTW(4)" (%6.2f,%6.2f) "uint32FMTW(4)"-"uint32FMTW(4) ^ sim4dbutils/realignPolishes.C:161:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " and "uint32FMTW(8)"-"uint32FMTW(8)" (%6.2f,%6.2f) "uint32FMTW(8)"-"uint32FMTW(8)"\n", ^ sim4dbutils/realignPolishes.C:161:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " and "uint32FMTW(8)"-"uint32FMTW(8)" (%6.2f,%6.2f) "uint32FMTW(8)"-"uint32FMTW(8)"\n", ^ sim4dbutils/realignPolishes.C:161:57: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " and "uint32FMTW(8)"-"uint32FMTW(8)" (%6.2f,%6.2f) "uint32FMTW(8)"-"uint32FMTW(8)"\n", ^ sim4dbutils/realignPolishes.C:161:87: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] " and "uint32FMTW(8)"-"uint32FMTW(8)" (%6.2f,%6.2f) "uint32FMTW(8)"-"uint32FMTW(8)"\n", ^ sim4dbutils/realignPolishes.C:243:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "WARNING: CHANGED! "uint32FMT" -> "uint32FMT"\n", nm, p->_numMatches); ^ sim4dbutils/realignPolishes.C:243:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "WARNING: CHANGED! "uint32FMT" -> "uint32FMT"\n", nm, p->_numMatches); ^ sim4dbutils/realignPolishes.C:248:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(mergeLog, "MERGED\tEST\t"uint32FMT"\tfrom\t%8.3f\t%8.3f\tto\t%8.3f\t%8.3f\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/realignPolishes sim4dbutils/realignPolishes.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/removeRedundant.o -c sim4dbutils/removeRedundant.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4dbutils/removeRedundant.C:5: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/removeRedundant.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/removeRedundant.C:5: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4dbutils/removeRedundant.C:5: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/removeRedundant.C:107:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID="uint32FMTW(8)" -- overlap:"uint32FMT" noOverlap:"uint32FMT"\r", ^ sim4dbutils/removeRedundant.C:107:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID="uint32FMTW(8)" -- overlap:"uint32FMT" noOverlap:"uint32FMT"\r", ^ sim4dbutils/removeRedundant.C:107:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "IID="uint32FMTW(8)" -- overlap:"uint32FMT" noOverlap:"uint32FMT"\r", ^ sim4dbutils/removeRedundant.C:212:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\nNOT A PERFECT CLIQUE! Found "uint32FMT" overlaps, wanted "uint32FMT" in the clique.\n", ^ sim4dbutils/removeRedundant.C:212:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\nNOT A PERFECT CLIQUE! Found "uint32FMT" overlaps, wanted "uint32FMT" in the clique.\n", ^ sim4dbutils/removeRedundant.C:260:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\nmatches withOvl:"uint32FMT" withoutOvl:"uint32FMT"\n", ^ sim4dbutils/removeRedundant.C:260:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "\nmatches withOvl:"uint32FMT" withoutOvl:"uint32FMT"\n", ^ sim4dbutils/removeRedundant.C:262:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "not perfect clique:"uint32FMT"\n", notPerfectClique); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/removeRedundant sim4dbutils/removeRedundant.o sim4dbutils/s4p_overlap.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4dbutils/reportAlignmentDifferences.o -c sim4dbutils/reportAlignmentDifferences.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/reportAlignmentDifferences.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/reportAlignmentDifferences.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/reportAlignmentDifferences.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libsim4/sim4polish/sim4polish.H:11, from /<>/kmer-0~20150903+r2013/libsim4/sim4.H:1, from sim4dbutils/reportAlignmentDifferences.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4dbutils/reportAlignmentDifferences.C: In function ‘int main(int, char**)’: sim4dbutils/reportAlignmentDifferences.C:155:12: warning: suggest explicit braces to avoid ambiguous ‘else’ [-Wdangling-else] if (e->_estAlignment[aPos] != '-') ^ sim4dbutils/reportAlignmentDifferences.C:201:9: warning: ignoring return value of ‘int system(const char*)’, declared with attribute warn_unused_result [-Wunused-result] system(gnuCmd); ~~~~~~^~~~~~~~ sim4dbutils/reportAlignmentDifferences.C:200:19: warning: ‘%s’ directive writing up to 4095 bytes into a region of size 4086 [-Wformat-overflow=] sprintf(gnuCmd, "gnuplot < %s", gnuName); ^~~~~~~~~~~~~~ ~~~~~~~ In file included from /usr/include/stdio.h:873, from sim4dbutils/reportAlignmentDifferences.C:1: /usr/include/x86_64-linux-gnu/bits/stdio2.h:36:34: note: ‘__builtin___sprintf_chk’ output between 11 and 4106 bytes into a destination of size 4096 return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ __bos (__s), __fmt, __va_arg_pack ()); ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4dbutils/reportAlignmentDifferences sim4dbutils/reportAlignmentDifferences.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libsim4/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o sim4db/sim4th.o -c sim4db/sim4th.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from sim4db/sim4th.C:34: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4db/sim4th.C:34: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4db/sim4th.C:34: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from sim4db/sim4th.C:34: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ sim4db/sim4th.C:327:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(str, "%s -Y "uint32FMT" "uint32FMT"\n", ^ sim4db/sim4th.C:327:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(str, "%s -Y "uint32FMT" "uint32FMT"\n", ^ sim4db/sim4th.C: In function ‘void writer(void*, void*)’: sim4db/sim4th.C:316:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(fOutput, o, strlen(o) * sizeof(char)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ sim4db/sim4th.C:332:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(fYesNo, str, strlen(str) * sizeof(char)); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o sim4db/sim4db sim4db/sim4th.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/snapper2.o -c snapper/snapper2.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/snapper2.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/snapper2.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/snapper2.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/snapper2.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/snapper2.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/snapper2.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.C:59:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%6.4f %6.4f %6.4f %6.4f %6.4f "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)"\n", ^ snapper/snapper2.C:59:65: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%6.4f %6.4f %6.4f %6.4f %6.4f "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)"\n", ^ snapper/snapper2.C:59:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%6.4f %6.4f %6.4f %6.4f %6.4f "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)"\n", ^ snapper/snapper2.C:59:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(F, "%6.4f %6.4f %6.4f %6.4f %6.4f "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)" "uint32FMTW(8)"\n", ^ snapper/snapper2.C:248:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: Found "uint32FMT" queries shorter than minimum reportable size (-discardexonlength = "uint32FMT")\n", ^ snapper/snapper2.C:248:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: Found "uint32FMT" queries shorter than minimum reportable size (-discardexonlength = "uint32FMT")\n", ^ snapper/snapper2.C:254:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: Found "uint32FMT" queries longer than maximum size ("uint32FMT")\n", ^ snapper/snapper2.C:254:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "WARNING: Found "uint32FMT" queries longer than maximum size ("uint32FMT")\n", ^ snapper/snapper2.C:295:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Created "uint32FMT" filters (out of "uint32FMT" available) to test/validate.\n", ^ snapper/snapper2.C:295:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Created "uint32FMT" filters (out of "uint32FMT" available) to test/validate.\n", ^ In file included from snapper/snapper2.C:1: snapper/snapper2.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64, uint64)’: snapper/snapper2.H:419:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ snapper/snapper2.C: In function ‘void writerThread(void*, void*)’: snapper/snapper2.C:155:10: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] write(resultFILE, qry->theOutput, sizeof(char) * qry->theOutputLen); ~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/snapper2.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H: In member function ‘void logMsg::write(int, const char*)’: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:85:12: warning: ignoring return value of ‘ssize_t write(int, const void*, size_t)’, declared with attribute warn_unused_result [-Wunused-result] ::write(file, _log, sizeof(char) * _logLen); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/configuration.o -c snapper/configuration.