https://launchpad.net/ubuntu/+source/gatb-core/1.4.1+git20180206.6f8fce8+dfsg-1/+build/16311943 RUN: /usr/share/launchpad-buildd/slavebin/slave-prep Forking launchpad-buildd slave process... Kernel version: Linux lgw01-amd64-052 4.4.0-141-generic #167-Ubuntu SMP Wed Dec 5 10:40:15 UTC 2018 x86_64 Buildd toolchain package versions: launchpad-buildd_165 python-lpbuildd_165 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.4~git201611291343.dcee459~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.6 dpkg-dev_1.18.4ubuntu1.5 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 23 Jan 05:12:07 ntpdate[1816]: adjust time server 10.211.37.1 offset -0.000246 sec RUN: /usr/share/launchpad-buildd/slavebin/in-target unpack-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-16311943 /home/buildd/filecache-default/020b0022f770b890c357907d03d82568c584d50e Creating target for build PACKAGEBUILD-16311943 RUN: /usr/share/launchpad-buildd/slavebin/in-target mount-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-16311943 Starting target for build PACKAGEBUILD-16311943 RUN: /usr/share/launchpad-buildd/slavebin/in-target override-sources-list --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-16311943 'deb http://ftpmaster.internal/ubuntu disco main universe' 'deb http://ftpmaster.internal/ubuntu disco-security main universe' 'deb http://ftpmaster.internal/ubuntu disco-updates main universe' 'deb http://ftpmaster.internal/ubuntu disco-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-16311943 RUN: /usr/share/launchpad-buildd/slavebin/in-target update-debian-chroot --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-16311943 Updating target for build PACKAGEBUILD-16311943 Get:1 http://ftpmaster.internal/ubuntu disco InRelease [243 kB] Get:2 http://ftpmaster.internal/ubuntu disco-security InRelease [65.4 kB] Get:3 http://ftpmaster.internal/ubuntu disco-updates InRelease [65.4 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed InRelease [93.2 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main amd64 Packages [1009 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main Translation-en [512 kB] Get:7 http://ftpmaster.internal/ubuntu disco/universe amd64 Packages [9013 kB] Get:8 http://ftpmaster.internal/ubuntu disco/universe Translation-en [5213 kB] Get:9 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 Packages [149 kB] Get:10 http://ftpmaster.internal/ubuntu disco-proposed/main Translation-en [61.7 kB] Get:11 http://ftpmaster.internal/ubuntu disco-proposed/universe amd64 Packages [538 kB] Get:12 http://ftpmaster.internal/ubuntu disco-proposed/universe Translation-en [291 kB] Fetched 17.3 MB in 6s (2794 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following package was automatically installed and is no longer required: libreadline7 Use 'sudo apt autoremove' to remove it. The following NEW packages will be installed: libreadline8 The following packages will be upgraded: apt bash binutils binutils-common binutils-x86-64-linux-gnu bsdutils coreutils cpp-8 dash debconf debianutils dpkg dpkg-dev e2fslibs e2fsprogs fdisk findutils g++-8 gcc-8 gcc-8-base gpg gpg-agent gpgconf gpgv grep gzip init init-system-helpers libapt-pkg5.0 libargon2-1 libasan5 libassuan0 libatomic1 libbinutils libblkid1 libcap-ng0 libcc1-0 libcom-err2 libcomerr2 libdpkg-perl libext2fs2 libfdisk1 libgcc-8-dev libgcc1 libgdbm-compat4 libgdbm6 libgnutls30 libgomp1 libgpg-error0 libitm1 libjson-c3 liblsan0 liblz4-1 libmount1 libmpfr6 libmpx2 libpng16-16 libquadmath0 libsemanage-common libsemanage1 libsmartcols1 libsqlite3-0 libss2 libstdc++-8-dev libstdc++6 libsystemd0 libtsan0 libubsan1 libudev1 libuuid1 libzstd1 linux-libc-dev mount readline-common sed systemd systemd-sysv tar tzdata 79 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 48.4 MB of archives. After this operation, 2172 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu disco/main amd64 debianutils amd64 4.8.6.1 [85.5 kB] Get:2 http://ftpmaster.internal/ubuntu disco/main amd64 bash amd64 5.0-1ubuntu1 [643 kB] Get:3 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 bsdutils amd64 1:2.33.1-0.1ubuntu1 [63.6 kB] Get:4 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 coreutils amd64 8.30-1ubuntu1 [1243 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main amd64 tar amd64 1.30+dfsg-4 [242 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main amd64 dpkg amd64 1.19.2ubuntu2 [1101 kB] Get:7 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 debconf all 1.5.70 [122 kB] Get:8 http://ftpmaster.internal/ubuntu disco/main amd64 dash amd64 0.5.10.2-4ubuntu1 [85.8 kB] Get:9 http://ftpmaster.internal/ubuntu disco/main amd64 findutils amd64 4.6.0+git+20190105-2 [329 kB] Get:10 http://ftpmaster.internal/ubuntu disco/main amd64 grep amd64 3.3-1 [149 kB] Get:11 http://ftpmaster.internal/ubuntu disco/main amd64 gzip amd64 1.9-3 [93.8 kB] Get:12 http://ftpmaster.internal/ubuntu disco/main amd64 sed amd64 4.7-1 [190 kB] Get:13 http://ftpmaster.internal/ubuntu disco/main amd64 init-system-helpers all 1.56+nmu1 [38.2 kB] Get:14 http://ftpmaster.internal/ubuntu disco/main amd64 libgnutls30 amd64 3.6.5-2ubuntu1 [759 kB] Get:15 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libubsan1 amd64 8.2.0-14ubuntu1 [121 kB] Get:16 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libtsan0 amd64 8.2.0-14ubuntu1 [288 kB] Get:17 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gcc-8-base amd64 8.2.0-14ubuntu1 [18.6 kB] Get:18 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgcc1 amd64 1:8.2.0-14ubuntu1 [40.8 kB] Get:19 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgomp1 amd64 8.2.0-14ubuntu1 [76.4 kB] Get:20 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libitm1 amd64 8.2.0-14ubuntu1 [28.1 kB] Get:21 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libatomic1 amd64 8.2.0-14ubuntu1 [9056 B] Get:22 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libasan5 amd64 8.2.0-14ubuntu1 [364 kB] Get:23 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 liblsan0 amd64 8.2.0-14ubuntu1 [132 kB] Get:24 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libmpx2 amd64 8.2.0-14ubuntu1 [11.7 kB] Get:25 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libquadmath0 amd64 8.2.0-14ubuntu1 [134 kB] Get:26 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 cpp-8 amd64 8.2.0-14ubuntu1 [7225 kB] Get:27 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libcc1-0 amd64 8.2.0-14ubuntu1 [39.4 kB] Get:28 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 g++-8 amd64 8.2.0-14ubuntu1 [8116 kB] Get:29 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gcc-8 amd64 8.2.0-14ubuntu1 [8008 kB] Get:30 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgcc-8-dev amd64 8.2.0-14ubuntu1 [2303 kB] Get:31 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libstdc++-8-dev amd64 8.2.0-14ubuntu1 [1539 kB] Get:32 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libstdc++6 amd64 8.2.0-14ubuntu1 [398 kB] Get:33 http://ftpmaster.internal/ubuntu disco/main amd64 libmpfr6 amd64 4.0.2~rc1-1 [240 kB] Get:34 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libbinutils amd64 2.31.1-11ubuntu1 [484 kB] Get:35 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 binutils-common amd64 2.31.1-11ubuntu1 [194 kB] Get:36 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 binutils amd64 2.31.1-11ubuntu1 [3396 B] Get:37 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.31.1-11ubuntu1 [1829 kB] Get:38 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 liblz4-1 amd64 1.8.3-1ubuntu1 [71.7 kB] Get:39 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libudev1 amd64 240-4ubuntu1 [71.0 kB] Get:40 http://ftpmaster.internal/ubuntu disco/main amd64 libzstd1 amd64 1.3.8+dfsg-3 [226 kB] Get:41 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libapt-pkg5.0 amd64 1.8.0~alpha3.1 [817 kB] Get:42 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgpg-error0 amd64 1.33-3 [57.4 kB] Get:43 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gpgv amd64 2.2.12-1ubuntu2 [198 kB] Get:44 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 apt amd64 1.8.0~alpha3.1 [1164 kB] Get:45 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 systemd-sysv amd64 240-4ubuntu1 [9376 B] Get:46 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libuuid1 amd64 2.33.1-0.1ubuntu1 [20.9 kB] Get:47 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libblkid1 amd64 2.33.1-0.1ubuntu1 [133 kB] Get:48 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libmount1 amd64 2.33.1-0.1ubuntu1 [146 kB] Get:49 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libsmartcols1 amd64 2.33.1-0.1ubuntu1 [92.2 kB] Get:50 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 mount amd64 2.33.1-0.1ubuntu1 [113 kB] Get:51 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 systemd amd64 240-4ubuntu1 [3327 kB] Get:52 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libsystemd0 amd64 240-4ubuntu1 [250 kB] Get:53 http://ftpmaster.internal/ubuntu disco/main amd64 libext2fs2 amd64 1.44.5-1 [159 kB] Get:54 http://ftpmaster.internal/ubuntu disco/main amd64 e2fsprogs amd64 1.44.5-1 [514 kB] Get:55 http://ftpmaster.internal/ubuntu disco/main amd64 init amd64 1.56+nmu1 [6080 B] Get:56 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libfdisk1 amd64 2.33.1-0.1ubuntu1 [173 kB] Get:57 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 fdisk amd64 2.33.1-0.1ubuntu1 [118 kB] Get:58 http://ftpmaster.internal/ubuntu disco/main amd64 libcap-ng0 amd64 0.7.9-2 [11.0 kB] Get:59 http://ftpmaster.internal/ubuntu disco/main amd64 libsemanage-common all 2.8-2 [7016 B] Get:60 http://ftpmaster.internal/ubuntu disco/main amd64 libsemanage1 amd64 2.8-2 [85.2 kB] Get:61 http://ftpmaster.internal/ubuntu disco/main amd64 libcom-err2 amd64 1.44.5-1 [9372 B] Get:62 http://ftpmaster.internal/ubuntu disco/main amd64 libss2 amd64 1.44.5-1 [11.1 kB] Get:63 http://ftpmaster.internal/ubuntu disco/main amd64 libargon2-1 amd64 0~20171227-0.2 [19.2 kB] Get:64 http://ftpmaster.internal/ubuntu disco/main amd64 libjson-c3 amd64 0.12.1+ds-2 [22.2 kB] Get:65 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 readline-common all 8.0-1 [53.4 kB] Get:66 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libreadline8 amd64 8.0-1 [130 kB] Get:67 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libsqlite3-0 amd64 3.26.0+fossilbc891ac6b-1build1 [530 kB] Get:68 http://ftpmaster.internal/ubuntu disco/main amd64 tzdata all 2018i-1 [189 kB] Get:69 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgdbm6 amd64 1.18.1-2build1 [27.6 kB] Get:70 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libpng16-16 amd64 1.6.36-3 [179 kB] Get:71 http://ftpmaster.internal/ubuntu disco/main amd64 dpkg-dev all 1.19.2ubuntu2 [549 kB] Get:72 http://ftpmaster.internal/ubuntu disco/main amd64 libdpkg-perl all 1.19.2ubuntu2 [227 kB] Get:73 http://ftpmaster.internal/ubuntu disco/main amd64 e2fslibs amd64 1.44.5-1 [2704 B] Get:74 http://ftpmaster.internal/ubuntu disco/main amd64 libassuan0 amd64 2.5.2-1 [35.1 kB] Get:75 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gpg amd64 2.2.12-1ubuntu2 [475 kB] Get:76 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gpgconf amd64 2.2.12-1ubuntu2 [123 kB] Get:77 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 gpg-agent amd64 2.2.12-1ubuntu2 [230 kB] Get:78 http://ftpmaster.internal/ubuntu disco/main amd64 libcomerr2 amd64 1.44.5-1 [2700 B] Get:79 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgdbm-compat4 amd64 1.18.1-2build1 [6168 B] Get:80 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 linux-libc-dev amd64 4.19.0-11.12 [1065 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 48.4 MB in 2s (24.3 MB/s) (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../debianutils_4.8.6.1_amd64.deb ... Unpacking debianutils (4.8.6.1) over (4.8.6) ... Setting up debianutils (4.8.6.1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../bash_5.0-1ubuntu1_amd64.deb ... Unpacking bash (5.0-1ubuntu1) over (4.4.18-2ubuntu3) ... Setting up bash (5.0-1ubuntu1) ... update-alternatives: using /usr/share/man/man7/bash-builtins.7.gz to provide /usr/share/man/man7/builtins.7.gz (builtins.7.gz) in auto mode (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../bsdutils_1%3a2.33.1-0.1ubuntu1_amd64.deb ... Unpacking bsdutils (1:2.33.1-0.1ubuntu1) over (1:2.32-0.1ubuntu2) ... Setting up bsdutils (1:2.33.1-0.1ubuntu1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../coreutils_8.30-1ubuntu1_amd64.deb ... Unpacking coreutils (8.30-1ubuntu1) over (8.28-1ubuntu2) ... Setting up coreutils (8.30-1ubuntu1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../tar_1.30+dfsg-4_amd64.deb ... Unpacking tar (1.30+dfsg-4) over (1.30+dfsg-3) ... Setting up tar (1.30+dfsg-4) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../dpkg_1.19.2ubuntu2_amd64.deb ... Unpacking dpkg (1.19.2ubuntu2) over (1.19.2ubuntu1) ... Setting up dpkg (1.19.2ubuntu2) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../debconf_1.5.70_all.deb ... Unpacking debconf (1.5.70) over (1.5.69) ... Setting up debconf (1.5.70) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../dash_0.5.10.2-4ubuntu1_amd64.deb ... Unpacking dash (0.5.10.2-4ubuntu1) over (0.5.10.2-2) ... Setting up dash (0.5.10.2-4ubuntu1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../findutils_4.6.0+git+20190105-2_amd64.deb ... Unpacking findutils (4.6.0+git+20190105-2) over (4.6.0+git+20181018-1) ... Setting up findutils (4.6.0+git+20190105-2) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../archives/grep_3.3-1_amd64.deb ... Unpacking grep (3.3-1) over (3.1-3) ... Setting up grep (3.3-1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../archives/gzip_1.9-3_amd64.deb ... Unpacking gzip (1.9-3) over (1.6-5ubuntu2) ... Setting up gzip (1.9-3) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../archives/sed_4.7-1_amd64.deb ... Unpacking sed (4.7-1) over (4.5-2) ... Setting up sed (4.7-1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../init-system-helpers_1.56+nmu1_all.deb ... Unpacking init-system-helpers (1.56+nmu1) over (1.56) ... Setting up init-system-helpers (1.56+nmu1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../libgnutls30_3.6.5-2ubuntu1_amd64.deb ... Unpacking libgnutls30:amd64 (3.6.5-2ubuntu1) over (3.6.4-2ubuntu2) ... Setting up libgnutls30:amd64 (3.6.5-2ubuntu1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../libubsan1_8.2.0-14ubuntu1_amd64.deb ... Unpacking libubsan1:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../libtsan0_8.2.0-14ubuntu1_amd64.deb ... Unpacking libtsan0:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../gcc-8-base_8.2.0-14ubuntu1_amd64.deb ... Unpacking gcc-8-base:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Setting up gcc-8-base:amd64 (8.2.0-14ubuntu1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../libgcc1_1%3a8.2.0-14ubuntu1_amd64.deb ... Unpacking libgcc1:amd64 (1:8.2.0-14ubuntu1) over (1:8.2.0-12ubuntu1) ... Setting up libgcc1:amd64 (1:8.2.0-14ubuntu1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../00-libgomp1_8.2.0-14ubuntu1_amd64.deb ... Unpacking libgomp1:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../01-libitm1_8.2.0-14ubuntu1_amd64.deb ... Unpacking libitm1:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../02-libatomic1_8.2.0-14ubuntu1_amd64.deb ... Unpacking libatomic1:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../03-libasan5_8.2.0-14ubuntu1_amd64.deb ... Unpacking libasan5:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../04-liblsan0_8.2.0-14ubuntu1_amd64.deb ... Unpacking liblsan0:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../05-libmpx2_8.2.0-14ubuntu1_amd64.deb ... Unpacking libmpx2:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../06-libquadmath0_8.2.0-14ubuntu1_amd64.deb ... Unpacking libquadmath0:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../07-cpp-8_8.2.0-14ubuntu1_amd64.deb ... Unpacking cpp-8 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../08-libcc1-0_8.2.0-14ubuntu1_amd64.deb ... Unpacking libcc1-0:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../09-g++-8_8.2.0-14ubuntu1_amd64.deb ... Unpacking g++-8 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../10-gcc-8_8.2.0-14ubuntu1_amd64.deb ... Unpacking gcc-8 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../11-libgcc-8-dev_8.2.0-14ubuntu1_amd64.deb ... Unpacking libgcc-8-dev:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../12-libstdc++-8-dev_8.2.0-14ubuntu1_amd64.deb ... Unpacking libstdc++-8-dev:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Preparing to unpack .../13-libstdc++6_8.2.0-14ubuntu1_amd64.deb ... Unpacking libstdc++6:amd64 (8.2.0-14ubuntu1) over (8.2.0-12ubuntu1) ... Setting up libstdc++6:amd64 (8.2.0-14ubuntu1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../0-libmpfr6_4.0.2~rc1-1_amd64.deb ... Unpacking libmpfr6:amd64 (4.0.2~rc1-1) over (4.0.1-2) ... Preparing to unpack .../1-libbinutils_2.31.1-11ubuntu1_amd64.deb ... Unpacking libbinutils:amd64 (2.31.1-11ubuntu1) over (2.31.1-10ubuntu1) ... Preparing to unpack .../2-binutils-common_2.31.1-11ubuntu1_amd64.deb ... Unpacking binutils-common:amd64 (2.31.1-11ubuntu1) over (2.31.1-10ubuntu1) ... Preparing to unpack .../3-binutils_2.31.1-11ubuntu1_amd64.deb ... Unpacking binutils (2.31.1-11ubuntu1) over (2.31.1-10ubuntu1) ... Preparing to unpack .../4-binutils-x86-64-linux-gnu_2.31.1-11ubuntu1_amd64.deb ... Unpacking binutils-x86-64-linux-gnu (2.31.1-11ubuntu1) over (2.31.1-10ubuntu1) ... Preparing to unpack .../5-liblz4-1_1.8.3-1ubuntu1_amd64.deb ... Unpacking liblz4-1:amd64 (1.8.3-1ubuntu1) over (1.8.2-1ubuntu1) ... Setting up liblz4-1:amd64 (1.8.3-1ubuntu1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../libudev1_240-4ubuntu1_amd64.deb ... Unpacking libudev1:amd64 (240-4ubuntu1) over (239-7ubuntu15) ... Setting up libudev1:amd64 (240-4ubuntu1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../libzstd1_1.3.8+dfsg-3_amd64.deb ... Unpacking libzstd1:amd64 (1.3.8+dfsg-3) over (1.3.5+dfsg-1ubuntu1) ... Setting up libzstd1:amd64 (1.3.8+dfsg-3) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../libapt-pkg5.0_1.8.0~alpha3.1_amd64.deb ... Unpacking libapt-pkg5.0:amd64 (1.8.0~alpha3.1) over (1.8.0~alpha2ubuntu1) ... Setting up libapt-pkg5.0:amd64 (1.8.0~alpha3.1) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../libgpg-error0_1.33-3_amd64.deb ... Unpacking libgpg-error0:amd64 (1.33-3) over (1.32-3) ... Setting up libgpg-error0:amd64 (1.33-3) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../gpgv_2.2.12-1ubuntu2_amd64.deb ... Unpacking gpgv (2.2.12-1ubuntu2) over (2.2.8-3ubuntu1) ... Setting up gpgv (2.2.12-1ubuntu2) ... (Reading database ... 