https://launchpad.net/ubuntu/+archive/test-rebuild-20191220-focal/+build/18296107 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lgw01-amd64-001 4.4.0-170-generic #199-Ubuntu SMP Thu Nov 14 01:45:04 UTC 2019 x86_64 Buildd toolchain package versions: launchpad-buildd_183 python-lpbuildd_183 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_0.3.6~git201906051340.ff11471~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.7 dpkg-dev_1.18.4ubuntu1.6 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 5 Jan 12:22:39 ntpdate[1939]: adjust time server 10.211.37.1 offset -0.000402 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-18296107 --image-type chroot /home/buildd/filecache-default/e96c25c651525abc9f0cabeb95ea71010abf4ecb Creating target for build PACKAGEBUILD-18296107 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-18296107 Starting target for build PACKAGEBUILD-18296107 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-18296107 'deb http://ftpmaster.internal/ubuntu focal main restricted universe multiverse' Overriding sources.list in build-PACKAGEBUILD-18296107 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-18296107 Updating target for build PACKAGEBUILD-18296107 Get:1 http://ftpmaster.internal/ubuntu focal InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu focal/main amd64 Packages [966 kB] Get:3 http://ftpmaster.internal/ubuntu focal/main Translation-en [499 kB] Get:4 http://ftpmaster.internal/ubuntu focal/restricted amd64 Packages [18.4 kB] Get:5 http://ftpmaster.internal/ubuntu focal/restricted Translation-en [5768 B] Get:6 http://ftpmaster.internal/ubuntu focal/universe amd64 Packages [8671 kB] Get:7 http://ftpmaster.internal/ubuntu focal/universe Translation-en [5195 kB] Get:8 http://ftpmaster.internal/ubuntu focal/multiverse amd64 Packages [152 kB] Get:9 http://ftpmaster.internal/ubuntu focal/multiverse Translation-en [110 kB] Fetched 15.9 MB in 3s (5908 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: libhogweed4 libisl21 libnettle6 libperl5.28 perl-modules-5.28 Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libhogweed5 libisl22 libnettle7 libperl5.30 perl-modules-5.30 The following packages will be upgraded: apt base-files base-passwd bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils bzip2 cpp-9 debianutils fdisk g++-9 gcc-9 gcc-9-base gpg gpg-agent gpgconf gpgv gzip hostname libacl1 libapparmor1 libapt-pkg5.90 libasan5 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcryptsetup12 libdebconfclient0 libdevmapper1.02.1 libfdisk1 libgcc-9-dev libgcc1 libgcrypt20 libgnutls30 libgomp1 libitm1 libjson-c4 libkmod2 liblockfile-bin liblockfile1 liblsan0 liblz4-1 libmount1 libncurses6 libncursesw6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre2-8-0 libquadmath0 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libsmartcols1 libsqlite3-0 libstdc++-9-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtsan0 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev lsb-base mount ncurses-base ncurses-bin perl perl-base sensible-utils systemd systemd-sysv sysvinit-utils util-linux 94 upgraded, 5 newly installed, 0 to remove and 0 not upgraded. Need to get 70.2 MB of archives. After this operation, 51.0 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu focal/main amd64 libc6-dev amd64 2.30-0ubuntu3 [2549 kB] Get:2 http://ftpmaster.internal/ubuntu focal/main amd64 libc-dev-bin amd64 2.30-0ubuntu3 [71.8 kB] Get:3 http://ftpmaster.internal/ubuntu focal/main amd64 linux-libc-dev amd64 5.3.0-24.26 [1096 kB] Get:4 http://ftpmaster.internal/ubuntu focal/main amd64 libisl22 amd64 0.22-2 [592 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main amd64 libcc1-0 amd64 9.2.1-21ubuntu1 [49.0 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main amd64 binutils-x86-64-linux-gnu amd64 2.33.1-6ubuntu3 [1639 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main amd64 libbinutils amd64 2.33.1-6ubuntu3 [474 kB] Get:8 http://ftpmaster.internal/ubuntu focal/main amd64 binutils-common amd64 2.33.1-6ubuntu3 [203 kB] Get:9 http://ftpmaster.internal/ubuntu focal/main amd64 binutils amd64 2.33.1-6ubuntu3 [3400 B] Get:10 http://ftpmaster.internal/ubuntu focal/main amd64 gcc-9-base amd64 9.2.1-21ubuntu1 [19.1 kB] Get:11 http://ftpmaster.internal/ubuntu focal/main amd64 libgcc1 amd64 1:9.2.1-21ubuntu1 [40.8 kB] Get:12 http://ftpmaster.internal/ubuntu focal/main amd64 libgomp1 amd64 9.2.1-21ubuntu1 [89.3 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main amd64 libitm1 amd64 9.2.1-21ubuntu1 [28.1 kB] Get:14 http://ftpmaster.internal/ubuntu focal/main amd64 libatomic1 amd64 9.2.1-21ubuntu1 [9236 B] Get:15 http://ftpmaster.internal/ubuntu focal/main amd64 libasan5 amd64 9.2.1-21ubuntu1 [395 kB] Get:16 http://ftpmaster.internal/ubuntu focal/main amd64 liblsan0 amd64 9.2.1-21ubuntu1 [139 kB] Get:17 http://ftpmaster.internal/ubuntu focal/main amd64 libtsan0 amd64 9.2.1-21ubuntu1 [301 kB] Get:18 http://ftpmaster.internal/ubuntu focal/main amd64 libubsan1 amd64 9.2.1-21ubuntu1 [130 kB] Get:19 http://ftpmaster.internal/ubuntu focal/main amd64 libquadmath0 amd64 9.2.1-21ubuntu1 [146 kB] Get:20 http://ftpmaster.internal/ubuntu focal/main amd64 g++-9 amd64 9.2.1-21ubuntu1 [11.0 MB] Get:21 http://ftpmaster.internal/ubuntu focal/main amd64 libstdc++-9-dev amd64 9.2.1-21ubuntu1 [1709 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main amd64 libgcc-9-dev amd64 9.2.1-21ubuntu1 [2362 kB] Get:23 http://ftpmaster.internal/ubuntu focal/main amd64 gcc-9 amd64 9.2.1-21ubuntu1 [10.4 MB] Get:24 http://ftpmaster.internal/ubuntu focal/main amd64 cpp-9 amd64 9.2.1-21ubuntu1 [9729 kB] Get:25 http://ftpmaster.internal/ubuntu focal/main amd64 libstdc++6 amd64 9.2.1-21ubuntu1 [512 kB] Get:26 http://ftpmaster.internal/ubuntu focal/main amd64 libc6 amd64 2.30-0ubuntu3 [2725 kB] Get:27 http://ftpmaster.internal/ubuntu focal/main amd64 base-files amd64 11ubuntu2 [60.1 kB] Get:28 http://ftpmaster.internal/ubuntu focal/main amd64 debianutils amd64 4.9.1 [85.8 kB] Get:29 http://ftpmaster.internal/ubuntu focal/main amd64 bash amd64 5.0-5ubuntu1 [639 kB] Get:30 http://ftpmaster.internal/ubuntu focal/main amd64 bsdutils amd64 1:2.34-0.1ubuntu4 [63.8 kB] Get:31 http://ftpmaster.internal/ubuntu focal/main amd64 gzip amd64 1.10-0ubuntu4 [95.3 kB] Get:32 http://ftpmaster.internal/ubuntu focal/main amd64 hostname amd64 3.23 [11.4 kB] Get:33 http://ftpmaster.internal/ubuntu focal/main amd64 ncurses-bin amd64 6.1+20191019-1ubuntu1 [172 kB] Get:34 http://ftpmaster.internal/ubuntu focal/main amd64 perl-modules-5.30 all 5.30.0-9 [2739 kB] Get:35 http://ftpmaster.internal/ubuntu focal/main amd64 libperl5.30 amd64 5.30.0-9 [3950 kB] Get:36 http://ftpmaster.internal/ubuntu focal/main amd64 perl amd64 5.30.0-9 [224 kB] Get:37 http://ftpmaster.internal/ubuntu focal/main amd64 perl-base amd64 5.30.0-9 [1511 kB] Get:38 http://ftpmaster.internal/ubuntu focal/main amd64 bzip2 amd64 1.0.8-2 [34.1 kB] Get:39 http://ftpmaster.internal/ubuntu focal/main amd64 libbz2-1.0 amd64 1.0.8-2 [32.3 kB] Get:40 http://ftpmaster.internal/ubuntu focal/main amd64 libblkid1 amd64 2.34-0.1ubuntu4 [137 kB] Get:41 http://ftpmaster.internal/ubuntu focal/main amd64 libuuid1 amd64 2.34-0.1ubuntu4 [20.5 kB] Get:42 http://ftpmaster.internal/ubuntu focal/main amd64 libfdisk1 amd64 2.34-0.1ubuntu4 [175 kB] Get:43 http://ftpmaster.internal/ubuntu focal/main amd64 libpcre2-8-0 amd64 10.34-7 [197 kB] Get:44 http://ftpmaster.internal/ubuntu focal/main amd64 libselinux1 amd64 3.0-1 [68.7 kB] Get:45 http://ftpmaster.internal/ubuntu focal/main amd64 libmount1 amd64 2.34-0.1ubuntu4 [149 kB] Get:46 http://ftpmaster.internal/ubuntu focal/main amd64 libncurses6 amd64 6.1+20191019-1ubuntu1 [101 kB] Get:47 http://ftpmaster.internal/ubuntu focal/main amd64 libtinfo6 amd64 6.1+20191019-1ubuntu1 [85.9 kB] Get:48 http://ftpmaster.internal/ubuntu focal/main amd64 libncursesw6 amd64 6.1+20191019-1ubuntu1 [132 kB] Get:49 http://ftpmaster.internal/ubuntu focal/main amd64 libsmartcols1 amd64 2.34-0.1ubuntu4 [101 kB] Get:50 http://ftpmaster.internal/ubuntu focal/main amd64 fdisk amd64 2.34-0.1ubuntu4 [120 kB] Get:51 http://ftpmaster.internal/ubuntu focal/main amd64 util-linux amd64 2.34-0.1ubuntu4 [1022 kB] Get:52 http://ftpmaster.internal/ubuntu focal/main amd64 libdebconfclient0 amd64 0.250ubuntu2 [6336 B] Get:53 http://ftpmaster.internal/ubuntu focal/main amd64 base-passwd amd64 3.5.47 [47.7 kB] Get:54 http://ftpmaster.internal/ubuntu focal/main amd64 libc-bin amd64 2.30-0ubuntu3 [625 kB] Get:55 http://ftpmaster.internal/ubuntu focal/main amd64 ncurses-base all 6.1+20191019-1ubuntu1 [17.9 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main amd64 lsb-base all 11.1.0ubuntu2 [12.1 kB] Get:57 http://ftpmaster.internal/ubuntu focal/main amd64 sysvinit-utils amd64 2.96-1ubuntu1 [20.8 kB] Get:58 http://ftpmaster.internal/ubuntu focal/main amd64 liblz4-1 amd64 1.9.2-2 [55.9 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main amd64 systemd-sysv amd64 244-3ubuntu1 [9368 B] Get:60 http://ftpmaster.internal/ubuntu focal/main amd64 libacl1 amd64 2.2.53-5ubuntu1 [18.7 kB] Get:61 http://ftpmaster.internal/ubuntu focal/main amd64 libapparmor1 amd64 2.13.3-7ubuntu1 [34.3 kB] Get:62 http://ftpmaster.internal/ubuntu focal/main amd64 libaudit-common all 1:2.8.5-2ubuntu5 [4076 B] Get:63 http://ftpmaster.internal/ubuntu focal/main amd64 libcap-ng0 amd64 0.7.9-2.1 [11.1 kB] Get:64 http://ftpmaster.internal/ubuntu focal/main amd64 libaudit1 amd64 1:2.8.5-2ubuntu5 [39.1 kB] Get:65 http://ftpmaster.internal/ubuntu focal/main amd64 libcap2 amd64 1:2.27-1 [14.1 kB] Get:66 http://ftpmaster.internal/ubuntu focal/main amd64 libudev1 amd64 244-3ubuntu1 [76.3 kB] Get:67 http://ftpmaster.internal/ubuntu focal/main amd64 libdevmapper1.02.1 amd64 2:1.02.155-2ubuntu7 [127 kB] Get:68 http://ftpmaster.internal/ubuntu focal/main amd64 libjson-c4 amd64 0.13.1+dfsg-6 [29.2 kB] Get:69 http://ftpmaster.internal/ubuntu focal/main amd64 libcryptsetup12 amd64 2:2.2.2-1ubuntu1 [182 kB] Get:70 http://ftpmaster.internal/ubuntu focal/main amd64 libnettle7 amd64 3.5.1+really3.5.1-2 [114 kB] Get:71 http://ftpmaster.internal/ubuntu focal/main amd64 libhogweed5 amd64 3.5.1+really3.5.1-2 [138 kB] Get:72 http://ftpmaster.internal/ubuntu focal/main amd64 libp11-kit0 amd64 0.23.18.1-2 [189 kB] Get:73 http://ftpmaster.internal/ubuntu focal/main amd64 libtasn1-6 amd64 4.15.0-2 [37.7 kB] Get:74 http://ftpmaster.internal/ubuntu focal/main amd64 libgnutls30 amd64 3.6.11.1-2 [793 kB] Get:75 http://ftpmaster.internal/ubuntu focal/main amd64 libkmod2 amd64 26-3ubuntu1 [42.9 kB] Get:76 http://ftpmaster.internal/ubuntu focal/main amd64 libpam0g amd64 1.3.1-5ubuntu4 [55.4 kB] Get:77 http://ftpmaster.internal/ubuntu focal/main amd64 libseccomp2 amd64 2.4.2-2ubuntu1 [39.4 kB] Get:78 http://ftpmaster.internal/ubuntu focal/main amd64 mount amd64 2.34-0.1ubuntu4 [115 kB] Get:79 http://ftpmaster.internal/ubuntu focal/main amd64 systemd amd64 244-3ubuntu1 [3677 kB] Get:80 http://ftpmaster.internal/ubuntu focal/main amd64 libsystemd0 amd64 244-3ubuntu1 [260 kB] Get:81 http://ftpmaster.internal/ubuntu focal/main amd64 libzstd1 amd64 1.4.4+dfsg-1 [237 kB] Get:82 http://ftpmaster.internal/ubuntu focal/main amd64 libapt-pkg5.90 amd64 1.9.5 [851 kB] Get:83 http://ftpmaster.internal/ubuntu focal/main amd64 libgcrypt20 amd64 1.8.5-3ubuntu1 [419 kB] Get:84 http://ftpmaster.internal/ubuntu focal/main amd64 gpgv amd64 2.2.17-3ubuntu1 [200 kB] Get:85 http://ftpmaster.internal/ubuntu focal/main amd64 apt amd64 1.9.5 [1281 kB] Get:86 http://ftpmaster.internal/ubuntu focal/main amd64 libpam-modules-bin amd64 1.3.1-5ubuntu4 [37.7 kB] Get:87 http://ftpmaster.internal/ubuntu focal/main amd64 libpam-modules amd64 1.3.1-5ubuntu4 [250 kB] Get:88 http://ftpmaster.internal/ubuntu focal/main amd64 libattr1 amd64 1:2.4.48-5 [12.7 kB] Get:89 http://ftpmaster.internal/ubuntu focal/main amd64 libpam-runtime all 1.3.1-5ubuntu4 [37.3 kB] Get:90 http://ftpmaster.internal/ubuntu focal/main amd64 libsepol1 amd64 3.0-1 [252 kB] Get:91 http://ftpmaster.internal/ubuntu focal/main amd64 libsemanage-common all 3.0-1 [9880 B] Get:92 http://ftpmaster.internal/ubuntu focal/main amd64 libsemanage1 amd64 3.0-1 [85.3 kB] Get:93 http://ftpmaster.internal/ubuntu focal/main amd64 sensible-utils all 0.0.12+nmu1 [15.0 kB] Get:94 http://ftpmaster.internal/ubuntu focal/main amd64 libsqlite3-0 amd64 3.30.1-1ubuntu1 [540 kB] Get:95 http://ftpmaster.internal/ubuntu focal/main amd64 gpg amd64 2.2.17-3ubuntu1 [479 kB] Get:96 http://ftpmaster.internal/ubuntu focal/main amd64 gpgconf amd64 2.2.17-3ubuntu1 [124 kB] Get:97 http://ftpmaster.internal/ubuntu focal/main amd64 gpg-agent amd64 2.2.17-3ubuntu1 [232 kB] Get:98 http://ftpmaster.internal/ubuntu focal/main amd64 liblockfile-bin amd64 1.16-1.1 [11.7 kB] Get:99 http://ftpmaster.internal/ubuntu focal/main amd64 liblockfile1 amd64 1.16-1.1 [6680 B] debconf: delaying package configuration, since apt-utils is not installed Fetched 70.2 MB in 4s (19.2 MB/s) (Reading database ... 12741 files and directories currently installed.) 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Setting up libtsan0:amd64 (9.2.1-21ubuntu1) ... Setting up gpg-agent (2.2.17-3ubuntu1) ... Installing new version of config file /etc/logcheck/ignore.d.server/gpg-agent ... Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket -> /usr/lib/systemd/user/gpg-agent-browser.socket. Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket -> /usr/lib/systemd/user/gpg-agent-extra.socket. Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket -> /usr/lib/systemd/user/gpg-agent-ssh.socket. Created symlink /etc/systemd/user/sockets.target.wants/gpg-agent.socket -> /usr/lib/systemd/user/gpg-agent.socket. Setting up binutils (2.33.1-6ubuntu3) ... Setting up libgcc-9-dev:amd64 (9.2.1-21ubuntu1) ... Setting up perl (5.30.0-9) ... Setting up cpp-9 (9.2.1-21ubuntu1) ... Setting up libc6-dev:amd64 (2.30-0ubuntu3) ... Setting up libcryptsetup12:amd64 (2:2.2.2-1ubuntu1) ... Setting up gcc-9 (9.2.1-21ubuntu1) ... Setting up libstdc++-9-dev:amd64 (9.2.1-21ubuntu1) ... Setting up systemd (244-3ubuntu1) ... Installing new version of config file /etc/dhcp/dhclient-enter-hooks.d/resolved ... Installing new version of config file /etc/systemd/networkd.conf ... Installing new version of config file /etc/systemd/system.conf ... Installing new version of config file /etc/systemd/user.conf ... Initializing machine ID from KVM UUID. Setting up g++-9 (9.2.1-21ubuntu1) ... Setting up systemd-sysv (244-3ubuntu1) ... Processing triggers for libc-bin (2.30-0ubuntu3) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-18296107 amd64 focal -c chroot:build-PACKAGEBUILD-18296107 --arch=amd64 --dist=focal --nolog -A gatb-core_1.4.1+git20190813.a73b6dd+dfsg-1.dsc Initiating build PACKAGEBUILD-18296107 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-170-generic #199-Ubuntu SMP Thu Nov 14 01:45:04 UTC 2019 x86_64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lgw01-amd64-001.buildd +==============================================================================+ | gatb-core 1.4.1+git20190813.a73b6dd+dfsg-1 (amd64) 05 Jan 2020 12:23 | +==============================================================================+ Package: gatb-core Version: 1.4.1+git20190813.a73b6dd+dfsg-1 Source Version: 1.4.1+git20190813.a73b6dd+dfsg-1 Distribution: focal Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/gatb-core-pvHOAR/gatb-core-1.4.1+git20190813.a73b6dd+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/gatb-core-pvHOAR' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-18296107/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- gatb-core_1.4.1+git20190813.a73b6dd+dfsg-1.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-FNgrWY/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-FNgrWY/apt_archive ./ InRelease Get:2 copy:/<>/resolver-FNgrWY/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-FNgrWY/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-FNgrWY/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-FNgrWY/apt_archive ./ Packages [526 B] Fetched 2859 B in 0s (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: libhogweed4 libisl21 libnettle6 libperl5.28 perl-modules-5.28 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-FNgrWY/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 ... 