https://launchpad.net/ubuntu/+source/gatb-core/1.4.1+dfsg-2/+build/15096087 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux lcy01-amd64-022 4.4.0-128-generic #154-Ubuntu SMP Fri May 25 14:15:18 UTC 2018 x86_64 Buildd toolchain package versions: launchpad-buildd_163 python-lpbuildd_163 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_1:2.7.4-0ubuntu1.4 dpkg-dev_1.18.4ubuntu1.4 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 7 Jul 23:24:14 ntpdate[1859]: adjust time server 10.211.37.1 offset 0.001110 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=cosmic --arch=i386 PACKAGEBUILD-15096087 /home/buildd/filecache-default/ccc8a783f4c9fcf0282a95411cd13cfaeeda0fbe Creating target for build PACKAGEBUILD-15096087 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=cosmic --arch=i386 PACKAGEBUILD-15096087 Starting target for build PACKAGEBUILD-15096087 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=cosmic --arch=i386 PACKAGEBUILD-15096087 'deb http://ftpmaster.internal/ubuntu cosmic main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-security main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-updates main universe' 'deb http://ftpmaster.internal/ubuntu cosmic-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-15096087 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=cosmic --arch=i386 PACKAGEBUILD-15096087 Updating target for build PACKAGEBUILD-15096087 Get:1 http://ftpmaster.internal/ubuntu cosmic InRelease [242 kB] Get:2 http://ftpmaster.internal/ubuntu cosmic-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic-proposed InRelease [92.5 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main i386 Packages [1008 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main Translation-en [515 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/universe i386 Packages [8641 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/universe Translation-en [5014 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 Packages [54.2 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic-proposed/main Translation-en [31.2 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic-proposed/universe i386 Packages [119 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic-proposed/universe Translation-en [72.7 kB] Fetched 15.9 MB in 5s (3413 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: libncursesw5 libprocps6 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libargon2-1 libncurses6 libncursesw6 libprocps7 libtinfo6 The following packages will be upgraded: adduser apt base-files base-passwd bash binutils binutils-common binutils-i686-linux-gnu bsdutils build-essential cpp cpp-7 debconf debianutils dpkg dpkg-dev e2fslibs e2fsprogs fdisk g++ g++-7 gcc gcc-7 gcc-7-base gcc-8-base gpg gpg-agent gpgconf gpgv libapparmor1 libapt-pkg5.0 libargon2-0 libasan4 libatomic1 libaudit-common libaudit1 libbinutils libblkid1 libcap-ng0 libcc1-0 libcilkrts5 libcom-err2 libcomerr2 libcryptsetup12 libdpkg-perl libext2fs2 libfdisk1 libgcc-7-dev libgcc1 libgcrypt20 libgmp10 libgomp1 libgpg-error0 libitm1 libkmod2 liblz4-1 libmount1 libmpx2 libncurses5 libncursesw5 libnpth0 libp11-kit0 libperl5.26 libquadmath0 libreadline7 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libslang2 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++-7-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo5 libubsan0 libudev1 libusb-0.1-4 libuuid1 linux-libc-dev mount ncurses-base ncurses-bin openssl perl perl-base perl-modules-5.26 pinentry-curses pkgbinarymangler procps readline-common sed systemd systemd-sysv tar tzdata util-linux 102 upgraded, 5 newly installed, 0 to remove and 0 not upgraded. Need to get 57.8 MB of archives. After this operation, 2141 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu cosmic/main i386 base-files i386 10.1ubuntu4 [58.0 kB] Get:2 http://ftpmaster.internal/ubuntu cosmic/main i386 libtinfo6 i386 6.1+20180210-4ubuntu1 [84.6 kB] Get:3 http://ftpmaster.internal/ubuntu cosmic/main i386 debianutils i386 4.8.6 [86.1 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic/main i386 bash i386 4.4.18-2ubuntu2 [645 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main i386 bsdutils i386 1:2.32-0.1ubuntu1 [62.7 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic/main i386 tar i386 1.30+dfsg-2 [265 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic/main i386 dpkg i386 1.19.0.5ubuntu3 [1162 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/main i386 libext2fs2 i386 1.44.2-1 [185 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic/main i386 e2fsprogs i386 1.44.2-1 [428 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic/main i386 ncurses-bin i386 6.1+20180210-4ubuntu1 [166 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic/main i386 perl-modules-5.26 all 5.26.2-6 [2762 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic/main i386 libperl5.26 i386 5.26.2-6 [3168 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic/main i386 perl i386 5.26.2-6 [202 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic/main i386 perl-base i386 5.26.2-6 [1495 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic/main i386 sed i386 4.5-1 [187 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic/main i386 libuuid1 i386 2.32-0.1ubuntu1 [20.6 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic/main i386 libblkid1 i386 2.32-0.1ubuntu1 [143 kB] Get:18 http://ftpmaster.internal/ubuntu cosmic/main i386 libfdisk1 i386 2.32-0.1ubuntu1 [186 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic/main i386 libncursesw6 i386 6.1+20180210-4ubuntu1 [141 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libselinux1 i386 2.8-1build1 [73.2 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main i386 libmount1 i386 2.32-0.1ubuntu1 [152 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main i386 libsmartcols1 i386 2.32-0.1ubuntu1 [94.0 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/main i386 fdisk i386 2.32-0.1ubuntu1 [118 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main i386 util-linux i386 2.32-0.1ubuntu1 [943 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main i386 base-passwd i386 3.5.45 [47.9 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic/main i386 ncurses-base all 6.1+20180210-4ubuntu1 [18.4 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic/main i386 libquadmath0 i386 8.1.0-9ubuntu1 [208 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic/main i386 libitm1 i386 8.1.0-9ubuntu1 [30.8 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic/main i386 gcc-8-base i386 8.1.0-9ubuntu1 [18.9 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic/main i386 libgcc1 i386 1:8.1.0-9ubuntu1 [48.1 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic/main i386 libmpx2 i386 8.1.0-9ubuntu1 [12.9 kB] Get:32 http://ftpmaster.internal/ubuntu cosmic/main i386 libcc1-0 i386 8.1.0-9ubuntu1 [41.8 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic/main i386 libatomic1 i386 8.1.0-9ubuntu1 [9628 B] Get:34 http://ftpmaster.internal/ubuntu cosmic/main i386 libgomp1 i386 8.1.0-9ubuntu1 [80.8 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic/main i386 libstdc++6 i386 8.1.0-9ubuntu1 [430 kB] Get:36 http://ftpmaster.internal/ubuntu cosmic/main i386 liblz4-1 i386 1.8.2-1ubuntu1 [69.2 kB] Get:37 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libudev1 i386 238-5ubuntu2 [59.7 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic/main i386 libapt-pkg5.0 i386 1.7.0~alpha1 [876 kB] Get:39 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 debconf all 1.5.67 [124 kB] Get:40 http://ftpmaster.internal/ubuntu cosmic/main i386 adduser all 3.117ubuntu1 [163 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic/main i386 libgpg-error0 i386 1.31-1 [60.9 kB] Get:42 http://ftpmaster.internal/ubuntu cosmic/main i386 libgcrypt20 i386 1.8.2-2ubuntu1 [399 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 gpgv i386 2.2.8-1ubuntu1 [217 kB] Get:44 http://ftpmaster.internal/ubuntu cosmic/main i386 libseccomp2 i386 2.3.3-3ubuntu1 [35.6 kB] Get:45 http://ftpmaster.internal/ubuntu cosmic/main i386 apt i386 1.7.0~alpha1 [1200 kB] Get:46 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libapparmor1 i386 2.12-4ubuntu6 [32.6 kB] Get:47 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libaudit-common all 1:2.8.3-1ubuntu2 [4064 B] Get:48 http://ftpmaster.internal/ubuntu cosmic/main i386 libcap-ng0 i386 0.7.9-1 [11.5 kB] Get:49 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libaudit1 i386 1:2.8.3-1ubuntu2 [40.1 kB] Get:50 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libargon2-1 i386 0~20171227-0.1 [25.2 kB] Get:51 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libargon2-0 i386 0~20171227-0.1 [4532 B] Get:52 http://ftpmaster.internal/ubuntu cosmic/main i386 libcryptsetup12 i386 2:2.0.2-1ubuntu2 [150 kB] Get:53 http://ftpmaster.internal/ubuntu cosmic/main i386 libkmod2 i386 25-1ubuntu1 [48.3 kB] Get:54 http://ftpmaster.internal/ubuntu cosmic/main i386 mount i386 2.32-0.1ubuntu1 [110 kB] Get:55 http://ftpmaster.internal/ubuntu cosmic/main i386 libncurses6 i386 6.1+20180210-4ubuntu1 [108 kB] Get:56 http://ftpmaster.internal/ubuntu cosmic/main i386 libprocps7 i386 2:3.3.15-2ubuntu1 [33.6 kB] Get:57 http://ftpmaster.internal/ubuntu cosmic/main i386 procps i386 2:3.3.15-2ubuntu1 [230 kB] Get:58 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 systemd i386 238-5ubuntu2 [2982 kB] Get:59 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libsystemd0 i386 238-5ubuntu2 [225 kB] Get:60 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 systemd-sysv i386 238-5ubuntu2 [13.7 kB] Get:61 http://ftpmaster.internal/ubuntu cosmic/main i386 libcom-err2 i386 1.44.2-1 [9520 B] Get:62 http://ftpmaster.internal/ubuntu cosmic/main i386 libsepol1 i386 2.8-1 [276 kB] Get:63 http://ftpmaster.internal/ubuntu cosmic/main i386 libsemanage-common all 2.8-1build1 [7000 B] Get:64 http://ftpmaster.internal/ubuntu cosmic/main i386 libsemanage1 i386 2.8-1build1 [94.3 kB] Get:65 http://ftpmaster.internal/ubuntu cosmic/main i386 libss2 i386 1.44.2-1 [11.6 kB] Get:66 http://ftpmaster.internal/ubuntu cosmic/main i386 libgmp10 i386 2:6.1.2+dfsg-3 [246 kB] Get:67 http://ftpmaster.internal/ubuntu cosmic/main i386 libp11-kit0 i386 0.23.12-2 [184 kB] Get:68 http://ftpmaster.internal/ubuntu cosmic/main i386 libtasn1-6 i386 4.13-3 [38.8 kB] Get:69 http://ftpmaster.internal/ubuntu cosmic/main i386 libncurses5 i386 6.1+20180210-4ubuntu1 [101 kB] Get:70 http://ftpmaster.internal/ubuntu cosmic/main i386 libncursesw5 i386 6.1+20180210-4ubuntu1 [128 kB] Get:71 http://ftpmaster.internal/ubuntu cosmic/main i386 libtinfo5 i386 6.1+20180210-4ubuntu1 [79.7 kB] Get:72 http://ftpmaster.internal/ubuntu cosmic/main i386 readline-common all 7.0-5 [52.2 kB] Get:73 http://ftpmaster.internal/ubuntu cosmic/main i386 libreadline7 i386 7.0-5 [127 kB] Get:74 http://ftpmaster.internal/ubuntu cosmic/main i386 libslang2 i386 2.3.2-1ubuntu1 [426 kB] Get:75 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libsqlite3-0 i386 3.24.0-1 [541 kB] Get:76 http://ftpmaster.internal/ubuntu cosmic/main i386 libssl1.1 i386 1.1.0g-2ubuntu5 [1123 kB] Get:77 http://ftpmaster.internal/ubuntu cosmic/main i386 openssl i386 1.1.0g-2ubuntu5 [542 kB] Get:78 http://ftpmaster.internal/ubuntu cosmic/main i386 tzdata all 2018e-1 [188 kB] Get:79 http://ftpmaster.internal/ubuntu cosmic/main i386 binutils-common i386 2.30-22ubuntu1 [193 kB] Get:80 http://ftpmaster.internal/ubuntu cosmic/main i386 binutils i386 2.30-22ubuntu1 [3392 B] Get:81 http://ftpmaster.internal/ubuntu cosmic/main i386 binutils-i686-linux-gnu i386 2.30-22ubuntu1 [2029 kB] Get:82 http://ftpmaster.internal/ubuntu cosmic/main i386 libbinutils i386 2.30-22ubuntu1 [545 kB] Get:83 http://ftpmaster.internal/ubuntu cosmic/main i386 libasan4 i386 7.3.0-24ubuntu1 [361 kB] Get:84 http://ftpmaster.internal/ubuntu cosmic/main i386 libubsan0 i386 7.3.0-24ubuntu1 [141 kB] Get:85 http://ftpmaster.internal/ubuntu cosmic/main i386 libcilkrts5 i386 7.3.0-24ubuntu1 [47.4 kB] Get:86 http://ftpmaster.internal/ubuntu cosmic/main i386 g++-7 i386 7.3.0-24ubuntu1 [7819 kB] Get:87 http://ftpmaster.internal/ubuntu cosmic/main i386 gcc-7 i386 7.3.0-24ubuntu1 [7699 kB] Get:88 http://ftpmaster.internal/ubuntu cosmic/main i386 libstdc++-7-dev i386 7.3.0-24ubuntu1 [1506 kB] Get:89 http://ftpmaster.internal/ubuntu cosmic/main i386 libgcc-7-dev i386 7.3.0-24ubuntu1 [2397 kB] Get:90 http://ftpmaster.internal/ubuntu cosmic/main i386 cpp-7 i386 7.3.0-24ubuntu1 [6966 kB] Get:91 http://ftpmaster.internal/ubuntu cosmic/main i386 gcc-7-base i386 7.3.0-24ubuntu1 [18.9 kB] Get:92 http://ftpmaster.internal/ubuntu cosmic/main i386 cpp i386 4:7.3.0-3ubuntu3 [27.6 kB] Get:93 http://ftpmaster.internal/ubuntu cosmic/main i386 gcc i386 4:7.3.0-3ubuntu3 [5268 B] Get:94 http://ftpmaster.internal/ubuntu cosmic/main i386 g++ i386 4:7.3.0-3ubuntu3 [1596 B] Get:95 http://ftpmaster.internal/ubuntu cosmic/main i386 dpkg-dev all 1.19.0.5ubuntu3 [608 kB] Get:96 http://ftpmaster.internal/ubuntu cosmic/main i386 libdpkg-perl all 1.19.0.5ubuntu3 [211 kB] Get:97 http://ftpmaster.internal/ubuntu cosmic/main i386 build-essential i386 12.5ubuntu2 [4728 B] Get:98 http://ftpmaster.internal/ubuntu cosmic/main i386 e2fslibs i386 1.44.2-1 [2700 B] Get:99 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 pinentry-curses i386 1.1.0-1build2 [37.8 kB] Get:100 http://ftpmaster.internal/ubuntu cosmic/main i386 libnpth0 i386 1.5-4 [8012 B] Get:101 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 gpg i386 2.2.8-1ubuntu1 [511 kB] Get:102 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 gpgconf i386 2.2.8-1ubuntu1 [130 kB] Get:103 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 gpg-agent i386 2.2.8-1ubuntu1 [247 kB] Get:104 http://ftpmaster.internal/ubuntu cosmic/main i386 libcomerr2 i386 1.44.2-1 [2696 B] Get:105 http://ftpmaster.internal/ubuntu cosmic/main i386 libusb-0.1-4 i386 2:0.1.12-32 [17.9 kB] Get:106 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 linux-libc-dev i386 4.17.0-4.5 [996 kB] Get:107 http://ftpmaster.internal/ubuntu cosmic/main i386 pkgbinarymangler all 139 [52.8 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 57.8 MB in 2s (35.9 MB/s) (Reading database ... 12632 files and directories currently installed.) Preparing to unpack .../base-files_10.1ubuntu4_i386.deb ... Unpacking base-files (10.1ubuntu4) over (10.1ubuntu2) ... Setting up base-files (10.1ubuntu4) ... Installing new version of config file /etc/issue ... Installing new version of config file /etc/issue.net ... Installing new version of config file /etc/lsb-release ... Selecting previously unselected package libtinfo6:i386. (Reading database ... 12632 files and directories currently installed.) Preparing to unpack .../libtinfo6_6.1+20180210-4ubuntu1_i386.deb ... Unpacking libtinfo6:i386 (6.1+20180210-4ubuntu1) ... Setting up libtinfo6:i386 (6.1+20180210-4ubuntu1) ... (Reading database ... 12641 files and directories currently installed.) Preparing to unpack .../debianutils_4.8.6_i386.deb ... Unpacking debianutils (4.8.6) over (4.8.4) ... Setting up debianutils (4.8.6) ... (Reading database ... 12641 files and directories currently installed.) Preparing to unpack .../bash_4.4.18-2ubuntu2_i386.deb ... Unpacking bash (4.4.18-2ubuntu2) over (4.4.18-2ubuntu1) ... Setting up bash (4.4.18-2ubuntu2) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 12641 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.32-0.1ubuntu1_i386.deb ... Unpacking bsdutils (1:2.32-0.1ubuntu1) over (1:2.31.1-0.4ubuntu3) ... Setting up bsdutils (1:2.32-0.1ubuntu1) ... (Reading database ... 12641 files and directories currently installed.) Preparing to unpack .../tar_1.30+dfsg-2_i386.deb ... Unpacking tar (1.30+dfsg-2) over (1.29b-2) ... Setting up tar (1.30+dfsg-2) ... (Reading database ... 12641 files and directories currently installed.) Preparing to unpack .../dpkg_1.19.0.5ubuntu3_i386.deb ... Unpacking dpkg (1.19.0.5ubuntu3) over (1.19.0.5ubuntu2) ... Setting up dpkg (1.19.0.5ubuntu3) ... (Reading database ... 12641 files and directories currently installed.) 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RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-15096087 i386 cosmic-proposed -c chroot:build-PACKAGEBUILD-15096087 --arch=i386 --dist=cosmic-proposed --nolog gatb-core_1.4.1+dfsg-2.dsc Initiating build PACKAGEBUILD-15096087 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-128-generic #154-Ubuntu SMP Fri May 25 14:15:18 UTC 2018 i686 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lcy01-amd64-022.buildd +==============================================================================+ | gatb-core 1.4.1+dfsg-2 (i386) 07 Jul 2018 23:24 | +==============================================================================+ Package: gatb-core Version: 1.4.1+dfsg-2 Source Version: 1.4.1+dfsg-2 Distribution: cosmic-proposed Machine Architecture: amd64 Host Architecture: i386 Build Architecture: i386 I: NOTICE: Log filtering will replace 'build/gatb-core-mYlCZG/gatb-core-1.4.1+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/gatb-core-mYlCZG' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-15096087/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- gatb-core_1.4.1+dfsg-2.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-U2Ltoc/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-U2Ltoc/apt_archive ./ InRelease Get:2 copy:/<>/resolver-U2Ltoc/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-U2Ltoc/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-U2Ltoc/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-U2Ltoc/apt_archive ./ Packages [527 B] Fetched 2860 B in 49710d 6h 28min 15s (0 B/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: libncursesw5 libprocps6 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-U2Ltoc/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 ... 12689 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_i386.