12665 files and directories currently installed.) Preparing to unpack .../apt_1.8.0~alpha3.1_amd64.deb ... Unpacking apt (1.8.0~alpha3.1) over (1.8.0~alpha2ubuntu1) ... Setting up apt (1.8.0~alpha3.1) ... (Reading database ... 12664 files and directories currently installed.) Preparing to unpack .../systemd-sysv_240-4ubuntu1_amd64.deb ... Unpacking systemd-sysv (240-4ubuntu1) over (239-7ubuntu15) ... Preparing to unpack .../libuuid1_2.33.1-0.1ubuntu1_amd64.deb ... Unpacking libuuid1:amd64 (2.33.1-0.1ubuntu1) over (2.32-0.1ubuntu2) ... Setting up libuuid1:amd64 (2.33.1-0.1ubuntu1) ... (Reading database ... 12664 files and directories currently installed.) Preparing to unpack .../libblkid1_2.33.1-0.1ubuntu1_amd64.deb ... Unpacking libblkid1:amd64 (2.33.1-0.1ubuntu1) over (2.32-0.1ubuntu2) ... Setting up libblkid1:amd64 (2.33.1-0.1ubuntu1) ... (Reading database ... 12664 files and directories currently installed.) Preparing to unpack .../libmount1_2.33.1-0.1ubuntu1_amd64.deb ... Unpacking libmount1:amd64 (2.33.1-0.1ubuntu1) over (2.32-0.1ubuntu2) ... Setting up libmount1:amd64 (2.33.1-0.1ubuntu1) ... (Reading database ... 12664 files and directories currently installed.) Preparing to unpack .../libsmartcols1_2.33.1-0.1ubuntu1_amd64.deb ... Unpacking libsmartcols1:amd64 (2.33.1-0.1ubuntu1) over (2.32-0.1ubuntu2) ... Setting up libsmartcols1:amd64 (2.33.1-0.1ubuntu1) ... (Reading database ... 12664 files and directories currently installed.) Preparing to unpack .../mount_2.33.1-0.1ubuntu1_amd64.deb ... Unpacking mount (2.33.1-0.1ubuntu1) over (2.32-0.1ubuntu2) ... Preparing to unpack .../systemd_240-4ubuntu1_amd64.deb ... Unpacking systemd (240-4ubuntu1) over (239-7ubuntu15) ... Preparing to unpack .../libsystemd0_240-4ubuntu1_amd64.deb ... Unpacking libsystemd0:amd64 (240-4ubuntu1) over (239-7ubuntu15) ... Setting up libsystemd0:amd64 (240-4ubuntu1) ... (Reading database ... 12680 files and directories currently installed.) Preparing to unpack .../libext2fs2_1.44.5-1_amd64.deb ... Unpacking libext2fs2:amd64 (1.44.5-1) over (1.44.4-2ubuntu1) ... Setting up libext2fs2:amd64 (1.44.5-1) ... (Reading database ... 12679 files and directories currently installed.) Preparing to unpack .../e2fsprogs_1.44.5-1_amd64.deb ... Unpacking e2fsprogs (1.44.5-1) over (1.44.4-2ubuntu1) ... Setting up mount (2.33.1-0.1ubuntu1) ... Setting up systemd (240-4ubuntu1) ... Installing new version of config file /etc/systemd/journald.conf ... Installing new version of config file /etc/systemd/resolved.conf ... Installing new version of config file /etc/systemd/system.conf ... Setting up systemd-sysv (240-4ubuntu1) ... (Reading database ... 12679 files and directories currently installed.) Preparing to unpack .../init_1.56+nmu1_amd64.deb ... Unpacking init (1.56+nmu1) over (1.56) ... Preparing to unpack .../libfdisk1_2.33.1-0.1ubuntu1_amd64.deb ... Unpacking libfdisk1:amd64 (2.33.1-0.1ubuntu1) over (2.32-0.1ubuntu2) ... Setting up libfdisk1:amd64 (2.33.1-0.1ubuntu1) ... (Reading database ... 12679 files and directories currently installed.) Preparing to unpack .../fdisk_2.33.1-0.1ubuntu1_amd64.deb ... Unpacking fdisk (2.33.1-0.1ubuntu1) over (2.32-0.1ubuntu2) ... Setting up fdisk (2.33.1-0.1ubuntu1) ... (Reading database ... 12682 files and directories currently installed.) Preparing to unpack .../libcap-ng0_0.7.9-2_amd64.deb ... Unpacking libcap-ng0:amd64 (0.7.9-2) over (0.7.9-1build1) ... Setting up libcap-ng0:amd64 (0.7.9-2) ... (Reading database ... 12682 files and directories currently installed.) Preparing to unpack .../libsemanage-common_2.8-2_all.deb ... Unpacking libsemanage-common (2.8-2) over (2.8-1build2) ... Setting up libsemanage-common (2.8-2) ... (Reading database ... 12682 files and directories currently installed.) Preparing to unpack .../libsemanage1_2.8-2_amd64.deb ... Unpacking libsemanage1:amd64 (2.8-2) over (2.8-1build2) ... Setting up libsemanage1:amd64 (2.8-2) ... (Reading database ... 12682 files and directories currently installed.) Preparing to unpack .../00-libcom-err2_1.44.5-1_amd64.deb ... Unpacking libcom-err2:amd64 (1.44.5-1) over (1.44.4-2ubuntu1) ... Preparing to unpack .../01-libss2_1.44.5-1_amd64.deb ... Unpacking libss2:amd64 (1.44.5-1) over (1.44.4-2ubuntu1) ... Preparing to unpack .../02-libargon2-1_0~20171227-0.2_amd64.deb ... Unpacking libargon2-1:amd64 (0~20171227-0.2) over (0~20171227-0.1) ... Preparing to unpack .../03-libjson-c3_0.12.1+ds-2_amd64.deb ... Unpacking libjson-c3:amd64 (0.12.1+ds-2) over (0.12.1-1.3) ... Preparing to unpack .../04-readline-common_8.0-1_all.deb ... Unpacking readline-common (8.0-1) over (7.0-5) ... Selecting previously unselected package libreadline8:amd64. Preparing to unpack .../05-libreadline8_8.0-1_amd64.deb ... Unpacking libreadline8:amd64 (8.0-1) ... Preparing to unpack .../06-libsqlite3-0_3.26.0+fossilbc891ac6b-1build1_amd64.deb ... Unpacking libsqlite3-0:amd64 (3.26.0+fossilbc891ac6b-1build1) over (3.26.0-2) ... Preparing to unpack .../07-tzdata_2018i-1_all.deb ... Unpacking tzdata (2018i-1) over (2018g-1) ... Preparing to unpack .../08-libgdbm6_1.18.1-2build1_amd64.deb ... Unpacking libgdbm6:amd64 (1.18.1-2build1) over (1.18.1-2) ... Preparing to unpack .../09-libpng16-16_1.6.36-3_amd64.deb ... Unpacking libpng16-16:amd64 (1.6.36-3) over (1.6.34-2) ... Preparing to unpack .../10-dpkg-dev_1.19.2ubuntu2_all.deb ... Unpacking dpkg-dev (1.19.2ubuntu2) over (1.19.2ubuntu1) ... Preparing to unpack .../11-libdpkg-perl_1.19.2ubuntu2_all.deb ... Unpacking libdpkg-perl (1.19.2ubuntu2) over (1.19.2ubuntu1) ... Preparing to unpack .../12-e2fslibs_1.44.5-1_amd64.deb ... Unpacking e2fslibs:amd64 (1.44.5-1) over (1.44.4-2ubuntu1) ... Preparing to unpack .../13-libassuan0_2.5.2-1_amd64.deb ... Unpacking libassuan0:amd64 (2.5.2-1) over (2.5.1-2) ... Preparing to unpack .../14-gpg_2.2.12-1ubuntu2_amd64.deb ... Unpacking gpg (2.2.12-1ubuntu2) over (2.2.8-3ubuntu1) ... Preparing to unpack .../15-gpgconf_2.2.12-1ubuntu2_amd64.deb ... Unpacking gpgconf (2.2.12-1ubuntu2) over (2.2.8-3ubuntu1) ... Preparing to unpack .../16-gpg-agent_2.2.12-1ubuntu2_amd64.deb ... Unpacking gpg-agent (2.2.12-1ubuntu2) over (2.2.8-3ubuntu1) ... Preparing to unpack .../17-libcomerr2_1.44.5-1_amd64.deb ... Unpacking libcomerr2:amd64 (1.44.5-1) over (1.44.4-2ubuntu1) ... Preparing to unpack .../18-libgdbm-compat4_1.18.1-2build1_amd64.deb ... Unpacking libgdbm-compat4:amd64 (1.18.1-2build1) over (1.18.1-2) ... Preparing to unpack .../19-linux-libc-dev_4.19.0-11.12_amd64.deb ... Unpacking linux-libc-dev:amd64 (4.19.0-11.12) over (4.18.0-11.12) ... Setting up libquadmath0:amd64 (8.2.0-14ubuntu1) ... Setting up libcom-err2:amd64 (1.44.5-1) ... Setting up libgomp1:amd64 (8.2.0-14ubuntu1) ... Setting up libatomic1:amd64 (8.2.0-14ubuntu1) ... Setting up readline-common (8.0-1) ... Setting up libss2:amd64 (1.44.5-1) ... Setting up libcc1-0:amd64 (8.2.0-14ubuntu1) ... Setting up e2fslibs:amd64 (1.44.5-1) ... Setting up libpng16-16:amd64 (1.6.36-3) ... Setting up libjson-c3:amd64 (0.12.1+ds-2) ... Setting up tzdata (2018i-1) ... Current default time zone: 'Etc/UTC' Local time is now: Wed Jan 23 05:12:57 UTC 2019. Universal Time is now: Wed Jan 23 05:12:57 UTC 2019. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up init (1.56+nmu1) ... Setting up libtsan0:amd64 (8.2.0-14ubuntu1) ... Setting up linux-libc-dev:amd64 (4.19.0-11.12) ... Setting up libmpfr6:amd64 (4.0.2~rc1-1) ... Setting up libdpkg-perl (1.19.2ubuntu2) ... Setting up e2fsprogs (1.44.5-1) ... Setting up liblsan0:amd64 (8.2.0-14ubuntu1) ... Setting up libgdbm6:amd64 (1.18.1-2build1) ... Setting up binutils-common:amd64 (2.31.1-11ubuntu1) ... Setting up libmpx2:amd64 (8.2.0-14ubuntu1) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up libsqlite3-0:amd64 (3.26.0+fossilbc891ac6b-1build1) ... Setting up libcomerr2:amd64 (1.44.5-1) ... Setting up libgdbm-compat4:amd64 (1.18.1-2build1) ... Setting up libargon2-1:amd64 (0~20171227-0.2) ... Setting up libasan5:amd64 (8.2.0-14ubuntu1) ... Setting up libassuan0:amd64 (2.5.2-1) ... Setting up libitm1:amd64 (8.2.0-14ubuntu1) ... Setting up libreadline8:amd64 (8.0-1) ... Setting up libubsan1:amd64 (8.2.0-14ubuntu1) ... Setting up cpp-8 (8.2.0-14ubuntu1) ... Setting up libbinutils:amd64 (2.31.1-11ubuntu1) ... Setting up gpgconf (2.2.12-1ubuntu2) ... Setting up gpg-agent (2.2.12-1ubuntu2) ... Setting up libgcc-8-dev:amd64 (8.2.0-14ubuntu1) ... Setting up gpg (2.2.12-1ubuntu2) ... Setting up binutils-x86-64-linux-gnu (2.31.1-11ubuntu1) ... Setting up libstdc++-8-dev:amd64 (8.2.0-14ubuntu1) ... Setting up binutils (2.31.1-11ubuntu1) ... Setting up gcc-8 (8.2.0-14ubuntu1) ... Setting up g++-8 (8.2.0-14ubuntu1) ... Setting up dpkg-dev (1.19.2ubuntu2) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... RUN: /usr/share/launchpad-buildd/slavebin/sbuild-package PACKAGEBUILD-16311943 amd64 disco-proposed -c chroot:build-PACKAGEBUILD-16311943 --arch=amd64 --dist=disco-proposed --nolog -A gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1.dsc Initiating build PACKAGEBUILD-16311943 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-141-generic #167-Ubuntu SMP Wed Dec 5 10:40:15 UTC 2018 x86_64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on lgw01-amd64-052.buildd +==============================================================================+ | gatb-core 1.4.1+git20180206.6f8fce8+dfsg-1 (amd64) 23 Jan 2019 05:12 | +==============================================================================+ Package: gatb-core Version: 1.4.1+git20180206.6f8fce8+dfsg-1 Source Version: 1.4.1+git20180206.6f8fce8+dfsg-1 Distribution: disco-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 I: NOTICE: Log filtering will replace 'build/gatb-core-sBFkvu/gatb-core-1.4.1+git20180206.6f8fce8+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/gatb-core-sBFkvu' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-16311943/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- gatb-core_1.4.1+git20180206.6f8fce8+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-L1jmb3/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-L1jmb3/apt_archive ./ InRelease Get:2 copy:/<>/resolver-L1jmb3/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-L1jmb3/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-L1jmb3/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-L1jmb3/apt_archive ./ Packages [524 B] Fetched 2857 B in 0s (117 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following package was automatically installed and is no longer required: libreadline7 Use 'apt autoremove' to remove it. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 1 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-L1jmb3/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 ... 12700 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 (>= 12~), d-shlibs, cmake, libcppunit-dev, libhdf5-dev, libboost-dev, libjsoncpp-dev, doxygen, graphviz Filtered Build-Depends: debhelper (>= 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-rWrcgT/apt_archive/sbuild-build-depends-gatb-core-dummy.deb'. Ign:1 copy:/<>/resolver-rWrcgT/apt_archive ./ InRelease Get:2 copy:/<>/resolver-rWrcgT/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-rWrcgT/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-rWrcgT/apt_archive ./ Sources [266 B] Get:5 copy:/<>/resolver-rWrcgT/apt_archive ./ Packages [586 B] Fetched 2971 B in 0s (123 kB/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 package was automatically installed and is no longer required: libreadline7 Use 'apt autoremove' to remove it. 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 libarchive-zip-perl libarchive13 libasn1-8-heimdal libboost-dev libboost1.67-dev libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-7 libcppunit-1.14-0 libcppunit-dev libcroco3 libcurl4 libdatrie1 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 libllvm7 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 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-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 libarchive-zip-perl libarchive13 libasn1-8-heimdal libboost-dev libboost1.67-dev libbsd0 libcairo2 libcdt5 libcgraph6 libclang1-7 libcppunit-1.14-0 libcppunit-dev libcroco3 libcurl4 libdatrie1 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 libllvm7 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 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, 132 newly installed, 0 to remove and 1 not upgraded. Need to get 68.8 MB of archives. After this operation, 382 MB of additional disk space will be used. Get:1 copy:/<>/resolver-rWrcgT/apt_archive ./ sbuild-build-depends-gatb-core-dummy 0.invalid.0 [912 B] Get:2 http://ftpmaster.internal/ubuntu disco/main amd64 libxau6 amd64 1:1.0.8-1 [8376 B] Get:3 http://ftpmaster.internal/ubuntu disco/main amd64 libbsd0 amd64 0.9.1-1 [44.6 kB] Get:4 http://ftpmaster.internal/ubuntu disco/main amd64 libxdmcp6 amd64 1:1.1.2-3 [10.7 kB] Get:5 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb1 amd64 1.13.1-2 [45.2 kB] Get:6 http://ftpmaster.internal/ubuntu disco/main amd64 libx11-data all 2:1.6.7-1 [113 kB] Get:7 http://ftpmaster.internal/ubuntu disco/main amd64 libx11-6 amd64 2:1.6.7-1 [572 kB] Get:8 http://ftpmaster.internal/ubuntu disco/main amd64 libxext6 amd64 2:1.3.3-1 [29.4 kB] Get:9 http://ftpmaster.internal/ubuntu disco/main amd64 bsdmainutils amd64 11.1.2ubuntu2 [181 kB] Get:10 http://ftpmaster.internal/ubuntu disco/main amd64 libuchardet0 amd64 0.0.6-3 [64.9 kB] Get:11 http://ftpmaster.internal/ubuntu disco/main amd64 groff-base amd64 1.22.4-2 [862 kB] Get:12 http://ftpmaster.internal/ubuntu disco/main amd64 libpipeline1 amd64 1.5.0-2 [25.7 kB] Get:13 http://ftpmaster.internal/ubuntu disco/main amd64 man-db amd64 2.8.5-1 [1102 kB] Get:14 http://ftpmaster.internal/ubuntu disco/main amd64 x11-common all 1:7.7+19ubuntu8 [22.5 kB] Get:15 http://ftpmaster.internal/ubuntu disco/main amd64 libice6 amd64 2:1.0.9-2 [40.2 kB] Get:16 http://ftpmaster.internal/ubuntu disco/main amd64 libsm6 amd64 2:1.2.2-1 [15.8 kB] Get:17 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libmagic-mgc amd64 1:5.35-2 [200 kB] Get:18 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libmagic1 amd64 1:5.35-2 [73.4 kB] Get:19 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 file amd64 1:5.35-2 [22.9 kB] Get:20 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libelf1 amd64 0.175-2 [44.2 kB] Get:21 http://ftpmaster.internal/ubuntu disco/main amd64 libexpat1 amd64 2.2.6-1 [87.2 kB] Get:22 http://ftpmaster.internal/ubuntu disco/main amd64 libfribidi0 amd64 1.0.5-3.1 [26.2 kB] Get:23 http://ftpmaster.internal/ubuntu disco/main amd64 libglib2.0-0 amd64 2.58.1-2 [1176 kB] Get:24 http://ftpmaster.internal/ubuntu disco/main amd64 libicu63 amd64 63.1-5 [8284 kB] Get:25 http://ftpmaster.internal/ubuntu disco/main amd64 libxml2 amd64 2.9.4+dfsg1-7ubuntu3 [625 kB] Get:26 http://ftpmaster.internal/ubuntu disco/main amd64 ucf all 3.0038+nmu1 [51.6 kB] Get:27 http://ftpmaster.internal/ubuntu disco/main amd64 gettext-base amd64 0.19.8.1-9 [50.1 kB] Get:28 http://ftpmaster.internal/ubuntu disco/main amd64 libedit2 amd64 3.1-20181209-1 [85.9 kB] Get:29 http://ftpmaster.internal/ubuntu disco/main amd64 libkrb5support0 amd64 1.17-1 [33.3 kB] Get:30 http://ftpmaster.internal/ubuntu disco/main amd64 libk5crypto3 amd64 1.17-1 [85.8 kB] Get:31 http://ftpmaster.internal/ubuntu disco/main amd64 libkeyutils1 amd64 1.5.9-9.3 [9640 B] Get:32 http://ftpmaster.internal/ubuntu disco/main amd64 libkrb5-3 amd64 1.17-1 [329 kB] Get:33 http://ftpmaster.internal/ubuntu disco/main amd64 libgssapi-krb5-2 amd64 1.17-1 [123 kB] Get:34 http://ftpmaster.internal/ubuntu disco/main amd64 libpsl5 amd64 0.20.2-2 [50.0 kB] Get:35 http://ftpmaster.internal/ubuntu disco/main amd64 libsigsegv2 amd64 2.12-2 [13.9 kB] Get:36 http://ftpmaster.internal/ubuntu disco/main amd64 m4 amd64 1.4.18-2 [199 kB] Get:37 http://ftpmaster.internal/ubuntu