14652 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ... Setting up sbuild-build-depends-core-dummy (0.invalid.0) ... Merged Build-Depends: debhelper-compat (= 12), d-shlibs, cmake, libcppunit-dev, libhdf5-dev, libboost-dev, libjsoncpp-dev, doxygen, graphviz Filtered Build-Depends: debhelper-compat (= 12), 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-RWGoD1/apt_archive/sbuild-build-depends-gatb-core-dummy.deb'. Ign:1 copy:/<>/resolver-RWGoD1/apt_archive ./ InRelease Get:2 copy:/<>/resolver-RWGoD1/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-RWGoD1/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-RWGoD1/apt_archive ./ Sources [266 B] Get:5 copy:/<>/resolver-RWGoD1/apt_archive ./ Packages [588 B] Fetched 2973 B in 0s (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: libhogweed4 libisl21 libnettle6 libperl5.28 perl-modules-5.28 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 libboost1.67-dev libbrotli1 libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-9 libcppunit-1.14-0 libcppunit-dev libcroco3 libcurl4 libdatrie1 libdebhelper-perl libedit2 libelf1 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgd3 libgfortran5 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libgssapi3-heimdal libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhcrypto4-heimdal libhdf5-103 libhdf5-cpp-103 libhdf5-dev libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu63 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 libllvm9 libltdl7 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 libssh-4 libsub-override-perl libsz2 libthai-data libthai0 libtiff5 libtool libuchardet0 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 libboost1.67-doc libboost-atomic1.67-dev libboost-chrono1.67-dev libboost-container1.67-dev libboost-context1.67-dev libboost-contract1.67-dev libboost-coroutine1.67-dev libboost-date-time1.67-dev libboost-exception1.67-dev libboost-fiber1.67-dev libboost-filesystem1.67-dev libboost-graph1.67-dev libboost-graph-parallel1.67-dev libboost-iostreams1.67-dev libboost-locale1.67-dev libboost-log1.67-dev libboost-math1.67-dev libboost-mpi1.67-dev libboost-mpi-python1.67-dev libboost-numpy1.67-dev libboost-program-options1.67-dev libboost-python1.67-dev libboost-random1.67-dev libboost-regex1.67-dev libboost-serialization1.67-dev libboost-signals1.67-dev libboost-stacktrace1.67-dev libboost-system1.67-dev libboost-test1.67-dev libboost-thread1.67-dev libboost-timer1.67-dev libboost-type-erasure1.67-dev libboost-wave1.67-dev libboost1.67-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 libboost1.67-dev libbrotli1 libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-9 libcppunit-1.14-0 libcppunit-dev libcroco3 libcurl4 libdatrie1 libdebhelper-perl libedit2 libelf1 libexpat1 libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libfribidi0 libgd3 libgfortran5 libglib2.0-0 libgraphite2-3 libgssapi-krb5-2 libgssapi3-heimdal libgts-0.7-5 libgvc6 libgvpr2 libharfbuzz0b libhcrypto4-heimdal libhdf5-103 libhdf5-cpp-103 libhdf5-dev libheimbase1-heimdal libheimntlm0-heimdal libhx509-5-heimdal libice6 libicu63 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 libllvm9 libltdl7 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 libssh-4 libsub-override-perl libsz2 libthai-data libthai0 libtiff5 libtool libuchardet0 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, 137 newly installed, 0 to remove and 0 not upgraded. Need to get 72.8 MB of archives. After this operation, 404 MB of additional disk space will be used. Get:1 copy:/<>/resolver-RWGoD1/apt_archive ./ sbuild-build-depends-gatb-core-dummy 0.invalid.0 [916 B] Get:2 http://ftpmaster.internal/ubuntu focal/main amd64 libbsd0 amd64 0.10.0-1 [45.4 kB] Get:3 http://ftpmaster.internal/ubuntu focal/main amd64 bsdmainutils amd64 11.1.2ubuntu2 [181 kB] Get:4 http://ftpmaster.internal/ubuntu focal/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get:5 http://ftpmaster.internal/ubuntu focal/main amd64 groff-base amd64 1.22.4-4 [865 kB] Get:6 http://ftpmaster.internal/ubuntu focal/main amd64 libpipeline1 amd64 1.5.1-3 [27.4 kB] Get:7 http://ftpmaster.internal/ubuntu focal/main amd64 man-db amd64 2.9.0-2 [1114 kB] Get:8 http://ftpmaster.internal/ubuntu focal/main amd64 libmagic-mgc amd64 1:5.37-6 [209 kB] Get:9 http://ftpmaster.internal/ubuntu focal/main amd64 libmagic1 amd64 1:5.37-6 [75.3 kB] Get:10 http://ftpmaster.internal/ubuntu focal/main amd64 file amd64 1:5.37-6 [23.2 kB] Get:11 http://ftpmaster.internal/ubuntu focal/main amd64 libelf1 amd64 0.176-1.1 [44.1 kB] Get:12 http://ftpmaster.internal/ubuntu focal/main amd64 libexpat1 amd64 2.2.9-1 [73.3 kB] Get:13 http://ftpmaster.internal/ubuntu focal/main amd64 libfribidi0 amd64 1.0.7-1.1 [23.6 kB] Get:14 http://ftpmaster.internal/ubuntu focal/main amd64 libglib2.0-0 amd64 2.63.3-1 [1279 kB] Get:15 http://ftpmaster.internal/ubuntu focal/main amd64 libicu63 amd64 63.2-2 [8294 kB] Get:16 http://ftpmaster.internal/ubuntu focal/main amd64 libxml2 amd64 2.9.4+dfsg1-8ubuntu1 [648 kB] Get:17 http://ftpmaster.internal/ubuntu focal/main amd64 ucf all 3.0038+nmu1 [51.6 kB] Get:18 http://ftpmaster.internal/ubuntu focal/main amd64 gettext-base amd64 0.19.8.1-10 [50.2 kB] Get:19 http://ftpmaster.internal/ubuntu focal/main amd64 libedit2 amd64 3.1-20191211-1 [86.8 kB] Get:20 http://ftpmaster.internal/ubuntu focal/main amd64 libkrb5support0 amd64 1.17-6 [31.4 kB] Get:21 http://ftpmaster.internal/ubuntu focal/main amd64 libk5crypto3 amd64 1.17-6 [80.2 kB] Get:22 http://ftpmaster.internal/ubuntu focal/main amd64 libkeyutils1 amd64 1.6-6ubuntu1 [10.2 kB] Get:23 http://ftpmaster.internal/ubuntu focal/main amd64 libkrb5-3 amd64 1.17-6 [330 kB] Get:24 http://ftpmaster.internal/ubuntu focal/main amd64 libgssapi-krb5-2 amd64 1.17-6 [121 kB] Get:25 http://ftpmaster.internal/ubuntu focal/main amd64 libpsl5 amd64 0.20.2-2 [50.0 kB] Get:26 http://ftpmaster.internal/ubuntu focal/main amd64 libxau6 amd64 1:1.0.9-0ubuntu1 [7488 B] Get:27 http://ftpmaster.internal/ubuntu focal/main amd64 libxdmcp6 amd64 1:1.1.3-0ubuntu1 [10.6 kB] Get:28 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb1 amd64 1.13.1-2 [45.2 kB] Get:29 http://ftpmaster.internal/ubuntu focal/main amd64 libx11-data all 2:1.6.8-1 [113 kB] Get:30 http://ftpmaster.internal/ubuntu focal/main amd64 libx11-6 amd64 2:1.6.8-1 [573 kB] Get:31 http://ftpmaster.internal/ubuntu focal/main amd64 libxext6 amd64 2:1.3.4-0ubuntu1 [29.1 kB] Get:32 http://ftpmaster.internal/ubuntu focal/main amd64 libsigsegv2 amd64 2.12-2 [13.9 kB] Get:33 http://ftpmaster.internal/ubuntu focal/main amd64 m4 amd64 1.4.18-4 [199 kB] Get:34 http://ftpmaster.internal/ubuntu focal/main amd64 autoconf all 2.69-11ubuntu1 [321 kB] Get:35 http://ftpmaster.internal/ubuntu focal/main amd64 autotools-dev all 20180224.1 [39.6 kB] Get:36 http://ftpmaster.internal/ubuntu focal/main amd64 automake all 1:1.16.1-4ubuntu3 [522 kB] Get:37 http://ftpmaster.internal/ubuntu focal/main amd64 autopoint all 0.19.8.1-10 [412 kB] Get:38 http://ftpmaster.internal/ubuntu focal/main amd64 cmake-data all 3.15.4-1ubuntu2 [1562 kB] Get:39 http://ftpmaster.internal/ubuntu focal/main amd64 libarchive13 amd64 3.4.0-1build1 [327 kB] Get:40 http://ftpmaster.internal/ubuntu focal/main amd64 libbrotli1 amd64 1.0.7-5 [265 kB] Get:41 http://ftpmaster.internal/ubuntu focal/main amd64 libroken18-heimdal amd64 7.7.0+dfsg-1 [41.9 kB] Get:42 http://ftpmaster.internal/ubuntu focal/main amd64 libasn1-8-heimdal amd64 7.7.0+dfsg-1 [181 kB] Get:43 http://ftpmaster.internal/ubuntu focal/main amd64 libheimbase1-heimdal amd64 7.7.0+dfsg-1 [29.7 kB] Get:44 http://ftpmaster.internal/ubuntu focal/main amd64 libhcrypto4-heimdal amd64 7.7.0+dfsg-1 [87.8 kB] Get:45 http://ftpmaster.internal/ubuntu focal/main amd64 libwind0-heimdal amd64 7.7.0+dfsg-1 [47.9 kB] Get:46 http://ftpmaster.internal/ubuntu focal/main amd64 libhx509-5-heimdal amd64 7.7.0+dfsg-1 [107 kB] Get:47 http://ftpmaster.internal/ubuntu focal/main amd64 libkrb5-26-heimdal amd64 7.7.0+dfsg-1 [207 kB] Get:48 http://ftpmaster.internal/ubuntu focal/main amd64 libheimntlm0-heimdal amd64 7.7.0+dfsg-1 [15.1 kB] Get:49 http://ftpmaster.internal/ubuntu focal/main amd64 libgssapi3-heimdal amd64 7.7.0+dfsg-1 [96.6 kB] Get:50 http://ftpmaster.internal/ubuntu focal/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2 [14.9 kB] Get:51 http://ftpmaster.internal/ubuntu focal/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2 [49.3 kB] Get:52 http://ftpmaster.internal/ubuntu focal/main amd64 libldap-common all 2.4.48+dfsg-1ubuntu3 [17.3 kB] Get:53 http://ftpmaster.internal/ubuntu focal/main amd64 libldap-2.4-2 amd64 2.4.48+dfsg-1ubuntu3 [155 kB] Get:54 http://ftpmaster.internal/ubuntu focal/main amd64 libnghttp2-14 amd64 1.40.0-1 [78.1 kB] Get:55 http://ftpmaster.internal/ubuntu focal/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2build1 [54.9 kB] Get:56 http://ftpmaster.internal/ubuntu focal/main amd64 libssh-4 amd64 0.9.0-1ubuntu5 [196 kB] Get:57 http://ftpmaster.internal/ubuntu focal/main amd64 libcurl4 amd64 7.66.0-1ubuntu1 [232 kB] Get:58 http://ftpmaster.internal/ubuntu focal/main amd64 libjsoncpp1 amd64 1.7.4-3 [73.6 kB] Get:59 http://ftpmaster.internal/ubuntu focal/main amd64 librhash0 amd64 1.3.9-1 [113 kB] Get:60 http://ftpmaster.internal/ubuntu focal/main amd64 libuv1 amd64 1.33.1-2 [80.1 kB] Get:61 http://ftpmaster.internal/ubuntu focal/main amd64 cmake amd64 3.15.4-1ubuntu2 [3607 kB] Get:62 http://ftpmaster.internal/ubuntu focal/universe amd64 d-shlibs all 0.88 [10.5 kB] Get:63 http://ftpmaster.internal/ubuntu focal/main amd64 libtool all 2.4.6-11 [194 kB] Get:64 http://ftpmaster.internal/ubuntu focal/main amd64 dh-autoreconf all 19 [16.1 kB] Get:65 http://ftpmaster.internal/ubuntu focal/main amd64 libdebhelper-perl all 12.7.1ubuntu1 [52.0 kB] Get:66 http://ftpmaster.internal/ubuntu focal/main amd64 libarchive-zip-perl all 1.67-1 [90.4 kB] Get:67 http://ftpmaster.internal/ubuntu focal/main amd64 libsub-override-perl all 0.09-2 [9532 B] Get:68 http://ftpmaster.internal/ubuntu focal/main amd64 libfile-stripnondeterminism-perl all 1.6.3-1 [16.0 kB] Get:69 http://ftpmaster.internal/ubuntu focal/main amd64 dh-strip-nondeterminism all 1.6.3-1 [5224 B] Get:70 http://ftpmaster.internal/ubuntu focal/main amd64 dwz amd64 0.13-5 [151 kB] Get:71 http://ftpmaster.internal/ubuntu focal/main amd64 libcroco3 amd64 0.6.13-1 [82.5 kB] Get:72 http://ftpmaster.internal/ubuntu focal/main amd64 gettext amd64 0.19.8.1-10 [897 kB] Get:73 http://ftpmaster.internal/ubuntu focal/main amd64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:74 http://ftpmaster.internal/ubuntu focal/main amd64 po-debconf all 1.0.21 [233 kB] Get:75 http://ftpmaster.internal/ubuntu focal/main amd64 debhelper all 12.7.1ubuntu1 [875 kB] Get:76 http://ftpmaster.internal/ubuntu focal/main amd64 libllvm9 amd64 1:9.0.1-2 [14.8 MB] Get:77 http://ftpmaster.internal/ubuntu focal/universe amd64 libclang1-9 amd64 1:9.0.1-2 [6681 kB] Get:78 http://ftpmaster.internal/ubuntu focal/universe amd64 libxapian30 amd64 1.4.12-1 [660 kB] Get:79 http://ftpmaster.internal/ubuntu focal/universe amd64 doxygen amd64 1.8.13-12ubuntu1 [4159 kB] Get:80 http://ftpmaster.internal/ubuntu focal/main amd64 libfreetype6 amd64 2.10.1-2 [341 kB] Get:81 http://ftpmaster.internal/ubuntu focal/main amd64 fonts-dejavu-core all 2.37-1 [1041 kB] Get:82 http://ftpmaster.internal/ubuntu focal/main amd64 fontconfig-config all 2.13.1-2ubuntu2 [28.9 kB] Get:83 http://ftpmaster.internal/ubuntu focal/main amd64 libfontconfig1 amd64 2.13.1-2ubuntu2 [114 kB] Get:84 http://ftpmaster.internal/ubuntu focal/main amd64 fontconfig amd64 2.13.1-2ubuntu2 [171 kB] Get:85 http://ftpmaster.internal/ubuntu focal/universe amd64 libann0 amd64 1.1.2+doc-7 [25.3 kB] Get:86 http://ftpmaster.internal/ubuntu focal/universe amd64 libcdt5 amd64 2.42.2-3 [18.7 kB] Get:87 http://ftpmaster.internal/ubuntu focal/universe amd64 libcgraph6 amd64 2.42.2-3 [41.3 kB] Get:88 http://ftpmaster.internal/ubuntu focal/main amd64 libjpeg-turbo8 amd64 2.0.3-0ubuntu1 [118 kB] Get:89 http://ftpmaster.internal/ubuntu focal/main amd64 libjpeg8 amd64 8c-2ubuntu8 [2194 B] Get:90 http://ftpmaster.internal/ubuntu focal/main amd64 libjbig0 amd64 2.1-3.1build1 [26.7 kB] Get:91 http://ftpmaster.internal/ubuntu focal/main amd64 libwebp6 amd64 0.6.1-2 [185 kB] Get:92 http://ftpmaster.internal/ubuntu focal/main amd64 libtiff5 amd64 4.1.0+git191117-1 [162 kB] Get:93 http://ftpmaster.internal/ubuntu focal/main amd64 libxpm4 amd64 1:3.5.12-1 [34.0 kB] Get:94 http://ftpmaster.internal/ubuntu focal/main amd64 libgd3 amd64 2.2.5-5.2 [118 kB] Get:95 http://ftpmaster.internal/ubuntu focal/universe amd64 libgts-0.7-5 amd64 0.7.6+darcs121130-4 [150 kB] Get:96 http://ftpmaster.internal/ubuntu focal/main amd64 libpixman-1-0 amd64 0.38.4-0ubuntu1 [227 kB] Get:97 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-render0 amd64 1.13.1-2 [14.8 kB] Get:98 http://ftpmaster.internal/ubuntu focal/main amd64 libxcb-shm0 amd64 1.13.1-2 [5548 B] Get:99 http://ftpmaster.internal/ubuntu focal/main amd64 libxrender1 amd64 1:0.9.10-1 [18.7 kB] Get:100 http://ftpmaster.internal/ubuntu focal/main amd64 libcairo2 amd64 1.16.0-4ubuntu1 [583 kB] Get:101 http://ftpmaster.internal/ubuntu focal/main amd64 libltdl7 amd64 2.4.6-11 [38.3 kB] Get:102 http://ftpmaster.internal/ubuntu focal/main amd64 libgraphite2-3 amd64 1.3.13-11 [73.7 kB] Get:103 http://ftpmaster.internal/ubuntu focal/main amd64 libharfbuzz0b amd64 2.6.4-1ubuntu1 [391 kB] Get:104 http://ftpmaster.internal/ubuntu focal/main amd64 libthai-data all 0.1.28-3 [134 kB] Get:105 http://ftpmaster.internal/ubuntu focal/main amd64 libdatrie1 amd64 0.2.12-3 [18.7 kB] Get:106 http://ftpmaster.internal/ubuntu focal/main amd64 libthai0 amd64 0.1.28-3 [18.1 kB] Get:107 http://ftpmaster.internal/ubuntu focal/main amd64 libpango-1.0-0 amd64 1.44.7-1 [161 kB] Get:108 http://ftpmaster.internal/ubuntu focal/main amd64 libpangoft2-1.0-0 amd64 1.44.7-1 [34.7 kB] Get:109 http://ftpmaster.internal/ubuntu focal/main amd64 libpangocairo-1.0-0 amd64 1.44.7-1 [24.8 kB] Get:110 http://ftpmaster.internal/ubuntu focal/universe amd64 libpathplan4 amd64 2.42.2-3 [21.9 kB] Get:111 http://ftpmaster.internal/ubuntu focal/universe amd64 libgvc6 amd64 2.42.2-3 [648 kB] Get:112 http://ftpmaster.internal/ubuntu focal/universe amd64 libgvpr2 amd64 2.42.2-3 [167 kB] Get:113 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http://ftpmaster.internal/ubuntu focal/main amd64 libboost1.67-dev amd64 1.67.0-13ubuntu2 [8365 kB] Get:124 http://ftpmaster.internal/ubuntu focal/main amd64 libboost-dev amd64 1.67.0.2 [3544 B] Get:125 http://ftpmaster.internal/ubuntu focal/universe amd64 libcppunit-1.14-0 amd64 1.14.0-4build1 [79.2 kB] Get:126 http://ftpmaster.internal/ubuntu focal/universe amd64 libcppunit-dev amd64 1.14.0-4build1 [138 kB] Get:127 http://ftpmaster.internal/ubuntu focal/main amd64 libgfortran5 amd64 9.2.1-21ubuntu1 [642 kB] Get:128 http://ftpmaster.internal/ubuntu focal/universe amd64 libsz2 amd64 1.0.4-1 [5188 B] Get:129 http://ftpmaster.internal/ubuntu focal/universe amd64 libhdf5-103 amd64 1.10.4+repack-10 [1299 kB] Get:130 http://ftpmaster.internal/ubuntu focal/universe amd64 libhdf5-cpp-103 amd64 1.10.4+repack-10 [122 kB] Get:131 http://ftpmaster.internal/ubuntu focal/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-1ubuntu3 [172 kB] Get:132 http://ftpmaster.internal/ubuntu focal/main amd64 libjpeg-turbo8-dev amd64 2.0.3-0ubuntu1 [238 kB] Get:133 http://ftpmaster.internal/ubuntu focal/main amd64 libjpeg8-dev amd64 8c-2ubuntu8 [1552 B] Get:134 http://ftpmaster.internal/ubuntu focal/main amd64 libjpeg-dev amd64 8c-2ubuntu8 [1546 B] Get:135 http://ftpmaster.internal/ubuntu focal/universe amd64 libaec-dev amd64 1.0.4-1 [16.9 kB] Get:136 http://ftpmaster.internal/ubuntu focal/universe amd64 libhdf5-dev amd64 1.10.4+repack-10 [2573 kB] Get:137 http://ftpmaster.internal/ubuntu focal/main amd64 libjsoncpp-dev amd64 1.7.4-3 [85.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 72.8 MB in 4s (20.0 MB/s) Selecting previously unselected package libbsd0:amd64. 