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~), d-shlibs, cmake, libcppunit-dev, libhdf5-dev, libboost-dev, libjsoncpp-dev, doxygen, graphviz Filtered Build-Depends: debhelper (>= 11~), d-shlibs, cmake, libcppunit-dev, libhdf5-dev, libboost-dev, libjsoncpp-dev, doxygen, graphviz dpkg-deb: building package 'sbuild-build-depends-gatb-core-dummy' in '/<>/resolver-lZETBM/apt_archive/sbuild-build-depends-gatb-core-dummy.deb'. Ign:1 copy:/<>/resolver-lZETBM/apt_archive ./ InRelease Get:2 copy:/<>/resolver-lZETBM/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-lZETBM/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-lZETBM/apt_archive ./ Sources [265 B] Get:5 copy:/<>/resolver-lZETBM/apt_archive ./ Packages [585 B] Fetched 2969 B in 49710d 6h 28min 15s (0 B/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install gatb-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: libncursesw5 libprocps6 Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cmake cmake-data d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism doxygen dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base graphviz groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libann0 libarchive-zip-perl libarchive13 libasn1-8-heimdal libboost-dev libboost1.65-dev libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-6.0 libcppunit-1.14-0 libcppunit-dev libcroco3 libcurl4 libdatrie1 libedit2 libelf1 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgd3 libgfortran4 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libgssapi3-heimdal libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhcrypto4-heimdal libhdf5-100 libhdf5-cpp-100 libhdf5-dev libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu60 libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjsoncpp-dev libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblab-gamut1 libldap-2.4-2 libldap-common libllvm6.0 libltdl7 liblzo2-2 libmagic-mgc libmagic1 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpipeline1 libpixman-1-0 libpsl5 librhash0 libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6 libsz2 libthai-data libthai0 libtiff5 libtimedate-perl libtool libuv1 libwebp6 libwind0-heimdal libx11-6 libx11-data libxapian30 libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2 libxmu6 libxpm4 libxrender1 libxt6 m4 man-db po-debconf ucf x11-common zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation cmake-doc ninja-build dh-make doxygen-latex doxygen-doc doxygen-gui gettext-doc libasprintf-dev libgettextpo-dev gsfonts graphviz-doc groff lrzip libboost-doc libboost1.65-doc libboost-atomic1.65-dev libboost-chrono1.65-dev libboost-container1.65-dev libboost-context1.65-dev libboost-coroutine1.65-dev libboost-date-time1.65-dev libboost-exception1.65-dev libboost-fiber1.65-dev libboost-filesystem1.65-dev libboost-graph1.65-dev libboost-graph-parallel1.65-dev libboost-iostreams1.65-dev libboost-locale1.65-dev libboost-log1.65-dev libboost-math1.65-dev libboost-mpi1.65-dev libboost-mpi-python1.65-dev libboost-numpy1.65-dev libboost-program-options1.65-dev libboost-python1.65-dev libboost-random1.65-dev libboost-regex1.65-dev libboost-serialization1.65-dev libboost-signals1.65-dev libboost-stacktrace1.65-dev libboost-system1.65-dev libboost-test1.65-dev libboost-thread1.65-dev libboost-timer1.65-dev libboost-type-erasure1.65-dev libboost-wave1.65-dev libboost1.65-tools-dev libmpfrc++-dev libntl-dev libcppunit-doc libgd-tools krb5-doc krb5-user libhdf5-doc libtool-doc gfortran | fortran95-compiler gcj-jdk xapian-tools m4-doc apparmor less www-browser libmail-box-perl Recommended packages: curl | wget | lynx fonts-liberation libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs libgts-bin krb5-locales publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils cmake cmake-data d-shlibs debhelper dh-autoreconf dh-strip-nondeterminism doxygen dwz file fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base graphviz groff-base hdf5-helpers intltool-debian libaec-dev libaec0 libann0 libarchive-zip-perl libarchive13 libasn1-8-heimdal libboost-dev libboost1.65-dev libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-6.0 libcppunit-1.14-0 libcppunit-dev libcroco3 libcurl4 libdatrie1 libedit2 libelf1 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgd3 libgfortran4 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libgssapi3-heimdal libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhcrypto4-heimdal libhdf5-100 libhdf5-cpp-100 libhdf5-dev libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu60 libjbig0 libjpeg-dev libjpeg-turbo8 libjpeg-turbo8-dev libjpeg8 libjpeg8-dev libjsoncpp-dev libjsoncpp1 libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 liblab-gamut1 libldap-2.4-2 libldap-common libllvm6.0 libltdl7 liblzo2-2 libmagic-mgc libmagic1 libnghttp2-14 libpango-1.0-0 libpangocairo-1.0-0 libpangoft2-1.0-0 libpathplan4 libpipeline1 libpixman-1-0 libpsl5 librhash0 libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6 libsz2 libthai-data libthai0 libtiff5 libtimedate-perl libtool libuv1 libwebp6 libwind0-heimdal libx11-6 libx11-data libxapian30 libxau6 libxaw7 libxcb-render0 libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml2 libxmu6 libxpm4 libxrender1 libxt6 m4 man-db po-debconf sbuild-build-depends-gatb-core-dummy ucf x11-common zlib1g-dev 0 upgraded, 134 newly installed, 0 to remove and 0 not upgraded. Need to get 74.1 MB of archives. After this operation, 385 MB of additional disk space will be used. Get:1 copy:/<>/resolver-lZETBM/apt_archive ./ sbuild-build-depends-gatb-core-dummy 0.invalid.0 [912 B] Get:2 http://ftpmaster.internal/ubuntu cosmic/main i386 libxau6 i386 1:1.0.8-1 [8352 B] Get:3 http://ftpmaster.internal/ubuntu cosmic/main i386 libbsd0 i386 0.9.1-1 [48.8 kB] Get:4 http://ftpmaster.internal/ubuntu cosmic/main i386 libxdmcp6 i386 1:1.1.2-3 [11.1 kB] Get:5 http://ftpmaster.internal/ubuntu cosmic/main i386 libxcb1 i386 1.13-1 [50.0 kB] Get:6 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libx11-data all 2:1.6.5-1 [113 kB] Get:7 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libx11-6 i386 2:1.6.5-1 [593 kB] Get:8 http://ftpmaster.internal/ubuntu cosmic/main i386 libxext6 i386 2:1.3.3-1 [31.6 kB] Get:9 http://ftpmaster.internal/ubuntu cosmic/main i386 bsdmainutils i386 11.1.2ubuntu2 [183 kB] Get:10 http://ftpmaster.internal/ubuntu cosmic/main i386 groff-base i386 1.22.3-10 [1169 kB] Get:11 http://ftpmaster.internal/ubuntu cosmic/main i386 libpipeline1 i386 1.5.0-1 [27.2 kB] Get:12 http://ftpmaster.internal/ubuntu cosmic/main i386 man-db i386 2.8.3-2 [1028 kB] Get:13 http://ftpmaster.internal/ubuntu cosmic/main i386 libexpat1 i386 2.2.5-3 [78.1 kB] Get:14 http://ftpmaster.internal/ubuntu cosmic/main i386 libfreetype6 i386 2.8.1-2ubuntu2 [351 kB] Get:15 http://ftpmaster.internal/ubuntu cosmic/main i386 ucf all 3.0038 [50.5 kB] Get:16 http://ftpmaster.internal/ubuntu cosmic/main i386 fonts-dejavu-core all 2.37-1 [1041 kB] Get:17 http://ftpmaster.internal/ubuntu cosmic/main i386 fontconfig-config all 2.12.6-0ubuntu2 [55.8 kB] Get:18 http://ftpmaster.internal/ubuntu cosmic/main i386 libfontconfig1 i386 2.12.6-0ubuntu2 [146 kB] Get:19 http://ftpmaster.internal/ubuntu cosmic/main i386 fontconfig i386 2.12.6-0ubuntu2 [169 kB] Get:20 http://ftpmaster.internal/ubuntu cosmic/main i386 libjpeg-turbo8 i386 1.5.2-0ubuntu6 [118 kB] Get:21 http://ftpmaster.internal/ubuntu cosmic/main i386 x11-common all 1:7.7+19ubuntu8 [22.5 kB] Get:22 http://ftpmaster.internal/ubuntu cosmic/main i386 libice6 i386 2:1.0.9-2 [42.6 kB] Get:23 http://ftpmaster.internal/ubuntu cosmic/main i386 libsm6 i386 2:1.2.2-1 [14.8 kB] Get:24 http://ftpmaster.internal/ubuntu cosmic/main i386 libmagic-mgc i386 1:5.33-3 [192 kB] Get:25 http://ftpmaster.internal/ubuntu cosmic/main i386 libmagic1 i386 1:5.33-3 [76.6 kB] Get:26 http://ftpmaster.internal/ubuntu cosmic/main i386 file i386 1:5.33-3 [22.8 kB] Get:27 http://ftpmaster.internal/ubuntu cosmic/main i386 libelf1 i386 0.170-0.5 [50.7 kB] Get:28 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libfribidi0 i386 0.19.7-3 [25.4 kB] Get:29 http://ftpmaster.internal/ubuntu cosmic/main i386 libglib2.0-0 i386 2.56.1-2ubuntu1 [1232 kB] Get:30 http://ftpmaster.internal/ubuntu cosmic/main i386 libicu60 i386 60.2-6ubuntu1 [8192 kB] Get:31 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libxml2 i386 2.9.4+dfsg1-7build1 [699 kB] Get:32 http://ftpmaster.internal/ubuntu cosmic/main i386 gettext-base i386 0.19.8.1-6build1 [51.3 kB] Get:33 http://ftpmaster.internal/ubuntu cosmic/main i386 libedit2 i386 3.1-20180525-1 [82.9 kB] Get:34 http://ftpmaster.internal/ubuntu cosmic/main i386 libkrb5support0 i386 1.16-2build1 [32.8 kB] Get:35 http://ftpmaster.internal/ubuntu cosmic/main i386 libk5crypto3 i386 1.16-2build1 [90.0 kB] Get:36 http://ftpmaster.internal/ubuntu cosmic/main i386 libkeyutils1 i386 1.5.9-9.2ubuntu3 [8940 B] Get:37 http://ftpmaster.internal/ubuntu cosmic/main i386 libkrb5-3 i386 1.16-2build1 [303 kB] Get:38 http://ftpmaster.internal/ubuntu cosmic/main i386 libgssapi-krb5-2 i386 1.16-2build1 [132 kB] Get:39 http://ftpmaster.internal/ubuntu cosmic/main i386 libpsl5 i386 0.20.2-1 [49.9 kB] Get:40 http://ftpmaster.internal/ubuntu cosmic/main i386 libsigsegv2 i386 2.12-2 [14.2 kB] Get:41 http://ftpmaster.internal/ubuntu cosmic/main i386 m4 i386 1.4.18-1 [196 kB] Get:42 http://ftpmaster.internal/ubuntu cosmic/main i386 autoconf all 2.69-11 [322 kB] Get:43 http://ftpmaster.internal/ubuntu cosmic/main i386 autotools-dev all 20180224.1 [39.6 kB] Get:44 http://ftpmaster.internal/ubuntu cosmic/main i386 automake all 1:1.15.1-3ubuntu2 [509 kB] Get:45 http://ftpmaster.internal/ubuntu cosmic/main i386 autopoint all 0.19.8.1-6build1 [412 kB] Get:46 http://ftpmaster.internal/ubuntu cosmic/main i386 cmake-data all 3.11.2-1 [1367 kB] Get:47 http://ftpmaster.internal/ubuntu cosmic/main i386 liblzo2-2 i386 2.10-0.1 [52.8 kB] Get:48 http://ftpmaster.internal/ubuntu cosmic/main i386 libarchive13 i386 3.2.2-4 [328 kB] Get:49 http://ftpmaster.internal/ubuntu cosmic/main i386 libroken18-heimdal i386 7.5.0+dfsg-2 [44.8 kB] Get:50 http://ftpmaster.internal/ubuntu cosmic/main i386 libasn1-8-heimdal i386 7.5.0+dfsg-2 [183 kB] Get:51 http://ftpmaster.internal/ubuntu cosmic/main i386 libheimbase1-heimdal i386 7.5.0+dfsg-2 [32.2 kB] Get:52 http://ftpmaster.internal/ubuntu cosmic/main i386 libhcrypto4-heimdal i386 7.5.0+dfsg-2 [92.6 kB] Get:53 http://ftpmaster.internal/ubuntu cosmic/main i386 libwind0-heimdal i386 7.5.0+dfsg-2 [48.4 kB] Get:54 http://ftpmaster.internal/ubuntu cosmic/main i386 libhx509-5-heimdal i386 7.5.0+dfsg-2 [118 kB] Get:55 http://ftpmaster.internal/ubuntu cosmic/main i386 libkrb5-26-heimdal i386 7.5.0+dfsg-2 [231 kB] Get:56 http://ftpmaster.internal/ubuntu cosmic/main i386 libheimntlm0-heimdal i386 7.5.0+dfsg-2 [16.3 kB] Get:57 http://ftpmaster.internal/ubuntu cosmic/main i386 libgssapi3-heimdal i386 7.5.0+dfsg-2 [106 kB] Get:58 http://ftpmaster.internal/ubuntu cosmic/main i386 libsasl2-modules-db i386 2.1.27~101-g0780600+dfsg-3ubuntu2 [15.6 kB] Get:59 http://ftpmaster.internal/ubuntu cosmic/main i386 libsasl2-2 i386 2.1.27~101-g0780600+dfsg-3ubuntu2 [52.8 kB] Get:60 http://ftpmaster.internal/ubuntu cosmic/main i386 libldap-common all 2.4.46+dfsg-5ubuntu1 [16.6 kB] Get:61 http://ftpmaster.internal/ubuntu cosmic/main i386 libldap-2.4-2 i386 2.4.46+dfsg-5ubuntu1 [167 kB] Get:62 http://ftpmaster.internal/ubuntu cosmic/main i386 libnghttp2-14 i386 1.32.0-1 [83.0 kB] Get:63 http://ftpmaster.internal/ubuntu cosmic/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2 [58.3 kB] Get:64 http://ftpmaster.internal/ubuntu cosmic/main i386 libcurl4 i386 7.60.0-2ubuntu1 [241 kB] Get:65 http://ftpmaster.internal/ubuntu cosmic/main i386 libjsoncpp1 i386 1.7.4-3 [82.7 kB] Get:66 http://ftpmaster.internal/ubuntu cosmic/main i386 librhash0 i386 1.3.6-2 [90.7 kB] Get:67 http://ftpmaster.internal/ubuntu cosmic-proposed/main i386 libuv1 i386 1.21.0-2 [71.9 kB] Get:68 http://ftpmaster.internal/ubuntu cosmic/main i386 cmake i386 3.11.2-1 [3465 kB] Get:69 http://ftpmaster.internal/ubuntu cosmic/universe i386 d-shlibs all 0.82 [9880 B] Get:70 http://ftpmaster.internal/ubuntu cosmic/main i386 libtool all 2.4.6-2.1 [195 kB] Get:71 http://ftpmaster.internal/ubuntu cosmic/main i386 dh-autoreconf all 19 [16.1 kB] Get:72 http://ftpmaster.internal/ubuntu cosmic/main i386 libarchive-zip-perl all 1.60-1 [83.9 kB] Get:73 http://ftpmaster.internal/ubuntu cosmic/main i386 libfile-stripnondeterminism-perl all 0.042-1 [15.2 kB] Get:74 http://ftpmaster.internal/ubuntu cosmic/main i386 libtimedate-perl all 2.3000-2 [37.5 kB] Get:75 http://ftpmaster.internal/ubuntu cosmic/main i386 dh-strip-nondeterminism all 0.042-1 [5188 B] Get:76 http://ftpmaster.internal/ubuntu cosmic/main i386 dwz i386 0.12-2 [80.4 kB] Get:77 http://ftpmaster.internal/ubuntu cosmic/main i386 libcroco3 i386 0.6.12-2 [87.7 kB] Get:78 http://ftpmaster.internal/ubuntu cosmic/main i386 gettext i386 0.19.8.1-6build1 [902 kB] Get:79 http://ftpmaster.internal/ubuntu cosmic/main i386 intltool-debian all 0.35.0+20060710.4 [24.9 kB] Get:80 http://ftpmaster.internal/ubuntu cosmic/main i386 po-debconf all 1.0.20 [232 kB] Get:81 http://ftpmaster.internal/ubuntu cosmic/main i386 debhelper all 11.3.2ubuntu1 [883 kB] Get:82 http://ftpmaster.internal/ubuntu cosmic/main i386 libllvm6.0 i386 1:6.0.1-2ubuntu1 [16.5 MB] Get:83 http://ftpmaster.internal/ubuntu cosmic/main i386 libclang1-6.0 i386 1:6.0.1-2ubuntu1 [8132 kB] Get:84 http://ftpmaster.internal/ubuntu cosmic/main i386 libxapian30 i386 1.4.6-1 [893 kB] Get:85 http://ftpmaster.internal/ubuntu cosmic/main i386 doxygen i386 1.8.13-10 [3901 kB] Get:86 http://ftpmaster.internal/ubuntu cosmic/universe i386 libann0 i386 1.1.2+doc-7 [26.8 kB] Get:87 http://ftpmaster.internal/ubuntu cosmic-proposed/universe i386 libcdt5 i386 2.40.1-3 [19.8 kB] Get:88 http://ftpmaster.internal/ubuntu cosmic-proposed/universe i386 libcgraph6 i386 2.40.1-3 [44.8 kB] Get:89 http://ftpmaster.internal/ubuntu cosmic/main i386 libjpeg8 i386 8c-2ubuntu8 [2188 B] Get:90 http://ftpmaster.internal/ubuntu cosmic/main i386 libjbig0 i386 2.1-3.1build1 [27.3 kB] Get:91 http://ftpmaster.internal/ubuntu cosmic/main i386 libtiff5 i386 4.0.9-6 [163 kB] Get:92 http://ftpmaster.internal/ubuntu cosmic/main i386 libwebp6 i386 0.6.1-2 [197 kB] Get:93 http://ftpmaster.internal/ubuntu cosmic/main i386 libxpm4 i386 1:3.5.12-1 [35.8 kB] Get:94 http://ftpmaster.internal/ubuntu cosmic/main i386 libgd3 i386 2.2.5-4 [122 kB] Get:95 http://ftpmaster.internal/ubuntu cosmic/universe i386 libgts-0.7-5 i386 0.7.6+darcs121130-4 [153 kB] Get:96 http://ftpmaster.internal/ubuntu cosmic/main i386 libpixman-1-0 i386 0.34.0-2 [235 kB] Get:97 http://ftpmaster.internal/ubuntu cosmic/main i386 libxcb-render0 i386 1.13-1 [15.9 kB] Get:98 http://ftpmaster.internal/ubuntu cosmic/main i386 libxcb-shm0 i386 1.13-1 [5720 B] Get:99 http://ftpmaster.internal/ubuntu cosmic/main i386 libxrender1 i386 1:0.9.10-1 [19.9 kB] Get:100 http://ftpmaster.internal/ubuntu cosmic/main i386 libcairo2 i386 1.15.10-3 [636 kB] Get:101 http://ftpmaster.internal/ubuntu cosmic/main i386 libltdl7 i386 2.4.6-2.1 [40.5 kB] Get:102 http://ftpmaster.internal/ubuntu cosmic/main i386 libthai-data all 0.1.27-2 [133 kB] Get:103 http://ftpmaster.internal/ubuntu cosmic/main i386 libdatrie1 i386 0.2.12-1 [19.8 kB] Get:104 http://ftpmaster.internal/ubuntu cosmic/main i386 libthai0 i386 0.1.27-2 [19.1 kB] Get:105 http://ftpmaster.internal/ubuntu cosmic/main i386 libpango-1.0-0 i386 1.42.1-2 [157 kB] Get:106 http://ftpmaster.internal/ubuntu cosmic/main i386 libgraphite2-3 i386 1.3.11-2 [81.9 kB] Get:107 http://ftpmaster.internal/ubuntu cosmic/main i386 libharfbuzz0b i386 1.8.2-2 [269 kB] Get:108 http://ftpmaster.internal/ubuntu cosmic/main i386 libpangoft2-1.0-0 i386 1.42.1-2 [36.9 kB] Get:109 http://ftpmaster.internal/ubuntu cosmic/main i386 libpangocairo-1.0-0 i386 1.42.1-2 [24.1 kB] Get:110 http://ftpmaster.internal/ubuntu cosmic-proposed/universe i386 libpathplan4 i386 2.40.1-3 [22.9 kB] Get:111 http://ftpmaster.internal/ubuntu cosmic-proposed/universe i386 libgvc6 i386 2.40.1-3 [627 kB] Get:112 http://ftpmaster.internal/ubuntu cosmic-proposed/universe i386 libgvpr2 i386 2.40.1-3 [181 kB] Get:113 http://ftpmaster.internal/ubuntu cosmic-proposed/universe i386 liblab-gamut1 i386 2.40.1-3 [178 kB] Get:114 http://ftpmaster.internal/ubuntu cosmic/main i386 libxt6 i386 1:1.1.5-1 [164 kB] Get:115 http://ftpmaster.internal/ubuntu cosmic/main i386 libxmu6 i386 2:1.1.2-2 [48.4 kB] Get:116 http://ftpmaster.internal/ubuntu cosmic/main i386 libxaw7 i386 2:1.0.13-1 [182 kB] Get:117 http://ftpmaster.internal/ubuntu cosmic-proposed/universe i386 graphviz i386 2.40.1-3 [594 kB] Get:118 http://ftpmaster.internal/ubuntu cosmic/universe i386 hdf5-helpers i386 1.10.0-patch1+docs-4build1 [12.3 kB] Get:119 http://ftpmaster.internal/ubuntu cosmic/universe i386 libaec0 i386 1.0.2-1 [21.6 kB] Get:120 http://ftpmaster.internal/ubuntu cosmic/main i386 libboost1.65-dev i386 1.65.1+dfsg-0ubuntu9 [7218 kB] Get:121 http://ftpmaster.internal/ubuntu cosmic/main i386 libboost-dev i386 1.65.1.0ubuntu1 [3128 B] Get:122 http://ftpmaster.internal/ubuntu cosmic/universe i386 libcppunit-1.14-0 i386 1.14.0-3 [85.2 kB] Get:123 http://ftpmaster.internal/ubuntu cosmic/universe i386 libcppunit-dev i386 1.14.0-3 [144 kB] Get:124 http://ftpmaster.internal/ubuntu cosmic/main i386 libgfortran4 i386 7.3.0-24ubuntu1 [471 kB] Get:125 http://ftpmaster.internal/ubuntu cosmic/universe i386 libsz2 i386 1.0.2-1 [5196 B] Get:126 http://ftpmaster.internal/ubuntu cosmic/universe i386 libhdf5-100 i386 1.10.0-patch1+docs-4build1 [1260 kB] Get:127 http://ftpmaster.internal/ubuntu cosmic/universe i386 libhdf5-cpp-100 i386 1.10.0-patch1+docs-4build1 [110 kB] Get:128 http://ftpmaster.internal/ubuntu cosmic/main i386 zlib1g-dev i386 1:1.2.11.dfsg-0ubuntu2 [178 kB] Get:129 http://ftpmaster.internal/ubuntu cosmic/main i386 libjpeg-turbo8-dev i386 1.5.2-0ubuntu6 [244 kB] Get:130 http://ftpmaster.internal/ubuntu cosmic/main i386 libjpeg8-dev i386 8c-2ubuntu8 [1546 B] Get:131 http://ftpmaster.internal/ubuntu cosmic/main i386 libjpeg-dev i386 8c-2ubuntu8 [1544 B] Get:132 http://ftpmaster.internal/ubuntu cosmic/universe i386 libaec-dev i386 1.0.2-1 [19.8 kB] Get:133 http://ftpmaster.internal/ubuntu cosmic/universe i386 libhdf5-dev i386 1.10.0-patch1+docs-4build1 [2670 kB] Get:134 http://ftpmaster.internal/ubuntu cosmic/main i386 libjsoncpp-dev i386 1.7.4-3 [85.6 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 74.1 MB in 2s (41.8 MB/s) Selecting previously unselected package libxau6:i386. 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Setting up libhdf5-dev (1.10.0-patch1+docs-4build1) ... update-alternatives: using /usr/lib/i386-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/i386-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libgssapi-krb5-2:i386 (1.16-2build1) ... Setting up libxcb-shm0:i386 (1.13-1) ... Setting up libxpm4:i386 (1:3.5.12-1) ... Setting up libxt6:i386 (1:1.1.5-1) ... Setting up libxrender1:i386 (1:0.9.10-1) ... Setting up libgssapi3-heimdal:i386 (7.5.0+dfsg-2) ... Setting up fontconfig (2.12.6-0ubuntu2) ... Regenerating fonts cache... done. Setting up libxext6:i386 (2:1.3.3-1) ... Setting up libgd3:i386 (2.2.5-4) ... Setting up libxmu6:i386 (2:1.1.2-2) ... Setting up libldap-2.4-2:i386 (2.4.46+dfsg-5ubuntu1) ... Setting up libpango-1.0-0:i386 (1.42.1-2) ... Setting up libxaw7:i386 (2:1.0.13-1) ... Setting up libcairo2:i386 (1.15.10-3) ... Setting up libcurl4:i386 (7.60.0-2ubuntu1) ... Setting up libpangoft2-1.0-0:i386 (1.42.1-2) ... Setting up cmake (3.11.2-1) ... 