disco/main amd64 autoconf all 2.69-11 [322 kB] Get:38 http://ftpmaster.internal/ubuntu disco/main amd64 autotools-dev all 20180224.1 [39.6 kB] Get:39 http://ftpmaster.internal/ubuntu disco/main amd64 automake all 1:1.16.1-4 [522 kB] Get:40 http://ftpmaster.internal/ubuntu disco/main amd64 autopoint all 0.19.8.1-9 [412 kB] Get:41 http://ftpmaster.internal/ubuntu disco/main amd64 cmake-data all 3.13.2-1 [1457 kB] Get:42 http://ftpmaster.internal/ubuntu disco/main amd64 libarchive13 amd64 3.3.3-3 [305 kB] Get:43 http://ftpmaster.internal/ubuntu disco/main amd64 libroken18-heimdal amd64 7.5.0+dfsg-2.1 [41.4 kB] Get:44 http://ftpmaster.internal/ubuntu disco/main amd64 libasn1-8-heimdal amd64 7.5.0+dfsg-2.1 [182 kB] Get:45 http://ftpmaster.internal/ubuntu disco/main amd64 libheimbase1-heimdal amd64 7.5.0+dfsg-2.1 [29.4 kB] Get:46 http://ftpmaster.internal/ubuntu disco/main amd64 libhcrypto4-heimdal amd64 7.5.0+dfsg-2.1 [86.7 kB] Get:47 http://ftpmaster.internal/ubuntu disco/main amd64 libwind0-heimdal amd64 7.5.0+dfsg-2.1 [47.8 kB] Get:48 http://ftpmaster.internal/ubuntu disco/main amd64 libhx509-5-heimdal amd64 7.5.0+dfsg-2.1 [107 kB] Get:49 http://ftpmaster.internal/ubuntu disco/main amd64 libkrb5-26-heimdal amd64 7.5.0+dfsg-2.1 [206 kB] Get:50 http://ftpmaster.internal/ubuntu disco/main amd64 libheimntlm0-heimdal amd64 7.5.0+dfsg-2.1 [14.8 kB] Get:51 http://ftpmaster.internal/ubuntu disco/main amd64 libgssapi3-heimdal amd64 7.5.0+dfsg-2.1 [96.4 kB] Get:52 http://ftpmaster.internal/ubuntu disco/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-1 [14.9 kB] Get:53 http://ftpmaster.internal/ubuntu disco/main amd64 libsasl2-2 amd64 2.1.27+dfsg-1 [49.4 kB] Get:54 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libldap-common all 2.4.47+dfsg-2ubuntu1 [16.2 kB] Get:55 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libldap-2.4-2 amd64 2.4.47+dfsg-2ubuntu1 [154 kB] Get:56 http://ftpmaster.internal/ubuntu disco/main amd64 libnghttp2-14 amd64 1.35.1-1 [78.9 kB] Get:57 http://ftpmaster.internal/ubuntu disco/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2 [54.5 kB] Get:58 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libcurl4 amd64 7.63.0-1 [223 kB] Get:59 http://ftpmaster.internal/ubuntu disco/main amd64 libjsoncpp1 amd64 1.7.4-3 [73.6 kB] Get:60 http://ftpmaster.internal/ubuntu disco/main amd64 librhash0 amd64 1.3.7-1 [94.4 kB] Get:61 http://ftpmaster.internal/ubuntu disco/main amd64 libuv1 amd64 1.24.1-1 [69.5 kB] Get:62 http://ftpmaster.internal/ubuntu disco/main amd64 cmake amd64 3.13.2-1 [3466 kB] Get:63 http://ftpmaster.internal/ubuntu disco/universe amd64 d-shlibs all 0.84ubuntu2 [10.5 kB] Get:64 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libtool all 2.4.6-8 [195 kB] Get:65 http://ftpmaster.internal/ubuntu disco/main amd64 dh-autoreconf all 19 [16.1 kB] Get:66 http://ftpmaster.internal/ubuntu disco/main amd64 libarchive-zip-perl all 1.64-1 [84.9 kB] Get:67 http://ftpmaster.internal/ubuntu disco/main amd64 libfile-stripnondeterminism-perl all 1.1.0-1 [13.6 kB] Get:68 http://ftpmaster.internal/ubuntu disco/main amd64 dh-strip-nondeterminism all 1.1.0-1 [5100 B] Get:69 http://ftpmaster.internal/ubuntu disco/main amd64 dwz amd64 0.12-3 [78.1 kB] Get:70 http://ftpmaster.internal/ubuntu disco/main amd64 libcroco3 amd64 0.6.12-3 [81.4 kB] Get:71 http://ftpmaster.internal/ubuntu disco/main amd64 gettext amd64 0.19.8.1-9 [896 kB] Get:72 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:73 http://ftpmaster.internal/ubuntu disco/main amd64 po-debconf all 1.0.21 [233 kB] Get:74 http://ftpmaster.internal/ubuntu disco/main amd64 debhelper all 12ubuntu1 [887 kB] Get:75 http://ftpmaster.internal/ubuntu disco/main amd64 libllvm7 amd64 1:7.0.1-4 [13.0 MB] Get:76 http://ftpmaster.internal/ubuntu disco/universe amd64 libclang1-7 amd64 1:7.0.1-4 [5966 kB] Get:77 http://ftpmaster.internal/ubuntu disco/main amd64 libxapian30 amd64 1.4.9-1 [672 kB] Get:78 http://ftpmaster.internal/ubuntu disco/universe amd64 doxygen amd64 1.8.13-10ubuntu1 [3944 kB] Get:79 http://ftpmaster.internal/ubuntu disco/main amd64 libfreetype6 amd64 2.9.1-3 [335 kB] Get:80 http://ftpmaster.internal/ubuntu disco/main amd64 fonts-dejavu-core all 2.37-1 [1041 kB] Get:81 http://ftpmaster.internal/ubuntu disco/main amd64 fontconfig-config all 2.13.0-5ubuntu3 [28.4 kB] Get:82 http://ftpmaster.internal/ubuntu disco/main amd64 libfontconfig1 amd64 2.13.0-5ubuntu3 [112 kB] Get:83 http://ftpmaster.internal/ubuntu disco/main amd64 fontconfig amd64 2.13.0-5ubuntu3 [170 kB] Get:84 http://ftpmaster.internal/ubuntu disco/universe amd64 libcdt5 amd64 2.40.1-5build2 [19.1 kB] Get:85 http://ftpmaster.internal/ubuntu disco/universe amd64 libcgraph6 amd64 2.40.1-5build2 [40.7 kB] Get:86 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg-turbo8 amd64 2.0.1-0ubuntu1 [117 kB] Get:87 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg8 amd64 8c-2ubuntu8 [2194 B] Get:88 http://ftpmaster.internal/ubuntu disco/main amd64 libjbig0 amd64 2.1-3.1build1 [26.7 kB] Get:89 http://ftpmaster.internal/ubuntu disco/main amd64 libwebp6 amd64 0.6.1-2 [185 kB] Get:90 http://ftpmaster.internal/ubuntu disco/main amd64 libtiff5 amd64 4.0.10-3 [157 kB] Get:91 http://ftpmaster.internal/ubuntu disco/main amd64 libxpm4 amd64 1:3.5.12-1 [34.0 kB] Get:92 http://ftpmaster.internal/ubuntu disco/main amd64 libgd3 amd64 2.2.5-5 [118 kB] Get:93 http://ftpmaster.internal/ubuntu disco/universe amd64 libgts-0.7-5 amd64 0.7.6+darcs121130-4 [150 kB] Get:94 http://ftpmaster.internal/ubuntu disco/main amd64 libpixman-1-0 amd64 0.36.0-1 [229 kB] Get:95 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-render0 amd64 1.13.1-2 [14.8 kB] Get:96 http://ftpmaster.internal/ubuntu disco/main amd64 libxcb-shm0 amd64 1.13.1-2 [5548 B] Get:97 http://ftpmaster.internal/ubuntu disco/main amd64 libxrender1 amd64 1:0.9.10-1 [18.7 kB] Get:98 http://ftpmaster.internal/ubuntu disco/main amd64 libcairo2 amd64 1.16.0-2 [585 kB] Get:99 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libltdl7 amd64 2.4.6-8 [38.7 kB] Get:100 http://ftpmaster.internal/ubuntu disco/main amd64 libthai-data all 0.1.28-1 [134 kB] Get:101 http://ftpmaster.internal/ubuntu disco/main amd64 libdatrie1 amd64 0.2.12-1 [18.3 kB] Get:102 http://ftpmaster.internal/ubuntu disco/main amd64 libthai0 amd64 0.1.28-1 [18.0 kB] Get:103 http://ftpmaster.internal/ubuntu disco/main amd64 libpango-1.0-0 amd64 1.42.4-6 [155 kB] Get:104 http://ftpmaster.internal/ubuntu disco/main amd64 libgraphite2-3 amd64 1.3.13-7 [73.2 kB] Get:105 http://ftpmaster.internal/ubuntu disco/main amd64 libharfbuzz0b amd64 2.3.0-1 [365 kB] Get:106 http://ftpmaster.internal/ubuntu disco/main amd64 libpangoft2-1.0-0 amd64 1.42.4-6 [35.6 kB] Get:107 http://ftpmaster.internal/ubuntu disco/main amd64 libpangocairo-1.0-0 amd64 1.42.4-6 [23.2 kB] Get:108 http://ftpmaster.internal/ubuntu disco/universe amd64 libpathplan4 amd64 2.40.1-5build2 [21.9 kB] Get:109 http://ftpmaster.internal/ubuntu disco/universe amd64 libgvc6 amd64 2.40.1-5build2 [600 kB] Get:110 http://ftpmaster.internal/ubuntu disco/universe amd64 libgvpr2 amd64 2.40.1-5build2 [169 kB] Get:111 http://ftpmaster.internal/ubuntu disco/universe amd64 liblab-gamut1 amd64 2.40.1-5build2 [178 kB] Get:112 http://ftpmaster.internal/ubuntu disco/main amd64 libxt6 amd64 1:1.1.5-1 [160 kB] Get:113 http://ftpmaster.internal/ubuntu disco/main amd64 libxmu6 amd64 2:1.1.2-2 [46.0 kB] Get:114 http://ftpmaster.internal/ubuntu disco/main amd64 libxaw7 amd64 2:1.0.13-1 [173 kB] Get:115 http://ftpmaster.internal/ubuntu disco/universe amd64 graphviz amd64 2.40.1-5build2 [559 kB] Get:116 http://ftpmaster.internal/ubuntu disco-proposed/universe amd64 hdf5-helpers amd64 1.10.4+repack-9 [13.9 kB] Get:117 http://ftpmaster.internal/ubuntu disco/universe amd64 libaec0 amd64 1.0.2-1 [19.1 kB] Get:118 http://ftpmaster.internal/ubuntu disco/main amd64 libboost1.67-dev amd64 1.67.0-11 [8362 kB] Get:119 http://ftpmaster.internal/ubuntu disco/main amd64 libboost-dev amd64 1.67.0.1 [3228 B] Get:120 http://ftpmaster.internal/ubuntu disco/universe amd64 libcppunit-1.14-0 amd64 1.14.0-3 [77.3 kB] Get:121 http://ftpmaster.internal/ubuntu disco/universe amd64 libcppunit-dev amd64 1.14.0-3 [132 kB] Get:122 http://ftpmaster.internal/ubuntu disco-proposed/main amd64 libgfortran5 amd64 8.2.0-14ubuntu1 [587 kB] Get:123 http://ftpmaster.internal/ubuntu disco/universe amd64 libsz2 amd64 1.0.2-1 [5152 B] Get:124 http://ftpmaster.internal/ubuntu disco-proposed/universe amd64 libhdf5-103 amd64 1.10.4+repack-9 [1294 kB] Get:125 http://ftpmaster.internal/ubuntu disco-proposed/universe amd64 libhdf5-cpp-103 amd64 1.10.4+repack-9 [122 kB] Get:126 http://ftpmaster.internal/ubuntu disco/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-0ubuntu2 [176 kB] Get:127 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg-turbo8-dev amd64 2.0.1-0ubuntu1 [238 kB] Get:128 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg8-dev amd64 8c-2ubuntu8 [1552 B] Get:129 http://ftpmaster.internal/ubuntu disco/main amd64 libjpeg-dev amd64 8c-2ubuntu8 [1546 B] Get:130 http://ftpmaster.internal/ubuntu disco/universe amd64 libaec-dev amd64 1.0.2-1 [16.9 kB] Get:131 http://ftpmaster.internal/ubuntu disco-proposed/universe amd64 libhdf5-dev amd64 1.10.4+repack-9 [2571 kB] Get:132 http://ftpmaster.internal/ubuntu disco/main amd64 libjsoncpp-dev amd64 1.7.4-3 [85.3 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 68.8 MB in 4s (16.2 MB/s) Selecting previously unselected package libxau6:amd64. (Reading database ... 12700 files and directories currently installed.) Preparing to unpack .../000-libxau6_1%3a1.0.8-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.8-1) ... Selecting previously unselected package libbsd0:amd64. Preparing to unpack .../001-libbsd0_0.9.1-1_amd64.deb ... Unpacking libbsd0:amd64 (0.9.1-1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../002-libxdmcp6_1%3a1.1.2-3_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../003-libxcb1_1.13.1-2_amd64.deb ... Unpacking libxcb1:amd64 (1.13.1-2) ... Selecting previously unselected package libx11-data. Preparing to unpack .../004-libx11-data_2%3a1.6.7-1_all.deb ... Unpacking libx11-data (2:1.6.7-1) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../005-libx11-6_2%3a1.6.7-1_amd64.deb ... Unpacking libx11-6:amd64 (2:1.6.7-1) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../006-libxext6_2%3a1.3.3-1_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.3-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../007-bsdmainutils_11.1.2ubuntu2_amd64.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../008-libuchardet0_0.0.6-3_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.22.4-2_amd64.deb ... Unpacking groff-base (1.22.4-2) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../010-libpipeline1_1.5.0-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.0-2) ... Selecting previously unselected package man-db. Preparing to unpack .../011-man-db_2.8.5-1_amd64.deb ... Unpacking man-db (2.8.5-1) ... Selecting previously unselected package x11-common. Preparing to unpack .../012-x11-common_1%3a7.7+19ubuntu8_all.deb ... dpkg-query: no packages found matching nux-tools Unpacking x11-common (1:7.7+19ubuntu8) ... Selecting previously unselected package libice6:amd64. Preparing to unpack .../013-libice6_2%3a1.0.9-2_amd64.deb ... Unpacking libice6:amd64 (2:1.0.9-2) ... Selecting previously unselected package libsm6:amd64. Preparing to unpack .../014-libsm6_2%3a1.2.2-1_amd64.deb ... Unpacking libsm6:amd64 (2:1.2.2-1) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../015-libmagic-mgc_1%3a5.35-2_amd64.deb ... Unpacking libmagic-mgc (1:5.35-2) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../016-libmagic1_1%3a5.35-2_amd64.deb ... Unpacking libmagic1:amd64 (1:5.35-2) ... Selecting previously unselected package file. Preparing to unpack .../017-file_1%3a5.35-2_amd64.deb ... Unpacking file (1:5.35-2) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../018-libelf1_0.175-2_amd64.deb ... Unpacking libelf1:amd64 (0.175-2) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../019-libexpat1_2.2.6-1_amd64.deb ... Unpacking libexpat1:amd64 (2.2.6-1) ... Selecting previously unselected package libfribidi0:amd64. Preparing to unpack .../020-libfribidi0_1.0.5-3.1_amd64.deb ... Unpacking libfribidi0:amd64 (1.0.5-3.1) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../021-libglib2.0-0_2.58.1-2_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.58.1-2) ... Selecting previously unselected package libicu63:amd64. Preparing to unpack .../022-libicu63_63.1-5_amd64.deb ... Unpacking libicu63:amd64 (63.1-5) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../023-libxml2_2.9.4+dfsg1-7ubuntu3_amd64.deb ... Unpacking libxml2:amd64 (2.9.4+dfsg1-7ubuntu3) ... Selecting previously unselected package ucf. Preparing to unpack .../024-ucf_3.0038+nmu1_all.deb ... Moving old data out of the way Unpacking ucf (3.0038+nmu1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../025-gettext-base_0.19.8.1-9_amd64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../026-libedit2_3.1-20181209-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20181209-1) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../027-libkrb5support0_1.17-1_amd64.deb ... Unpacking libkrb5support0:amd64 (1.17-1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../028-libk5crypto3_1.17-1_amd64.deb ... Unpacking libk5crypto3:amd64 (1.17-1) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../029-libkeyutils1_1.5.9-9.3_amd64.deb ... Unpacking libkeyutils1:amd64 (1.5.9-9.3) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../030-libkrb5-3_1.17-1_amd64.deb ... Unpacking libkrb5-3:amd64 (1.17-1) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../031-libgssapi-krb5-2_1.17-1_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.17-1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../032-libpsl5_0.20.2-2_amd64.deb ... Unpacking libpsl5:amd64 (0.20.2-2) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../033-libsigsegv2_2.12-2_amd64.deb ... Unpacking libsigsegv2:amd64 (2.12-2) ... Selecting previously unselected package m4. Preparing to unpack .../034-m4_1.4.18-2_amd64.deb ... Unpacking m4 (1.4.18-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../035-autoconf_2.69-11_all.deb ... Unpacking autoconf (2.69-11) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../036-autotools-dev_20180224.1_all.deb ... Unpacking autotools-dev (20180224.1) ... Selecting previously unselected package automake. Preparing to unpack .../037-automake_1%3a1.16.1-4_all.deb ... Unpacking automake (1:1.16.1-4) ... Selecting previously unselected package autopoint. Preparing to unpack .../038-autopoint_0.19.8.1-9_all.deb ... Unpacking autopoint (0.19.8.1-9) ... Selecting previously unselected package cmake-data. Preparing to unpack .../039-cmake-data_3.13.2-1_all.deb ... Unpacking cmake-data (3.13.2-1) ... Selecting previously unselected package libarchive13:amd64. Preparing to unpack .../040-libarchive13_3.3.3-3_amd64.deb ... Unpacking libarchive13:amd64 (3.3.3-3) ... Selecting previously unselected package libroken18-heimdal:amd64. Preparing to unpack .../041-libroken18-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libroken18-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libasn1-8-heimdal:amd64. Preparing to unpack .../042-libasn1-8-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libasn1-8-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libheimbase1-heimdal:amd64. Preparing to unpack .../043-libheimbase1-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libheimbase1-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libhcrypto4-heimdal:amd64. Preparing to unpack .../044-libhcrypto4-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libhcrypto4-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libwind0-heimdal:amd64. Preparing to unpack .../045-libwind0-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libwind0-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libhx509-5-heimdal:amd64. Preparing to unpack .../046-libhx509-5-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libhx509-5-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libkrb5-26-heimdal:amd64. Preparing to unpack .../047-libkrb5-26-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libkrb5-26-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libheimntlm0-heimdal:amd64. Preparing to unpack .../048-libheimntlm0-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libheimntlm0-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libgssapi3-heimdal:amd64. Preparing to unpack .../049-libgssapi3-heimdal_7.5.0+dfsg-2.1_amd64.deb ... Unpacking libgssapi3-heimdal:amd64 (7.5.0+dfsg-2.1) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../050-libsasl2-modules-db_2.1.27+dfsg-1_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-1) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../051-libsasl2-2_2.1.27+dfsg-1_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27+dfsg-1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../052-libldap-common_2.4.47+dfsg-2ubuntu1_all.deb ... Unpacking libldap-common (2.4.47+dfsg-2ubuntu1) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../053-libldap-2.4-2_2.4.47+dfsg-2ubuntu1_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.47+dfsg-2ubuntu1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../054-libnghttp2-14_1.35.1-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.35.1-1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../055-librtmp1_2.4+20151223.gitfa8646d.1-2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Selecting previously unselected package libcurl4:amd64. Preparing to unpack .../056-libcurl4_7.63.0-1_amd64.deb ... Unpacking libcurl4:amd64 (7.63.0-1) ... Selecting previously unselected package libjsoncpp1:amd64. Preparing to unpack .../057-libjsoncpp1_1.7.4-3_amd64.deb ... Unpacking libjsoncpp1:amd64 (1.7.4-3) ... Selecting previously unselected package librhash0:amd64. Preparing to unpack .../058-librhash0_1.3.7-1_amd64.deb ... Unpacking librhash0:amd64 (1.3.7-1) ... Selecting previously unselected package libuv1:amd64. Preparing to unpack .../059-libuv1_1.24.1-1_amd64.deb ... Unpacking libuv1:amd64 (1.24.1-1) ... Selecting previously unselected package cmake. Preparing to unpack .../060-cmake_3.13.2-1_amd64.deb ... Unpacking cmake (3.13.2-1) ... Selecting previously unselected package d-shlibs. Preparing to unpack .../061-d-shlibs_0.84ubuntu2_all.deb ... Unpacking d-shlibs (0.84ubuntu2) ... Selecting previously unselected package libtool. Preparing to unpack .../062-libtool_2.4.6-8_all.deb ... Unpacking libtool (2.4.6-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../063-dh-autoreconf_19_all.deb ... Unpacking dh-autoreconf (19) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../064-libarchive-zip-perl_1.64-1_all.deb ... Unpacking libarchive-zip-perl (1.64-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../065-libfile-stripnondeterminism-perl_1.1.