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Processing triggers for systemd (244-3ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-170-generic amd64 (x86_64) Toolchain package versions: binutils_2.33.1-6ubuntu3 dpkg-dev_1.19.7ubuntu2 g++-9_9.2.1-21ubuntu1 gcc-9_9.2.1-21ubuntu1 libc6-dev_2.30-0ubuntu3 libstdc++-9-dev_9.2.1-21ubuntu1 libstdc++6_9.2.1-21ubuntu1 linux-libc-dev_5.3.0-24.26 Package versions: adduser_3.118ubuntu1 advancecomp_2.1-2.1 apt_1.9.5 autoconf_2.69-11ubuntu1 automake_1:1.16.1-4ubuntu3 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11ubuntu2 base-passwd_3.5.47 bash_5.0-5ubuntu1 binutils_2.33.1-6ubuntu3 binutils-common_2.33.1-6ubuntu3 binutils-x86-64-linux-gnu_2.33.1-6ubuntu3 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.34-0.1ubuntu4 build-essential_12.8ubuntu1 bzip2_1.0.8-2 ca-certificates_20190110 cmake_3.15.4-1ubuntu2 cmake-data_3.15.4-1ubuntu2 coreutils_8.30-3ubuntu2 cpp_4:9.2.1-3.1ubuntu1 cpp-9_9.2.1-21ubuntu1 d-shlibs_0.88 dash_0.5.10.2-6 debconf_1.5.73 debhelper_12.7.1ubuntu1 debianutils_4.9.1 dh-autoreconf_19 dh-strip-nondeterminism_1.6.3-1 diffutils_1:3.7-3 doxygen_1.8.13-12ubuntu1 dpkg_1.19.7ubuntu2 dpkg-dev_1.19.7ubuntu2 dwz_0.13-5 e2fsprogs_1.45.3-4ubuntu2 fakeroot_1.24-1 fdisk_2.34-0.1ubuntu4 file_1:5.37-6 findutils_4.6.0+git+20190209-2ubuntu1 fontconfig_2.13.1-2ubuntu2 fontconfig-config_2.13.1-2ubuntu2 fonts-dejavu-core_2.37-1 g++_4:9.2.1-3.1ubuntu1 g++-9_9.2.1-21ubuntu1 gcc_4:9.2.1-3.1ubuntu1 gcc-9_9.2.1-21ubuntu1 gcc-9-base_9.2.1-21ubuntu1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gpg_2.2.17-3ubuntu1 gpg-agent_2.2.17-3ubuntu1 gpgconf_2.2.17-3ubuntu1 gpgv_2.2.17-3ubuntu1 graphviz_2.42.2-3 grep_3.3-1build1 groff-base_1.22.4-4 gzip_1.10-0ubuntu4 hdf5-helpers_1.10.4+repack-10 hostname_3.23 init_1.57 init-system-helpers_1.57 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-5ubuntu1 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libdb5.3_5.3.28+dfsg1-0.6ubuntu1 libdebconfclient0_0.250ubuntu2 libdebhelper-perl_12.7.1ubuntu1 libdevmapper1.02.1_2:1.02.155-2ubuntu7 libdpkg-perl_1.19.7ubuntu2 libedit2_3.1-20191211-1 libelf1_0.176-1.1 libexpat1_2.2.9-1 libext2fs2_1.45.3-4ubuntu2 libfakeroot_1.24-1 libfdisk1_2.34-0.1ubuntu4 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.6.3-1 libfontconfig1_2.13.1-2ubuntu2 libfreetype6_2.10.1-2 libfribidi0_1.0.7-1.1 libgcc-9-dev_9.2.1-21ubuntu1 libgcc1_1:9.2.1-21ubuntu1 libgcrypt20_1.8.5-3ubuntu1 libgd3_2.2.5-5.2 libgdbm-compat4_1.18.1-5 libgdbm6_1.18.1-5 libgfortran5_9.2.1-21ubuntu1 libglib2.0-0_2.63.3-1 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.11.1-2 libgomp1_9.2.1-21ubuntu1 libgpg-error0_1.36-7 libgraphite2-3_1.3.13-11 libgssapi-krb5-2_1.17-6 libgssapi3-heimdal_7.7.0+dfsg-1 libgts-0.7-5_0.7.6+darcs121130-4 libgvc6_2.42.2-3 libgvpr2_2.42.2-3 libharfbuzz0b_2.6.4-1ubuntu1 libhcrypto4-heimdal_7.7.0+dfsg-1 libhdf5-103_1.10.4+repack-10 libhdf5-cpp-103_1.10.4+repack-10 libhdf5-dev_1.10.4+repack-10 libheimbase1-heimdal_7.7.0+dfsg-1 libheimntlm0-heimdal_7.7.0+dfsg-1 libhogweed4_3.4.1-1 libhogweed5_3.5.1+really3.5.1-2 libhx509-5-heimdal_7.7.0+dfsg-1 libice6_2:1.0.10-0ubuntu1 libicu63_63.2-2 libidn2-0_2.2.0-2 libip4tc2_1.8.3-2ubuntu5 libisl21_0.21-2 libisl22_0.22-2 libitm1_9.2.1-21ubuntu1 libjbig0_2.1-3.1build1 libjpeg-dev_8c-2ubuntu8 libjpeg-turbo8_2.0.3-0ubuntu1 libjpeg-turbo8-dev_2.0.3-0ubuntu1 libjpeg8_8c-2ubuntu8 libjpeg8-dev_8c-2ubuntu8 libjson-c4_0.13.1+dfsg-6 libjsoncpp-dev_1.7.4-3 libjsoncpp1_1.7.4-3 libk5crypto3_1.17-6 libkeyutils1_1.6-6ubuntu1 libkmod2_26-3ubuntu1 libkrb5-26-heimdal_7.7.0+dfsg-1 libkrb5-3_1.17-6 libkrb5support0_1.17-6 liblab-gamut1_2.42.2-3 libldap-2.4-2_2.4.48+dfsg-1ubuntu3 libldap-common_2.4.48+dfsg-1ubuntu3 libllvm9_1:9.0.1-2 liblockfile-bin_1.16-1.1 liblockfile1_1.16-1.1 liblsan0_9.2.1-21ubuntu1 libltdl7_2.4.6-11 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.37-6 libmagic1_1:5.37-6 libmount1_2.34-0.1ubuntu4 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncurses6_6.1+20191019-1ubuntu1 libncursesw6_6.1+20191019-1ubuntu1 libnettle6_3.4.1-1 libnettle7_3.5.1+really3.5.1-2 libnghttp2-14_1.40.0-1 libnpth0_1.6-1 libp11-kit0_0.23.18.1-2 libpam-modules_1.3.1-5ubuntu4 libpam-modules-bin_1.3.1-5ubuntu4 libpam-runtime_1.3.1-5ubuntu4 libpam0g_1.3.1-5ubuntu4 libpango-1.0-0_1.44.7-1 libpangocairo-1.0-0_1.44.7-1 libpangoft2-1.0-0_1.44.7-1 libpathplan4_2.42.2-3 libpcre2-8-0_10.34-7 libpcre3_2:8.39-12 libperl5.28_5.28.1-6build1 libperl5.30_5.30.0-9 libpipeline1_1.5.1-3 libpixman-1-0_0.38.4-0ubuntu1 libpng16-16_1.6.37-1 libprocps7_2:3.3.15-2ubuntu3 libpsl5_0.20.2-2 libquadmath0_9.2.1-21ubuntu1 libreadline8_8.0-3 librhash0_1.3.9-1 libroken18-heimdal_7.7.0+dfsg-1 librtmp1_2.4+20151223.gitfa8646d.1-2build1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.4.2-2ubuntu1 libselinux1_3.0-1 libsemanage-common_3.0-1 libsemanage1_3.0-1 libsepol1_3.0-1 libsigsegv2_2.12-2 libsm6_2:1.2.3-1 libsmartcols1_2.34-0.1ubuntu4 libsqlite3-0_3.30.1-1ubuntu1 libss2_1.45.3-4ubuntu2 libssh-4_0.9.0-1ubuntu5 libssl1.1_1.1.1c-1ubuntu4 libstdc++-9-dev_9.2.1-21ubuntu1 libstdc++6_9.2.1-21ubuntu1 libsub-override-perl_0.09-2 libsystemd0_244-3ubuntu1 libsz2_1.0.4-1 libtasn1-6_4.15.0-2 libthai-data_0.1.28-3 libthai0_0.1.28-3 libtiff5_4.1.0+git191117-1 libtinfo6_6.1+20191019-1ubuntu1 libtool_2.4.6-11 libtsan0_9.2.1-21ubuntu1 libubsan1_9.2.1-21ubuntu1 libuchardet0_0.0.6-3 libudev1_244-3ubuntu1 libunistring2_0.9.10-2 libuuid1_2.34-0.1ubuntu4 libuv1_1.33.1-2 libwebp6_0.6.1-2 libwind0-heimdal_7.7.0+dfsg-1 libx11-6_2:1.6.8-1 libx11-data_2:1.6.8-1 libxapian30_1.4.12-1 libxau6_1:1.0.9-0ubuntu1 libxaw7_2:1.0.13-1 libxcb-render0_1.13.1-2 libxcb-shm0_1.13.1-2 libxcb1_1.13.1-2 libxdmcp6_1:1.1.3-0ubuntu1 libxext6_2:1.3.4-0ubuntu1 libxml2_2.9.4+dfsg1-8ubuntu1 libxmu6_2:1.1.3-0ubuntu1 libxpm4_1:3.5.12-1 libxrender1_1:0.9.10-1 libxt6_1:1.1.5-1 libzstd1_1.4.4+dfsg-1 linux-libc-dev_5.3.0-24.26 lockfile-progs_0.1.18 login_1:4.5-1.1ubuntu4 logsave_1.45.3-4ubuntu2 lsb-base_11.1.0ubuntu2 m4_1.4.18-4 make_4.2.1-1.2 man-db_2.9.0-2 mawk_1.3.3-17ubuntu3 mount_2.34-0.1ubuntu4 ncurses-base_6.1+20191019-1ubuntu1 ncurses-bin_6.1+20191019-1ubuntu1 openssl_1.1.1c-1ubuntu4 optipng_0.7.7-1 passwd_1:4.5-1.1ubuntu4 patch_2.7.6-6 perl_5.30.0-9 perl-base_5.30.0-9 perl-modules-5.28_5.28.1-6build1 perl-modules-5.30_5.30.0-9 pinentry-curses_1.1.0-3 pkgbinarymangler_144 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 procps_2:3.3.15-2ubuntu3 readline-common_8.0-3 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-gatb-core-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 systemd_244-3ubuntu1 systemd-sysv_244-3ubuntu1 sysvinit-utils_2.96-1ubuntu1 tar_1.30+dfsg-6 tzdata_2019c-3 ubuntu-keyring_2018.09.18.1 ucf_3.0038+nmu1 util-linux_2.34-0.1ubuntu4 x11-common_1:7.7+19ubuntu12 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1ubuntu3 zlib1g-dev_1:1.2.11.dfsg-1ubuntu3 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Tue Aug 20 11:06:42 2019 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+git20190813.a73b6dd+dfsg-1.dsc dpkg-source: info: extracting gatb-core in gatb-core-1.4.1+git20190813.a73b6dd+dfsg dpkg-source: info: unpacking gatb-core_1.4.1+git20190813.a73b6dd+dfsg.orig.tar.xz dpkg-source: info: unpacking gatb-core_1.4.1+git20190813.a73b6dd+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series 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=noautodbgsym 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-18296107 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-18296107 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-18296107 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+git20190813.a73b6dd+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 fakeroot debian/rules clean dh clean --sourcedirectory=gatb-core dh_auto_clean -O--sourcedirectory=gatb-core dh_autoreconf_clean -O--sourcedirectory=gatb-core dh_clean -O--sourcedirectory=gatb-core debian/rules build dh build --sourcedirectory=gatb-core dh_update_autotools_config -O--sourcedirectory=gatb-core dh_autoreconf -O--sourcedirectory=gatb-core dh_auto_configure -O--sourcedirectory=gatb-core cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -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" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu ../gatb-core -- The C compiler identification is GNU 9.2.1 -- The CXX compiler identification is GNU 9.2.1 -- 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 - done -- 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/x86_64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/x86_64-linux-gnu/libpthread.so;/usr/lib/x86_64-linux-gnu/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.so;/usr/lib/x86_64-linux-gnu/libm.so (found version "1.10.4") -- HDF5_LIBRARIES="/usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so/usr/lib/x86_64-linux-gnu/libpthread.so/usr/lib/x86_64-linux-gnu/libsz.so/usr/lib/x86_64-linux-gnu/libz.so/usr/lib/x86_64-linux-gnu/libdl.so/usr/lib/x86_64-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:237 (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/x86_64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/x86_64-linux-gnu/libpthread.so;/usr/lib/x86_64-linux-gnu/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.so;/usr/lib/x86_64-linux-gnu/libm.so (found version "1.10.4") found components: C CMake Warning (dev) at CMakeLists.txt:263 (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:264 (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:265 (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:266 (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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu debian/rules override_dh_auto_build-arch make[1]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg' dh_auto_build -a cd obj-x86_64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core -B/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/CMakeFiles /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/depend make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/depend make -f thirdparty/CMakeFiles/thirdparty_copy.dir/build.make thirdparty/CMakeFiles/thirdparty_copy.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty/CMakeFiles/thirdparty_copy.dir/DependInfo.cmake --color= cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/gatbcore-static.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/gatbcore-dynamic.dir/DependInfo.cmake --color= Scanning dependencies of target thirdparty_copy make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f thirdparty/CMakeFiles/thirdparty_copy.dir/build.make thirdparty/CMakeFiles/thirdparty_copy.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/json cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty/BooPHF/BooPHF.h /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/ cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty/json/json.hpp /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/json/ make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 0%] Built target thirdparty_copy Scanning dependencies of target gatbcore-static make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/build Scanning dependencies of target gatbcore-dynamic make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 1%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankAlbum.cpp.o [ 1%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/Bank.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankAlbum.cpp make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 2%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankBinary.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp [ 2%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/Bank.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In function ‘bool gatb::core::bank::impl::checkMagic(FILE*)’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+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] 54 | fread (&value, sizeof(value), 1, file); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+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] 453 | 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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 2%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankConverterAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 2%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankFasta.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankFasta.cpp [ 3%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankHelpers.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankHelpers.cpp [ 4%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankAlbum.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankAlbum.cpp [ 4%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankRandom.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankRandom.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankSplitter.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankSplitter.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bcalm_algo.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bglue_algo.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp [ 6%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/logging.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp [ 6%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/ograph.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 6%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankBinary.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In function ‘bool gatb::core::bank::impl::checkMagic(FILE*)’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+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] 54 | fread (&value, sizeof(value), 1, file); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+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] 453 | fread (_bufferData->getBuffer(), sizeof( char),block_size, binary_read_file); // read a block of reads into the buffer | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 7%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Frontline.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 8%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankConverterAlgorithm.cpp [ 8%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Graph.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp:24: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 9%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 9%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp [ 9%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankFasta.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankFasta.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 9%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankHelpers.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankHelpers.cpp [ 10%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/LinkTigs.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/LinkTigs.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 11%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankRandom.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankRandom.cpp [ 11%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankSplitter.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bank/impl/BankSplitter.cpp [ 11%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Simplifications.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp [ 12%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bcalm_algo.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp [ 12%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bglue_algo.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 12%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/logging.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp [ 13%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/ograph.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp [ 13%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 14%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Frontline.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Graph.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp:24: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 14%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Terminator.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp:24: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 15%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Traversal.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 15%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp [ 16%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp [ 16%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomBuilder.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomBuilder.cpp [ 16%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Configuration.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Configuration.cpp [ 17%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/ConfigurationAlgorithm.cpp [ 17%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/DebloomAlgorithm.cpp [ 18%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp [ 18%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/LinearCounter.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/LinearCounter.cpp [ 18%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp [ 19%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Model.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 19%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ModelData.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/ModelData.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartiInfo.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartitionsCommand.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/RepartitionAlgorithm.cpp [ 21%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemCommon.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/FileSystemCommon.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 23%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemLinux.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/FileSystemLinux.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemMacos.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/FileSystemMacos.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/System.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/System.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/LinkTigs.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/LinkTigs.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/SystemInfoCommon.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/SystemInfoCommon.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadLinux.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp [ 26%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadMacos.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/ThreadMacos.cpp [ 26%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/collections/impl/Bloom.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.cpp /<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp:51:7: warning: variable ‘ret’ set but not used [-Wunused-but-set-variable] 51 | int ret = pthread_attr_init ( &tattr ) ; | ^~~ [ 26%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/DnaCoder.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp [ 27%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/HeaderCoder.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp [ 28%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Simplifications.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeNumeric()’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:707:24: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 707 | snprintf(temp,200,"%llu",value); | ~~~^ ~~~~~ | | | | | u_int64_t {aka long unsigned int} | long long unsigned int | %lu In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta()’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:727:24: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 727 | snprintf(temp,200,"%llu",value); | ~~~^ ~~~~~ | | | | | u_int64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta2()’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:746:24: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 746 | snprintf(temp,200,"%llu",value); | ~~~^ ~~~~~ | | | | | u_int64_t {aka long unsigned int} | long long unsigned int | %lu In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 28%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Terminator.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp [ 28%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/Leon.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp:24: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 28%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Traversal.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:71, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ [ 29%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp [ 30%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/RangeCoder.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/RangeCoder.cpp [ 30%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp [ 31%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomBuilder.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomBuilder.cpp [ 31%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Configuration.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Configuration.cpp [ 31%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/ConfigurationAlgorithm.cpp [ 32%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/DebloomAlgorithm.cpp [ 32%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp [ 33%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/LinearCounter.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/LinearCounter.cpp [ 33%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp [ 33%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Model.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp [ 34%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ModelData.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/ModelData.cpp [ 34%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartiInfo.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 35%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartitionsCommand.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp [ 35%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/RepartitionAlgorithm.cpp [ 35%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp [ 36%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemCommon.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/FileSystemCommon.cpp [ 36%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Command.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Command.cpp [ 36%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemLinux.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/FileSystemLinux.cpp [ 36%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Observer.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Observer.cpp [ 37%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemMacos.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/FileSystemMacos.cpp [ 37%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/System.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/System.cpp [ 37%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/SystemInfoCommon.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/SystemInfoCommon.cpp [ 38%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/api/Data.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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/api/Data.cpp.o -c /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/api/Data.cpp [ 38%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Algorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.cpp [ 39%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadLinux.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp /<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp:51:7: warning: variable ‘ret’ set but not used [-Wunused-but-set-variable] 51 | int ret = pthread_attr_init ( &tattr ) ; | ^~~ [ 39%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadMacos.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/system/impl/ThreadMacos.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/collections/impl/Bloom.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/DnaCoder.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp [ 41%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Histogram.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Histogram.cpp [ 41%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/OptionsParser.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/OptionsParser.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ [ 41%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/HeaderCoder.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp [ 41%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Progress.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeNumeric()’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:707:24: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 707 | snprintf(temp,200,"%llu",value); | ~~~^ ~~~~~ | | | | | u_int64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta()’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:727:24: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 727 | snprintf(temp,200,"%llu",value); | ~~~^ ~~~~~ | | | | | u_int64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta2()’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:746:24: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 746 | snprintf(temp,200,"%llu",value); | ~~~^ ~~~~~ | | | | | u_int64_t {aka long unsigned int} | long long unsigned int | %lu In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ [ 42%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Property.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp [ 42%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/TimeInfo.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/TimeInfo.cpp [ 43%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tokenizer.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Tokenizer.cpp [ 43%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tool.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Tool.cpp [ 44%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/Leon.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp [ 44%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/RangeCoder.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/RangeCoder.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Command.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Command.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 45%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/XmlReader.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/XmlReader.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Observer.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Observer.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/api/Data.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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/api/Data.cpp.o -c /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/api/Data.cpp [ 46%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Algorithm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:71, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ [ 47%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/Storage.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp [ 47%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Histogram.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Histogram.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ [ 47%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/StorageTools.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageTools.cpp [ 48%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp [ 48%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp [ 48%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp [ 50%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp [ 50%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 51%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:796:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::string, int, int, int, bool) [with long unsigned int SPAN = 128; std::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:29: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 839 | printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", | ~~~~~^ | | | long long unsigned int | %12lu 840 | totalsizeBitset, 100*(float)totalsizeBitset/totalsize); | ~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:796:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::string, int, int, int, bool) [with long unsigned int SPAN = 32; std::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:29: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 839 | printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", | ~~~~~^ | | | long long unsigned int | %12lu 840 | totalsizeBitset, 100*(float)totalsizeBitset/totalsize); | ~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<32>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<32>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<32>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<32>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 52%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/OptionsParser.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/OptionsParser.cpp [ 52%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 52%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Progress.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:796:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::string, int, int, int, bool) [with long unsigned int SPAN = 64; std::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:29: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 839 | printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", | ~~~~~^ | | | long long unsigned int | %12lu 840 | totalsizeBitset, 100*(float)totalsizeBitset/totalsize); | ~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} [ 52%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Property.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 53%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/TimeInfo.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/TimeInfo.cpp [ 53%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tokenizer.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Tokenizer.cpp [ 54%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tool.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Tool.cpp [ 54%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/XmlReader.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/XmlReader.cpp [ 54%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/Storage.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ [ 55%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/StorageTools.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageTools.cpp [ 55%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp [ 55%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 56%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:796:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::string, int, int, int, bool) [with long unsigned int SPAN = 96; std::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:29: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 839 | printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", | ~~~~~^ | | | long long unsigned int | %12lu 840 | totalsizeBitset, 100*(float)totalsizeBitset/totalsize); | ~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 563 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 587 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 599 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 708 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 715 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 128]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 239 | while(filenames.size() > _reduceTarget) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 265 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 271 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 335 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 342 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 128]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 128; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:112:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 112 | for (int np = 0; np < _nbpart; np++) { | ~~~^~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:116:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 116 | for (int ii = 0; ii < _num_mm_bins; ii++) { | ~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo::parti_record& gatb::core::kmer::impl::PartiInfo::parti_record::operator+=(const gatb::core::kmer::impl::PartiInfo::parti_record&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:113:32: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 128]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 128; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:66:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 66 | for(int i = 0 ; i < xmer * 256 ; i++) { | ~~^~~~~~~~~~~~ [ 56%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 117 | for(int ii=0; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 120 | for(int jj=0; jj<= _histogram->getLength2(); jj++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 122 | fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); | ~~~~^ | | | long long int | %6li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for(int ii=1; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 137 | fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); | ~~~^ | | | long long int | %li [ 57%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 563 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 587 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 599 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 708 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 715 