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/configuration.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/configuration.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/configuration.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/configuration.C:205:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: Invalid afLength "uint32FMT", should be < 64.\n", _afLength), err++; ^ In file included from snapper/configuration.C:1: snapper/snapper2.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64, uint64)’: snapper/snapper2.H:419:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/thr-search.o -c snapper/thr-search.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-search.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/thr-search.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/thr-search.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64, uint64)’: snapper/snapper2.H:419:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/thr-filter.o -c snapper/thr-filter.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/thr-filter.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-filter.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-filter.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-filter.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/thr-filter.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/thr-filter.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64, uint64)’: snapper/snapper2.H:419:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/thr-polish.o -c snapper/thr-polish.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/thr-polish.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/thr-polish.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/thr-polish.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/thr-polish.C:311:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "doPolish()-- Can't reallocate space for the output string ("uint32FMT" bytes) in thread "uint64FMT"\n", qry->theOutputMax, state->threadID); ^ snapper/thr-polish.C:311:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "doPolish()-- Can't reallocate space for the output string ("uint32FMT" bytes) in thread "uint64FMT"\n", qry->theOutputMax, state->threadID); ^ In file included from snapper/thr-polish.C:1: snapper/snapper2.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64, uint64)’: snapper/snapper2.H:419:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/thr-polish-dp.o -c snapper/thr-polish-dp.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/thr-polish-dp.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish-dp.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish-dp.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/thr-polish-dp.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/thr-polish-dp.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/thr-polish-dp.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/thr-polish-dp.C:89:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "dpMatrix-- reallocate to "uint32FMT" x "uint32FMT"\n", aMax, bMax); ^ snapper/thr-polish-dp.C:89:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "dpMatrix-- reallocate to "uint32FMT" x "uint32FMT"\n", aMax, bMax); ^ snapper/thr-polish-dp.C:441:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "doPolish()-- Can't reallocate space for the output string ("uint32FMT" bytes) in thread "uint64FMT"\n", qry->theOutputMax, state->threadID); ^ snapper/thr-polish-dp.C:441:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "doPolish()-- Can't reallocate space for the output string ("uint32FMT" bytes) in thread "uint64FMT"\n", qry->theOutputMax, state->threadID); ^ In file included from snapper/thr-polish-dp.C:1: snapper/snapper2.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64, uint64)’: snapper/snapper2.H:419:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/hitMatrix.o -c snapper/hitMatrix.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/hitMatrix.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/hitMatrix.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/hitMatrix.C:385:27: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT".\n", theHitsPos, theHitsMax); ^ snapper/hitMatrix.C:385:95: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::filter()-- tried to extend output string from "uint32FMT" to "uint32FMT".\n", theHitsPos, theHitsMax); ^ In file included from snapper/hitMatrix.C:1: snapper/snapper2.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64, uint64)’: snapper/snapper2.H:419:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ snapper/hitMatrix.C: In member function ‘void hitMatrix::filter(char, double, uint32, aHit*&, uint32&, uint32&)’: snapper/hitMatrix.C:383:23: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o snapper/hitMatrix-sort.o -c snapper/hitMatrix-sort.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from snapper/snapper2.H:18, from snapper/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from snapper/snapper2.H:18, from snapper/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from snapper/snapper2.H:20, from snapper/hitMatrix-sort.C:1: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from snapper/hitMatrix-sort.C:1: snapper/snapper2.H:421:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H:421:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "hitMatrix::addHits()-- have "uint32FMT" hits, tried to add "uint64FMT" more\n", _hitsLen, cn); ^ snapper/snapper2.H: In member function ‘void hitMatrix::addHits(uint32, uint64*, uint64, uint64)’: snapper/snapper2.H:419:19: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] } catch (std::bad_alloc) { ^~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o snapper/snapper2 snapper/snapper2.o snapper/configuration.o snapper/thr-search.o snapper/thr-filter.o snapper/thr-polish.o snapper/thr-polish-dp.o snapper/hitMatrix.o snapper/hitMatrix-sort.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tagger.o -c tapper/tagger.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from tapper/tapperTag.H:1, from tapper/tagger.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tagger.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tagger.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tagger.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tagger.C:1: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tagger.C:2: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tagger.C:2: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tagger.C:2: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tagger.C:4: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tagger.C:151:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tlength\t"uint32FMT"\n", tagfile, TF->metaData()->tagSize()); ^ tapper/tagger.C:152:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tnumMates\t"uint64FMT"\n", tagfile, TF->numberOfMatePairs()); ^ tapper/tagger.C:153:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tmean\t"uint32FMT"\n", tagfile, TF->metaData()->mean()); ^ tapper/tagger.C:154:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tstddev\t"uint32FMT"\n", tagfile, TF->metaData()->stddev()); ^ tapper/tagger.C:157:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tlength\t"uint32FMT"\n", tagfile, TF->metaData()->tagSize()); ^ tapper/tagger.C:158:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s\tnumTags\t"uint64FMT"\n", tagfile, TF->numberOfFragmentTags()); ^ tapper/tagger.C:182:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:92: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:104: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:182:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\t>"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:191:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:191:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:191:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:191:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, ">"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t%s/%s\n", ^ tapper/tagger.C:362:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t0\t"uint32FMT"\t%c\t%s%s\t%s\n", ^ tapper/tagger.C:362:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t0\t"uint32FMT"\t%c\t%s%s\t%s\n", ^ tapper/tagger.C:362:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t0\t"uint32FMT"\t%c\t%s%s\t%s\n", ^ tapper/tagger.C:362:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t0\t"uint32FMT"\t%c\t%s%s\t%s\n", ^ tapper/tagger.C:362:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t0\t"uint32FMT"\t%c\t%s%s\t%s\n", ^ tapper/tagger.C: In function ‘bool readTag(uint32, FILE*, FILE*, tapperTag*)’: tapper/tagger.C:52:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(seqhdr, 1024, seq); ~~~~~^~~~~~~~~~~~~~~~~~~ tapper/tagger.C:54:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(seqhdr, 1024, seq); ~~~~~^~~~~~~~~~~~~~~~~~~ tapper/tagger.C:55:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(seqseq, 1024, seq); ~~~~~^~~~~~~~~~~~~~~~~~~ tapper/tagger.C:57:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(qlthdr, 1024, qlt); ~~~~~^~~~~~~~~~~~~~~~~~~ tapper/tagger.C:59:10: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(qlthdr, 1024, qlt); ~~~~~^~~~~~~~~~~~~~~~~~~ tapper/tagger.C:60:8: warning: ignoring return value of ‘char* fgets(char*, int, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fgets(qltseq, 1024, qlt); ~~~~~^~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o tapper/tagger tapper/tagger.