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Processing triggers for systemd (238-5ubuntu2) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-128-generic amd64 (i686) Toolchain package versions: binutils_2.30-22ubuntu1 dpkg-dev_1.19.0.5ubuntu3 g++-7_7.3.0-24ubuntu1 gcc-7_7.3.0-24ubuntu1 libc6-dev_2.27-3ubuntu1 libstdc++-7-dev_7.3.0-24ubuntu1 libstdc++6_8.1.0-9ubuntu1 linux-libc-dev_4.17.0-4.5 Package versions: adduser_3.117ubuntu1 advancecomp_2.1-1 apt_1.7.0~alpha1 autoconf_2.69-11 automake_1:1.15.1-3ubuntu2 autopoint_0.19.8.1-6build1 autotools-dev_20180224.1 base-files_10.1ubuntu4 base-passwd_3.5.45 bash_4.4.18-2ubuntu2 binutils_2.30-22ubuntu1 binutils-common_2.30-22ubuntu1 binutils-i686-linux-gnu_2.30-22ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.32-0.1ubuntu1 build-essential_12.5ubuntu2 bzip2_1.0.6-8.1 ca-certificates_20180409 cmake_3.11.2-1 cmake-data_3.11.2-1 coreutils_8.28-1ubuntu1 cpp_4:7.3.0-3ubuntu3 cpp-7_7.3.0-24ubuntu1 d-shlibs_0.82 dash_0.5.8-2.10 debconf_1.5.67 debhelper_11.3.2ubuntu1 debianutils_4.8.6 dh-autoreconf_19 dh-strip-nondeterminism_0.042-1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu3 doxygen_1.8.13-10 dpkg_1.19.0.5ubuntu3 dpkg-dev_1.19.0.5ubuntu3 dwz_0.12-2 e2fslibs_1.44.2-1 e2fsprogs_1.44.2-1 fakeroot_1.22-2ubuntu1 fdisk_2.32-0.1ubuntu1 file_1:5.33-3 findutils_4.6.0+git+20170828-2 fontconfig_2.12.6-0ubuntu2 fontconfig-config_2.12.6-0ubuntu2 fonts-dejavu-core_2.37-1 g++_4:7.3.0-3ubuntu3 g++-7_7.3.0-24ubuntu1 gcc_4:7.3.0-3ubuntu3 gcc-7_7.3.0-24ubuntu1 gcc-7-base_7.3.0-24ubuntu1 gcc-8-base_8.1.0-9ubuntu1 gettext_0.19.8.1-6build1 gettext-base_0.19.8.1-6build1 gpg_2.2.8-1ubuntu1 gpg-agent_2.2.8-1ubuntu1 gpgconf_2.2.8-1ubuntu1 gpgv_2.2.8-1ubuntu1 graphviz_2.40.1-3 grep_3.1-2 groff-base_1.22.3-10 gzip_1.6-5ubuntu1 hdf5-helpers_1.10.0-patch1+docs-4build1 hostname_3.20 init_1.51 init-system-helpers_1.51 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.4 libacl1_2.2.52-3build1 libaec-dev_1.0.2-1 libaec0_1.0.2-1 libann0_1.1.2+doc-7 libapparmor1_2.12-4ubuntu6 libapt-pkg5.0_1.7.0~alpha1 libarchive-zip-perl_1.60-1 libarchive13_3.2.2-4 libargon2-0_0~20171227-0.1 libargon2-1_0~20171227-0.1 libasan4_7.3.0-24ubuntu1 libasn1-8-heimdal_7.5.0+dfsg-2 libassuan0_2.5.1-2 libatomic1_8.1.0-9ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.3-1ubuntu2 libaudit1_1:2.8.3-1ubuntu2 libbinutils_2.30-22ubuntu1 libblkid1_2.32-0.1ubuntu1 libboost-dev_1.65.1.0ubuntu1 libboost1.65-dev_1.65.1+dfsg-0ubuntu9 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.27-3ubuntu1 libc-dev-bin_2.27-3ubuntu1 libc6_2.27-3ubuntu1 libc6-dev_2.27-3ubuntu1 libcairo2_1.15.10-3 libcap-ng0_0.7.9-1 libcap2_1:2.25-1.2 libcc1-0_8.1.0-9ubuntu1 libcdt5_2.40.1-3 libcgraph6_2.40.1-3 libcilkrts5_7.3.0-24ubuntu1 libclang1-6.0_1:6.0.1-2ubuntu1 libcom-err2_1.44.2-1 libcomerr2_1.44.2-1 libcppunit-1.14-0_1.14.0-3 libcppunit-dev_1.14.0-3 libcroco3_0.6.12-2 libcryptsetup12_2:2.0.2-1ubuntu2 libcurl4_7.60.0-2ubuntu1 libdatrie1_0.2.12-1 libdb5.3_5.3.28-13.1ubuntu1 libdebconfclient0_0.213ubuntu1 libdevmapper1.02.1_2:1.02.145-4.1ubuntu3 libdpkg-perl_1.19.0.5ubuntu3 libedit2_3.1-20180525-1 libelf1_0.170-0.5 libexpat1_2.2.5-3 libext2fs2_1.44.2-1 libfakeroot_1.22-2ubuntu1 libfdisk1_2.32-0.1ubuntu1 libffi6_3.2.1-8 libfile-stripnondeterminism-perl_0.042-1 libfontconfig1_2.12.6-0ubuntu2 libfreetype6_2.8.1-2ubuntu2 libfribidi0_0.19.7-3 libgcc-7-dev_7.3.0-24ubuntu1 libgcc1_1:8.1.0-9ubuntu1 libgcrypt20_1.8.2-2ubuntu1 libgd3_2.2.5-4 libgdbm-compat4_1.14.1-6 libgdbm5_1.14.1-6 libgfortran4_7.3.0-24ubuntu1 libglib2.0-0_2.56.1-2ubuntu1 libgmp10_2:6.1.2+dfsg-3 libgnutls30_3.5.18-1ubuntu1 libgomp1_8.1.0-9ubuntu1 libgpg-error0_1.31-1 libgraphite2-3_1.3.11-2 libgssapi-krb5-2_1.16-2build1 libgssapi3-heimdal_7.5.0+dfsg-2 libgts-0.7-5_0.7.6+darcs121130-4 libgvc6_2.40.1-3 libgvpr2_2.40.1-3 libharfbuzz0b_1.8.2-2 libhcrypto4-heimdal_7.5.0+dfsg-2 libhdf5-100_1.10.0-patch1+docs-4build1 libhdf5-cpp-100_1.10.0-patch1+docs-4build1 libhdf5-dev_1.10.0-patch1+docs-4build1 libheimbase1-heimdal_7.5.0+dfsg-2 libheimntlm0-heimdal_7.5.0+dfsg-2 libhogweed4_3.4-1 libhx509-5-heimdal_7.5.0+dfsg-2 libice6_2:1.0.9-2 libicu60_60.2-6ubuntu1 libidn11_1.33-2.1ubuntu1 libidn2-0_2.0.4-1.1build2 libip4tc0_1.6.1-2ubuntu2 libisl19_0.19-1 libitm1_8.1.0-9ubuntu1 libjbig0_2.1-3.1build1 libjpeg-dev_8c-2ubuntu8 libjpeg-turbo8_1.5.2-0ubuntu6 libjpeg-turbo8-dev_1.5.2-0ubuntu6 libjpeg8_8c-2ubuntu8 libjpeg8-dev_8c-2ubuntu8 libjson-c3_0.12.1-1.3 libjsoncpp-dev_1.7.4-3 libjsoncpp1_1.7.4-3 libk5crypto3_1.16-2build1 libkeyutils1_1.5.9-9.2ubuntu3 libkmod2_25-1ubuntu1 libkrb5-26-heimdal_7.5.0+dfsg-2 libkrb5-3_1.16-2build1 libkrb5support0_1.16-2build1 liblab-gamut1_2.40.1-3 libldap-2.4-2_2.4.46+dfsg-5ubuntu1 libldap-common_2.4.46+dfsg-5ubuntu1 libllvm6.0_1:6.0.1-2ubuntu1 liblockfile-bin_1.14-1.1 liblockfile1_1.14-1.1 libltdl7_2.4.6-2.1 liblz4-1_1.8.2-1ubuntu1 liblzma5_5.2.2-1.3 liblzo2-2_2.10-0.1 libmagic-mgc_1:5.33-3 libmagic1_1:5.33-3 libmount1_2.32-0.1ubuntu1 libmpc3_1.1.0-1 libmpfr6_4.0.1-1 libmpx2_8.1.0-9ubuntu1 libncurses5_6.1+20180210-4ubuntu1 libncurses6_6.1+20180210-4ubuntu1 libncursesw5_6.1+20180210-4ubuntu1 libncursesw6_6.1+20180210-4ubuntu1 libnettle6_3.4-1 libnghttp2-14_1.32.0-1 libnpth0_1.5-4 libp11-kit0_0.23.12-2 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 libpango-1.0-0_1.42.1-2 libpangocairo-1.0-0_1.42.1-2 libpangoft2-1.0-0_1.42.1-2 libpathplan4_2.40.1-3 libpcre3_2:8.39-9 libperl5.26_5.26.2-6 libpipeline1_1.5.0-1 libpixman-1-0_0.34.0-2 libpng16-16_1.6.34-1 libprocps6_2:3.3.12-3ubuntu1 libprocps7_2:3.3.15-2ubuntu1 libpsl5_0.20.2-1 libquadmath0_8.1.0-9ubuntu1 libreadline7_7.0-5 librhash0_1.3.6-2 libroken18-heimdal_7.5.0+dfsg-2 librtmp1_2.4+20151223.gitfa8646d.1-2 libsasl2-2_2.1.27~101-g0780600+dfsg-3ubuntu2 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3ubuntu2 libseccomp2_2.3.3-3ubuntu1 libselinux1_2.8-1build1 libsemanage-common_2.8-1build1 libsemanage1_2.8-1build1 libsepol1_2.8-1 libsigsegv2_2.12-2 libslang2_2.3.2-1ubuntu1 libsm6_2:1.2.2-1 libsmartcols1_2.32-0.1ubuntu1 libsqlite3-0_3.24.0-1 libss2_1.44.2-1 libssl1.1_1.1.0g-2ubuntu5 libstdc++-7-dev_7.3.0-24ubuntu1 libstdc++6_8.1.0-9ubuntu1 libsystemd0_238-5ubuntu2 libsz2_1.0.2-1 libtasn1-6_4.13-3 libthai-data_0.1.27-2 libthai0_0.1.27-2 libtiff5_4.0.9-6 libtimedate-perl_2.3000-2 libtinfo5_6.1+20180210-4ubuntu1 libtinfo6_6.1+20180210-4ubuntu1 libtool_2.4.6-2.1 libubsan0_7.3.0-24ubuntu1 libudev1_238-5ubuntu2 libunistring2_0.9.9-0ubuntu1 libusb-0.1-4_2:0.1.12-32 libuuid1_2.32-0.1ubuntu1 libuv1_1.21.0-2 libwebp6_0.6.1-2 libwind0-heimdal_7.5.0+dfsg-2 libx11-6_2:1.6.5-1 libx11-data_2:1.6.5-1 libxapian30_1.4.6-1 libxau6_1:1.0.8-1 libxaw7_2:1.0.13-1 libxcb-render0_1.13-1 libxcb-shm0_1.13-1 libxcb1_1.13-1 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1 libxml2_2.9.4+dfsg1-7build1 libxmu6_2:1.1.2-2 libxpm4_1:3.5.12-1 libxrender1_1:0.9.10-1 libxt6_1:1.1.5-1 libzstd1_1.3.3+dfsg-2ubuntu1 linux-libc-dev_4.17.0-4.5 lockfile-progs_0.1.17build1 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-1 make_4.1-9.1ubuntu1 man-db_2.8.3-2 mawk_1.3.3-17ubuntu3 mount_2.32-0.1ubuntu1 multiarch-support_2.27-3ubuntu1 ncurses-base_6.1+20180210-4ubuntu1 ncurses-bin_6.1+20180210-4ubuntu1 openssl_1.1.0g-2ubuntu5 optipng_0.7.6-1.1 passwd_1:4.5-1ubuntu1 patch_2.7.6-2ubuntu1 perl_5.26.2-6 perl-base_5.26.2-6 perl-modules-5.26_5.26.2-6 pinentry-curses_1.1.0-1build2 pkgbinarymangler_139 po-debconf_1.0.20 policyrcd-script-zg2_0.1-3 procps_2:3.3.15-2ubuntu1 readline-common_7.0-5 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-gatb-core-dummy_0.invalid.0 sed_4.5-1 sensible-utils_0.0.12 systemd_238-5ubuntu2 systemd-sysv_238-5ubuntu2 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu1 tar_1.30+dfsg-2 tzdata_2018e-1 ubuntu-keyring_2018.02.28 ucf_3.0038 util-linux_2.32-0.1ubuntu1 x11-common_1:7.7+19ubuntu8 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 zlib1g-dev_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Fri Jul 6 10:42:50 2018 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./gatb-core_1.4.1+dfsg-2.dsc dpkg-source: info: extracting gatb-core in gatb-core-1.4.1+dfsg dpkg-source: info: unpacking gatb-core_1.4.1+dfsg.orig.tar.xz dpkg-source: info: unpacking gatb-core_1.4.1+dfsg-2.debian.tar.xz dpkg-source: info: applying use_debian_packaged_hdf5.patch dpkg-source: info: applying fix_hdf5_includes.patch dpkg-source: info: applying dynamic_lib.patch dpkg-source: info: applying fix_install_location.patch dpkg-source: info: applying set_soversion.patch dpkg-source: info: applying dynamic_linking_of_tools.patch dpkg-source: info: applying multiarch.patch dpkg-source: info: applying spelling.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-15096087 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-15096087 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-15096087 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package gatb-core dpkg-buildpackage: info: source version 1.4.1+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build gatb-core-1.4.1+dfsg dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean --sourcedirectory=gatb-core dh_auto_clean -O--sourcedirectory=gatb-core dh_clean -O--sourcedirectory=gatb-core debian/rules build-arch dh build-arch --sourcedirectory=gatb-core dh_update_autotools_config -a -O--sourcedirectory=gatb-core dh_autoreconf -a -O--sourcedirectory=gatb-core dh_auto_configure -a -O--sourcedirectory=gatb-core cd obj-i686-linux-gnu && cmake ../gatb-core -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run "-GUnix Makefiles" -- The C compiler identification is GNU 7.3.0 -- The CXX compiler identification is GNU 7.3.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- CppUnit: found headers (in /usr/include) but not the static library (/usr/include/../lib/libcppunit.a) -- CppUnit FOUND (/usr/include) -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of __uint128 -- Check size of __uint128 - failed -- Check size of __uint128_t -- Check size of __uint128_t - failed -- SSE 4.2 detected -- Options: -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -- HDF5: Using hdf5 compiler wrapper to determine C configuration -- Found HDF5: /usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/i386-linux-gnu/libpthread.so;/usr/lib/i386-linux-gnu/libsz.so;/usr/lib/i386-linux-gnu/libz.so;/usr/lib/i386-linux-gnu/libdl.so;/usr/lib/i386-linux-gnu/libm.so (found version "1.10.0.1") -- HDF5_LIBRARIES="/usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so/usr/lib/i386-linux-gnu/libpthread.so/usr/lib/i386-linux-gnu/libsz.so/usr/lib/i386-linux-gnu/libz.so/usr/lib/i386-linux-gnu/libdl.so/usr/lib/i386-linux-gnu/libm.so" -- OPTIMIZED KMER SIZES INTERVALS ARE 32 64 96 128 <-- max supported kmer size without recompilation CMake Warning (dev) at CMakeLists.txt:238 (set): Cannot set "gatb-core-klist": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. -- ---------- GATB TESTS ---------- -- ---------- GATB TOOLS ---------- DYNAMIC BINARIES for dbgh5 DYNAMIC BINARIES for dbginfo DYNAMIC BINARIES for leon -- Found HDF5: /usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/i386-linux-gnu/libpthread.so;/usr/lib/i386-linux-gnu/libsz.so;/usr/lib/i386-linux-gnu/libz.so;/usr/lib/i386-linux-gnu/libdl.so;/usr/lib/i386-linux-gnu/libm.so (found version "1.10.0.1") found components: C CMake Warning (dev) at CMakeLists.txt:265 (set): Cannot set "gatb-core-flags": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:266 (set): Cannot set "gatb-core-includes": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:267 (set): Cannot set "gatb-core-libraries": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:268 (set): Cannot set "gatb-core-cmake": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. -- Found Doxygen: /usr/bin/doxygen (found version "1.8.13") found components: doxygen dot -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY -- Build files have been written to: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu dh_auto_build -a -O--sourcedirectory=gatb-core cd obj-i686-linux-gnu && make -j4 "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' /usr/bin/cmake -H/<>/gatb-core-1.4.1+dfsg/gatb-core -B/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/CMakeFiles /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/depend make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/depend make -f thirdparty/CMakeFiles/thirdparty_copy.dir/build.make thirdparty/CMakeFiles/thirdparty_copy.dir/depend make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+dfsg/gatb-core /<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/thirdparty /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/thirdparty/CMakeFiles/thirdparty_copy.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+dfsg/gatb-core /<>/gatb-core-1.4.1+dfsg/gatb-core/src /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/CMakeFiles/gatbcore-dynamic.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+dfsg/gatb-core /<>/gatb-core-1.4.1+dfsg/gatb-core/src /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/CMakeFiles/gatbcore-static.dir/DependInfo.cmake --color= Scanning dependencies of target thirdparty_copy make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make -f thirdparty/CMakeFiles/thirdparty_copy.dir/build.make thirdparty/CMakeFiles/thirdparty_copy.dir/build make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/json cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty/BooPHF/BooPHF.h /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/ cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty/json/json.hpp /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/json/ make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' [ 0%] Built target thirdparty_copy Scanning dependencies of target gatbcore-dynamic make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/build Scanning dependencies of target gatbcore-static make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/build make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' [ 1%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankAlbum.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankAlbum.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankAlbum.cpp [ 1%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/Bank.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/Bank.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp [ 1%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankBinary.cpp.o [ 1%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/Bank.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankBinary.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/Bank.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In function ‘bool gatb::core::bank::impl::checkMagic(FILE*)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:54:11: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread (&value, sizeof(value), 1, file); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In member function ‘virtual void gatb::core::bank::impl::BankBinary::Iterator::next()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:453:15: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread (_bufferData->getBuffer(), sizeof( char),block_size, binary_read_file); // read a block of reads into the buffer ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp:23: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp:23: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 2%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankAlbum.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankAlbum.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankAlbum.cpp [ 3%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankConverterAlgorithm.cpp [ 3%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankFasta.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankFasta.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankFasta.cpp [ 3%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankBinary.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankBinary.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In function ‘bool gatb::core::bank::impl::checkMagic(FILE*)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:54:11: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread (&value, sizeof(value), 1, file); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In member function ‘virtual void gatb::core::bank::impl::BankBinary::Iterator::next()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:453:15: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread (_bufferData->getBuffer(), sizeof( char),block_size, binary_read_file); // read a block of reads into the buffer ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 4%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankHelpers.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankHelpers.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankHelpers.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankConverterAlgorithm.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankRandom.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankRandom.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankRandom.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankFasta.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankFasta.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankFasta.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankHelpers.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankHelpers.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankHelpers.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankSplitter.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankSplitter.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankSplitter.cpp [ 6%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bcalm_algo.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bcalm_algo.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankRandom.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankRandom.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankRandom.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bglue_algo.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bglue_algo.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankSplitter.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankSplitter.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bank/impl/BankSplitter.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 8%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bcalm_algo.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bcalm_algo.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp [ 8%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bglue_algo.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bglue_algo.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp [ 9%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/logging.