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 32]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 239 | while(filenames.size() > _reduceTarget) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 265 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 271 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 335 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 342 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 32]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 32; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:112:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 112 | for (int np = 0; np < _nbpart; np++) { | ~~~^~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:116:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 116 | for (int ii = 0; ii < _num_mm_bins; ii++) { | ~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo::parti_record& gatb::core::kmer::impl::PartiInfo::parti_record::operator+=(const gatb::core::kmer::impl::PartiInfo::parti_record&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:113:32: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 32]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 32; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:66:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 66 | for(int i = 0 ; i < xmer * 256 ; i++) { | ~~^~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 117 | for(int ii=0; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 120 | for(int jj=0; jj<= _histogram->getLength2(); jj++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 122 | fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); | ~~~~^ | | | long long int | %6li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for(int ii=1; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 137 | fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ [ 57%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp [ 57%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp [ 58%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 59%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:796:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::string, int, int, int, bool) [with long unsigned int SPAN = 128; std::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:29: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 839 | printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", | ~~~~~^ | | | long long unsigned int | %12lu 840 | totalsizeBitset, 100*(float)totalsizeBitset/totalsize); | ~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 563 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 587 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 599 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 708 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 715 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 239 | while(filenames.size() > _reduceTarget) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 265 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 271 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 335 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 342 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 64; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:112:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 112 | for (int np = 0; np < _nbpart; np++) { | ~~~^~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:116:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 116 | for (int ii = 0; ii < _num_mm_bins; ii++) { | ~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo::parti_record& gatb::core::kmer::impl::PartiInfo::parti_record::operator+=(const gatb::core::kmer::impl::PartiInfo::parti_record&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:113:32: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 64; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:66:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 66 | for(int i = 0 ; i < xmer * 256 ; i++) { | ~~^~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 117 | for(int ii=0; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 120 | for(int jj=0; jj<= _histogram->getLength2(); jj++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 122 | fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); | ~~~~^ | | | long long int | %6li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for(int ii=1; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 137 | fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ [ 59%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp [ 59%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 563 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 587 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 599 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 708 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 715 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 96]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 239 | while(filenames.size() > _reduceTarget) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 265 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 271 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 335 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 342 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 96]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 96; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:112:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 112 | for (int np = 0; np < _nbpart; np++) { | ~~~^~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:116:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 116 | for (int ii = 0; ii < _num_mm_bins; ii++) { | ~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo::parti_record& gatb::core::kmer::impl::PartiInfo::parti_record::operator+=(const gatb::core::kmer::impl::PartiInfo::parti_record&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:113:32: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 96]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 96; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:66:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 66 | for(int i = 0 ; i < xmer * 256 ; i++) { | ~~^~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 117 | for(int ii=0; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 120 | for(int jj=0; jj<= _histogram->getLength2(); jj++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 122 | fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); | ~~~~^ | | | long long int | %6li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for(int ii=1; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 137 | fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ [ 60%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ [ 60%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp [ 60%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:796:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::string, int, int, int, bool) [with long unsigned int SPAN = 32; std::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:29: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 839 | printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", | ~~~~~^ | | | long long unsigned int | %12lu 840 | totalsizeBitset, 100*(float)totalsizeBitset/totalsize); | ~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<32>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<32>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<32>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<32>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 61%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ [ 61%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with long unsigned int span = 128; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:316:21: warning: unused variable ‘abundance’ [-Wunused-variable] 316 | Abundance_t abundance = (*_abundanceMap)[count.value]; | ^~~~~~~~~ [ 61%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp [ 62%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with long unsigned int span = 32; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:316:21: warning: unused variable ‘abundance’ [-Wunused-variable] 316 | Abundance_t abundance = (*_abundanceMap)[count.value]; | ^~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with long unsigned int span = 64; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:316:21: warning: unused variable ‘abundance’ [-Wunused-variable] 316 | Abundance_t abundance = (*_abundanceMap)[count.value]; | ^~~~~~~~~ [ 62%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with long unsigned int span = 96; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:316:21: warning: unused variable ‘abundance’ [-Wunused-variable] 316 | Abundance_t abundance = (*_abundanceMap)[count.value]; | ^~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp [ 63%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 63%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp [ 64%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:796:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::string, int, int, int, bool) [with long unsigned int SPAN = 64; std::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:29: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 839 | printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", | ~~~~~^ | | | long long unsigned int | %12lu 840 | totalsizeBitset, 100*(float)totalsizeBitset/totalsize); | ~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 64%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:796:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::string, int, int, int, bool) [with long unsigned int SPAN = 96; std::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:29: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 839 | printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", | ~~~~~^ | | | long long unsigned int | %12lu 840 | totalsizeBitset, 100*(float)totalsizeBitset/totalsize); | ~~~~~~~~~~~~~~~ | | | uint64_t {aka long unsigned int} In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 65%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 65%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp [ 65%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 563 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 587 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 599 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 708 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 715 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 128]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 239 | while(filenames.size() > _reduceTarget) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 265 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 271 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 335 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 342 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 128]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 128; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:112:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 112 | for (int np = 0; np < _nbpart; np++) { | ~~~^~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:116:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 116 | for (int ii = 0; ii < _num_mm_bins; ii++) { | ~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo::parti_record& gatb::core::kmer::impl::PartiInfo::parti_record::operator+=(const gatb::core::kmer::impl::PartiInfo::parti_record&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:113:32: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 128]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 128; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:66:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 66 | for(int i = 0 ; i < xmer * 256 ; i++) { | ~~^~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 117 | for(int ii=0; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 120 | for(int jj=0; jj<= _histogram->getLength2(); jj++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 122 | fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); | ~~~~^ | | | long long int | %6li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for(int ii=1; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 137 | fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 67%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 67%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 68%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 563 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 587 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 599 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 708 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 715 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 32]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 239 | while(filenames.size() > _reduceTarget) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 265 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 271 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 335 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 342 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 32]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 32; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:112:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 112 | for (int np = 0; np < _nbpart; np++) { | ~~~^~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:116:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 116 | for (int ii = 0; ii < _num_mm_bins; ii++) { | ~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo::parti_record& gatb::core::kmer::impl::PartiInfo::parti_record::operator+=(const gatb::core::kmer::impl::PartiInfo::parti_record&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:113:32: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 32]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 32; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:66:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 66 | for(int i = 0 ; i < xmer * 256 ; i++) { | ~~^~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 117 | for(int ii=0; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 120 | for(int jj=0; jj<= _histogram->getLength2(); jj++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 122 | fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); | ~~~~^ | | | long long int | %6li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for(int ii=1; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 137 | fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ [ 69%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 69%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 563 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 587 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 599 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 708 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 715 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 239 | while(filenames.size() > _reduceTarget) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 265 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 271 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 335 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 342 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 64; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:112:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 112 | for (int np = 0; np < _nbpart; np++) { | ~~~^~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:116:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 116 | for (int ii = 0; ii < _num_mm_bins; ii++) { | ~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo::parti_record& gatb::core::kmer::impl::PartiInfo::parti_record::operator+=(const gatb::core::kmer::impl::PartiInfo::parti_record&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:113:32: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 64; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:66:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 66 | for(int i = 0 ; i < xmer * 256 ; i++) { | ~~^~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 117 | for(int ii=0; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 120 | for(int jj=0; jj<= _histogram->getLength2(); jj++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 122 | fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); | ~~~~^ | | | long long int | %6li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for(int ii=1; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 137 | fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ [ 69%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 69%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 70%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:563:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 563 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:587:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 587 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:599:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 599 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:708:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 708 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:715:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 715 | for(int ii=0; ii< _tmpCountFileNames.