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tapper.o -c tapper/tapper.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from tapper/tapperTag.H:1, from tapper/tapper.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapper.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapper.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapper.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tapper.C:1: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tapper.C:2: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tapper.C:2: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tapper.C:2: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tapper.C:4: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ In file included from tapper/tapperGlobalData.H:1, from tapper/tapper.C:5: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from tapper/tapper.C:5: tapper/tapperGlobalData.H:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:109:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:144:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapperGlobalData.H:144:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapper.C:633:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Reallocate t->numHappiesMax to "uint32FMT"\n", t->numHappiesMax); ^ tapper/tapper.C:1048:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperResultIndex) -- "sizetFMT"\n", sizeof(tapperResultIndex)); ^ tapper/tapper.C:1049:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperResultQV) -- "sizetFMT"\n", sizeof(tapperResultQV)); ^ tapper/tapper.C:1050:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperResultFragment) -- "sizetFMT"\n", sizeof(tapperResultFragment)); ^ tapper/tapper.C:1051:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperResultMated) -- "sizetFMT"\n", sizeof(tapperResultMated)); ^ tapper/tapper.C:1052:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperResultTangled) -- "sizetFMT"\n", sizeof(tapperResultTangled)); ^ tapper/tapper.C:1053:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperHit) -- "sizetFMT"\n", sizeof(tapperHit)); ^ tapper/tapper.C:1054:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "sizeof(tapperTag) -- "sizetFMT"\n", sizeof(tapperTag)); ^ tapper/tapper.C:1124:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, " all alignments. The default is "uint32FMT".\n", g->repeatThreshold); ^ tapper/tapper.C: In member function ‘bool tapperHit::alignToReference(tapperGlobalData*, uint32, uint32, char*, uint32)’: tapper/tapper.C:399:43: warning: comparison of integer expressions of different signedness: ‘int’ and ‘uint32’ {aka ‘unsigned int’} [-Wsign-compare] if (_colorMismatch + _colorInconsistent > g->maxColorError) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~ tapper/tapper.C:415:23: warning: comparison of integer expressions of different signedness: ‘uint32’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] for (uint32 ti=0; ti<_len-1; ti++) { ~~^~~~~~~ In file included from /<>/kmer-0~20150903+r2013/libutil/recordFile.H:6, from /<>/kmer-0~20150903+r2013/libutil/util++.H:39, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapper.C:1: tapper/tapper.C:468:13: warning: comparison of integer expressions of different signedness: ‘uint32’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] assert(nn == _colorMismatch + _colorInconsistent); ~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o tapper/tapper tapper/tapper.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tapperconvert.o -c tapper/tapperconvert.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from tapper/tapperTag.H:1, from tapper/tapperconvert.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapperconvert.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapperconvert.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tapperconvert.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tapperconvert.C:1: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tapperconvert.C:2: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tapperconvert.C:2: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tapperconvert.C:2: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tapperconvert.C:4: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ In file included from tapper/tapperGlobalData.H:1, from tapper/tapperconvert.C:5: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from tapper/tapperconvert.C:5: tapper/tapperGlobalData.H:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:109:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:144:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapperGlobalData.H:144:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o tapper/tapperconvert tapper/tapperconvert.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tappermerge.o -c tapper/tappermerge.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from tapper/tapperTag.H:1, from tapper/tappermerge.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tappermerge.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tappermerge.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from tapper/tapperTag.H:1, from tapper/tappermerge.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tappermerge.C:1: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tappermerge.C:2: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tappermerge.C:2: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tappermerge.C:2: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tappermerge.C:4: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ In file included from tapper/tapperGlobalData.H:1, from tapper/tappermerge.C:5: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from tapper/tappermerge.C:5: tapper/tapperGlobalData.H:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:109:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:144:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapperGlobalData.H:144:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o tapper/tappermerge tapper/tappermerge.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tappersort.o -c tapper/tappersort.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from tapper/tappersort.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from tapper/tappersort.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from tapper/tappersort.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from tapper/tappersort.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tappersort.C:3: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tappersort.C:4: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tappersort.C:4: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tappersort.C:4: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tappersort.C:6: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ In file included from tapper/tapperGlobalData.H:1, from tapper/tappersort.C:7: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from tapper/tappersort.C:7: tapper/tapperGlobalData.H:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:109:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:144:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapperGlobalData.H:144:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tappersort.C:148:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s."uint32FMTW(03)".tapperAlignment", outputName, outputIndex); ^ tapper/tappersort.C:150:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Writing "uint32FMT" sorted alignments to '%s'\n", aliLen, filename); ^ tapper/tappersort.C:202:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Can fit "uint32FMT" alignments into "uint64FMT" bytes memory; "uint32FMT" bytes each.\n", ^ tapper/tappersort.C:202:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Can fit "uint32FMT" alignments into "uint64FMT" bytes memory; "uint32FMT" bytes each.\n", ^ tapper/tappersort.C:202:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Can fit "uint32FMT" alignments into "uint64FMT" bytes memory; "uint32FMT" bytes each.\n", ^ tapper/tappersort.C:257:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s."uint32FMTW(03)".tapperAlignment", outputName, x); ^ tapper/tappersort.C:299:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(filename, "%s."uint32FMTW(03)".tapperAlignment", outputName, x); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o tapper/tappersort tapper/tappersort.