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.1.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../066-dh-strip-nondeterminism_1.1.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.1.0-1) ... Selecting previously unselected package dwz. Preparing to unpack .../067-dwz_0.12-3_amd64.deb ... Unpacking dwz (0.12-3) ... Selecting previously unselected package libcroco3:amd64. Preparing to unpack .../068-libcroco3_0.6.12-3_amd64.deb ... Unpacking libcroco3:amd64 (0.6.12-3) ... Selecting previously unselected package gettext. Preparing to unpack .../069-gettext_0.19.8.1-9_amd64.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../070-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../071-po-debconf_1.0.21_all.deb ... Unpacking po-debconf (1.0.21) ... Selecting previously unselected package debhelper. Preparing to unpack .../072-debhelper_12ubuntu1_all.deb ... Unpacking debhelper (12ubuntu1) ... Selecting previously unselected package libllvm7:amd64. Preparing to unpack .../073-libllvm7_1%3a7.0.1-4_amd64.deb ... Unpacking libllvm7:amd64 (1:7.0.1-4) ... Selecting previously unselected package libclang1-7:amd64. Preparing to unpack .../074-libclang1-7_1%3a7.0.1-4_amd64.deb ... Unpacking libclang1-7:amd64 (1:7.0.1-4) ... Selecting previously unselected package libxapian30:amd64. Preparing to unpack .../075-libxapian30_1.4.9-1_amd64.deb ... Unpacking libxapian30:amd64 (1.4.9-1) ... Selecting previously unselected package doxygen. Preparing to unpack .../076-doxygen_1.8.13-10ubuntu1_amd64.deb ... Unpacking doxygen (1.8.13-10ubuntu1) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../077-libfreetype6_2.9.1-3_amd64.deb ... Unpacking libfreetype6:amd64 (2.9.1-3) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../078-fonts-dejavu-core_2.37-1_all.deb ... Unpacking fonts-dejavu-core (2.37-1) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../079-fontconfig-config_2.13.0-5ubuntu3_all.deb ... Unpacking fontconfig-config (2.13.0-5ubuntu3) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../080-libfontconfig1_2.13.0-5ubuntu3_amd64.deb ... Unpacking libfontconfig1:amd64 (2.13.0-5ubuntu3) ... Selecting previously unselected package fontconfig. Preparing to unpack .../081-fontconfig_2.13.0-5ubuntu3_amd64.deb ... Unpacking fontconfig (2.13.0-5ubuntu3) ... Selecting previously unselected package libcdt5. Preparing to unpack .../082-libcdt5_2.40.1-5build2_amd64.deb ... Unpacking libcdt5 (2.40.1-5build2) ... Selecting previously unselected package libcgraph6. Preparing to unpack .../083-libcgraph6_2.40.1-5build2_amd64.deb ... Unpacking libcgraph6 (2.40.1-5build2) ... Selecting previously unselected package libjpeg-turbo8:amd64. Preparing to unpack .../084-libjpeg-turbo8_2.0.1-0ubuntu1_amd64.deb ... Unpacking libjpeg-turbo8:amd64 (2.0.1-0ubuntu1) ... Selecting previously unselected package libjpeg8:amd64. Preparing to unpack .../085-libjpeg8_8c-2ubuntu8_amd64.deb ... Unpacking libjpeg8:amd64 (8c-2ubuntu8) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../086-libjbig0_2.1-3.1build1_amd64.deb ... Unpacking libjbig0:amd64 (2.1-3.1build1) ... Selecting previously unselected package libwebp6:amd64. Preparing to unpack .../087-libwebp6_0.6.1-2_amd64.deb ... Unpacking libwebp6:amd64 (0.6.1-2) ... Selecting previously unselected package libtiff5:amd64. Preparing to unpack .../088-libtiff5_4.0.10-3_amd64.deb ... Unpacking libtiff5:amd64 (4.0.10-3) ... Selecting previously unselected package libxpm4:amd64. Preparing to unpack .../089-libxpm4_1%3a3.5.12-1_amd64.deb ... Unpacking libxpm4:amd64 (1:3.5.12-1) ... Selecting previously unselected package libgd3:amd64. Preparing to unpack .../090-libgd3_2.2.5-5_amd64.deb ... Unpacking libgd3:amd64 (2.2.5-5) ... Selecting previously unselected package libgts-0.7-5:amd64. Preparing to unpack .../091-libgts-0.7-5_0.7.6+darcs121130-4_amd64.deb ... Unpacking libgts-0.7-5:amd64 (0.7.6+darcs121130-4) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../092-libpixman-1-0_0.36.0-1_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.36.0-1) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../093-libxcb-render0_1.13.1-2_amd64.deb ... Unpacking libxcb-render0:amd64 (1.13.1-2) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../094-libxcb-shm0_1.13.1-2_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.13.1-2) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../095-libxrender1_1%3a0.9.10-1_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../096-libcairo2_1.16.0-2_amd64.deb ... Unpacking libcairo2:amd64 (1.16.0-2) ... Selecting previously unselected package libltdl7:amd64. Preparing to unpack .../097-libltdl7_2.4.6-8_amd64.deb ... Unpacking libltdl7:amd64 (2.4.6-8) ... Selecting previously unselected package libthai-data. Preparing to unpack .../098-libthai-data_0.1.28-1_all.deb ... Unpacking libthai-data (0.1.28-1) ... Selecting previously unselected package libdatrie1:amd64. Preparing to unpack .../099-libdatrie1_0.2.12-1_amd64.deb ... Unpacking libdatrie1:amd64 (0.2.12-1) ... Selecting previously unselected package libthai0:amd64. Preparing to unpack .../100-libthai0_0.1.28-1_amd64.deb ... Unpacking libthai0:amd64 (0.1.28-1) ... Selecting previously unselected package libpango-1.0-0:amd64. Preparing to unpack .../101-libpango-1.0-0_1.42.4-6_amd64.deb ... Unpacking libpango-1.0-0:amd64 (1.42.4-6) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../102-libgraphite2-3_1.3.13-7_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.13-7) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../103-libharfbuzz0b_2.3.0-1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (2.3.0-1) ... Selecting previously unselected package libpangoft2-1.0-0:amd64. Preparing to unpack .../104-libpangoft2-1.0-0_1.42.4-6_amd64.deb ... Unpacking libpangoft2-1.0-0:amd64 (1.42.4-6) ... Selecting previously unselected package libpangocairo-1.0-0:amd64. Preparing to unpack .../105-libpangocairo-1.0-0_1.42.4-6_amd64.deb ... Unpacking libpangocairo-1.0-0:amd64 (1.42.4-6) ... Selecting previously unselected package libpathplan4. Preparing to unpack .../106-libpathplan4_2.40.1-5build2_amd64.deb ... Unpacking libpathplan4 (2.40.1-5build2) ... Selecting previously unselected package libgvc6. Preparing to unpack .../107-libgvc6_2.40.1-5build2_amd64.deb ... Unpacking libgvc6 (2.40.1-5build2) ... Selecting previously unselected package libgvpr2. Preparing to unpack .../108-libgvpr2_2.40.1-5build2_amd64.deb ... Unpacking libgvpr2 (2.40.1-5build2) ... Selecting previously unselected package liblab-gamut1. Preparing to unpack .../109-liblab-gamut1_2.40.1-5build2_amd64.deb ... Unpacking liblab-gamut1 (2.40.1-5build2) ... Selecting previously unselected package libxt6:amd64. Preparing to unpack .../110-libxt6_1%3a1.1.5-1_amd64.deb ... Unpacking libxt6:amd64 (1:1.1.5-1) ... Selecting previously unselected package libxmu6:amd64. Preparing to unpack .../111-libxmu6_2%3a1.1.2-2_amd64.deb ... Unpacking libxmu6:amd64 (2:1.1.2-2) ... Selecting previously unselected package libxaw7:amd64. Preparing to unpack .../112-libxaw7_2%3a1.0.13-1_amd64.deb ... Unpacking libxaw7:amd64 (2:1.0.13-1) ... Selecting previously unselected package graphviz. Preparing to unpack .../113-graphviz_2.40.1-5build2_amd64.deb ... Unpacking graphviz (2.40.1-5build2) ... Selecting previously unselected package hdf5-helpers. Preparing to unpack .../114-hdf5-helpers_1.10.4+repack-9_amd64.deb ... Unpacking hdf5-helpers (1.10.4+repack-9) ... Selecting previously unselected package libaec0:amd64. Preparing to unpack .../115-libaec0_1.0.2-1_amd64.deb ... Unpacking libaec0:amd64 (1.0.2-1) ... Selecting previously unselected package libboost1.67-dev:amd64. Preparing to unpack .../116-libboost1.67-dev_1.67.0-11_amd64.deb ... Unpacking libboost1.67-dev:amd64 (1.67.0-11) ... Selecting previously unselected package libboost-dev:amd64. Preparing to unpack .../117-libboost-dev_1.67.0.1_amd64.deb ... Unpacking libboost-dev:amd64 (1.67.0.1) ... Selecting previously unselected package libcppunit-1.14-0:amd64. Preparing to unpack .../118-libcppunit-1.14-0_1.14.0-3_amd64.deb ... Unpacking libcppunit-1.14-0:amd64 (1.14.0-3) ... Selecting previously unselected package libcppunit-dev. Preparing to unpack .../119-libcppunit-dev_1.14.0-3_amd64.deb ... Unpacking libcppunit-dev (1.14.0-3) ... Selecting previously unselected package libgfortran5:amd64. Preparing to unpack .../120-libgfortran5_8.2.0-14ubuntu1_amd64.deb ... Unpacking libgfortran5:amd64 (8.2.0-14ubuntu1) ... Selecting previously unselected package libsz2:amd64. Preparing to unpack .../121-libsz2_1.0.2-1_amd64.deb ... Unpacking libsz2:amd64 (1.0.2-1) ... Selecting previously unselected package libhdf5-103:amd64. Preparing to unpack .../122-libhdf5-103_1.10.4+repack-9_amd64.deb ... Unpacking libhdf5-103:amd64 (1.10.4+repack-9) ... Selecting previously unselected package libhdf5-cpp-103:amd64. Preparing to unpack .../123-libhdf5-cpp-103_1.10.4+repack-9_amd64.deb ... Unpacking libhdf5-cpp-103:amd64 (1.10.4+repack-9) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../124-zlib1g-dev_1%3a1.2.11.dfsg-0ubuntu2_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-0ubuntu2) ... Selecting previously unselected package libjpeg-turbo8-dev:amd64. Preparing to unpack .../125-libjpeg-turbo8-dev_2.0.1-0ubuntu1_amd64.deb ... Unpacking libjpeg-turbo8-dev:amd64 (2.0.1-0ubuntu1) ... Selecting previously unselected package libjpeg8-dev:amd64. Preparing to unpack .../126-libjpeg8-dev_8c-2ubuntu8_amd64.deb ... Unpacking libjpeg8-dev:amd64 (8c-2ubuntu8) ... Selecting previously unselected package libjpeg-dev:amd64. Preparing to unpack .../127-libjpeg-dev_8c-2ubuntu8_amd64.deb ... Unpacking libjpeg-dev:amd64 (8c-2ubuntu8) ... Selecting previously unselected package libaec-dev:amd64. Preparing to unpack .../128-libaec-dev_1.0.2-1_amd64.deb ... Unpacking libaec-dev:amd64 (1.0.2-1) ... Selecting previously unselected package libhdf5-dev. Preparing to unpack .../129-libhdf5-dev_1.10.4+repack-9_amd64.deb ... Unpacking libhdf5-dev (1.10.4+repack-9) ... Selecting previously unselected package libjsoncpp-dev:amd64. Preparing to unpack .../130-libjsoncpp-dev_1.7.4-3_amd64.deb ... Unpacking libjsoncpp-dev:amd64 (1.7.4-3) ... Selecting previously unselected package sbuild-build-depends-gatb-core-dummy. Preparing to unpack .../131-sbuild-build-depends-gatb-core-dummy_0.invalid.0_amd64.deb ... Unpacking sbuild-build-depends-gatb-core-dummy (0.invalid.0) ... Setting up libcppunit-1.14-0:amd64 (1.14.0-3) ... Setting up libxapian30:amd64 (1.4.9-1) ... Setting up libpathplan4 (2.40.1-5build2) ... Setting up libaec0:amd64 (1.0.2-1) ... Setting up libexpat1:amd64 (2.2.6-1) ... Setting up liblab-gamut1 (2.40.1-5build2) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libnghttp2-14:amd64 (1.35.1-1) ... Setting up libicu63:amd64 (63.1-5) ... Setting up libjbig0:amd64 (2.1-3.1build1) ... Setting up libsigsegv2:amd64 (2.12-2) ... Setting up libldap-common (2.4.47+dfsg-2ubuntu1) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up libuv1:amd64 (1.24.1-1) ... Setting up libpsl5:amd64 (0.20.2-2) ... Setting up libelf1:amd64 (0.175-2) ... Setting up libglib2.0-0:amd64 (2.58.1-2) ... No schema files found: doing nothing. Setting up libcppunit-dev (1.14.0-3) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-1) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-1) ... Setting up d-shlibs (0.84ubuntu2) ... Setting up libdatrie1:amd64 (0.2.12-1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up cmake-data (3.13.2-1) ... Setting up libjpeg-turbo8:amd64 (2.0.1-0ubuntu1) ... Setting up libpipeline1:amd64 (1.5.0-2) ... Setting up libroken18-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2) ... Setting up m4 (1.4.18-2) ... Setting up libbsd0:amd64 (0.9.1-1) ... Setting up libkrb5support0:amd64 (1.17-1) ... Setting up ucf (3.0038+nmu1) ... Setting up libxml2:amd64 (2.9.4+dfsg1-7ubuntu3) ... Setting up libuchardet0:amd64 (0.0.6-3) ... Setting up libfreetype6:amd64 (2.9.1-3) ... Setting up libmagic-mgc (1:5.35-2) ... Setting up libmagic1:amd64 (1:5.35-2) ... Setting up libgraphite2-3:amd64 (1.3.13-7) ... Setting up librhash0:amd64 (1.3.7-1) ... Setting up libcroco3:amd64 (0.6.12-3) ... Setting up libpixman-1-0:amd64 (0.36.0-1) ... Setting up libjpeg-turbo8-dev:amd64 (2.0.1-0ubuntu1) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Setting up dwz (0.12-3) ... Setting up autotools-dev (20180224.1) ... Setting up libboost1.67-dev:amd64 (1.67.0-11) ... Setting up libheimbase1-heimdal:amd64 (7.5.0+dfsg-2.1) ... Processing triggers for systemd (240-4ubuntu1) ... Setting up libltdl7:amd64 (2.4.6-8) ... Setting up libfribidi0:amd64 (1.0.5-3.1) ... Setting up libboost-dev:amd64 (1.67.0.1) ... Setting up libthai-data (0.1.28-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3) ... Setting up libkeyutils1:amd64 (1.5.9-9.3) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up x11-common (1:7.7+19ubuntu8) ... update-rc.d: warning: start and stop actions are no longer supported; falling back to defaults Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up libgfortran5:amd64 (8.2.0-14ubuntu1) ... Setting up hdf5-helpers (1.10.4+repack-9) ... Setting up libcdt5 (2.40.1-5build2) ... Setting up libx11-data (2:1.6.7-1) ... Setting up libxau6:amd64 (1:1.0.8-1) ... Setting up autopoint (0.19.8.1-9) ... Setting up libcgraph6 (2.40.1-5build2) ... Setting up libsz2:amd64 (1.0.2-1) ... Setting up libwebp6:amd64 (0.6.1-2) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-0ubuntu2) ... Setting up libfile-stripnondeterminism-perl (1.1.0-1) ... Setting up libjpeg8:amd64 (8c-2ubuntu8) ... Setting up libjsoncpp1:amd64 (1.7.4-3) ... Setting up libjsoncpp-dev:amd64 (1.7.4-3) ... Setting up libedit2:amd64 (3.1-20181209-1) ... Setting up libgts-0.7-5:amd64 (0.7.6+darcs121130-4) ... Setting up libk5crypto3:amd64 (1.17-1) ... Setting up fontconfig-config (2.13.0-5ubuntu3) ... Setting up libwind0-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up gettext (0.19.8.1-9) ... Setting up libarchive13:amd64 (3.3.3-3) ... Setting up libgvpr2 (2.40.1-5build2) ... Setting up libllvm7:amd64 (1:7.0.1-4) ... Setting up libasn1-8-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up libclang1-7:amd64 (1:7.0.1-4) ... Setting up groff-base (1.22.4-2) ... Setting up libhcrypto4-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up doxygen (1.8.13-10ubuntu1) ... Setting up libaec-dev:amd64 (1.0.2-1) ... Setting up libharfbuzz0b:amd64 (2.3.0-1) ... Setting up libtiff5:amd64 (4.0.10-3) ... Setting up autoconf (2.69-11) ... Setting up libthai0:amd64 (0.1.28-1) ... Setting up libhdf5-103:amd64 (1.10.4+repack-9) ... Setting up file (1:5.35-2) ... Setting up libhx509-5-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libjpeg8-dev:amd64 (8c-2ubuntu8) ... Setting up libjpeg-dev:amd64 (8c-2ubuntu8) ... Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libice6:amd64 (2:1.0.9-2) ... Setting up man-db (2.8.5-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink /etc/systemd/system/timers.target.wants/man-db.timer → /lib/systemd/system/man-db.timer. Setting up libkrb5-3:amd64 (1.17-1) ... Setting up libkrb5-26-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up libxcb1:amd64 (1.13.1-2) ... Setting up libheimntlm0-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up libtool (2.4.6-8) ... Setting up libfontconfig1:amd64 (2.13.0-5ubuntu3) ... Setting up libsm6:amd64 (2:1.2.2-1) ... Setting up libxcb-render0:amd64 (1.13.1-2) ... Setting up po-debconf (1.0.21) ... Setting up libx11-6:amd64 (2:1.6.7-1) ... Setting up libhdf5-cpp-103:amd64 (1.10.4+repack-9) ... Setting up libhdf5-dev (1.10.4+repack-9) ... update-alternatives: using /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/x86_64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libgssapi-krb5-2:amd64 (1.17-1) ... Setting up libxcb-shm0:amd64 (1.13.1-2) ... Setting up libxpm4:amd64 (1:3.5.12-1) ... Setting up libxt6:amd64 (1:1.1.5-1) ... Setting up libxrender1:amd64 (1:0.9.10-1) ... Setting up libgssapi3-heimdal:amd64 (7.5.0+dfsg-2.1) ... Setting up fontconfig (2.13.0-5ubuntu3) ... Regenerating fonts cache... done. Setting up libxext6:amd64 (2:1.3.3-1) ... Setting up libgd3:amd64 (2.2.5-5) ... Setting up libxmu6:amd64 (2:1.1.2-2) ... Setting up libldap-2.4-2:amd64 (2.4.47+dfsg-2ubuntu1) ... Setting up libpango-1.0-0:amd64 (1.42.4-6) ... Setting up libxaw7:amd64 (2:1.0.13-1) ... Setting up libcairo2:amd64 (1.16.0-2) ... Setting up libcurl4:amd64 (7.63.0-1) ... Setting up libpangoft2-1.0-0:amd64 (1.42.4-6) ... Setting up cmake (3.13.2-1) ... Setting up libpangocairo-1.0-0:amd64 (1.42.4-6) ... Setting up libgvc6 (2.40.1-5build2) ... Setting up graphviz (2.40.1-5build2) ... Setting up dh-strip-nondeterminism (1.1.0-1) ... Setting up debhelper (12ubuntu1) ... Setting up dh-autoreconf (19) ... Setting up sbuild-build-depends-gatb-core-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.28-0ubuntu1) ... Processing triggers for systemd (240-4ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-141-generic amd64 (x86_64) Toolchain package versions: binutils_2.31.1-11ubuntu1 dpkg-dev_1.19.2ubuntu2 g++-8_8.2.0-14ubuntu1 gcc-8_8.2.0-14ubuntu1 libc6-dev_2.28-0ubuntu1 libstdc++-8-dev_8.2.0-14ubuntu1 libstdc++6_8.2.0-14ubuntu1 linux-libc-dev_4.19.0-11.12 Package versions: adduser_3.117ubuntu1 advancecomp_2.1-1 apt_1.8.0~alpha3.1 autoconf_2.69-11 automake_1:1.16.1-4 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1ubuntu8 base-passwd_3.5.45 bash_5.0-1ubuntu1 binutils_2.31.1-11ubuntu1 binutils-common_2.31.1-11ubuntu1 binutils-x86-64-linux-gnu_2.31.1-11ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.33.1-0.1ubuntu1 build-essential_12.5ubuntu2 bzip2_1.0.6-9 ca-certificates_20180409 cmake_3.13.2-1 cmake-data_3.13.2-1 coreutils_8.30-1ubuntu1 cpp_4:8.2.0-2ubuntu2 cpp-8_8.2.0-14ubuntu1 d-shlibs_0.84ubuntu2 dash_0.5.10.2-4ubuntu1 debconf_1.5.70 debhelper_12ubuntu1 debianutils_4.8.6.1 dh-autoreconf_19 dh-strip-nondeterminism_1.1.0-1 diffutils_1:3.6-1 dmsetup_2:1.02.145-4.1ubuntu4 doxygen_1.8.13-10ubuntu1 dpkg_1.19.2ubuntu2 dpkg-dev_1.19.2ubuntu2 dwz_0.12-3 e2fslibs_1.44.5-1 e2fsprogs_1.44.5-1 fakeroot_1.23-1 fdisk_2.33.1-0.1ubuntu1 file_1:5.35-2 findutils_4.6.0+git+20190105-2 fontconfig_2.13.0-5ubuntu3 fontconfig-config_2.13.0-5ubuntu3 fonts-dejavu-core_2.37-1 g++_4:8.2.0-2ubuntu2 g++-8_8.2.0-14ubuntu1 gcc_4:8.2.0-2ubuntu2 gcc-8_8.2.0-14ubuntu1 gcc-8-base_8.2.0-14ubuntu1 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gpg_2.2.12-1ubuntu2 gpg-agent_2.2.12-1ubuntu2 gpgconf_2.2.12-1ubuntu2 gpgv_2.2.12-1ubuntu2 graphviz_2.40.1-5build2 grep_3.3-1 groff-base_1.22.4-2 gzip_1.9-3 hdf5-helpers_1.10.4+repack-9 hostname_3.21 init_1.56+nmu1 init-system-helpers_1.56+nmu1 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.5 libacl1_2.2.52-3build1 libaec-dev_1.0.2-1 libaec0_1.0.2-1 libapparmor1_2.12-4ubuntu10 libapt-pkg5.0_1.8.0~alpha3.1 libarchive-zip-perl_1.64-1 libarchive13_3.3.3-3 libargon2-1_0~20171227-0.2 libasan5_8.2.0-14ubuntu1 libasn1-8-heimdal_7.5.0+dfsg-2.1 libassuan0_2.5.2-1 libatomic1_8.2.0-14ubuntu1 libattr1_1:2.4.47-2build1 libaudit-common_1:2.8.3-1ubuntu3 libaudit1_1:2.8.3-1ubuntu3 libbinutils_2.31.1-11ubuntu1 libblkid1_2.33.1-0.1ubuntu1 libboost-dev_1.67.0.1 libboost1.67-dev_1.67.0-11 libbsd0_0.9.1-1 libbz2-1.0_1.0.6-9 libc-bin_2.28-0ubuntu1 libc-dev-bin_2.28-0ubuntu1 libc6_2.28-0ubuntu1 libc6-dev_2.28-0ubuntu1 libcairo2_1.16.0-2 libcap-ng0_0.7.9-2 libcap2_1:2.25-1.2 libcc1-0_8.2.0-14ubuntu1 libcdt5_2.40.1-5build2 libcgraph6_2.40.1-5build2 libclang1-7_1:7.0.1-4 libcom-err2_1.44.5-1 libcomerr2_1.44.5-1 libcppunit-1.14-0_1.14.0-3 libcppunit-dev_1.14.0-3 libcroco3_0.6.12-3 libcryptsetup12_2:2.0.4-2ubuntu2 libcurl4_7.63.0-1 libdatrie1_0.2.12-1 libdb5.3_5.3.28+dfsg1-0.2 libdebconfclient0_0.244ubuntu1 libdevmapper1.02.1_2:1.02.145-4.1ubuntu4 libdpkg-perl_1.19.2ubuntu2 libedit2_3.1-20181209-1 libelf1_0.175-2 libexpat1_2.2.6-1 libext2fs2_1.44.5-1 libfakeroot_1.23-1 libfdisk1_2.33.1-0.1ubuntu1 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.1.0-1 libfontconfig1_2.13.0-5ubuntu3 libfreetype6_2.9.1-3 libfribidi0_1.0.5-3.1 libgcc-8-dev_8.2.0-14ubuntu1 libgcc1_1:8.2.0-14ubuntu1 libgcrypt20_1.8.4-3ubuntu1 libgd3_2.2.5-5 libgdbm-compat4_1.18.1-2build1 libgdbm6_1.18.1-2build1 libgfortran5_8.2.0-14ubuntu1 libglib2.0-0_2.58.1-2 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.5-2ubuntu1 libgomp1_8.2.0-14ubuntu1 libgpg-error0_1.33-3 libgraphite2-3_1.3.13-7 libgssapi-krb5-2_1.17-1 libgssapi3-heimdal_7.5.0+dfsg-2.1 libgts-0.7-5_0.7.6+darcs121130-4 libgvc6_2.40.1-5build2 libgvpr2_2.40.1-5build2 libharfbuzz0b_2.3.0-1 libhcrypto4-heimdal_7.5.0+dfsg-2.1 libhdf5-103_1.10.4+repack-9 libhdf5-cpp-103_1.10.4+repack-9 libhdf5-dev_1.10.4+repack-9 libheimbase1-heimdal_7.5.0+dfsg-2.1 libheimntlm0-heimdal_7.5.0+dfsg-2.1 libhogweed4_3.4.1~rc1-1 libhx509-5-heimdal_7.5.0+dfsg-2.1 libice6_2:1.0.9-2 libicu63_63.1-5 libidn11_1.33-2.2ubuntu1 libidn2-0_2.0.5-1 libip4tc0_1.6.1-2ubuntu3 libisl19_0.20-2 libitm1_8.2.0-14ubuntu1 libjbig0_2.1-3.1build1 libjpeg-dev_8c-2ubuntu8 libjpeg-turbo8_2.0.1-0ubuntu1 libjpeg-turbo8-dev_2.0.1-0ubuntu1 libjpeg8_8c-2ubuntu8 libjpeg8-dev_8c-2ubuntu8 libjson-c3_0.12.1+ds-2 libjsoncpp-dev_1.7.4-3 libjsoncpp1_1.7.4-3 libk5crypto3_1.17-1 libkeyutils1_1.5.9-9.3 libkmod2_25-1ubuntu2 libkrb5-26-heimdal_7.5.0+dfsg-2.1 libkrb5-3_1.17-1 libkrb5support0_1.17-1 liblab-gamut1_2.40.1-5build2 libldap-2.4-2_2.4.47+dfsg-2ubuntu1 libldap-common_2.4.47+dfsg-2ubuntu1 libllvm7_1:7.0.1-4 liblockfile-bin_1.14-1.1 liblockfile1_1.14-1.1 liblsan0_8.2.0-14ubuntu1 libltdl7_2.4.6-8 liblz4-1_1.8.3-1ubuntu1 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.35-2 libmagic1_1:5.35-2 libmount1_2.33.1-0.1ubuntu1 libmpc3_1.1.0-1 libmpfr6_4.0.2~rc1-1 libmpx2_8.2.0-14ubuntu1 libncurses6_6.1+20180210-4ubuntu1 libncursesw6_6.1+20180210-4ubuntu1 libnettle6_3.4.1~rc1-1 libnghttp2-14_1.35.1-1 libnpth0_1.6-1 libp11-kit0_0.23.14-2 libpam-modules_1.1.8-3.6ubuntu2 libpam-modules-bin_1.1.8-3.6ubuntu2 libpam-runtime_1.1.8-3.6ubuntu2 libpam0g_1.1.8-3.6ubuntu2 libpango-1.0-0_1.42.4-6 libpangocairo-1.0-0_1.42.4-6 libpangoft2-1.0-0_1.42.4-6 libpathplan4_2.40.1-5build2 libpcre3_2:8.39-11 libperl5.28_5.28.1-3 libpipeline1_1.5.0-2 libpixman-1-0_0.36.0-1 libpng16-16_1.6.36-3 libprocps7_2:3.3.15-2ubuntu1 libpsl5_0.20.2-2 libquadmath0_8.2.0-14ubuntu1 libreadline7_7.0-5 libreadline8_8.0-1 librhash0_1.3.7-1 libroken18-heimdal_7.5.0+dfsg-2.1 librtmp1_2.4+20151223.gitfa8646d.1-2 libsasl2-2_2.1.27+dfsg-1 libsasl2-modules-db_2.1.27+dfsg-1 libseccomp2_2.3.3-3ubuntu2 libselinux1_2.8-1build2 libsemanage-common_2.8-2 libsemanage1_2.8-2 libsepol1_2.8-1 libsigsegv2_2.12-2 libslang2_2.3.2-1ubuntu1 libsm6_2:1.2.2-1 libsmartcols1_2.33.1-0.1ubuntu1 libsqlite3-0_3.26.0+fossilbc891ac6b-1build1 libss2_1.44.5-1 libssl1.1_1.1.1a-1ubuntu2 libstdc++-8-dev_8.2.0-14ubuntu1 libstdc++6_8.2.0-14ubuntu1 libsystemd0_240-4ubuntu1 libsz2_1.0.2-1 libtasn1-6_4.13-3 libthai-data_0.1.28-1 libthai0_0.1.28-1 libtiff5_4.0.10-3 libtinfo6_6.1+20180210-4ubuntu1 libtool_2.4.6-8 libtsan0_8.2.0-14ubuntu1 libubsan1_8.2.0-14ubuntu1 libuchardet0_0.0.6-3 libudev1_240-4ubuntu1 libunistring2_0.9.10-1ubuntu1 libusb-0.1-4_2:0.1.12-32 libuuid1_2.33.1-0.1ubuntu1 libuv1_1.24.1-1 libwebp6_0.6.1-2 libwind0-heimdal_7.5.0+dfsg-2.1 libx11-6_2:1.6.7-1 libx11-data_2:1.6.7-1 libxapian30_1.4.9-1 libxau6_1:1.0.8-1 libxaw7_2:1.0.13-1 libxcb-render0_1.13.1-2 libxcb-shm0_1.13.1-2 libxcb1_1.13.1-2 libxdmcp6_1:1.1.2-3 libxext6_2:1.3.3-1 libxml2_2.9.4+dfsg1-7ubuntu3 libxmu6_2:1.1.2-2 libxpm4_1:3.5.12-1 libxrender1_1:0.9.10-1 libxt6_1:1.1.5-1 libzstd1_1.3.8+dfsg-3 linux-libc-dev_4.19.0-11.12 lockfile-progs_0.1.18 login_1:4.5-1ubuntu1 lsb-base_9.20170808ubuntu1 m4_1.4.18-2 make_4.2.1-1.2 man-db_2.8.5-1 mawk_1.3.3-17ubuntu3 mount_2.33.1-0.1ubuntu1 multiarch-support_2.28-0ubuntu1 ncurses-base_6.1+20180210-4ubuntu1 ncurses-bin_6.1+20180210-4ubuntu1 openssl_1.1.1a-1ubuntu2 optipng_0.7.6-1.1 passwd_1:4.5-1ubuntu1 patch_2.7.6-3 perl_5.28.1-3 perl-base_5.28.1-3 perl-modules-5.28_5.28.1-3 pinentry-curses_1.1.0-1build2 pkgbinarymangler_143 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 procps_2:3.3.15-2ubuntu1 readline-common_8.0-1 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 systemd_240-4ubuntu1 systemd-sysv_240-4ubuntu1 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu2 tar_1.30+dfsg-4 tzdata_2018i-1 ubuntu-keyring_2018.09.18.1 ucf_3.0038+nmu1 util-linux_2.32-0.1ubuntu2 x11-common_1:7.7+19ubuntu8 xz-utils_5.2.2-1.3 zlib1g_1:1.2.11.dfsg-0ubuntu2 zlib1g-dev_1:1.2.11.dfsg-0ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Tue Jan 22 19:59:21 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+git20180206.6f8fce8+dfsg-1.dsc dpkg-source: info: extracting gatb-core in gatb-core-1.4.1+git20180206.6f8fce8+dfsg dpkg-source: info: unpacking gatb-core_1.4.1+git20180206.6f8fce8+dfsg.orig.tar.xz dpkg-source: info: unpacking gatb-core_1.4.1+git20180206.6f8fce8+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=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-16311943 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-16311943 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-16311943 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+git20180206.6f8fce8+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 8.2.0 -- The CXX compiler identification is GNU 8.2.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- CppUnit: found headers (in /usr/include) but not the static library (/usr/include/../lib/libcppunit.a) -- CppUnit FOUND (/usr/include) -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of __uint128 -- Check size of __uint128 - failed -- Check size of __uint128_t -- Check size of __uint128_t - 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:238 (set): Cannot set "gatb-core-klist": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. -- ---------- GATB TESTS ---------- -- ---------- GATB TOOLS ---------- DYNAMIC BINARIES for dbgh5 DYNAMIC BINARIES for dbginfo DYNAMIC BINARIES for leon -- Found HDF5: /usr/lib/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:265 (set): Cannot set "gatb-core-flags": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:266 (set): Cannot set "gatb-core-includes": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:267 (set): Cannot set "gatb-core-libraries": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. CMake Warning (dev) at CMakeLists.txt:268 (set): Cannot set "gatb-core-cmake": current scope has no parent. This warning is for project developers. Use -Wno-dev to suppress it. -- Found Doxygen: /usr/bin/doxygen (found version "1.8.13") found components: doxygen dot -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY -- Build files have been written to: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu debian/rules override_dh_auto_build-arch make[1]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core -B/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/CMakeFiles /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/depend make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/depend make -f thirdparty/CMakeFiles/thirdparty_copy.dir/build.make thirdparty/CMakeFiles/thirdparty_copy.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/gatbcore-dynamic.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty/CMakeFiles/thirdparty_copy.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/gatbcore-static.dir/DependInfo.cmake --color= Scanning dependencies of target thirdparty_copy make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/json cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty/BooPHF/BooPHF.h /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/ cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty/json/json.hpp /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/json/ make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 0%] Built target thirdparty_copy Scanning dependencies of target gatbcore-dynamic make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/build Scanning dependencies of target gatbcore-static make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 1%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankAlbum.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankAlbum.cpp [ 1%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/Bank.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp [ 1%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/Bank.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp [ 1%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankBinary.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In function ‘bool gatb::core::bank::impl::checkMagic(FILE*)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:54:11: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread (&value, sizeof(value), 1, file); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:453:15: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread (_bufferData->getBuffer(), sizeof( char),block_size, binary_read_file); // read a block of reads into the buffer ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 2%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankConverterAlgorithm.cpp [ 2%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankFasta.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankFasta.cpp [ 3%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankAlbum.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankAlbum.cpp [ 3%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankBinary.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In function ‘bool gatb::core::bank::impl::checkMagic(FILE*)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:54:11: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread (&value, sizeof(value), 1, file); ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp:453:15: warning: ignoring return value of ‘size_t fread(void*, size_t, size_t, FILE*)’, declared with attribute warn_unused_result [-Wunused-result] fread (_bufferData->getBuffer(), sizeof( char),block_size, binary_read_file); // read a block of reads into the buffer ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 4%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankHelpers.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankHelpers.cpp [ 4%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankRandom.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankRandom.cpp [ 4%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankSplitter.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankSplitter.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankConverterAlgorithm.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankFasta.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankFasta.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankHelpers.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankHelpers.cpp [ 6%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bcalm_algo.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankRandom.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankRandom.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankSplitter.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bank/impl/BankSplitter.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bglue_algo.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp [ 8%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bcalm_algo.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp [ 9%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/logging.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 9%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/ograph.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp [ 9%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bglue_algo.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:380:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:382:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:397:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:399:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 9%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp [ 10%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Frontline.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp [ 10%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Graph.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 10%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/logging.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp:24: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 11%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/ograph.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp [ 11%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:380:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:382:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:397:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:399:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 12%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Frontline.