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp: In instantiation of ‘std::vector > gatb::core::kmer::impl::TempCountFileMerger::mergeFiles(std::vector >) [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:556:22: required from ‘void gatb::core::kmer::impl::PartitionsByHashCommand::execute() [with long unsigned int span = 96]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:239:27: warning: comparison of integer expressions of different signedness: ‘std::vector >::size_type’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 239 | while(filenames.size() > _reduceTarget) | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:257:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 257 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:265:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 265 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:271:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 271 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:335:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector, short unsigned int> >*, std::allocator, short unsigned int> >*> >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 335 | for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp:342:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::vector >::size_type’ {aka ‘long unsigned int’} [-Wsign-compare] 342 | for(int ii=0; ii< currentFiles.size(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 96]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 96; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:112:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 112 | for (int np = 0; np < _nbpart; np++) { | ~~~^~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:116:29: warning: comparison of integer expressions of different signedness: ‘int’ and ‘u_int64_t’ {aka ‘long unsigned int’} [-Wsign-compare] 116 | for (int ii = 0; ii < _num_mm_bins; ii++) { | ~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp: In instantiation of ‘gatb::core::kmer::impl::PartiInfo::parti_record& gatb::core::kmer::impl::PartiInfo::parti_record::operator+=(const gatb::core::kmer::impl::PartiInfo::parti_record&) [with long unsigned int xmer = 5]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:113:32: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:130:16: required from ‘gatb::core::kmer::impl::PartiInfo& gatb::core::kmer::impl::PartiInfo::add_sync(const gatb::core::kmer::impl::PartiInfo&) [with long unsigned int xmer = 5]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1151:26: required from ‘gatb::core::kmer::impl::FillPartitions::~FillPartitions() [with long unsigned int span = 96]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1242:5: required from ‘void gatb::core::kmer::impl::SortingCountAlgorithm::fillPartitions(size_t, gatb::core::tools::dp::Iterator*, gatb::core::kmer::impl::PartiInfo<5>&) [with long unsigned int span = 96; size_t = long unsigned int]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:12:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.hpp:66:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long unsigned int’ [-Wsign-compare] 66 | for(int i = 0 ; i < xmer * 256 ; i++) { | ~~^~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 117 | for(int ii=0; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 120 | for(int jj=0; jj<= _histogram->getLength2(); jj++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 122 | fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); | ~~~~^ | | | long long int | %6li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 135 | for(int ii=1; ii<= _histogram->getLength(); ii++) | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] 137 | fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 71%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 71%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 71%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp [ 71%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ [ 72%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 72%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_128.cpp [ 72%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_32.cpp [ 73%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_64.cpp [ 73%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_96.cpp [ 75%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp [ 75%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt8; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt8]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt8’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here 44 | class NativeInt8 : private misc::ArrayData | ^~~~~~~~~~ [ 76%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with long unsigned int span = 128; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:316:21: warning: unused variable ‘abundance’ [-Wunused-variable] 316 | Abundance_t abundance = (*_abundanceMap)[count.value]; | ^~~~~~~~~ [ 77%] Linking CXX static library ../lib/None/libgatbcore.a cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/gatbcore-static.dir/cmake_clean_target.cmake cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-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 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CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o [ 77%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with long unsigned int span = 32; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:316:21: warning: unused variable ‘abundance’ [-Wunused-variable] 316 | Abundance_t abundance = (*_abundanceMap)[count.value]; | ^~~~~~~~~ [ 77%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp /usr/bin/ranlib ../lib/None/libgatbcore.a [ 78%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with long unsigned int span = 64; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:316:21: warning: unused variable ‘abundance’ [-Wunused-variable] 316 | Abundance_t abundance = (*_abundanceMap)[count.value]; | ^~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp: In instantiation of ‘void gatb::core::kmer::impl::MPHFAlgorithm::check() [with long unsigned int span = 96; Abundance_t = unsigned char; NodeState_t = unsigned char]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:316:21: warning: unused variable ‘abundance’ [-Wunused-variable] 316 | Abundance_t abundance = (*_abundanceMap)[count.value]; | ^~~~~~~~~ [ 78%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 78%] Built target gatbcore-static make -f test/unit/CMakeFiles/gatb-core-cppunit.dir/build.make test/unit/CMakeFiles/gatb-core-cppunit.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit/CMakeFiles/gatb-core-cppunit.dir/DependInfo.cmake --color= Scanning dependencies of target gatb-core-cppunit make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f test/unit/CMakeFiles/gatb-core-cppunit.dir/build.make test/unit/CMakeFiles/gatb-core-cppunit.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 78%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bank/TestBank.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools/CMakeFiles/dbgh5.dir/DependInfo.cmake --color= Scanning dependencies of target dbgh5 make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 79%] Building CXX object tools/CMakeFiles/dbgh5.dir/dbgh5.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/tools/dbgh5.cpp [ 80%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/tools/dbgh5.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+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] 127 | ::system (cmd.str().c_str()); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 80%] Linking CXX executable ../bin/None/dbgh5 cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-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+git20190813.a73b6dd+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 CMakeFiles/dbgh5.dir/dbgh5.cpp.o -o ../bin/None/dbgh5 -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/x86_64-linux-gnu/libpthread.so /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libdl.so -lm In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 80%] Built target dbgh5 make -f tools/CMakeFiles/dbginfo.dir/build.make tools/CMakeFiles/dbginfo.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools/CMakeFiles/dbginfo.dir/DependInfo.cmake --color= Scanning dependencies of target dbginfo make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/dbginfo.dir/build.make tools/CMakeFiles/dbginfo.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 81%] Building CXX object tools/CMakeFiles/dbginfo.dir/dbginfo.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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/dbginfo.dir/dbginfo.cpp.o -c /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/tools/dbginfo.cpp [ 82%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bank/TestLeon.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/bank/TestLeon.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/tools/dbginfo.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/bank/TestLeon.cpp:32: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 82%] Linking CXX executable ../bin/None/dbginfo cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-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+git20190813.a73b6dd+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 CMakeFiles/dbginfo.dir/dbginfo.cpp.o -o ../bin/None/dbginfo -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/x86_64-linux-gnu/libpthread.so /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libdl.so -lm [ 82%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bank/TestSequence.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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/TestSequence.cpp.o -c /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/bank/TestSequence.cpp make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 82%] Built target dbginfo make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools/CMakeFiles/leon.dir/DependInfo.cmake --color= Scanning dependencies of target leon make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 82%] Building CXX object tools/CMakeFiles/leon.dir/leon.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/tools/leon.cpp [ 83%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bcalm/TestBcalm.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/bcalm/TestBcalm.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/tools/leon.cpp:20: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 83%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijn.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijn.cpp [ 84%] Linking CXX executable ../bin/None/leon cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-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+git20190813.a73b6dd+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 CMakeFiles/leon.dir/leon.cpp.o -o ../bin/None/leon -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/x86_64-linux-gnu/libpthread.so /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libdl.so -lm In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijn.cpp:33: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 84%] Built target leon [ 84%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 84%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijnUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijnUnitigs.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijnUnitigs.cpp:33: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 85%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplifications.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/debruijn/TestSimplifications.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/debruijn/TestSimplifications.cpp:33: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 85%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplificationsUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/debruijn/TestSimplificationsUnitigs.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/debruijn/TestSimplificationsUnitigs.cpp:33: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 86%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDSK.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/kmer/TestDSK.cpp [ 87%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp [ 87%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDebloom.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp:25: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp:25: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 87%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 87%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmer.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/kmer/TestKmer.cpp [ 87%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 88%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmerBank.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/kmer/TestKmerBank.cpp [ 89%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 89%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp [ 89%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestMPHF.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/kmer/TestMPHF.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/kmer/TestMPHF.cpp:27: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 90%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp [ 91%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/main.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/main.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 91%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp [ 91%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/system/TestSystem.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/system/TestSystem.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 91%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestBag.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/collections/TestBag.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 92%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestCollection.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/collections/TestCollection.cpp [ 92%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestContainer.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/collections/TestContainer.cpp [ 93%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestIterable.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/collections/TestIterable.cpp [ 93%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestMap.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/collections/TestMap.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/collections/TestMap.cpp:24: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 93%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 93%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/designpattern/TestIterators.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/designpattern/TestIterators.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 94%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/math/TestMath.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/math/TestMath.cpp [ 94%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/misc/TestMisc.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/misc/TestMisc.cpp [ 95%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/storage/TestStorage.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp:23: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::tools::math::NativeInt64; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::tools::math::NativeInt64]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class gatb::core::tools::math::NativeInt64’; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp:31: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here 48 | class NativeInt64 | ^~~~~~~~~~~ [ 95%] Linking CXX executable ../../bin/None/gatb-core-cppunit cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-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+git20190813.a73b6dd+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 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/bank/TestSequence.