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libutil/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libkmer/ -I/<>/kmer-0~20150903+r2013/libsim4/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o tapper/tappererrorcorrect.o -c tapper/tappererrorcorrect.C In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:4, from tapper/tappererrorcorrect.C:1: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from tapper/tappererrorcorrect.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from tapper/tappererrorcorrect.C:1: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from tapper/tappererrorcorrect.C:1: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from tapper/tappererrorcorrect.C:3: tapper/tapperTag.H:204:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "tapperTagFile()-- ERROR! Tag file was built with TAPPER_TAG_WORDS="uint32FMT", but code has %d.\n", ^ In file included from tapper/tappererrorcorrect.C:4: tapper/tapperResult.H:41:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:32: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:44: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:56: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:68: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:81: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:93: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:105: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:117: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ In file included from tapper/tappererrorcorrect.C:4: tapper/tapperResult.H:41:130: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:142: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:155: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:168: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:183: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:198: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:41:228: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(out, "R\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint64FMT"/"uint64FMT"\t"uint64FMT"+-"uint64FMT"\tf:"uint64FMT"\td:"uint64FMT"\ts:"uint64FMT"\tm:"uint64FMT"\tt:"uint64FMT"\n", ^ tapper/tapperResult.H:116:2: warning: #warning do not know real tag length [-Wcpp] #warning do not know real tag length ^~~~~~~ tapper/tapperResult.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:132:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:37: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:73: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:86: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:99: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:116: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:155:128: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "F\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t'%s'\n", ^ tapper/tapperResult.H:187:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:114: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:126: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:138: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:151: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:163: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:175: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:187: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:200: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:213: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:230: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ tapper/tapperResult.H:187:242: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "M\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t%c\t"uint32FMT"/"uint32FMT"/"uint32FMT"\n", ^ In file included from tapper/tappererrorcorrect.C:4: tapper/tapperResult.H:224:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:47: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:59: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:84: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:109: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:121: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:133: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:146: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:159: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ tapper/tapperResult.H:224:172: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "T\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint16FMT"_"uint16FMT"_"uint16FMT"_"uint16FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\t"uint32FMT"\n", ^ In file included from tapper/tappererrorcorrect.C:6: tapper/tapperHit.H:17:17: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:30: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:43: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:55: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ tapper/tapperHit.H:17:83: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(OS, "0x"uint64FMT"\t"uint32FMT":"uint32FMT":%c\t"uint64FMT","uint64FMT","uint64FMT, ^ In file included from tapper/tapperGlobalData.H:1, from tapper/tappererrorcorrect.C:7: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ In file included from tapper/tappererrorcorrect.C:7: tapper/tapperGlobalData.H:109:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:109:61: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: invalid partition n="uint32FMT" m="uint32FMT".\n", thisPartition, numPartitions); ^ tapper/tapperGlobalData.H:120:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:50: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:71: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:120:97: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Set partition for "uint64FMT" frags or "uint64FMT" mates: -begin "uint32FMT" -end "uint32FMT"\n", ^ tapper/tapperGlobalData.H:144:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tapperGlobalData.H:144:36: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] sprintf(colName, "%s.ms"uint32FMT".ce"uint32FMT".posDB", genName, tagSize, maxColorError); ^ tapper/tappererrorcorrect.C:25:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block "uint32FMT" has "uint32FMT" things.\n", i, alignsLen[i]); ^ tapper/tappererrorcorrect.C:25:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block "uint32FMT" has "uint32FMT" things.\n", i, alignsLen[i]); ^ tapper/tappererrorcorrect.C:49:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block[0] - seq "uint32FMT" pos "uint32FMT"\n", ^ tapper/tappererrorcorrect.C:49:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block[0] - seq "uint32FMT" pos "uint32FMT"\n", ^ tapper/tappererrorcorrect.C:62:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block "uint32FMT" has "uint32FMT" things.\n", alignsMax-1, alignsLen[alignsMax-1]); ^ tapper/tappererrorcorrect.C:62:40: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "block "uint32FMT" has "uint32FMT" things.\n", alignsMax-1, alignsLen[alignsMax-1]); ^ tapper/tappererrorcorrect.C:160:2: warning: #warning need the real read size here [-Wcpp] #warning need the real read size here ^~~~~~~ tapper/tappererrorcorrect.C:213:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "\nALIGN "uint32FMT"-"uint32FMT"\n", winLo, winHi); ^ tapper/tappererrorcorrect.C:213:42: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "\nALIGN "uint32FMT"-"uint32FMT"\n", winLo, winHi); ^ tapper/tappererrorcorrect.C: In function ‘int main(int, char**)’: tapper/tappererrorcorrect.C:102:13: warning: variable ‘memoryLimit’ set but not used [-Wunused-but-set-variable] uint64 memoryLimit = 1024 * 1024 * 1024; ^~~~~~~~~~~ tapper/tappererrorcorrect.C:141:21: warning: unused variable ‘id’ [-Wunused-variable] uint16 id[4]; ^~ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o tapper/tappererrorcorrect tapper/tappererrorcorrect.o /<>/kmer-0~20150903+r2013/libsim4/libsim4.a /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.o -c /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:53:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer "uint64HEX" not found : e=%d f=%d g=%d\n", m, ee, ef, eg); ^ /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:56:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer "uint64HEX" count differs : e=%u f=%u g=%u (exists=%d)\n", m, ce, cf, cg, ee); ^ /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:65:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "mer "uint64HEX" : e=%u f=%u g=%u (exists=%d)\n", m, ce, cf, cg, ee); ^ /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:96:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Tried "uint64FMT", didn't find "uint64FMT" merStream mers in the existDB.\n", tried, lost); ^ /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:96:38: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Tried "uint64FMT", didn't find "uint64FMT" merStream mers in the existDB.\n", tried, lost); ^ /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:128:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Found "uint64FMT" mers in the meryl database.\n", expected); ^ /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:148:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Expected to find "uint64FMT" mers, but found "uint64FMT" instead.\n", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.C:148:49: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Expected to find "uint64FMT" mers, but found "uint64FMT" instead.