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp [ 12%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Graph.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 13%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp:24: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 13%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 14%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/LinkTigs.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/LinkTigs.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 14%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/LinkTigs.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/LinkTigs.cpp [ 15%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Simplifications.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 16%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Simplifications.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 16%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Terminator.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp:24: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 16%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Traversal.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 17%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp [ 17%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Terminator.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp [ 18%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Traversal.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp:24: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 18%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp [ 19%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp [ 19%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp [ 19%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomBuilder.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomBuilder.cpp [ 19%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Configuration.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Configuration.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/ConfigurationAlgorithm.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/DebloomAlgorithm.cpp [ 21%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomBuilder.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomBuilder.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Configuration.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Configuration.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/ConfigurationAlgorithm.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/LinearCounter.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/LinearCounter.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/DebloomAlgorithm.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Model.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ModelData.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/ModelData.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp [ 26%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartiInfo.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 27%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/LinearCounter.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/LinearCounter.cpp [ 27%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp [ 27%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartitionsCommand.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 28%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Model.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp [ 28%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/RepartitionAlgorithm.cpp [ 29%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp [ 29%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemCommon.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/FileSystemCommon.cpp [ 29%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ModelData.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/ModelData.cpp [ 29%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartiInfo.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp [ 30%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartitionsCommand.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp [ 31%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemLinux.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/FileSystemLinux.cpp [ 31%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemMacos.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/FileSystemMacos.cpp [ 31%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/System.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/System.cpp [ 32%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/SystemInfoCommon.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/SystemInfoCommon.cpp [ 32%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadLinux.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp [ 33%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadMacos.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/ThreadMacos.cpp [ 33%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/collections/impl/Bloom.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.cpp /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp:51:7: warning: variable ‘ret’ set but not used [-Wunused-but-set-variable] int ret = pthread_attr_init ( &tattr ) ; ^~~ [ 34%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/DnaCoder.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp [ 34%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/RepartitionAlgorithm.cpp [ 34%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/HeaderCoder.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp [ 34%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/Leon.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeNumeric()’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:707:20: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] snprintf(temp,200,"%llu",value); ^~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta()’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:727:20: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] snprintf(temp,200,"%llu",value); ^~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta2()’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:746:20: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] snprintf(temp,200,"%llu",value); ^~~~~~ ~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 35%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:71, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 35%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemCommon.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/FileSystemCommon.cpp [ 35%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemLinux.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/FileSystemLinux.cpp [ 36%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/RangeCoder.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/RangeCoder.cpp [ 37%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemMacos.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/FileSystemMacos.cpp [ 37%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/System.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/System.cpp [ 38%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/SystemInfoCommon.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/SystemInfoCommon.cpp [ 38%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Command.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Command.cpp [ 39%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Observer.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Observer.cpp [ 39%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadLinux.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp:51:7: warning: variable ‘ret’ set but not used [-Wunused-but-set-variable] int ret = pthread_attr_init ( &tattr ) ; ^~~ [ 40%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadMacos.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/system/impl/ThreadMacos.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/collections/impl/Bloom.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Algorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/DnaCoder.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Histogram.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Histogram.cpp [ 41%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/OptionsParser.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/OptionsParser.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 42%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/HeaderCoder.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp [ 42%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/Leon.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeNumeric()’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:707:20: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] snprintf(temp,200,"%llu",value); ^~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta()’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:727:20: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] snprintf(temp,200,"%llu",value); ^~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta2()’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:746:20: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] snprintf(temp,200,"%llu",value); ^~~~~~ ~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 43%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/RangeCoder.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/RangeCoder.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:71, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 43%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Command.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Command.cpp [ 43%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Progress.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp [ 43%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Observer.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Observer.cpp [ 44%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Property.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp [ 44%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/TimeInfo.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/TimeInfo.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Algorithm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tokenizer.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Tokenizer.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Histogram.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Histogram.cpp [ 46%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tool.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Tool.cpp [ 46%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/XmlReader.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/XmlReader.cpp [ 47%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/OptionsParser.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/OptionsParser.cpp [ 48%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/Storage.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp [ 48%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/StorageTools.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageTools.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 48%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Progress.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp [ 48%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Property.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp [ 50%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/TimeInfo.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/TimeInfo.cpp [ 50%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tokenizer.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Tokenizer.cpp [ 51%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tool.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Tool.cpp [ 51%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/XmlReader.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/XmlReader.cpp [ 51%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp [ 51%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/Storage.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp [ 52%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/StorageTools.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageTools.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 52%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp [ 53%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 54%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp [ 54%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 55%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp [ 55%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:3: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:380:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:382:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:397:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:399:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ [ 55%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:749:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with long unsigned int SPAN = 128; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:11: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ totalsizeBitset, 100*(float)totalsizeBitset/totalsize); ~~~~~~~~~~~~~~~ [ 55%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 56%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:3: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:380:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:382:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:397:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:399:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:749:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with long unsigned int SPAN = 32; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:11: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ totalsizeBitset, 100*(float)totalsizeBitset/totalsize); ~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<32>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:3: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:380:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:382:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:397:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:399:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:749:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with long unsigned int SPAN = 64; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:11: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ totalsizeBitset, 100*(float)totalsizeBitset/totalsize); ~~~~~~~~~~~~~~~ [ 57%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 57%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:3: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:380:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:382:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:397:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:399:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:749:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with long unsigned int SPAN = 128; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:11: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ totalsizeBitset, 100*(float)totalsizeBitset/totalsize); ~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 57%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:3: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:380:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:382:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:397:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:399:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ [ 58%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:749:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with long unsigned int SPAN = 96; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:11: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ totalsizeBitset, 100*(float)totalsizeBitset/totalsize); ~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ [ 58%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with long unsigned int span = 128; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<128>::SuperKmer]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:947:8: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with long unsigned int span = 32; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<>::SuperKmer]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:947:8: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 59%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:3: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:380:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:382:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:397:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:399:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:749:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with long unsigned int SPAN = 32; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:11: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ totalsizeBitset, 100*(float)totalsizeBitset/totalsize); ~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<32>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 