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/logging.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp: In function ‘long unsigned int gatb::core::debruijn::impl::logging(std::__cxx11::string)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp:32:31: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] mem, memMaxProcess); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp:32:31: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 5 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] [ 9%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/ograph.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/ograph.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp [ 9%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:372:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:374:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:389:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:391:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ [ 9%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/logging.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/logging.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp: In function ‘long unsigned int gatb::core::debruijn::impl::logging(std::__cxx11::string)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp:32:31: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] mem, memMaxProcess); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp:32:31: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 5 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] [ 10%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/ograph.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/ograph.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp [ 11%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Frontline.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Frontline.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp [ 11%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp [ 11%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Graph.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Graph.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:372:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:374:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:389:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:391:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp:24: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 12%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Frontline.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Frontline.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 12%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Graph.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Graph.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp:24: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 13%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 13%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp [ 13%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 14%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/LinkTigs.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/LinkTigs.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/LinkTigs.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 15%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Simplifications.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Simplifications.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp [ 15%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Terminator.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Terminator.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp:24: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 15%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Traversal.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Traversal.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp [ 16%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type {aka unsigned int}’ [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 16%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/LinkTigs.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/LinkTigs.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/LinkTigs.cpp [ 17%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Simplifications.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Simplifications.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp [ 17%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Terminator.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Terminator.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp:24: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 18%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Traversal.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Traversal.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp [ 18%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type {aka unsigned int}’ [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 19%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 19%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomBuilder.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomBuilder.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/BloomBuilder.cpp [ 19%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Configuration.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Configuration.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Configuration.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/ConfigurationAlgorithm.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp [ 21%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomBuilder.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomBuilder.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/BloomBuilder.cpp [ 21%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/DebloomAlgorithm.cpp [ 21%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Configuration.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Configuration.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Configuration.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/LinearCounter.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/LinearCounter.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/LinearCounter.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/ConfigurationAlgorithm.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Model.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Model.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ModelData.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ModelData.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/ModelData.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 26%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartiInfo.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartiInfo.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp [ 26%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/DebloomAlgorithm.cpp [ 26%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartitionsCommand.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartitionsCommand.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp: In member function ‘void gatb::core::kmer::impl::Repartitor::printInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp:308:59: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 2 has type ‘size_t {aka unsigned int}’ [-Wformat=] printf("Repartitor : nbMinimizers=%ld\n", nbMinimizers); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp:309:105: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 2 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] for (u_int64_t ii=0; ii>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/RepartitionAlgorithm.cpp [ 26%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp [ 27%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp [ 28%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/LinearCounter.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/LinearCounter.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/LinearCounter.cpp [ 28%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp [ 28%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemCommon.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemCommon.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/FileSystemCommon.cpp [ 29%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Model.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Model.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp [ 30%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemLinux.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemLinux.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/FileSystemLinux.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 30%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ModelData.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ModelData.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/ModelData.cpp [ 30%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemMacos.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemMacos.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/FileSystemMacos.cpp [ 30%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartiInfo.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartiInfo.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp [ 30%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/System.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/System.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/System.cpp [ 31%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/SystemInfoCommon.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/SystemInfoCommon.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/SystemInfoCommon.cpp [ 32%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartitionsCommand.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartitionsCommand.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp [ 32%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadLinux.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadLinux.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp [ 32%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/RepartitionAlgorithm.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp: In member function ‘void gatb::core::kmer::impl::Repartitor::printInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp:308:59: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 2 has type ‘size_t {aka unsigned int}’ [-Wformat=] printf("Repartitor : nbMinimizers=%ld\n", nbMinimizers); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp:309:105: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 2 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] for (u_int64_t ii=0; ii>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp: In constructor ‘gatb::core::system::impl::ThreadLinux::ThreadLinux(void* (*)(void*), void*)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp:51:7: warning: variable ‘ret’ set but not used [-Wunused-but-set-variable] int ret = pthread_attr_init ( &tattr ) ; ^~~ [ 33%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadMacos.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadMacos.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/ThreadMacos.cpp [ 33%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/collections/impl/Bloom.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/collections/impl/Bloom.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.cpp [ 34%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/DnaCoder.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/DnaCoder.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp [ 34%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/HeaderCoder.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/HeaderCoder.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp [ 34%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/Leon.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/Leon.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp [ 35%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::createBloom()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:323:47: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Abundance threshold"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:328:49: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Abundance threshold"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::executeCompression()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:404:43: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Input format: FastQ"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:410:66: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Quality compression: LOSSLESS mode"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:412:106: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Quality compression: lossy mode (use '-lossless' for lossless compression)"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:422:43: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Input format: FastA"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:429:123: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Input format: unknown. Input extension must be one among fasta (.fa, .fasta) or fastq (.fq, .fastq)"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::endCompression()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:727:40: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add(0, "End compression"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::endHeaderCompression()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:883:44: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add(0, "End Header compression"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::endDnaCompression()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:970:47: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add(0, "End Sequence compression"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::executeDecompression()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:1429:38: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add(0, "Decompression"); ^ [ 35%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemCommon.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemCommon.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/FileSystemCommon.cpp [ 35%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemLinux.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemLinux.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/FileSystemLinux.cpp [ 36%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemMacos.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemMacos.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/FileSystemMacos.cpp [ 36%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/System.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/system/impl/System.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/System.cpp [ 37%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/RangeCoder.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/RangeCoder.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/RangeCoder.cpp [ 38%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/SystemInfoCommon.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/system/impl/SystemInfoCommon.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/SystemInfoCommon.cpp [ 38%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadLinux.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadLinux.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp [ 38%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Command.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Command.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Command.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp: In constructor ‘gatb::core::system::impl::ThreadLinux::ThreadLinux(void* (*)(void*), void*)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp:51:7: warning: variable ‘ret’ set but not used [-Wunused-but-set-variable] int ret = pthread_attr_init ( &tattr ) ; ^~~ [ 39%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadMacos.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadMacos.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/ThreadMacos.cpp [ 39%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/collections/impl/Bloom.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/collections/impl/Bloom.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Observer.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Observer.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Observer.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Algorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Algorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/DnaCoder.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/compression/DnaCoder.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Histogram.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Histogram.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Histogram.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 41%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/OptionsParser.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/OptionsParser.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/OptionsParser.cpp [ 41%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Progress.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Progress.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp: In member function ‘virtual void gatb::core::tools::misc::impl::ProgressTimerAndSystem::fillBuffer(double)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:353:5: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 5 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] ); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:353:5: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 6 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:353:5: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] [ 42%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Property.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Property.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp [ 42%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/TimeInfo.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/TimeInfo.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/TimeInfo.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp: In member function ‘virtual void gatb::core::tools::misc::impl::Properties::setInt(const string&, const int64_t&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp:438:51: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 4 has type ‘int64_t {aka long long int}’ [-Wformat=] snprintf (buffer, sizeof(buffer), "%ld", value); ~~~~~^ [ 42%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tokenizer.