\n", ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o /<>/kmer-0~20150903+r2013/libkmer/existDB /<>/kmer-0~20150903+r2013/libkmer/driver-existDB.o /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -I/<>/kmer-0~20150903+r2013/libmeryl/ -I/<>/kmer-0~20150903+r2013/libbio/ -I/<>/kmer-0~20150903+r2013/libseq/ -I/<>/kmer-0~20150903+r2013/libutil/ -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.o -c /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C In file included from /<>/kmer-0~20150903+r2013/libbio/bio.h:4, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:14, from /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:6: /<>/kmer-0~20150903+r2013/libutil/util.h:55:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64FMT "%"PRIu64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:56:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint64HEX "0x%016"PRIx64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:58:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int64FMT "%"PRId64 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:65:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32FMT "%"PRIu32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:66:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint32HEX "0x%08"PRIx32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:68:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define int32FMT "%"PRId32 ^ /<>/kmer-0~20150903+r2013/libutil/util.h:75:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] #define uint16FMT "%"PRIu16 ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:37, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedArray.H:222:39: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "HEAP["uint32FMT"]="uint64FMT"\n", i, _array->get(i)); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:38, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:6: /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:16: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ /<>/kmer-0~20150903+r2013/libutil/bitPackedFile.H:32:35: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(f, "inside: "uint64FMT" outside: "uint64FMT"\n", stat_seekInside, stat_seekOutside); ^ In file included from /<>/kmer-0~20150903+r2013/libutil/util++.H:43, from /<>/kmer-0~20150903+r2013/libbio/bio++.H:15, from /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:6: /<>/kmer-0~20150903+r2013/libutil/logMsg.H:75:15: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] "logMsg::add()-- HEY! I wrote "uint32FMT" bytes beyond the end of the buffer!\n" ^ In file included from /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:8: /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:127:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift1 = "uint32FMT"\n", _shift1); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:128:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "shift2 = "uint32FMT"\n", _shift2); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:129:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "M = "uint64HEX"\n", m); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:130:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "H = "uint64HEX"\n", h); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:131:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "C = "uint64HEX"\n", c); ^ /<>/kmer-0~20150903+r2013/libkmer/positionDB.H:132:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "R = "uint64HEX"\n", r); ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:54:25: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s @ "uint64FMT"/"uint64FMT": Found "uint64FMT" table entries, and "uint32FMT" matching positions (", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:54:41: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s @ "uint64FMT"/"uint64FMT": Found "uint64FMT" table entries, and "uint32FMT" matching positions (", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:54:53: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s @ "uint64FMT"/"uint64FMT": Found "uint64FMT" table entries, and "uint32FMT" matching positions (", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:54:72: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "%s @ "uint64FMT"/"uint64FMT": Found "uint64FMT" table entries, and "uint32FMT" matching positions (", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:68:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Found no matches for mer=%s at pos="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:101:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a F match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:101:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a F match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:101:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a F match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:110:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a R match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:110:62: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a R match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:110:74: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stdout, "Got a R match for mer=%s at "uint64FMT"/"uint64FMT" (in mers), numMatches="uint64FMT"\n", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:255:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: merbegin="uint64FMT" and merend="uint64FMT" are incompatible.\n", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:255:48: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "ERROR: merbegin="uint64FMT" and merend="uint64FMT" are incompatible.\n", ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:275:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Building table with merSize "uint32FMT", merSkip "uint32FMT"\n", mersize, merskip); ^ /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.C:275:58: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] fprintf(stderr, "Building table with merSize "uint32FMT", merSkip "uint32FMT"\n", mersize, merskip); ^ g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o /<>/kmer-0~20150903+r2013/libkmer/positionDB /<>/kmer-0~20150903+r2013/libkmer/driver-posDB.o /<>/kmer-0~20150903+r2013/libkmer/libkmer.a /<>/kmer-0~20150903+r2013/libmeryl/libmeryl.a /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o /<>/kmer-0~20150903+r2013/libseq/test-seqCache /<>/kmer-0~20150903+r2013/libseq/test-seqCache.o /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o /<>/kmer-0~20150903+r2013/libseq/test-seqStream /<>/kmer-0~20150903+r2013/libseq/test-seqStream.o /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm g++ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o /<>/kmer-0~20150903+r2013/libseq/test-merStream /<>/kmer-0~20150903+r2013/libseq/test-merStream.o /<>/kmer-0~20150903+r2013/libseq/libseq.a /<>/kmer-0~20150903+r2013/libbio/libbio.a /<>/kmer-0~20150903+r2013/libutil/libutil.a -pthread -ldl -lm gcc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/<>/kmer-0~20150903+r2013=. -fstack-protector-strong -Wformat -Werror=format-security -fPIC -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /<>/kmer-0~20150903+r2013/libutil/mt19937ar/test.o -c /<>/kmer-0~20150903+r2013/libutil/mt19937ar/test.c rm -f /<>/kmer-0~20150903+r2013/libutil/mt19937ar/libmt19937ar.a && ar ruvs /<>/kmer-0~20150903+r2013/libutil/mt19937ar/libmt19937ar.a /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o /<>/kmer-0~20150903+r2013/libutil/mt19937ar/test.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /<>/kmer-0~20150903+r2013/libutil/mt19937ar/libmt19937ar.a a - /<>/kmer-0~20150903+r2013/libutil/mt19937ar/mt19937ar.o a - /<>/kmer-0~20150903+r2013/libutil/mt19937ar/test.o rm -f /<>/kmer-0~20150903+r2013/libutil/kazlib/libkaz.a && ar ruvs /<>/kmer-0~20150903+r2013/libutil/kazlib/libkaz.a /<>/kmer-0~20150903+r2013/libutil/kazlib/dict.o /<>/kmer-0~20150903+r2013/libutil/kazlib/except.o /<>/kmer-0~20150903+r2013/libutil/kazlib/hash.o /<>/kmer-0~20150903+r2013/libutil/kazlib/list.o /<>/kmer-0~20150903+r2013/libutil/kazlib/sfx.o ar: `u' modifier ignored since `D' is the default (see `U') ar: creating /<>/kmer-0~20150903+r2013/libutil/kazlib/libkaz.a a - /<>/kmer-0~20150903+r2013/libutil/kazlib/dict.o a - /<>/kmer-0~20150903+r2013/libutil/kazlib/except.o a - /<>/kmer-0~20150903+r2013/libutil/kazlib/hash.o a - /<>/kmer-0~20150903+r2013/libutil/kazlib/list.o a - /<>/kmer-0~20150903+r2013/libutil/kazlib/sfx.o make[2]: Leaving directory '/<>/kmer-0~20150903+r2013' mv installdir/bin/atac.pl installdir/bin/atac make[1]: Leaving directory '/<>/kmer-0~20150903+r2013' dh_auto_test create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --with python2 dh_testroot dh_prep dh_auto_install make -j4 install DESTDIR=/<>/kmer-0\~20150903\+r2013/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/kmer-0~20150903+r2013' make[1]: Leaving directory '/<>/kmer-0~20150903+r2013' debian/rules override_dh_install make[1]: Entering directory '/<>/kmer-0~20150903+r2013' dh_install for perlscript in `grep -l '#!