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 CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDSK.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDebloom.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmer.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmerBank.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestMPHF.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/main.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/system/TestSystem.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestBag.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestCollection.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestContainer.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestIterable.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestMap.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/designpattern/TestIterators.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/math/TestMath.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/misc/TestMisc.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/storage/TestStorage.cpp.o -o ../../bin/None/gatb-core-cppunit -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: ../../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so /usr/lib/x86_64-linux-gnu/libpthread.so /usr/lib/x86_64-linux-gnu/libsz.so /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/libdl.so -lm /usr/lib/x86_64-linux-gnu/libcppunit.so [ 96%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 96%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target gatb-core-cppunit [ 97%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<128>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<128>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<96>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<96>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<64>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<64>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp: In instantiation of ‘gatb::core::tools::storage::impl::HDF5IteratorPatch::HDF5IteratorPatch(gatb::core::tools::storage::impl::IterableHDF5Patch*, size_t) [with Item = gatb::core::kmer::impl::Kmer<>::Count; size_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:48: required from ‘gatb::core::tools::dp::Iterator* gatb::core::tools::storage::impl::IterableHDF5Patch::iterator() [with Item = gatb::core::kmer::impl::Kmer<>::Count]’ /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:436:16: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct gatb::core::kmer::impl::Kmer<>::Count’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 436 | memset (_data, 0, _blockSize*sizeof(Item)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here 1568 | struct Count : tools::misc::Abundance | ^~~~~ [ 97%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp [ 97%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li In file included from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:33: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 535 | printf("bit array of size %lli: \n",_size); | ~~~^ ~~~~~ | | | | | uint64_t {aka long unsigned int} | long long int | %li /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:19: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 539 | printf(" (%llu) ",ii); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:16: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ ~~ | | | | | uint64_t {aka long unsigned int} | long long unsigned int | %lu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:24: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘__gnu_cxx::__alloc_traits, long unsigned int>::value_type’ {aka ‘long unsigned int’} [-Wformat=] 548 | printf("%llu : %lli, ",ii,_ranks[ii]); | ~~~^ | | | long long int | %li [ 98%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_128.cpp [ 98%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_32.cpp [100%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_64.cpp [100%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20190813.a73b6dd+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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_96.cpp [100%] Linking CXX shared library ../lib/None/libgatbcore.so cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-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+git20190813.a73b6dd+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.2 -o ../lib/None/libgatbcore.so.2 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 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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 cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library ../lib/None/libgatbcore.so.2 ../lib/None/libgatbcore.so.2 ../lib/None/libgatbcore.so make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [100%] Built target gatbcore-dynamic make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make[1]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg' debian/rules override_dh_auto_build-indep make[1]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg' echo "Save time of autobuilders and do nothing ... unfortunately this does not seem to work" Save time of autobuilders and do nothing ... unfortunately this does not seem to work make[1]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg' dh_auto_test -O--sourcedirectory=gatb-core create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --sourcedirectory=gatb-core dh_testroot -O--sourcedirectory=gatb-core dh_prep -O--sourcedirectory=gatb-core dh_auto_install -O--sourcedirectory=gatb-core cd obj-x86_64-linux-gnu && make -j4 install DESTDIR=/<>/gatb-core-1.4.1\+git20190813.a73b6dd\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core -B/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/CMakeFiles /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/depend make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty/CMakeFiles/thirdparty_copy.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-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+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/json cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF make[3]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/gatbcore-static.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/gatbcore-dynamic.dir/DependInfo.cmake --color= cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty/BooPHF/BooPHF.h /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/ cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/thirdparty/json/json.hpp /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/include/None/json/ make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/build make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/build [ 0%] Built target thirdparty_copy make[3]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'src/CMakeFiles/gatbcore-static.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'src/CMakeFiles/gatbcore-dynamic.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' [ 43%] Built target gatbcore-static make -f test/unit/CMakeFiles/gatb-core-cppunit.dir/build.make test/unit/CMakeFiles/gatb-core-cppunit.dir/depend make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/depend make -f tools/CMakeFiles/dbginfo.dir/build.make tools/CMakeFiles/dbginfo.dir/depend [ 86%] Built target gatbcore-dynamic make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/depend make[3]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools/CMakeFiles/dbgh5.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools/CMakeFiles/dbginfo.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/tools/CMakeFiles/leon.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/gatb-core/test/unit /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/test/unit/CMakeFiles/gatb-core-cppunit.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/dbginfo.dir/build.make tools/CMakeFiles/dbginfo.dir/build make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/build make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/build make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make -f test/unit/CMakeFiles/gatb-core-cppunit.dir/build.make test/unit/CMakeFiles/gatb-core-cppunit.dir/build make[3]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/CMakeFiles/dbginfo.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make[3]: Entering 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-E cmake_progress_start /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage3.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage4.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage1.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage7.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage8.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage2.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage5.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage6.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage9.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage10.cpp -- Installing: 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-- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/protos/MicroSNP.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/protos/histo2D.cpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/CMakeLists.txt -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/Makefile -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/./README.txt -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libgatbcore.a -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libgatbcore.so.2 -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libgatbcore.so -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/api -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/api/IContainerNode.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/UnitigsConstructionAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/rank_vector.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Graph.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Frontline.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Simplifications.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Terminator.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/GraphUnitigs.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/IterativeExtensions.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/ExtremityInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Traversal.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/BranchingAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/NodesDeleter.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/LinkTigs.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/ContainerNode.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/dag_vector.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bcalm2 -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bcalm2/bcalm_algo.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bcalm2/ographBin.h -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bcalm2/ThreadPool.h -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bcalm2/logging.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bcalm2/unionFind.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bcalm2/binSeq.h -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bcalm2/bglue_algo.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bcalm2/ograph.h -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/api -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/api/ICountProcessor.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/api/IModel.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomMinimizerAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BloomAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/ConfigurationAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithm.pri -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BankKmerIterator.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/LinearCounter.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorDump.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Model.pri -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BloomBuilder.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessor.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/MPHFAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BankKmers.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/SortingCountAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithmFactory.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorProxy.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/RepartitionAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Model.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorAbstract.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/PartiInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Configuration.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorChain.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/PartitionsCommand.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorHistogram.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorSolidity.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Sequence2SuperKmer.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorCutoff.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/api -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/api/IBank.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/api/Sequence.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/api/IAlphabet.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankComposite.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/Alphabet.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankBinary.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/Bank.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankFasta.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankRandom.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankConverterAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/Banks.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankSplitter.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankHelpers.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/AbstractBank.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankAlbum.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankStrings.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/template -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api/config_sha1.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api/Exception.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api/ITime.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api/IMemory.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api/ISystemInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api/IFileSystem.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api/IThread.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api/ISmartPointer.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api/types.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/impl -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/impl/FileSystemMacos.hpp -- 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/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/api -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/api/ICell.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Cell.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageHDF5.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Storage.tpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionFile.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Storage.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionHDF5.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionHDF5Patch.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageTools.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageFile.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/designpattern -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/ICommand.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/IObserver.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/Iterator.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/Command.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/IteratorHelpers.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/Observer.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Abundance.