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tokenizer.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Tokenizer.cpp [ 43%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tool.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tool.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Tool.cpp In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/MemoryCommon.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/System.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::NativeInt8]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::NativeInt8]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 43%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/XmlReader.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/XmlReader.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/XmlReader.cpp [ 44%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/HeaderCoder.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/compression/HeaderCoder.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/Storage.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/Storage.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/StorageTools.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/StorageTools.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageTools.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 45%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp [ 46%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:13:17: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:13:17: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 46%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp [ 46%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/Leon.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/compression/Leon.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:13:17: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::createBloom()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:323:47: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Abundance threshold"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:328:49: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Abundance threshold"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::executeCompression()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:404:43: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Input format: FastQ"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:410:66: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Quality compression: LOSSLESS mode"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:412:106: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Quality compression: lossy mode (use '-lossless' for lossless compression)"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:422:43: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Input format: FastA"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:429:123: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add (0, "Input format: unknown. Input extension must be one among fasta (.fa, .fasta) or fastq (.fq, .fastq)"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::endCompression()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:727:40: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add(0, "End compression"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::endHeaderCompression()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:883:44: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add(0, "End Header compression"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::endDnaCompression()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:970:47: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add(0, "End Sequence compression"); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp: In member function ‘void Leon::executeDecompression()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:1429:38: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] getInfo()->add(0, "Decompression"); ^ [ 47%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp [ 47%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:13:17: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 48%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:3:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:372:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:374:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:389:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:391:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:747:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, bool) [with unsigned int SPAN = 128; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:28:9: required from here /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size()*42*8, 100*(float)(_final_hash.size()*42*8)/totalsize, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size() ); ~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:3:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:372:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:374:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:389:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:391:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:747:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, bool) [with unsigned int SPAN = 32; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:28:9: required from here /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size()*42*8, 100*(float)(_final_hash.size()*42*8)/totalsize, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size() ); ~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] [ 48%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:3:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:372:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:374:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:389:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:391:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:747:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, bool) [with unsigned int SPAN = 64; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:28:9: required from here /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size()*42*8, 100*(float)(_final_hash.size()*42*8)/totalsize, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size() ); ~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/MemoryCommon.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/impl/System.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::NativeInt8]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::NativeInt8]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 50%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/RangeCoder.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/compression/RangeCoder.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/RangeCoder.cpp [ 50%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Command.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Command.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Command.cpp [ 50%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Observer.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Observer.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Observer.cpp [ 51%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Algorithm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Algorithm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.cpp [ 51%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Histogram.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Histogram.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Histogram.cpp In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Stringify.hpp:41, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/CollectionAbstract.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:40, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<32>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<32>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Stringify.hpp:41, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/CollectionAbstract.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:40, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 52%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/OptionsParser.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/OptionsParser.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/OptionsParser.cpp In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Stringify.hpp:41, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/CollectionAbstract.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:40, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 52%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Progress.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Progress.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp [ 52%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp: In member function ‘virtual void gatb::core::tools::misc::impl::ProgressTimerAndSystem::fillBuffer(double)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:353:5: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 5 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] ); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:353:5: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 6 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp:353:5: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] [ 53%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp [ 53%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Property.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Property.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp: In member function ‘virtual void gatb::core::tools::misc::impl::Properties::setInt(const string&, const int64_t&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp:438:51: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 4 has type ‘int64_t {aka long long int}’ [-Wformat=] snprintf (buffer, sizeof(buffer), "%ld", value); ~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 53%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:3:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:372:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:374:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:389:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:391:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 128]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:747:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, bool) [with unsigned int SPAN = 96; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:28:9: required from here /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size()*42*8, 100*(float)(_final_hash.size()*42*8)/totalsize, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size() ); ~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 128; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<128>::SuperKmer]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 54%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/TimeInfo.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/TimeInfo.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/TimeInfo.cpp In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 32]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 32; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<>::SuperKmer]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 54%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tokenizer.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tokenizer.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Tokenizer.cpp [ 55%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tool.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tool.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Tool.cpp [ 55%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/XmlReader.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/XmlReader.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/XmlReader.cpp [ 55%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/Storage.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/Storage.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp [ 56%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/StorageTools.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/StorageTools.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageTools.cpp [ 56%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:13:17: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Stringify.hpp:41, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/CollectionAbstract.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:40, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::LargeInt<1>]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::LargeInt<1>]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 57%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp [ 58%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp [ 58%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:13:17: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 64]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 64; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<64>::SuperKmer]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 58%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 96]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 96; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<96>::SuperKmer]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 58%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:13:17: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 59%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:13:17: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 59%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp [ 59%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::LargeInt<2>]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::LargeInt<2>]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:3:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:372:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:374:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:389:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:391:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:747:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, bool) [with unsigned int SPAN = 128; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:28:9: required from here /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size()*42*8, 100*(float)(_final_hash.size()*42*8)/totalsize, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size() ); ~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:3:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:372:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:374:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:389:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:391:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:747:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, bool) [with unsigned int SPAN = 32; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:28:9: required from here /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size()*42*8, 100*(float)(_final_hash.size()*42*8)/totalsize, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size() ); ~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] [ 60%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp [ 61%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:3:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:372:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:374:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:389:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:391:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:747:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, bool) [with unsigned int SPAN = 64; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:28:9: required from here /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size()*42*8, 100*(float)(_final_hash.size()*42*8)/totalsize, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size() ); ~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Stringify.hpp:41, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/CollectionAbstract.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:40, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Stringify.hpp:41, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/CollectionAbstract.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:40, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<32>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<32>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 61%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Stringify.hpp:41, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/CollectionAbstract.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:40, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 62%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp [ 62%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 128; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:13:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:310:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 62%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp [ 63%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:3:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:372:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:374:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:389:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:391:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long long unsigned int]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:747:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, bool) [with unsigned int SPAN = 96; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:28:9: required from here /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] printf("final hash %12lu bits (%.2f %%) (nb in final hash %lu)\n", ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size()*42*8, 100*(float)(_final_hash.size()*42*8)/totalsize, ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ _final_hash.size() ); ~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:841:10: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 4 has type ‘std::unordered_map, std::equal_to, std::allocator > >::size_type {aka unsigned int}’ [-Wformat=] In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 128]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 128; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<128>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 128]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 128; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<128>::SuperKmer]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 32; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:13:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:310:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 64%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 64; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:13:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:310:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 64%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 96; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:13:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:310:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 65%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:7: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Stringify.hpp:41, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/CollectionAbstract.