/usr/bin/env \+perl' debian/*/usr/bin/*` `grep -l '#!/usr/bin/env \+perl' debian/*/usr/lib/atac/bin/*` ; do \ sed -i '1s+#!/usr/bin/env perl+#!/usr/bin/perl+' ${perlscript} ; \ done make[1]: Leaving directory '/<>/kmer-0~20150903+r2013' dh_installdocs dh_installchangelogs dh_installman dh_python2 I: dh_python2 tools:113: replacing shebang in debian/atac/usr/lib/atac/lib/AtacDriver.py I: dh_python2 tools:113: replacing shebang in debian/atac/usr/lib/atac/lib/AtacFile.py I: dh_python2 tools:113: replacing shebang in debian/atac/usr/lib/atac/lib/MyFile.py I: dh_python2 tools:113: replacing shebang in debian/atac/usr/lib/atac/lib/PerfectRuns.py I: dh_python2 tools:113: replacing shebang in debian/atac/usr/lib/atac/lib/UniqueFilter.py I: dh_python2 tools:113: replacing shebang in debian/atac/usr/lib/atac/lib/dedashMatches.py I: dh_python2 tools:113: replacing shebang in debian/atac/usr/lib/atac/lib/mkstats.py I: dh_python2 tools:113: replacing shebang in debian/atac/usr/lib/atac/bin/AtacDriver.py dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_strip dh_makeshlibs dh_shlibdeps dh_installdeb dh_gencontrol dpkg-gencontrol: warning: Depends field of package libmeryl-dev: unknown substitution variable ${shlibs:Depends} dpkg-gencontrol: warning: Depends field of package libkmer-dev: unknown substitution variable ${shlibs:Depends} dh_md5sums dh_builddeb INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 pkgstriptranslations: processing atac (in debian/atac); do_strip: , oemstrip: pkgstriptranslations: processing kmer (in debian/kmer); do_strip: , oemstrip: pkgstriptranslations: processing meryl-dbgsym (in debian/.debhelper/meryl/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing leaff-dbgsym (in debian/.debhelper/leaff/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/atac/DEBIAN/control, package atac, directory debian/atac pkgstripfiles: processing control file: debian/kmer/DEBIAN/control, package kmer, directory debian/kmer INFO: pkgstripfiles: waiting for lock (atac) ... Searching for duplicated docs in dependency meryl... symlinking changelog.Debian.gz in kmer to file in meryl Searching for duplicated docs in dependency leaff... Searching for duplicated docs in dependency sim4db... Searching for duplicated docs in dependency atac... pkgstripfiles: Running PNG optimization (using 4 cpus) for package kmer ... pkgstripfiles: No PNG files. dpkg-deb: building package 'kmer' in '../kmer_0~20150903+r2013-6_all.deb'. INFO: pkgstriptranslations version 143 pkgstriptranslations: processing libkmer-dev (in debian/libkmer-dev); do_strip: , oemstrip: INFO: pkgstripfiles: waiting for lock (atac) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libkmer-dev/DEBIAN/control, package libkmer-dev, directory debian/libkmer-dev Searching for duplicated docs in dependency libmeryl-dev... symlinking changelog.Debian.gz in libkmer-dev to file in libmeryl-dev pkgstripfiles: Running PNG optimization (using 4 cpus) for package libkmer-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libkmer-dev' in '../libkmer-dev_0~20150903+r2013-6_amd64.deb'. INFO: pkgstripfiles: waiting for lock (atac) ... INFO: pkgstriptranslations version 143 INFO: pkgstripfiles: waiting for lock (atac) ... pkgstriptranslations: processing meryl (in debian/meryl); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/meryl/DEBIAN/control, package meryl, directory debian/meryl INFO: pkgstripfiles: waiting for lock (atac) ... pkgstripfiles: Running PNG optimization (using 4 cpus) for package meryl ... pkgstripfiles: No PNG files. dpkg-deb: building package 'meryl' in '../meryl_0~20150903+r2013-6_amd64.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " INFO: pkgstripfiles: waiting for lock (atac) ... pkgstripfiles: processing control file: debian/.debhelper/meryl/dbgsym-root/DEBIAN/control, package meryl-dbgsym, directory debian/.debhelper/meryl/dbgsym-root dpkg-deb: building package 'meryl-dbgsym' in 'debian/.debhelper/scratch-space/build-meryl/meryl-dbgsym_0~20150903+r2013-6_amd64.deb'. INFO: pkgstripfiles: waiting for lock (atac) ... Renaming meryl-dbgsym_0~20150903+r2013-6_amd64.deb to meryl-dbgsym_0~20150903+r2013-6_amd64.ddeb INFO: pkgstripfiles: waiting for lock (atac) ... INFO: pkgstriptranslations version 143 pkgstriptranslations: processing libmeryl-dev (in debian/libmeryl-dev); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " INFO: pkgstripfiles: waiting for lock (atac) ... pkgstripfiles: processing control file: debian/libmeryl-dev/DEBIAN/control, package libmeryl-dev, directory debian/libmeryl-dev pkgstripfiles: Running PNG optimization (using 4 cpus) for package libmeryl-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libmeryl-dev' in '../libmeryl-dev_0~20150903+r2013-6_amd64.deb'. INFO: pkgstriptranslations version 143 INFO: pkgstripfiles: waiting for lock (atac) ... pkgstriptranslations: processing leaff (in debian/leaff); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/leaff/DEBIAN/control, package leaff, directory debian/leaff pkgstripfiles: Running PNG optimization (using 4 cpus) for package leaff ... pkgstripfiles: No PNG files. dpkg-deb: building package 'leaff' in '../leaff_0~20150903+r2013-6_amd64.deb'. INFO: pkgstripfiles: waiting for lock (atac) ... INFO: pkgstripfiles: waiting for lock (atac) ... INFO: pkgstripfiles: waiting for lock (atac) ... INFO: pkgstripfiles: waiting for lock (atac) ... INFO: pkgstripfiles: waiting for lock (atac) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/leaff/dbgsym-root/DEBIAN/control, package leaff-dbgsym, directory debian/.debhelper/leaff/dbgsym-root dpkg-deb: building package 'leaff-dbgsym' in 'debian/.debhelper/scratch-space/build-leaff/leaff-dbgsym_0~20150903+r2013-6_amd64.deb'. INFO: pkgstripfiles: waiting for lock (atac) ... Renaming leaff-dbgsym_0~20150903+r2013-6_amd64.deb to leaff-dbgsym_0~20150903+r2013-6_amd64.ddeb INFO: pkgstriptranslations version 143 pkgstriptranslations: processing sim4db (in debian/sim4db); do_strip: , oemstrip: INFO: pkgstripfiles: waiting for lock (atac) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/sim4db/DEBIAN/control, package sim4db, directory debian/sim4db pkgstripfiles: Running PNG optimization (using 4 cpus) for package sim4db ... pkgstripfiles: No PNG files. dpkg-deb: building package 'sim4db' in '../sim4db_0~20150903+r2013-6_amd64.deb'. Searching for duplicated docs in dependency leaff... symlinking changelog.Debian.gz in atac to file in leaff Searching for duplicated docs in dependency meryl... pkgstripfiles: Running PNG optimization (using 4 cpus) for package atac ... pkgstripfiles: No PNG files. dpkg-deb: building package 'atac' in '../atac_0~20150903+r2013-6_amd64.deb'. INFO: pkgstriptranslations version 143 pkgstriptranslations: processing sim4db-dbgsym (in debian/.debhelper/sim4db/dbgsym-root); do_strip: , oemstrip: INFO: pkgstriptranslations version 143 pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstriptranslations: processing atac-dbgsym (in debian/.debhelper/atac/dbgsym-root); do_strip: , oemstrip: pkgstripfiles: processing control file: debian/.debhelper/sim4db/dbgsym-root/DEBIAN/control, package sim4db-dbgsym, directory debian/.debhelper/sim4db/dbgsym-root dpkg-deb: building package 'sim4db-dbgsym' in 'debian/.debhelper/scratch-space/build-sim4db/sim4db-dbgsym_0~20150903+r2013-6_amd64.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/atac/dbgsym-root/DEBIAN/control, package atac-dbgsym, directory debian/.debhelper/atac/dbgsym-root dpkg-deb: building package 'atac-dbgsym' in 'debian/.debhelper/scratch-space/build-atac/atac-dbgsym_0~20150903+r2013-6_amd64.deb'. Renaming sim4db-dbgsym_0~20150903+r2013-6_amd64.deb to sim4db-dbgsym_0~20150903+r2013-6_amd64.ddeb Renaming atac-dbgsym_0~20150903+r2013-6_amd64.deb to atac-dbgsym_0~20150903+r2013-6_amd64.ddeb INFO: pkgstriptranslations version 143 pkgstriptranslations: processing kmer-examples (in debian/kmer-examples); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/kmer-examples/DEBIAN/control, package kmer-examples, directory debian/kmer-examples pkgstripfiles: Running PNG optimization (using 4 cpus) for package kmer-examples ... pkgstripfiles: No PNG files. dpkg-deb: building package 'kmer-examples' in '../kmer-examples_0~20150903+r2013-6_all.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary -mLaunchpad Build Daemon >../kmer_0~20150903+r2013-6_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build kmer-0~20150903+r2013 dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20181109-1031 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ kmer_0~20150903+r2013-6_amd64.changes: -------------------------------------- Format: 1.8 Date: Mon, 27 Aug 2018 11:37:43 +0200 Source: kmer Binary: kmer libkmer-dev meryl libmeryl-dev leaff sim4db atac kmer-examples Architecture: amd64 all Version: 0~20150903+r2013-6 Distribution: disco-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Liubov Chuprikova Description: atac - genome assembly-to-assembly comparison kmer - suite of tools for DNA sequence analysis kmer-examples - sample data for kmer suite of tools for DNA sequence analysis leaff - biological sequence library utilities and applications libkmer-dev - suite of tools for DNA sequence analysis (development lib) libmeryl-dev - in- and out-of-core kmer counting and utilities (development lib) meryl - in- and out-of-core kmer counting and utilities sim4db - batch spliced alignment of cDNA sequences to a target genome Closes: 906980 Changes: kmer (0~20150903+r2013-6) unstable; urgency=medium . * Team upload. . [ Liubov Chuprikova ] * Add autopkgtest. * Standards-Version: 4.2.1 * Add a patch to fix wrong evaluation order in an expression Closes: #906980 . 