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IProperty.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IHistogram.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Vector.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Range.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/StringsRepository.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Enums.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Data.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Macros.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IOptionsParser.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/HostInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/TimeInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/LibraryInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Stringify.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/XmlReader.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Tokenizer.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Histogram.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Progress.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/StringLine.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Pool.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Property.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/OptionsParser.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Algorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Tool.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/api -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Container.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Collection.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Bag.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Iterable.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BooPHF.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/ContainerSet.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BagPartition.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/IterableHelpers.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/CollectionAbstract.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/OAHash.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BagCache.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/CollectionCache.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/Bloom.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/MapMPHF.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BloomGroup.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/IteratorFile.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/Hash16.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BagFile.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt16.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt128.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt64.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt1.pri -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt2.pri -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math/Integer.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math/FastMinimizer.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt8.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt32.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/compression -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/compression/RangeCoder.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/compression/HeaderCoder.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/compression/CompressionUtils.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/compression/DnaCoder.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/tools/compression/Leon.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/gatb_core.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/gatb/system/api/config.hpp -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test/gatb-core-cppunit -- Set runtime path of "/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test/gatb-core-cppunit" to "" -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/microsnp.fa -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/celegans_reads.h5 -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/leon2.fastq -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/sample.fastq -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/README.md -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/query.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/leon2.fastq.leon-ref -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/reads1_list_ids.txt -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/sample1.fa -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/sample1.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/album.txt -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/leon1.fastq.leon-ref -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/sample2.fa -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/sample.fastq.gz -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/reads2.fa -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/reads1.fa -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/query.fa -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/reads3.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/reads1.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/test//db/leon1.fastq -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/bin/dbgh5 -- Set runtime path of "/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/bin/dbgh5" to "" -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/bin/dbginfo -- Set runtime path of "/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/bin/dbginfo" to "" -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/bin/leon -- Set runtime path of "/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/bin/leon" to "" -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/BooPHF -- Installing: /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/include/BooPHF/BooPHF.h make[1]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/obj-x86_64-linux-gnu' debian/rules override_dh_install-arch make[1]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg' 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/x86_64-linux-gnu install -d -m 755 debian/libgatbcore2/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libgatbcore.a debian/libgatbcore-dev/usr/lib/x86_64-linux-gnu mv debian/tmp/usr/lib/x86_64-linux-gnu/libgatbcore.so debian/libgatbcore-dev/usr/lib/x86_64-linux-gnu mv /<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libgatbcore.so.2 debian/libgatbcore2/usr/lib/x86_64-linux-gnu PKGDEV=libgatbcore-dev PKGSHL=libgatbcore2 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/x86_64-linux-gnu mv gatb-core/cmake debian/libgatbcore-dev/usr/lib/x86_64-linux-gnu mkdir -p debian/gatb-core/usr/lib/gatb-core dh_install -a make[1]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg' debian/rules override_dh_install-indep make[1]: Entering directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg' dh_install -i mkdir -p debian/gatb-core/usr/lib/gatb-core mv debian/gatb-core-testdata/usr/share/doc/gatb-core/test/gatb-core-cppunit debian/gatb-core/usr/lib/gatb-core make[1]: Leaving directory '/<>/gatb-core-1.4.1+git20190813.a73b6dd+dfsg' dh_installdocs -O--sourcedirectory=gatb-core dh_installchangelogs -O--sourcedirectory=gatb-core dh_installexamples -O--sourcedirectory=gatb-core dh_installman -O--sourcedirectory=gatb-core dh_installinit -O--sourcedirectory=gatb-core dh_installsystemduser -O--sourcedirectory=gatb-core dh_perl -O--sourcedirectory=gatb-core dh_link -O--sourcedirectory=gatb-core dh_strip_nondeterminism -O--sourcedirectory=gatb-core dh_compress -O--sourcedirectory=gatb-core dh_fixperms -O--sourcedirectory=gatb-core dh_missing -O--sourcedirectory=gatb-core dh_dwz -O--sourcedirectory=gatb-core dh_strip -O--sourcedirectory=gatb-core dh_makeshlibs -O--sourcedirectory=gatb-core dpkg-gensymbols: warning: some new symbols appeared in the symbols file: see diff output below dpkg-gensymbols: error: some symbols or patterns disappeared in the symbols file: see diff output below dpkg-gensymbols: warning: debian/libgatbcore2/DEBIAN/symbols doesn't match completely debian/libgatbcore2.symbols.amd64 --- debian/libgatbcore2.symbols.amd64 (libgatbcore2_1.4.1+git20190813.a73b6dd+dfsg-1_amd64) +++ dpkg-gensymbolsV8F4_L 2020-01-05 12:43:10.972738393 +0000 @@ -2542,6 +2542,7 @@ _ZN4gatb4core5tools11collections4impl27IteratorCountCompressedFileINS1_4math8LargeIntILi4EEEE6isDoneEv@Base 1.4.1+git20190813.a73b6dd+dfsg _ZN4gatb4core5tools11collections4impl27IteratorCountCompressedFileINS1_4math8LargeIntILi4EEEED0Ev@Base 1.4.1+git20190813.a73b6dd+dfsg _ZN4gatb4core5tools11collections4impl27IteratorCountCompressedFileINS1_4math8LargeIntILi4EEEED1Ev@Base 1.4.1+git20190813.a73b6dd+dfsg + _ZN4gatb4core5tools11collections4impl27IteratorCountCompressedFileINS1_4misc10IHistogram5EntryEE17readChunkIfNeededEm@Base 1.4.1+git20190813.a73b6dd+dfsg-1 _ZN4gatb4core5tools11collections4impl27IteratorCountCompressedFileINS1_4misc10IHistogram5EntryEE4itemEv@Base 1.4.1+git20190813.a73b6dd+dfsg _ZN4gatb4core5tools11collections4impl27IteratorCountCompressedFileINS1_4misc10IHistogram5EntryEE4nextEv@Base 1.4.1+git20190813.a73b6dd+dfsg _ZN4gatb4core5tools11collections4impl27IteratorCountCompressedFileINS1_4misc10IHistogram5EntryEE5firstEv@Base 1.4.1+git20190813.a73b6dd+dfsg @@ -6297,7 +6298,7 @@ _ZN4gatb4core8debruijn4impl27BranchingTerminatorTemplateINS2_6Node_tINS0_5tools4math15IntegerTemplateIN5boost3mpl7vector4IN4mpl_4int_ILi32EEENSC_ILi64EEENSC_ILi96EEENSC_ILi128EEEEEEEEENS2_6Edge_tISJ_EENS2_13GraphTemplateISJ_SL_NS8_7variantINS8_6detail7variant13over_sequenceINS9_6l_itemINSB_5long_ILl4EEENS2_9GraphDataILm32EEENSR_INSS_ILl3EEENSU_ILm64EEENSR_INSS_ILl2EEENSU_ILm96EEENSR_INSS_ILl1EEENSU_ILm128EEENS9_5l_endEEEEEEEEEEEJEEEEEE4markERSJ_@Base 1.4.1+git20190813.a73b6dd+dfsg 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_ZN4gatb4core8debruijn4impl27BranchingTerminatorTemplateINS2_6Node_tINS0_5tools4math15IntegerTemplateIN5boost3mpl7vector4IN4mpl_4int_ILi32EEENSC_ILi64EEENSC_ILi96EEENSC_ILi128EEEEEEEEENS2_6Edge_tISJ_EENS2_13GraphTemplateISJ_SL_NS8_7variantINS8_6detail7variant13over_sequenceINS9_6l_itemINSB_5long_ILl4EEENS2_9GraphDataILm32EEENSR_INSS_ILl3EEENSU_ILm64EEENSR_INSS_ILl2EEENSU_ILm96EEENSR_INSS_ILl1EEENSU_ILm128EEENS9_5l_endEEEEEEEEEEEJEEEEEE8AssocSetISI_tE3setERKSI_RKt@Base 1.4.1+git20190813.a73b6dd+dfsg +#MISSING: 1.4.1+git20190813.a73b6dd+dfsg-1# 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_ZNSt6vectorIN4gatb4core5tools4math8LargeIntILi3EEESaIS5_EEC1EmRKS6_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZNSt6vectorIN4gatb4core5tools4math8LargeIntILi3EEESaIS5_EEC2EmRKS6_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZNSt6vectorIN4gatb4core5tools4math8LargeIntILi3EEESaIS5_EEaSERKS7_@Base 1.4.1+git20190813.a73b6dd+dfsg @@ -9086,7 +9096,7 @@ _ZSt13__heap_selectIPN4gatb4core5tools11collections4impl6Hash16INS2_4math8LargeIntILi4EEEiE4cellEN9__gnu_cxx5__ops15_Iter_comp_iterIPFbRKSA_SG_EEEEvT_SK_SK_T0_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZSt13__lower_boundIN9__gnu_cxx17__normal_iteratorIPN4gatb4core5tools4math15IntegerTemplateIN5boost3mpl7vector4IN4mpl_4int_ILi32EEENSB_ILi64EEENSB_ILi96EEENSB_ILi128EEEEEEESt6vectorISH_SaISH_EEEESH_NS0_5__ops14_Iter_less_valEET_SP_SP_RKT0_T1_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZSt13__lower_boundIN9__gnu_cxx17__normal_iteratorIPN4gatb4core5tools4math8LargeIntILi2EEESt6vectorIS7_SaIS7_EEEES7_NS0_5__ops14_Iter_less_valEET_SF_SF_RKT0_T1_@Base 1.4.1+git20190813.a73b6dd+dfsg - _ZSt13__lower_boundIN9__gnu_cxx17__normal_iteratorIPN4gatb4core5tools4math8LargeIntILi3EEESt6vectorIS7_SaIS7_EEEES7_NS0_5__ops14_Iter_less_valEET_SF_SF_RKT0_T1_@Base 1.4.1+git20190813.a73b6dd+dfsg +#MISSING: 1.4.1+git20190813.a73b6dd+dfsg-1# _ZSt13__lower_boundIN9__gnu_cxx17__normal_iteratorIPN4gatb4core5tools4math8LargeIntILi3EEESt6vectorIS7_SaIS7_EEEES7_NS0_5__ops14_Iter_less_valEET_SF_SF_RKT0_T1_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZSt13binary_searchIN9__gnu_cxx17__normal_iteratorIPN4gatb4core5tools4math8LargeIntILi2EEESt6vectorIS7_SaIS7_EEEES7_EbT_SD_RKT0_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZSt13binary_searchIN9__gnu_cxx17__normal_iteratorIPN4gatb4core5tools4math8LargeIntILi3EEESt6vectorIS7_SaIS7_EEEES7_EbT_SD_RKT0_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZSt13binary_searchIN9__gnu_cxx17__normal_iteratorIPN4gatb4core5tools4math8LargeIntILi4EEESt6vectorIS7_SaIS7_EEEES7_EbT_SD_RKT0_@Base 1.4.1+git20190813.a73b6dd+dfsg @@ -9180,7 +9190,8 @@ _ZSt4copyIN4gatb4core8debruijn4impl6NodeNtINS3_6Node_tINS1_5tools4math8LargeIntILi3EEEEEEEESt15_Deque_iteratorIT_RSD_PSD_ESC_ISD_RKSD_PSH_ESK_SG_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZSt4copyIN4gatb4core8debruijn4impl6NodeNtINS3_6Node_tINS1_5tools4math8LargeIntILi4EEEEEEEESt15_Deque_iteratorIT_RSD_PSD_ESC_ISD_RKSD_PSH_ESK_SG_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZSt4fillSt13_Bit_iteratorS_RKb@Base 1.4.1+git20190813.a73b6dd+dfsg - _ZSt4moveIN4gatb4core8debruijn4impl6NodeNtINS3_6Node_tINS1_5tools4math15IntegerTemplateIN5boost3mpl7vector4IN4mpl_4int_ILi32EEENSD_ILi64EEENSD_ILi96EEENSD_ILi128EEEEEEEEEEEESt15_Deque_iteratorIT_RSN_PSN_ESM_ISN_RKSN_PSR_ESU_SQ_@Base 1.4.1+git20190813.a73b6dd+dfsg +#MISSING: 1.4.1+git20190813.a73b6dd+dfsg-1# _ZSt4moveIN4gatb4core8debruijn4impl6NodeNtINS3_6Node_tINS1_5tools4math15IntegerTemplateIN5boost3mpl7vector4IN4mpl_4int_ILi32EEENSD_ILi64EEENSD_ILi96EEENSD_ILi128EEEEEEEEEEEESt15_Deque_iteratorIT_RSN_PSN_ESM_ISN_RKSN_PSR_ESU_SQ_@Base 1.4.1+git20190813.a73b6dd+dfsg + _ZSt4moveIN4gatb4core8debruijn4impl6NodeNtINS3_6Node_tINS1_5tools4math15IntegerTemplateIN5boost3mpl7vector4IN4mpl_4int_ILi32EEENSD_ILi64EEENSD_ILi96EEENSD_ILi128EEEEEEEEEEEESt15_Deque_iteratorIT_RSN_PSN_ESQ_SQ_SQ_@Base 1.4.1+git20190813.a73b6dd+dfsg-1 _ZSt4swapIN4gatb4core5tools4math15IntegerTemplateIN5boost3mpl7vector4IN4mpl_4int_ILi32EEENS9_ILi64EEENS9_ILi96EEENS9_ILi128EEEEEEEENSt9enable_ifIXsrSt6__and_IJSt6__not_ISt15__is_tuple_likeIT_EESt21is_move_constructibleISK_ESt18is_move_assignableISK_EEE5valueEvE4typeERSK_SU_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZSt4swapIN4gatb4core8debruijn4impl6Edge_tINS3_6Node_tINS1_5tools4math15IntegerTemplateIN5boost3mpl7vector4IN4mpl_4int_ILi32EEENSD_ILi64EEENSD_ILi96EEENSD_ILi128EEEEEEEEEEEENSt9enable_ifIXsrSt6__and_IJSt6__not_ISt15__is_tuple_likeIT_EESt21is_move_constructibleISQ_ESt18is_move_assignableISQ_EEE5valueEvE4typeERSQ_S10_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZSt9__advanceISt15_Deque_iteratorIN4gatb4core8debruijn4impl6NodeNtINS4_6Node_tINS2_5tools4math15IntegerTemplateIN5boost3mpl7vector4IN4mpl_4int_ILi32EEENSE_ILi64EEENSE_ILi96EEENSE_ILi128EEEEEEEEEEERKSM_PSN_ElEvRT_T0_St26random_access_iterator_tag@Base 1.4.1+git20190813.a73b6dd+dfsg @@ -9194,7 +9205,7 @@ _ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEOS8_RKS8_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEOS8_S9_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEPKS5_OS8_@Base 1.4.1+git20190813.a73b6dd+dfsg - _ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEPKS5_RKS8_@Base 1.4.1+git20190813.a73b6dd+dfsg +#MISSING: 1.4.1+git20190813.a73b6dd+dfsg-1# _ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EEPKS5_RKS8_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EERKS8_OS8_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZStplIcSt11char_traitsIcESaIcEENSt7__cxx1112basic_stringIT_T0_T1_EERKS8_PKS5_@Base 1.4.1+git20190813.a73b6dd+dfsg _ZTI15BankLeonFactory@Base 1.4.1+git20190813.a73b6dd+dfsg dh_makeshlibs: failing due to earlier errors make: *** [debian/rules:10: binary] Error 255 dpkg-buildpackage: error: fakeroot debian/rules binary subprocess returned exit status 2 -------------------------------------------------------------------------------- Build finished at 20200105-1243 Finished -------- E: Build failure (dpkg-buildpackage died) +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build-Space: 3883232 Build-Time: 1076 Distribution: focal Fail-Stage: build Host Architecture: amd64 Install-Time: 113 Job: gatb-core_1.4.1+git20190813.a73b6dd+dfsg-1.dsc Machine Architecture: amd64 Package: gatb-core Package-Time: 1190 Source-Version: 1.4.1+git20190813.a73b6dd+dfsg-1 Space: 3883232 Status: attempted Version: 1.4.1+git20190813.a73b6dd+dfsg-1 -------------------------------------------------------------------------------- Finished at 20200105-1243 Build needed 00:19:50, 3883232k disc space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=focal --arch=amd64 PACKAGEBUILD-18296107 Scanning for processes to kill in build PACKAGEBUILD-18296107