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:40, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 65%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:7: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 66%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:7: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 32]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 32; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<32>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 32]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 32; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<>::SuperKmer]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::LargeInt<1>]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::LargeInt<1>]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 64]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 64; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<64>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 64]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 64; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<64>::SuperKmer]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::LargeInt<2>]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::LargeInt<2>]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 66%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 66%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:7: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type {aka unsigned int}’ [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:18:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set > >, std::less > > >, std::allocator > > > >::size_type {aka unsigned int}’ [-Wformat=] [ 67%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp [ 68%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with unsigned int span = 96]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:29:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSoliditySum<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "kmers"); ~~~~~~~~~~~^~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityAll<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityCustom<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityOne<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityMax<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorSolidityAbstract::getProperties() const [with unsigned int span = 96; Derived = gatb::core::kmer::impl::CountProcessorSolidityMin<96>]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorSolidity.hpp:153:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:28:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorDump::getProperties() const [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorDump.hpp:172:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "partitions"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘gatb::core::tools::misc::impl::Properties gatb::core::kmer::impl::CountProcessorHistogram::getProperties() const [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] result.add (0, "histogram"); ~~~~~~~~~~~^~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with unsigned int span = 96]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with unsigned int span = 96; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<96>::SuperKmer]’ /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:18:7: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison between signed and unsigned integer expressions [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type {aka unsigned int}’ [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:18:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set > >, std::less > > >, std::allocator > > > >::size_type {aka unsigned int}’ [-Wformat=] [ 68%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type {aka unsigned int}’ [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:18:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set > >, std::less > > >, std::allocator > > > >::size_type {aka unsigned int}’ [-Wformat=] [ 69%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type {aka unsigned int}’ [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:18:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set > >, std::less > > >, std::allocator > > > >::size_type {aka unsigned int}’ [-Wformat=] [ 69%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 69%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::tools::math::NativeInt64]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 69%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 70%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp [ 70%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp [ 71%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 71%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 72%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp [ 72%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 128; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:13:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:310:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 72%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp [ 73%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 32; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:13:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:310:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 64; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:13:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:310:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 75%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp [ 75%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:3: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with unsigned int span = 96; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:13:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:310:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 75%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:7: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 76%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:7: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 76%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:3: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 76%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp [ 76%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:3: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:7: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 77%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:3: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 78%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:7: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 78%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type {aka unsigned int}’ [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:18:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set > >, std::less > > >, std::allocator > > > >::size_type {aka unsigned int}’ [-Wformat=] [ 78%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_128.cpp [ 79%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_32.cpp [ 79%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_64.cpp [ 79%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_96.cpp [ 80%] Linking CXX shared library ../lib/None/libgatbcore.so cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/gatbcore-dynamic.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgatbcore.so.0 -o ../lib/None/libgatbcore.so.0 CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/Bank.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankAlbum.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankBinary.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankFasta.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankHelpers.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankRandom.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankSplitter.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bcalm_algo.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bglue_algo.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/logging.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/ograph.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Frontline.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Graph.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/LinkTigs.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Simplifications.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Terminator.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Traversal.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomBuilder.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Configuration.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/LinearCounter.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Model.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ModelData.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartiInfo.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartitionsCommand.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o 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CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Algorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Histogram.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/OptionsParser.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Progress.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Property.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/TimeInfo.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tokenizer.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tool.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/XmlReader.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/Storage.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/StorageTools.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o [ 81%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type {aka unsigned int}’ [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:18:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set > >, std::less > > >, std::allocator > > > >::size_type {aka unsigned int}’ [-Wformat=] cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library ../lib/None/libgatbcore.so.0 ../lib/None/libgatbcore.so.0 ../lib/None/libgatbcore.so make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' [ 81%] Built target gatbcore-dynamic [ 81%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type {aka unsigned int}’ [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:18:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set > >, std::less > > >, std::allocator > > > >::size_type {aka unsigned int}’ [-Wformat=] In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 81%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2:0: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >; Edge = gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >; Graph = gatb::core::debruijn::impl::GraphTemplate, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > >, gatb::core::debruijn::impl::Edge_t, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, boost::variant, gatb::core::debruijn::impl::GraphData<32>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<64>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<96>, boost::mpl::l_item, gatb::core::debruijn::impl::GraphData<128>, boost::mpl::l_end> > > > > > >]’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:852:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > >, std::less, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > >, std::allocator, mpl_::int_<64>, mpl_::int_<96>, mpl_::int_<128> > > > > > >::size_type {aka unsigned int}’ [-Wformat=] if (debug) printf("%lu-bubble mean %d, stdev %.1f\n",consensuses.size(),mean,stdev); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp: In instantiation of ‘bool gatb::core::debruijn::impl::MonumentTraversalTemplate::validate_consensuses(std::set >&, gatb::core::debruijn::impl::Path_t&) [with Node = gatb::core::debruijn::impl::Node_t >; Edge = gatb::core::debruijn::impl::Edge_t > >; Graph = gatb::core::debruijn::impl::GraphTemplate >, gatb::core::debruijn::impl::Edge_t > >, boost::variant > >]’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:18:16: required from here /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:714:22: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::set > >, std::less > > >, std::allocator > > > >::size_type {aka unsigned int}’ [-Wformat=] [ 82%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 82%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 83%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/designpattern/api/ICommand.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 83%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:32:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 83%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:3: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 84%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:3: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 84%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:3: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ In file included from /usr/include/string.h:494:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/Exception.hpp:34, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/system/api/IThread.hpp:31, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:35, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ In function ‘void* memcpy(void*, const void*, size_t)’, inlined from ‘bool gatb::core::tools::collections::impl::IteratorCountCompressedFile::readChunkIfNeeded(size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:461:20, inlined from ‘void gatb::core::tools::collections::impl::IteratorCountCompressedFile::next() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ at /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/IteratorFile.hpp:412:36: /usr/include/i386-linux-gnu/bits/string_fortified.h:34:71: warning: ‘void* __builtin_memcpy(void*, const void*, unsigned int)’: specified size between 2147483648 and 4294967295 exceeds maximum object size 2147483647 [-Wstringop-overflow=] return __builtin___memcpy_chk (__dest, __src, __len, __bos0 (__dest)); ^ [ 85%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:31:0, from /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:3: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp: In static member function ‘static gatb::core::tools::misc::IProperties& gatb::core::tools::misc::impl::HostInfo::getInfo()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/misc/impl/HostInfo.hpp:60:34: warning: ISO C++ forbids converting a string constant to ‘va_list {aka char*}’ [-Wwrite-strings] props->add (0, "host"); ^ [ 85%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_128.cpp [ 85%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_32.cpp [ 86%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_64.cpp [ 86%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o -c /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_96.cpp [ 87%] Linking CXX static library ../lib/None/libgatbcore.a cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/gatbcore-static.dir/cmake_clean_target.cmake cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src && /usr/bin/cmake -E cmake_link_script CMakeFiles/gatbcore-static.dir/link.txt --verbose=1 /usr/bin/ar qc ../lib/None/libgatbcore.a CMakeFiles/gatbcore-static.dir/gatb/bank/impl/Bank.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankAlbum.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankBinary.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankFasta.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankHelpers.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankRandom.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankSplitter.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bcalm_algo.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bglue_algo.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/logging.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/ograph.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Frontline.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Graph.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/LinkTigs.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Simplifications.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Terminator.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Traversal.cpp.o 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'/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' Scanning dependencies of target dbgh5 [ 87%] Building CXX object tools/CMakeFiles/leon.dir/leon.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/leon.dir/leon.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/tools/leon.cpp make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/build Scanning dependencies of target dbginfo make[3]: 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-Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/dbginfo.dir/dbginfo.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/tools/dbginfo.cpp make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' [ 88%] Building CXX object tools/CMakeFiles/dbgh5.dir/dbgh5.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/dbgh5.dir/dbgh5.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/tools/dbgh5.cpp [ 89%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bank/TestBank.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/bank/TestBank.