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It first finds the unique k-mers in each sequence, chains them to larger blocks, and fills in spaces between blocks. It was written primarily to transfer annotations between different assemblies of the human genome. . The output is a set of ungapped 'matches', and a set of gapped 'runs' formed from the matches. Each match or run associates one sequence with the other sequence. The association is 'unique', in that there is no other (sizeable) associations for either sequence. Thus, large repeats and duplications are not present in the output - they appear as unmapped regions. . Though the output is always pairwise, atac can cache intermediate results to speed a comparisons of multiple sequences. . This package is part of the Kmer suite. drwxr-xr-x root/root 0 2018-08-27 09:37 ./ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/bin/ -rwxr-xr-x root/root 32717 2018-08-27 09:37 ./usr/bin/atac drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/lib/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/lib/atac/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/lib/atac/bin/ -rwxr-xr-x root/root 22448 2018-08-27 09:37 ./usr/lib/atac/bin/AtacDriver.py -rwxr-xr-x root/root 135272 2018-08-27 09:37 ./usr/lib/atac/bin/cleanAtac -rwxr-xr-x root/root 135272 2018-08-27 09:37 ./usr/lib/atac/bin/clumpMaker -rwxr-xr-x root/root 135272 2018-08-27 09:37 ./usr/lib/atac/bin/coalesceMatches -rwxr-xr-x root/root 135272 2018-08-27 09:37 ./usr/lib/atac/bin/correctGaps -rwxr-xr-x root/root 131176 2018-08-27 09:37 ./usr/lib/atac/bin/extractSequence -rwxr-xr-x root/root 147560 2018-08-27 09:37 ./usr/lib/atac/bin/extractUnmapped -rwxr-xr-x root/root 147560 2018-08-27 09:37 ./usr/lib/atac/bin/gapShifter -rwxr-xr-x root/root 31008 2018-08-27 09:37 ./usr/lib/atac/bin/happy-clones-span-clumps -rwxr-xr-x root/root 30808 2018-08-27 09:37 ./usr/lib/atac/bin/heavychains -rwxr-xr-x root/root 14424 2018-08-27 09:37 ./usr/lib/atac/bin/lengthFilter -rwxr-xr-x root/root 10582 2018-08-27 09:37 ./usr/lib/atac/bin/makeplot.pl -rwxr-xr-x root/root 155784 2018-08-27 09:37 ./usr/lib/atac/bin/matchExtender -rwxr-xr-x root/root 135272 2018-08-27 09:37 ./usr/lib/atac/bin/mismatchCounter -rwxr-xr-x root/root 172136 2018-08-27 09:37 ./usr/lib/atac/bin/overlap -rwxr-xr-x root/root 135272 2018-08-27 09:37 ./usr/lib/atac/bin/projectFeatures -rwxr-xr-x root/root 279464 2018-08-27 09:37 ./usr/lib/atac/bin/seatac -rwxr-xr-x root/root 176232 2018-08-27 09:37 ./usr/lib/atac/bin/statsGenerator -rwxr-xr-x root/root 131176 2018-08-27 09:37 ./usr/lib/atac/bin/testAtac -rwxr-xr-x root/root 159880 2018-08-27 09:37 ./usr/lib/atac/bin/uniqueFilter drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/lib/atac/lib/ -rwxr-xr-x root/root 22448 2018-08-27 09:37 ./usr/lib/atac/lib/AtacDriver.py -rwxr-xr-x root/root 2869 2018-08-27 09:37 ./usr/lib/atac/lib/AtacFile.py -rw-r--r-- root/root 2140 2005-02-28 22:49 ./usr/lib/atac/lib/DNA.py -rw-r--r-- root/root 6418 2007-01-02 22:17 ./usr/lib/atac/lib/IdxStore.py -rw-r--r-- root/root 7823 2005-03-14 03:56 ./usr/lib/atac/lib/MatchRecord.py -rwxr-xr-x root/root 2702 2018-08-27 09:37 ./usr/lib/atac/lib/MyFile.py -rwxr-xr-x root/root 8989 2018-08-27 09:37 ./usr/lib/atac/lib/PerfectRuns.py -rw-r--r-- root/root 11008 2005-12-04 08:34 ./usr/lib/atac/lib/TrimMatchOverlaps.py -rwxr-xr-x root/root 10873 2018-08-27 09:37 ./usr/lib/atac/lib/UniqueFilter.py -rwxr-xr-x root/root 4789 2018-08-27 09:37 ./usr/lib/atac/lib/dedashMatches.py -rw-r--r-- root/root 15418 2007-01-02 22:17 ./usr/lib/atac/lib/fillIntraRunGaps.py -rw-r--r-- root/root 30648 2018-08-27 09:37 ./usr/lib/atac/lib/filter-heavychains.so -rw-r--r-- root/root 14264 2018-08-27 09:37 ./usr/lib/atac/lib/filter-nop.so -rw-r--r-- root/root 22488 2018-08-27 09:37 ./usr/lib/atac/lib/halignmodule.so -rw-r--r-- root/root 108656 2018-08-27 09:37 ./usr/lib/atac/lib/localAlignerInterfacemodule.so -rwxr-xr-x root/root 2622 2018-08-27 09:37 ./usr/lib/atac/lib/mkstats.py -rw-r--r-- root/root 21162 2007-01-02 22:17 ./usr/lib/atac/lib/squeezeIntraRunGaps.py drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/atac/ -rw-r--r-- root/root 3178 2018-08-27 09:37 ./usr/share/doc/atac/README.atac -rw-r--r-- root/root 244 2018-08-27 09:37 ./usr/share/doc/atac/README.test -rw-r--r-- root/root 792 2018-08-27 09:37 ./usr/share/doc/atac/atac-unit-test lrwxrwxrwx root/root 0 2018-08-27 09:37 ./usr/share/doc/atac/changelog.Debian.gz -> ../leaff/changelog.Debian.gz -rw-r--r-- root/root 7460 2018-08-27 09:37 ./usr/share/doc/atac/copyright drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/man/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/man/man1/ -rw-r--r-- root/root 704 2018-08-27 09:37 ./usr/share/man/man1/atac.1.gz drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/python/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/python/runtime.d/ -rwxr-xr-x root/root 121 2018-08-27 09:37 ./usr/share/python/runtime.d/atac.rtupdate kmer-examples_0~20150903+r2013-6_all.deb ---------------------------------------- new debian package, version 2.0. size 2352584 bytes: control archive=864 bytes. 786 bytes, 19 lines control 309 bytes, 4 lines md5sums Package: kmer-examples Source: kmer Version: 0~20150903+r2013-6 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 2308 Enhances: atac, sim4db Section: science Priority: optional Homepage: http://kmer.sourceforge.net Description: sample data for kmer suite of tools for DNA sequence analysis The kmer package is a suite of tools for DNA sequence analysis. It provides tools for searching (ESTs, mRNAs, sequencing reads); aligning (ESTs, mRNAs, whole genomes); and a variety of analyses based on kmers. . This package contains a test data set as well as sample scripts running some test suite provided by Debian also as autopkgtest. drwxr-xr-x root/root 0 2018-08-27 09:37 ./ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/kmer-examples/ -rw-r--r-- root/root 275 2018-08-27 09:37 ./usr/share/doc/kmer-examples/README.Debian -rw-r--r-- root/root 1282 2018-08-27 09:37 ./usr/share/doc/kmer-examples/changelog.Debian.gz -rw-r--r-- root/root 7460 2018-08-27 09:37 ./usr/share/doc/kmer-examples/copyright -rw-r--r-- root/root 2345682 2018-08-27 09:37 ./usr/share/doc/kmer-examples/test_data.tar.gz kmer_0~20150903+r2013-6_all.deb ------------------------------- new debian package, version 2.0. size 3944 bytes: control archive=716 bytes. 705 bytes, 17 lines control 63 bytes, 1 lines md5sums Package: kmer Version: 0~20150903+r2013-6 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 16 Depends: meryl, leaff, sim4db, atac Section: science Priority: optional Homepage: http://kmer.sourceforge.net Description: suite of tools for DNA sequence analysis The kmer package is a suite of tools for DNA sequence analysis. It provides tools for searching (ESTs, mRNAs, sequencing reads); aligning (ESTs, mRNAs, whole genomes); and a variety of analyses based on kmers. . This is a metapackage depending on the executable components of the kmer suite. drwxr-xr-x root/root 0 2018-08-27 09:37 ./ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/kmer/ lrwxrwxrwx root/root 0 2018-08-27 09:37 ./usr/share/doc/kmer/changelog.Debian.gz -> ../meryl/changelog.Debian.gz -rw-r--r-- root/root 7460 2018-08-27 09:37 ./usr/share/doc/kmer/copyright leaff_0~20150903+r2013-6_amd64.deb ---------------------------------- new debian package, version 2.0. size 69184 bytes: control archive=904 bytes. 710 bytes, 17 lines control 320 bytes, 5 lines md5sums Package: leaff Source: kmer Version: 0~20150903+r2013-6 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 199 Depends: libc6 (>= 2.14), libgcc1 (>= 1:3.0), libstdc++6 (>= 5) Section: science Priority: optional Homepage: http://kmer.sourceforge.net Description: biological sequence library utilities and applications LEAFF (Let's Extract Anything From Fasta) is a utility program for working with multi-fasta files. In addition to providing random access to the base level, it includes several analysis functions. . This package is part of the Kmer suite. drwxr-xr-x root/root 0 2018-08-27 09:37 ./ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/bin/ -rwxr-xr-x root/root 176328 2018-08-27 09:37 ./usr/bin/leaff drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/leaff/ -rw-r--r-- root/root 3373 2011-01-20 03:32 ./usr/share/doc/leaff/README.leaff.gz -rw-r--r-- root/root 1282 2018-08-27 09:37 ./usr/share/doc/leaff/changelog.Debian.gz -rw-r--r-- root/root 7460 2018-08-27 09:37 ./usr/share/doc/leaff/copyright drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/man/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/man/man1/ -rw-r--r-- root/root 2734 2018-08-27 09:37 ./usr/share/man/man1/leaff.1.gz libkmer-dev_0~20150903+r2013-6_amd64.deb ---------------------------------------- new debian package, version 2.0. size 200248 bytes: control archive=2172 bytes. 714 bytes, 18 lines control 3645 bytes, 53 lines md5sums Package: libkmer-dev Source: kmer Version: 0~20150903+r2013-6 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 872 Depends: libmeryl-dev Section: libdevel Priority: optional Homepage: http://kmer.sourceforge.net Description: suite of tools for DNA sequence analysis (development lib) The kmer package is a suite of tools for DNA sequence analysis. It provides tools for searching (ESTs, mRNAs, sequencing reads); aligning (ESTs, mRNAs, whole genomes); and a variety of analyses based on kmers. . This package contains headers and static libraries for kmer. drwxr-xr-x root/root 0 2018-08-27 09:37 ./ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/include/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/include/kmer/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/include/kmer/bio/ -rw-r--r-- root/root 647 2008-07-28 21:43 ./usr/include/kmer/bio/alphabet.h -rw-r--r-- root/root 381 2008-09-09 23:55 ./usr/include/kmer/bio/bio++.H -rw-r--r-- root/root 766 2014-04-11 20:17 ./usr/include/kmer/bio/bio.h -rw-r--r-- root/root 5588 2014-04-11 20:17 ./usr/include/kmer/bio/kmer.H -rw-r--r-- root/root 10979 2014-04-11 20:17 ./usr/include/kmer/bio/kmerhuge.H -rw-r--r-- root/root 2715 2014-04-11 20:17 ./usr/include/kmer/bio/kmeriface.H -rw-r--r-- root/root 3402 2014-04-11 20:17 ./usr/include/kmer/bio/kmertiny.H -rw-r--r-- root/root 7314 2014-04-11 20:17 ./usr/include/kmer/bio/merCovering.H -rw-r--r-- root/root 2024 2014-04-11 20:17 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09:37 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/libkmer-dev/ lrwxrwxrwx root/root 0 2018-08-27 09:37 ./usr/share/doc/libkmer-dev/changelog.Debian.gz -> ../libmeryl-dev/changelog.Debian.gz -rw-r--r-- root/root 7460 2018-08-27 09:37 ./usr/share/doc/libkmer-dev/copyright libmeryl-dev_0~20150903+r2013-6_amd64.deb ----------------------------------------- new debian package, version 2.0. size 53752 bytes: control archive=1032 bytes. 989 bytes, 22 lines control 413 bytes, 6 lines md5sums Package: libmeryl-dev Source: kmer Version: 0~20150903+r2013-6 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 204 Section: libdevel Priority: optional Homepage: http://kmer.sourceforge.net Description: in- and out-of-core kmer counting and utilities (development lib) meryl computes the kmer content of genomic sequences. Kmer content is represented as a list of kmers and the number of times each occurs in the input sequences. The kmer can be restricted to only the forward kmer, only the reverse kmer, or the canonical kmer (lexicographically smaller of the forward and reverse kmer at each location). Meryl can report the histogram of counts, the list of kmers and their counts, or can perform mathematical and set operations on the processed data files. . This package contains the static libraries and header files. drwxr-xr-x root/root 0 2018-08-27 09:37 ./ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/include/ -rw-r--r-- root/root 5822 2014-04-11 20:17 ./usr/include/libmeryl.H -rw-r--r-- root/root 3420 2015-05-29 12:35 ./usr/include/meryl.H drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/lib/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/lib/x86_64-linux-gnu/ -rw-r--r-- root/root 44684 2018-08-27 09:37 ./usr/lib/x86_64-linux-gnu/libmeryl.a drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/lib/x86_64-linux-gnu/meryl/ -rw-r--r-- root/root 132732 2018-08-27 09:37 ./usr/lib/x86_64-linux-gnu/meryl/libmerylguts.a drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/libmeryl-dev/ -rw-r--r-- root/root 1282 2018-08-27 09:37 ./usr/share/doc/libmeryl-dev/changelog.Debian.gz -rw-r--r-- root/root 7460 2018-08-27 09:37 ./usr/share/doc/libmeryl-dev/copyright meryl_0~20150903+r2013-6_amd64.deb ---------------------------------- new debian package, version 2.0. size 199956 bytes: control archive=1348 bytes. 1035 bytes, 24 lines control 1036 bytes, 17 lines md5sums Package: meryl Source: kmer Version: 0~20150903+r2013-6 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1459 Depends: libc6 (>= 2.14), libgcc1 (>= 1:3.0), libstdc++6 (>= 5) Suggests: gridengine-client Section: science Priority: optional Homepage: http://kmer.sourceforge.net Description: in- and out-of-core kmer counting and utilities meryl computes the kmer content of genomic sequences. Kmer content is represented as a list of kmers and the number of times each occurs in the input sequences. The kmer can be restricted to only the forward kmer, only the reverse kmer, or the canonical kmer (lexicographically smaller of the forward and reverse kmer at each location). Meryl can report the histogram of counts, the list of kmers and their counts, or can perform mathematical and set operations on the processed data files. . This package is part of the Kmer suite. drwxr-xr-x root/root 0 2018-08-27 09:37 ./ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/bin/ -rwxr-xr-x root/root 197480 2018-08-27 09:37 ./usr/bin/existDB -rwxr-xr-x root/root 217960 2018-08-27 09:37 ./usr/bin/kmer-mask -rwxr-xr-x root/root 197480 2018-08-27 09:37 ./usr/bin/mapMers -rwxr-xr-x root/root 197480 2018-08-27 09:37 ./usr/bin/mapMers-depth -rwxr-xr-x root/root 222056 2018-08-27 09:37 ./usr/bin/meryl -rwxr-xr-x root/root 258984 2018-08-27 09:37 ./usr/bin/positionDB -rwxr-xr-x root/root 168808 2018-08-27 09:37 ./usr/bin/simple drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/doc/meryl/ -rw-r--r-- root/root 2684 2015-05-20 07:56 ./usr/share/doc/meryl/README.meryl.gz -rw-r--r-- root/root 1282 2018-08-27 09:37 ./usr/share/doc/meryl/changelog.Debian.gz -rw-r--r-- root/root 7460 2018-08-27 09:37 ./usr/share/doc/meryl/copyright drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/man/ drwxr-xr-x root/root 0 2018-08-27 09:37 ./usr/share/man/man1/ -rw-r--r-- root/root 634 2018-08-27 09:37 ./usr/share/man/man1/existDB.1.gz -rw-r--r-- root/root 1069 2018-08-27 09:37 ./usr/share/man/man1/kmer-mask.1.gz -rw-r--r-- root/root 484 2018-08-27 09:37 ./usr/share/man/man1/mapMers-depth.1.gz -rw-r--r-- root/root 388 2018-08-27 09:37 ./usr/share/man/man1/mapMers.1.gz -rw-r--r-- root/root 2669 2018-08-27 09:37 ./usr/share/man/man1/meryl.1.gz -rw-r--r-- root/root 672 2018-08-27 09:37 ./usr/share/man/man1/positionDB.1.gz -rw-r--r-- root/root 511 2018-08-27 09:37 ./usr/share/man/man1/simple.1.gz sim4db_0~20150903+r2013-6_amd64.deb ----------------------------------- new debian package, version 2.0. size 449036 bytes: control archive=2172 bytes. 1630 bytes, 31 lines control 3551 bytes, 54 lines md5sums Package: sim4db Source: kmer Version: 0~20150903+r2013-6 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 3329 Depends: libc6 (>= 2.14), libgcc1 (>= 1:3.0), libstdc++6 (>= 5.2) Recommends: leaff, kmer-examples Section: science Priority: optional Homepage: http://kmer.sourceforge.net Description: batch spliced alignment of cDNA sequences to a target genome Sim4db performs fast batch alignment of large cDNA (EST, mRNA) sequence sets to a set of eukaryotic genomic regions. It uses the sim4 and sim4cc algorithms to determine the alignments, but incorporates a fast sequence indexing and retrieval mechanism, implemented in the sister package 'leaff', to speedily process large volumes of sequences. . While sim4db produces alignments in the same way as sim4 or sim4cc, it has additional features to make it more amenable for use with whole-genome annotation pipelines. A script file can be used to group pairings between cDNAs and their corresponding genomic regions, to be aligned as one run and using the same set of parameters. Sim4db also optionally reports more than one alignment for the same cDNA within a genomic region, as long as they meet user-defined criteria such as minimum length, percentage sequence identity or coverage. This feature is instrumental in finding all alignments of a gene family at one locus. Lastly, the output is presented either as custom sim4db alignments or as GFF3 gene features. . 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+------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build-Space: 216500 Build-Time: 401 Distribution: disco-proposed Host Architecture: amd64 Install-Time: 30 Job: kmer_0~20150903+r2013-6.dsc Machine Architecture: amd64 Package: kmer Package-Time: 432 Source-Version: 0~20150903+r2013-6 Space: 216500 Status: successful Version: 0~20150903+r2013-6 -------------------------------------------------------------------------------- Finished at 20181109-1031 Build needed 00:07:12, 216500k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-15629559 Scanning for processes to kill in build PACKAGEBUILD-15629559