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp: In member function ‘void gatb::tests::TestBank::bank_checkSample1_aux(const string&, gatb::core::bank::impl::BankFasta::Iterator::CommentMode_e)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp:118:118: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 4 has type ‘size_t {aka unsigned int}’ [-Wformat=] snprintf (buffer, sizeof(buffer), "seq%ld%s", i+1, (mode == BankFasta::Iterator::FULL ? " generic" : "")); ~~~ ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp: In member function ‘void gatb::tests::TestBank::bank_checkSample2_aux(const string&)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp:187:64: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 4 has type ‘size_t {aka unsigned int}’ [-Wformat=] snprintf (buffer, sizeof(buffer), "seq%ld", nbSeq+1); ~~~~~~~^ /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp: In member function ‘void gatb::tests::TestBank::bank_perf1()’: /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp:681:9: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 2 has type ‘u_int64_t {aka long long unsigned int}’ [-Wformat=] ); ^ /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp:681:9: warning: format ‘%ld’ expects argument of type ‘long int’, but argument 3 has type ‘gatb::core::system::ITime::Value {aka long long unsigned int}’ [-Wformat=] In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/tools/dbginfo.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/tools/dbgh5.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/tools/leon.cpp:20: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+dfsg/gatb-core/tools/dbgh5.cpp: In function ‘void sendEmail(gatb::core::tools::misc::IProperties*, gatb::core::tools::misc::IProperties*)’: /<>/gatb-core-1.4.1+dfsg/gatb-core/tools/dbgh5.cpp:127:13: warning: ignoring return value of ‘int system(const char*)’, declared with attribute warn_unused_result [-Wunused-result] ::system (cmd.str().c_str()); ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 89%] Linking CXX executable ../bin/None/dbginfo cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/dbginfo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/dbginfo.dir/dbginfo.cpp.o -o ../bin/None/dbginfo -Wl,-rpath,/usr/lib/i386-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm [ 89%] Linking CXX executable ../bin/None/dbgh5 cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/dbgh5.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/dbgh5.dir/dbgh5.cpp.o -o ../bin/None/dbgh5 -Wl,-rpath,/usr/lib/i386-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm [ 90%] Linking CXX executable ../bin/None/leon cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/tools && /usr/bin/cmake -E cmake_link_script CMakeFiles/leon.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/leon.dir/leon.cpp.o -o ../bin/None/leon -Wl,-rpath,/usr/lib/i386-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/i386-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' [ 90%] Built target leon [ 90%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bank/TestLeon.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/bank/TestLeon.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bank/TestLeon.cpp make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' [ 90%] Built target dbginfo [ 90%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bcalm/TestBcalm.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/bcalm/TestBcalm.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bcalm/TestBcalm.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/bank/TestLeon.cpp:32: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' [ 90%] Built target dbgh5 [ 91%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijn.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijn.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijn.cpp [ 91%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijnUnitigs.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijnUnitigs.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijnUnitigs.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijn.cpp:33: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 92%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplifications.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplifications.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/debruijn/TestSimplifications.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijnUnitigs.cpp:33: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 92%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplificationsUnitigs.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplificationsUnitigs.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/debruijn/TestSimplificationsUnitigs.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/debruijn/TestSimplifications.cpp:33: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/debruijn/TestSimplificationsUnitigs.cpp:33: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 93%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDSK.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDSK.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/kmer/TestDSK.cpp [ 93%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDebloom.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDebloom.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp [ 93%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmer.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmer.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/kmer/TestKmer.cpp [ 94%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmerBank.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmerBank.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/kmer/TestKmerBank.cpp [ 94%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestMPHF.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestMPHF.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/kmer/TestMPHF.cpp [ 95%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/main.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/main.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/main.cpp [ 95%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/system/TestSystem.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/system/TestSystem.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/system/TestSystem.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/kmer/TestMPHF.cpp:27: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 95%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestBag.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestBag.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/tools/collections/TestBag.cpp [ 96%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestCollection.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestCollection.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/tools/collections/TestCollection.cpp [ 96%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestContainer.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestContainer.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/tools/collections/TestContainer.cpp [ 97%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestIterable.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestIterable.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/tools/collections/TestIterable.cpp [ 97%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestMap.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestMap.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/tools/collections/TestMap.cpp In file included from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33:0, from /<>/gatb-core-1.4.1+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/tools/collections/TestMap.cpp:24: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None/BooPHF/BooPHF.h:545:51: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘std::vector::size_type {aka unsigned int}’ [-Wformat=] printf("rank array : size %lu \n",_ranks.size()); ~~~~~~~~~~~~~^ [ 97%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/designpattern/TestIterators.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/designpattern/TestIterators.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/tools/designpattern/TestIterators.cpp [ 98%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/math/TestMath.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/math/TestMath.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/tools/math/TestMath.cpp [ 98%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/misc/TestMisc.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/misc/TestMisc.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/tools/misc/TestMisc.cpp [100%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/storage/TestStorage.cpp.o cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include -I/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/include/None -I/<>/gatb-core-1.4.1+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/tools/storage/TestStorage.cpp.o -c /<>/gatb-core-1.4.1+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp [100%] Linking CXX executable ../../bin/None/gatb-core-cppunit cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/test/unit && /usr/bin/cmake -E cmake_link_script CMakeFiles/gatb-core-cppunit.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/gatb-core-cppunit.dir/src/bank/TestBank.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/bank/TestLeon.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/bcalm/TestBcalm.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijn.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijnUnitigs.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplifications.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplificationsUnitigs.cpp.o 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'/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+dfsg/gatb-core /<>/gatb-core-1.4.1+dfsg/gatb-core/src /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/CMakeFiles/gatbcore-static.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+dfsg/gatb-core /<>/gatb-core-1.4.1+dfsg/gatb-core/src /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/src/CMakeFiles/gatbcore-dynamic.dir/DependInfo.cmake --color= cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different 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'/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[3]: Nothing to be done for 'src/CMakeFiles/gatbcore-static.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' [ 77%] Built target gatbcore-static [ 87%] Built target gatbcore-dynamic make -f test/unit/CMakeFiles/gatb-core-cppunit.dir/build.make test/unit/CMakeFiles/gatb-core-cppunit.dir/depend make -f tools/CMakeFiles/dbginfo.dir/build.make tools/CMakeFiles/dbginfo.dir/depend make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/depend make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/depend make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' cd /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+dfsg/gatb-core 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'/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/build make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/build make[3]: Nothing to be done for 'tools/CMakeFiles/dbginfo.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[3]: Nothing to be done for 'tools/CMakeFiles/dbgh5.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[3]: Nothing to be done for 'test/unit/CMakeFiles/gatb-core-cppunit.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[3]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[3]: Nothing to be done for 'tools/CMakeFiles/leon.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' [ 88%] Built target dbginfo [ 88%] Built target dbgh5 [ 98%] Built target gatb-core-cppunit [100%] Built target leon make[2]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/share/doc/gatb-core/examples -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/protos -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/protos/MicroSNP.cpp 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Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BankKmers.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessor.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Model.pri -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api/ISystemInfo.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api/IThread.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api/ITime.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api/ISmartPointer.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api/types.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api/config_sha1.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api/IMemory.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api/IFileSystem.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api/Exception.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/impl -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/impl/TimeCommon.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/impl/System.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/impl/ThreadLinux.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/impl/FileSystemCommon.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/impl/MemoryCommon.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/impl/FileSystemMacos.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/impl/ThreadMacos.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/impl/SystemInfoCommon.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/impl/FileSystemLinux.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/api -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Collection.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Iterable.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Bag.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Container.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BagCache.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/MapMPHF.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BloomGroup.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BagPartition.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/IteratorFile.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/Hash16.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BagFile.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/CollectionAbstract.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/OAHash.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/ContainerSet.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/CollectionCache.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BooPHF.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/IterableHelpers.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/Bloom.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/designpattern -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/Iterator.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/ICommand.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/IObserver.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/Observer.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/Command.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/IteratorHelpers.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Abundance.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Range.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/StringsRepository.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Data.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Enums.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IHistogram.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IOptionsParser.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Vector.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Macros.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IProperty.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Pool.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Algorithm.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Tool.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Tokenizer.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/OptionsParser.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Property.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/XmlReader.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/TimeInfo.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Stringify.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/LibraryInfo.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Progress.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/StringLine.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/HostInfo.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Histogram.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt64.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt1.pri -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt8.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math/FastMinimizer.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math/Integer.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt16.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt32.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt128.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt2.pri -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/compression -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/compression/CompressionUtils.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/compression/DnaCoder.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/compression/Leon.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/compression/RangeCoder.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/compression/HeaderCoder.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/api -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/api/ICell.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionHDF5.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Storage.tpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageFile.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageHDF5.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageTools.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionFile.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Storage.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionHDF5Patch.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Cell.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/gatb_core.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/api -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/api/IContainerNode.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/ExtremityInfo.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/LinkTigs.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/NodesDeleter.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/rank_vector.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Terminator.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/dag_vector.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/BranchingAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Graph.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/GraphUnitigs.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Frontline.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Traversal.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/ContainerNode.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/UnitigsConstructionAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/IterativeExtensions.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Simplifications.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/gatb/system/api/config.hpp -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test/gatb-core-cppunit -- Set runtime path of "/<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test/gatb-core-cppunit" to "" -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/sample.fastq -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/album.txt -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/sample2.fa -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/sample1.fa.gz -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/reads1.fa.gz -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/reads1.fa -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/reads2.fa -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/leon2.fastq.leon-ref -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/README.md -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/reads3.fa.gz -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/microsnp.fa -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/celegans_reads.h5 -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/reads1_list_ids.txt -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/query.fa -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/leon1.fastq -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/query.fa.gz -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/sample1.fa -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/sample.fastq.gz -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/leon1.fastq.leon-ref -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/test//db/leon2.fastq -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/bin/dbgh5 -- Set runtime path of "/<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/bin/dbgh5" to "" -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/bin/dbginfo -- Set runtime path of "/<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/bin/dbginfo" to "" -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/bin/leon -- Set runtime path of "/<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/bin/leon" to "" -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/BooPHF -- Installing: /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/include/BooPHF/BooPHF.h make[1]: Leaving directory '/<>/gatb-core-1.4.1+dfsg/obj-i686-linux-gnu' debian/rules override_dh_install-arch make[1]: Entering directory '/<>/gatb-core-1.4.1+dfsg' dh_install -a d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --movedev debian/tmp/usr/include usr \ --movedev gatb-core/cmake usr/lib \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility set -e install -d -m 755 debian/libgatbcore-dev/usr/lib/i386-linux-gnu install -d -m 755 debian/libgatbcore0/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/libgatbcore.a debian/libgatbcore-dev/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/libgatbcore.so debian/libgatbcore-dev/usr/lib/i386-linux-gnu mv /<>/gatb-core-1.4.1+dfsg/debian/tmp/usr/lib/i386-linux-gnu/libgatbcore.so.0 debian/libgatbcore0/usr/lib/i386-linux-gnu PKGDEV=libgatbcore-dev PKGSHL=libgatbcore0 install -d -m 755 debian/libgatbcore-dev/usr mv debian/tmp/usr/include debian/libgatbcore-dev/usr install -d -m 755 debian/libgatbcore-dev/usr/lib/i386-linux-gnu mv gatb-core/cmake debian/libgatbcore-dev/usr/lib/i386-linux-gnu mkdir -p debian/gatb-core/usr/lib/gatb-core make[1]: Leaving directory '/<>/gatb-core-1.4.1+dfsg' dh_installdocs -a -O--sourcedirectory=gatb-core dh_installchangelogs -a -O--sourcedirectory=gatb-core dh_installexamples -a -O--sourcedirectory=gatb-core dh_installman -a -O--sourcedirectory=gatb-core dh_perl -a -O--sourcedirectory=gatb-core dh_link -a -O--sourcedirectory=gatb-core dh_strip_nondeterminism -a -O--sourcedirectory=gatb-core dh_compress -a -O--sourcedirectory=gatb-core dh_fixperms -a -O--sourcedirectory=gatb-core dh_missing -a -O--sourcedirectory=gatb-core dh_strip -a -O--sourcedirectory=gatb-core dh_makeshlibs -a -O--sourcedirectory=gatb-core dh_shlibdeps -a -O--sourcedirectory=gatb-core dpkg-shlibdeps: warning: symbol H5Dvlen_reclaim used by debian/libgatbcore0/usr/lib/i386-linux-gnu/libgatbcore.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Tcreate used by debian/libgatbcore0/usr/lib/i386-linux-gnu/libgatbcore.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol gzread used by debian/libgatbcore0/usr/lib/i386-linux-gnu/libgatbcore.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Dclose used by debian/libgatbcore0/usr/lib/i386-linux-gnu/libgatbcore.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol H5T_C_S1_g used by debian/libgatbcore0/usr/lib/i386-linux-gnu/libgatbcore.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol inflate used by debian/libgatbcore0/usr/lib/i386-linux-gnu/libgatbcore.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol gzwrite used by debian/libgatbcore0/usr/lib/i386-linux-gnu/libgatbcore.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Pclose used by debian/libgatbcore0/usr/lib/i386-linux-gnu/libgatbcore.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol gzrewind used by debian/libgatbcore0/usr/lib/i386-linux-gnu/libgatbcore.so.0 found in none of the libraries dpkg-shlibdeps: warning: symbol H5P_CLS_DATASET_CREATE_ID_g used by debian/libgatbcore0/usr/lib/i386-linux-gnu/libgatbcore.so.0 found in none of the libraries dpkg-shlibdeps: warning: 57 other similar warnings have been skipped (use -v to see them all) dh_installdeb -a -O--sourcedirectory=gatb-core dh_gencontrol -a -O--sourcedirectory=gatb-core dpkg-gencontrol: warning: Depends field of package libgatbcore-dev: unknown substitution variable ${shlibs:Depends} dh_md5sums -a -O--sourcedirectory=gatb-core dh_builddeb -a -O--sourcedirectory=gatb-core INFO: pkgstriptranslations version 139 INFO: pkgstriptranslations version 139 INFO: pkgstriptranslations version 139 pkgstriptranslations: processing libgatbcore-dev (in debian/libgatbcore-dev); do_strip: , oemstrip: pkgstriptranslations: processing gatb-core (in debian/gatb-core); do_strip: , oemstrip: pkgstriptranslations: processing libgatbcore0 (in debian/libgatbcore0); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/gatb-core/DEBIAN/control, package gatb-core, directory debian/gatb-core pkgstripfiles: processing control file: debian/libgatbcore0/DEBIAN/control, package libgatbcore0, directory debian/libgatbcore0 pkgstripfiles: Running PNG optimization (using 4 cpus) for package gatb-core ... pkgstripfiles: No PNG files. dpkg-deb: building package 'gatb-core' in '../gatb-core_1.4.1+dfsg-2_i386.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package libgatbcore0 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libgatbcore0' in '../libgatbcore0_1.4.1+dfsg-2_i386.deb'. pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libgatbcore-dev/DEBIAN/control, package libgatbcore-dev, directory debian/libgatbcore-dev Searching for duplicated docs in dependency libgatbcore0... symlinking changelog.Debian.gz in libgatbcore-dev to file in libgatbcore0 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libgatbcore-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libgatbcore-dev' in '../libgatbcore-dev_1.4.1+dfsg-2_i386.deb'. INFO: pkgstriptranslations version 139 pkgstriptranslations: processing libgatbcore0-dbgsym (in debian/.debhelper/libgatbcore0/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/libgatbcore0/dbgsym-root/DEBIAN/control, package libgatbcore0-dbgsym, directory debian/.debhelper/libgatbcore0/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package libgatbcore0-dbgsym ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libgatbcore0-dbgsym' in 'debian/.debhelper/scratch-space/build-libgatbcore0/libgatbcore0-dbgsym_1.4.1+dfsg-2_i386.deb'. INFO: pkgstriptranslations version 139 pkgstriptranslations: processing gatb-core-dbgsym (in debian/.debhelper/gatb-core/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/gatb-core/dbgsym-root/DEBIAN/control, package gatb-core-dbgsym, directory debian/.debhelper/gatb-core/dbgsym-root pkgstripfiles: Running PNG optimization (using 4 cpus) for package gatb-core-dbgsym ... pkgstripfiles: No PNG files. dpkg-deb: building package 'gatb-core-dbgsym' in 'debian/.debhelper/scratch-space/build-gatb-core/gatb-core-dbgsym_1.4.1+dfsg-2_i386.deb'. Renaming libgatbcore0-dbgsym_1.4.1+dfsg-2_i386.deb to libgatbcore0-dbgsym_1.4.1+dfsg-2_i386.ddeb Renaming gatb-core-dbgsym_1.4.1+dfsg-2_i386.deb to gatb-core-dbgsym_1.4.1+dfsg-2_i386.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../gatb-core_1.4.1+dfsg-2_i386.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build gatb-core-1.4.1+dfsg dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20180707-2339 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ gatb-core_1.4.1+dfsg-2_i386.changes: ------------------------------------ Format: 1.8 Date: Fri, 06 Jul 2018 12:01:54 +0200 Source: gatb-core Binary: gatb-core libgatbcore0 libgatbcore-dev gatb-core-testdata Architecture: i386 Version: 1.4.1+dfsg-2 Distribution: cosmic-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: gatb-core - Genome Analysis Toolbox with de-Bruijn graph gatb-core-testdata - Genome Analysis Toolbox with de-Bruijn graph (test data) libgatbcore-dev - development library of the Genome Analysis Toolbox libgatbcore0 - dynamic library of the Genome Analysis Toolbox Closes: 902161 Changes: gatb-core (1.4.1+dfsg-2) unstable; urgency=medium . * Install cmake files * Fix binary only build Closes: #902161 Checksums-Sha1: af2bcf0945b59a856dd488de1de6300443a5764a 39524516 gatb-core-dbgsym_1.4.1+dfsg-2_i386.ddeb 143569dab1f9bd9eb75a6f2b6ef2a6a87fc5a571 9768 gatb-core_1.4.1+dfsg-2_i386.buildinfo 61ca180990c187b7fd8029271a4ee9e9c7a46422 1916460 gatb-core_1.4.1+dfsg-2_i386.deb f9d8f1dec67f150be58e495a10fbea5f326515fe 4086768 libgatbcore-dev_1.4.1+dfsg-2_i386.deb db8a353cf6c269c9b372cd54461c88b3d1740394 38299280 libgatbcore0-dbgsym_1.4.1+dfsg-2_i386.ddeb c9c5898b8797285804e543b187ca9c0032c6f516 1842128 libgatbcore0_1.4.1+dfsg-2_i386.deb Checksums-Sha256: 9cde5954d670c95caa5939de7d24fea218363ffe811a66bf5b37ec0957450d46 39524516 gatb-core-dbgsym_1.4.1+dfsg-2_i386.ddeb 9095a438a009926bef07331e2bb2ca49df472b5003899e2c32f6c5c845c9724f 9768 gatb-core_1.4.1+dfsg-2_i386.buildinfo 6de2ed016b682377a18061341b8867998320bdfe4b2b48abc06ea55c35c9e368 1916460 gatb-core_1.4.1+dfsg-2_i386.deb 52f42cdb92011ce4d421e852fffca11d02d3a09330fb4b27e1ec6c72ba1b7843 4086768 libgatbcore-dev_1.4.1+dfsg-2_i386.deb bdff926f0c76e54138f0f218ba052467acc8d3afcb4fb4116132cffafd098324 38299280 libgatbcore0-dbgsym_1.4.1+dfsg-2_i386.ddeb 444a44a0d121193416b8de1c0238ce58cdd214a9c7533124528ebbff4256c3ba 1842128 libgatbcore0_1.4.1+dfsg-2_i386.deb Files: 5d32420d15471795cb1df19b0eb1230e 39524516 debug optional gatb-core-dbgsym_1.4.1+dfsg-2_i386.ddeb e060b09a1ee6d8c712a18c668396a818 9768 science optional gatb-core_1.4.1+dfsg-2_i386.buildinfo 0ec5f92b689c722ca8e1cfd5b679f149 1916460 science optional gatb-core_1.4.1+dfsg-2_i386.deb 0c5934ea733c86d48e4bf4da2f343a01 4086768 libdevel optional libgatbcore-dev_1.4.1+dfsg-2_i386.deb 07c2f544d5c5126b9ec5ca217d2174af 38299280 debug optional libgatbcore0-dbgsym_1.4.1+dfsg-2_i386.ddeb 05479b2c7464074c6d76da092571a4fb 1842128 libs optional libgatbcore0_1.4.1+dfsg-2_i386.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ gatb-core_1.4.1+dfsg-2_i386.deb ------------------------------- new debian package, version 2.0. size 1916460 bytes: control archive=1212 bytes. 1097 bytes, 22 lines control 553 bytes, 9 lines md5sums Package: gatb-core Version: 1.4.1+dfsg-2 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 14852 Depends: libc6 (>= 2.27), libgcc1 (>= 1:4.2), libhdf5-100, libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4) Section: science Priority: optional Homepage: https://github.com/GATB/gatb-core Description: Genome Analysis Toolbox with de-Bruijn graph The GATB-CORE project provides a set of highly efficient algorithms to analyse NGS data sets. These methods enable the analysis of data sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any kind of organisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). Read more about GATB at https://gatb.inria.fr/. By itself GATB-CORE is not an NGS data analysis tool. However, it can be used to create such tools. There already exist a set of ready-to-use tools relying on GATB-CORE library: see https://gatb.inria.fr/software/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/bin/ -rwxr-xr-x root/root 6661876 2018-07-06 10:01 ./usr/bin/dbgh5 -rwxr-xr-x root/root 6653676 2018-07-06 10:01 ./usr/bin/dbginfo -rwxr-xr-x root/root 1836664 2018-07-06 10:01 ./usr/bin/leon drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/lib/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/lib/gatb-core/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/share/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/share/doc/gatb-core/ -rw-r--r-- root/root 3802 2017-12-14 05:52 ./usr/share/doc/gatb-core/README.txt -rw-r--r-- root/root 232 2018-07-06 10:01 ./usr/share/doc/gatb-core/changelog.Debian.gz -rw-r--r-- root/root 34732 2018-07-06 10:01 ./usr/share/doc/gatb-core/copyright drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/share/man/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/share/man/man1/ -rw-r--r-- root/root 1391 2018-07-06 10:01 ./usr/share/man/man1/dbgh5.1.gz -rw-r--r-- root/root 300 2018-07-06 10:01 ./usr/share/man/man1/dbginfo.1.gz -rw-r--r-- root/root 652 2018-07-06 10:01 ./usr/share/man/man1/leon.1.gz libgatbcore-dev_1.4.1+dfsg-2_i386.deb ------------------------------------- new debian package, version 2.0. size 4086768 bytes: control archive=7852 bytes. 1160 bytes, 26 lines control 23947 bytes, 280 lines md5sums Package: libgatbcore-dev Source: gatb-core Version: 1.4.1+dfsg-2 Architecture: i386 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 59648 Depends: libgatbcore0 (= 1.4.1+dfsg-2) Section: libdevel Priority: optional Homepage: https://github.com/GATB/gatb-core Description: development library of the Genome Analysis Toolbox The GATB-CORE project provides a set of highly efficient algorithms to analyse NGS data sets. These methods enable the analysis of data sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any kind of organisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). Read more about GATB at https://gatb.inria.fr/. By itself GATB-CORE is not an NGS data analysis tool. However, it can be used to create such tools. There already exist a set of ready-to-use tools relying on GATB-CORE library: see https://gatb.inria.fr/software/ . This package contains the static library and the header files of the gatb-core library. drwxr-xr-x root/root 0 2018-07-06 10:01 ./ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/include/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/include/BooPHF/ -rw-r--r-- root/root 33854 2018-07-06 10:01 ./usr/include/BooPHF/BooPHF.h drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/include/gatb/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/include/gatb/bank/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/include/gatb/bank/api/ -rw-r--r-- root/root 2480 2017-12-14 05:52 ./usr/include/gatb/bank/api/IAlphabet.hpp -rw-r--r-- root/root 7380 2017-12-14 05:52 ./usr/include/gatb/bank/api/IBank.hpp -rw-r--r-- root/root 10441 2017-12-14 05:52 ./usr/include/gatb/bank/api/Sequence.hpp drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/include/gatb/bank/impl/ -rw-r--r-- root/root 3464 2017-12-14 05:52 ./usr/include/gatb/bank/impl/AbstractBank.hpp -rw-r--r-- root/root 2453 2017-12-14 05:52 ./usr/include/gatb/bank/impl/Alphabet.hpp -rw-r--r-- root/root 6527 2017-12-14 05:52 ./usr/include/gatb/bank/impl/Bank.hpp -rw-r--r-- root/root 4914 2017-12-14 05:52 ./usr/include/gatb/bank/impl/BankAlbum.hpp -rw-r--r-- root/root 6611 2017-12-14 05:52 ./usr/include/gatb/bank/impl/BankBinary.hpp -rw-r--r-- root/root 6467 2017-12-14 05:52 ./usr/include/gatb/bank/impl/BankComposite.hpp -rw-r--r-- root/root 3833 2017-12-14 05:52 ./usr/include/gatb/bank/impl/BankConverterAlgorithm.hpp -rw-r--r-- root/root 8647 2017-12-14 05:52 ./usr/include/gatb/bank/impl/BankFasta.hpp -rw-r--r-- root/root 7447 2017-12-14 05:52 ./usr/include/gatb/bank/impl/BankHelpers.hpp -rw-r--r-- root/root 3917 2017-12-14 05:52 ./usr/include/gatb/bank/impl/BankRandom.hpp -rw-r--r-- root/root 5133 2017-12-14 05:52 ./usr/include/gatb/bank/impl/BankSplitter.hpp -rw-r--r-- root/root 4749 2017-12-14 05:52 ./usr/include/gatb/bank/impl/BankStrings.hpp -rw-r--r-- root/root 1434 2017-12-14 05:52 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These methods enable the analysis of data sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any kind of organisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). Read more about GATB at https://gatb.inria.fr/. By itself GATB-CORE is not an NGS data analysis tool. However, it can be used to create such tools. There already exist a set of ready-to-use tools relying on GATB-CORE library: see https://gatb.inria.fr/software/ . This package contains the dynamic library. drwxr-xr-x root/root 0 2018-07-06 10:01 ./ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/lib/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/lib/i386-linux-gnu/ -rw-r--r-- root/root 10012304 2018-07-06 10:01 ./usr/lib/i386-linux-gnu/libgatbcore.so.0 drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/share/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/share/doc/ drwxr-xr-x root/root 0 2018-07-06 10:01 ./usr/share/doc/libgatbcore0/ -rw-r--r-- root/root 232 2018-07-06 10:01 ./usr/share/doc/libgatbcore0/changelog.Debian.gz -rw-r--r-- root/root 34732 2018-07-06 10:01 ./usr/share/doc/libgatbcore0/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: i386 Build-Space: 1869832 Build-Time: 864 Distribution: cosmic-proposed Host Architecture: i386 Install-Time: 30 Job: gatb-core_1.4.1+dfsg-2.dsc Machine Architecture: amd64 Package: gatb-core Package-Time: 894 Source-Version: 1.4.1+dfsg-2 Space: 1869832 Status: successful Version: 1.4.1+dfsg-2 -------------------------------------------------------------------------------- Finished at 20180707-2339 Build needed 00:14:54, 1869832k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=cosmic --arch=i386 PACKAGEBUILD-15096087 Scanning for processes to kill in build PACKAGEBUILD-15096087