59%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with long unsigned int span = 64; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<64>::SuperKmer]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:947:8: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 60%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 60%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with long unsigned int span = 96; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<96>::SuperKmer]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:947:8: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 60%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:3: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:380:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:382:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:397:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:399:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:749:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with long unsigned int SPAN = 64; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:11: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ totalsizeBitset, 100*(float)totalsizeBitset/totalsize); ~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 60%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:3: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In member function ‘void gatb::core::debruijn::impl::graph3::addtuple(std::tuple, std::allocator >, unsigned int, unsigned int, unsigned int>&)’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:380:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:382:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ if(minimizer==get<2>(tuple)){ ^~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:397:5: warning: this ‘else’ clause does not guard... [-Wmisleading-indentation] else ^~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:399:2: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘else’ ++indiceUnitigs; ^~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In instantiation of ‘uint64_t boomphf::mphf::totalBitSize() [with elem_t = long unsigned int; Hasher_t = gatb::core::debruijn::impl::hasher_t; uint64_t = long unsigned int]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:749:60: required from ‘void gatb::core::debruijn::impl::bglue(gatb::core::tools::storage::impl::Storage*, std::__cxx11::string, int, int, int, bool) [with long unsigned int SPAN = 96; std::__cxx11::string = std::__cxx11::basic_string]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:839:11: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("Bitarray %12llu bits (%.2f %%) (array + ranks )\n", ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ totalsizeBitset, 100*(float)totalsizeBitset/totalsize); ~~~~~~~~~~~~~~~ [ 61%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 61%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 61%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp [ 62%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 63%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with long unsigned int span = 128; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<128>::SuperKmer]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:947:8: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ [ 63%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 64%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 64%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 65%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with long unsigned int span = 32; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<>::SuperKmer]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:947:8: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 65%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with long unsigned int span = 64; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<64>::SuperKmer]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:947:8: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 65%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 66%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp [ 66%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountFileNames.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] while(filenames.size() > _reduceTarget) ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< _tmpCountIterators.size(); ii++) /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] for(int ii=0; ii< currentFiles.size(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp: In instantiation of ‘void gatb::core::kmer::impl::Kmer::SuperKmer::save(gatb::core::tools::storage::impl::CacheSuperKmerBinFiles&, int) [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:956:5: required from ‘void gatb::core::kmer::impl::FillPartitions::processSuperkmer(gatb::core::kmer::impl::FillPartitions::SuperKmer&) [with long unsigned int span = 96; gatb::core::kmer::impl::FillPartitions::SuperKmer = gatb::core::kmer::impl::Kmer<96>::SuperKmer]’ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:947:8: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1442:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] while(uid<4 && skid < superKmerLen) ~~~~~^~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1460:13: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] if(skid >= superKmerLen) break; ~~~~~^~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 67%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 67%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 68%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt8.hpp:44:7: note: ‘class gatb::core::tools::math::NativeInt8’ declared here class NativeInt8 : private misc::ArrayData ^~~~~~~~~~ [ 68%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp [ 68%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 68%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 69%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 69%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 70%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 70%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp [ 71%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 72%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 72%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 73%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 73%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 73%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 75%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp [ 75%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 75%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 75%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 76%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 76%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 77%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp [ 78%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 78%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp [ 78%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 78%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 78%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp [ 79%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 80%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 80%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<128>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<96>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<64>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 81%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp [ 81%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 81%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp [ 82%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 82%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_128.cpp [ 82%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_32.cpp [ 83%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_64.cpp [ 83%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_96.cpp [ 84%] Linking CXX static library ../lib/None/libgatbcore.a cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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 CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankBinary.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankFasta.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankHelpers.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankRandom.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankSplitter.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bcalm_algo.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bglue_algo.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/logging.cpp.o CMakeFiles/gatbcore-static.dir/gatb/bcalm2/ograph.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Frontline.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Graph.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/LinkTigs.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Simplifications.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Terminator.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Traversal.cpp.o CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomBuilder.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Configuration.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/LinearCounter.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Model.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ModelData.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartiInfo.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartitionsCommand.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemCommon.cpp.o CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemLinux.cpp.o CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemMacos.cpp.o CMakeFiles/gatbcore-static.dir/gatb/system/impl/System.cpp.o CMakeFiles/gatbcore-static.dir/gatb/system/impl/SystemInfoCommon.cpp.o CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadLinux.cpp.o CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadMacos.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/collections/impl/Bloom.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/compression/DnaCoder.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/compression/HeaderCoder.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/compression/Leon.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/compression/RangeCoder.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Command.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Observer.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Algorithm.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Histogram.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/OptionsParser.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Progress.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Property.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/TimeInfo.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tokenizer.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tool.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/XmlReader.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/Storage.cpp.o CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/StorageTools.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o 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 [ 84%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp /usr/bin/ranlib ../lib/None/libgatbcore.a In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 84%] 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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 85%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bank/TestBank.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp [ 86%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 86%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bank/TestLeon.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/bank/TestLeon.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/bank/TestLeon.cpp:32: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 86%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_128.cpp [ 87%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_32.cpp [ 87%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_64.cpp [ 87%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_96.cpp [ 87%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bcalm/TestBcalm.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/bcalm/TestBcalm.cpp [ 88%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijn.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijn.cpp [ 88%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijnUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijnUnitigs.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijn.cpp:33: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 89%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplifications.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/debruijn/TestSimplifications.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijnUnitigs.cpp:33: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/debruijn/TestSimplifications.cpp:33: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 89%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplificationsUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/debruijn/TestSimplificationsUnitigs.cpp [ 90%] Linking CXX shared library ../lib/None/libgatbcore.so cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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.1 -o ../lib/None/libgatbcore.so.1 CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/Bank.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankAlbum.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankBinary.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankFasta.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankHelpers.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankRandom.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankSplitter.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bcalm_algo.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bglue_algo.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/logging.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/ograph.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Frontline.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Graph.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/LinkTigs.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Simplifications.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Terminator.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Traversal.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomBuilder.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Configuration.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/LinearCounter.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Model.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ModelData.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartiInfo.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartitionsCommand.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemCommon.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemLinux.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemMacos.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/System.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/SystemInfoCommon.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadLinux.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadMacos.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/collections/impl/Bloom.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/DnaCoder.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/HeaderCoder.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/Leon.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/RangeCoder.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Command.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Observer.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Algorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Histogram.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/OptionsParser.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Progress.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Property.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/TimeInfo.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tokenizer.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tool.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/XmlReader.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/Storage.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/StorageTools.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o [ 91%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDSK.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/kmer/TestDSK.cpp [ 91%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDebloom.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/debruijn/TestSimplificationsUnitigs.cpp:33: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp:25: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp:25: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:1568:12: note: ‘struct gatb::core::kmer::impl::Kmer<>::Count’ declared here struct Count : tools::misc::Abundance ^~~~~ [ 91%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmer.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/kmer/TestKmer.cpp [ 92%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmerBank.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/kmer/TestKmerBank.cpp cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library ../lib/None/libgatbcore.so.1 ../lib/None/libgatbcore.so.1 ../lib/None/libgatbcore.so make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 92%] Built target gatbcore-dynamic make -f tools/CMakeFiles/dbginfo.dir/build.make tools/CMakeFiles/dbginfo.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object tools/CMakeFiles/dbginfo.dir/dbginfo.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/tools/dbginfo.cpp make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object tools/CMakeFiles/dbgh5.dir/dbgh5.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/tools/dbgh5.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/tools/dbginfo.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/tools/dbgh5.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 93%] Building CXX object tools/CMakeFiles/leon.dir/leon.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/tools/leon.cpp [ 93%] Linking CXX executable ../bin/None/dbginfo cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/dbginfo.dir/dbginfo.cpp.o -o ../bin/None/dbginfo -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/tools/dbgh5.cpp:127:13: warning: ignoring return value of ‘int system(const char*)’, declared with attribute warn_unused_result [-Wunused-result] ::system (cmd.str().c_str()); ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/tools/leon.cpp:20: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 93%] Linking CXX executable ../bin/None/dbgh5 cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/dbgh5.dir/dbgh5.cpp.o -o ../bin/None/dbgh5 -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm [ 93%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestMPHF.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/kmer/TestMPHF.cpp [ 94%] Linking CXX executable ../bin/None/leon cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/leon.dir/leon.cpp.o -o ../bin/None/leon -Wl,-rpath,/usr/lib/x86_64-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/x86_64-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target dbginfo [ 95%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/main.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/main.cpp [ 95%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/system/TestSystem.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/system/TestSystem.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/kmer/TestMPHF.cpp:27: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target leon [ 95%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestBag.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/collections/TestBag.cpp make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 95%] Built target dbgh5 [ 96%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestCollection.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/collections/TestCollection.cpp [ 96%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestContainer.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/collections/TestContainer.cpp [ 97%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestIterable.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/collections/TestIterable.cpp [ 97%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestMap.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/collections/TestMap.cpp [ 97%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/designpattern/TestIterators.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/designpattern/TestIterators.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/collections/TestMap.cpp:24: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:535:11: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("bit array of size %lli: \n",_size); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:539:13: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf(" (%llu) ",ii); ^~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: warning: format ‘%llu’ expects argument of type ‘long long unsigned int’, but argument 2 has type ‘uint64_t’ {aka ‘long unsigned int’} [-Wformat=] printf("%llu : %lli, ",ii,_ranks[ii]); ^~~~~~~~~~~~~~~~~ ~~ /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/BooPHF.h:548:12: 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=] [ 98%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/math/TestMath.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/math/TestMath.cpp [ 98%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/misc/TestMisc.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/misc/TestMisc.cpp [100%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/storage/TestStorage.cpp.o cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp:23: /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20180206.6f8fce8+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] memset (_data, 0, _blockSize*sizeof(Item)); ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp:31: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [100%] Linking CXX executable ../../bin/None/gatb-core-cppunit cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -msse2 -msse4.2 -mpopcnt -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/gatb-core-cppunit.dir/src/bank/TestBank.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/bank/TestLeon.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/bcalm/TestBcalm.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijn.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijnUnitigs.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplifications.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplificationsUnitigs.cpp.o 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 -lpthread -lsz -lz -ldl -lm -lcppunit make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [100%] Built target gatb-core-cppunit make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make[1]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg' debian/rules override_dh_auto_build-indep make[1]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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\+git20180206.6f8fce8\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core -B/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/CMakeFiles /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[2]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/depend make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/depend make -f thirdparty/CMakeFiles/thirdparty_copy.dir/build.make thirdparty/CMakeFiles/thirdparty_copy.dir/depend make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty/CMakeFiles/thirdparty_copy.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/json cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty/BooPHF/BooPHF.h /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/BooPHF/ cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/thirdparty/json/json.hpp /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/include/None/json/ make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 0%] Built target thirdparty_copy make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/gatbcore-static.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/src/CMakeFiles/gatbcore-dynamic.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/build make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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/dbginfo.dir/build.make tools/CMakeFiles/dbginfo.dir/depend make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/depend make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools/CMakeFiles/dbginfo.dir/DependInfo.cmake --color= [ 87%] Built target gatbcore-dynamic make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools/CMakeFiles/dbgh5.dir/DependInfo.cmake --color= make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/depend make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/tools/CMakeFiles/leon.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' cd /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/gatb-core/test/unit /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/test/unit /<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/build make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/CMakeFiles/dbgh5.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [ 88%] Built target dbginfo make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'tools/CMakeFiles/leon.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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 [ 88%] Built target dbgh5 [ 89%] Built target leon make[3]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'test/unit/CMakeFiles/gatb-core-cppunit.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' [100%] Built target gatb-core-cppunit make[2]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/protos -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/protos/MicroSNP.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/CMakeLists.txt -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn2.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn27.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn7.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn19.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn14.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn22.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn17.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/traversal1.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn16.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn12.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn4.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn18.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn8.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/traversal2.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn13.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn25.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn20.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn15.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn24.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn3.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn26.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn23.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn6.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn9.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn10.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn11.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn21.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn1.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/debruijn/debruijn5.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/Makefile -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank25.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank24.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank10.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank28.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank20.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank11.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank23.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank5.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank1.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank26.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank14.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank12.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank4.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank7.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank3.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank21.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank22.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank18.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank8.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank17.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank6.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank19.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank27.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank15.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank13.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank16.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank2.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank9.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer4.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer6.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer3.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer15.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer14.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer11.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer8.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer13.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer17.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer1.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer10.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer16.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer2.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer12.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer9.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer7.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/kmer/kmer5.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/README.md -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage3.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage1.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage9.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage10.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage5.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage4.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage2.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage7.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage6.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/storage/storage8.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators5.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators6.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading5.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators3.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators2.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading4.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/optionsparser2.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading8.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading2.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators9.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators1.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading3.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators4.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/ToyTool.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/observer1.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators8.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading7.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading1.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators7.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/optionsparser1.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading6.cpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/./README.txt -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libgatbcore.a -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libgatbcore.so -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/gatb_core.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Frontline.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/ContainerNode.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/GraphUnitigs.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Graph.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/BranchingAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/UnitigsConstructionAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/dag_vector.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/LinkTigs.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Simplifications.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Traversal.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/IterativeExtensions.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/NodesDeleter.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/ExtremityInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Terminator.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/rank_vector.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/api -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/debruijn/api/IContainerNode.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/impl -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/impl/FileSystemCommon.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/impl/TimeCommon.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/impl/System.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/impl/SystemInfoCommon.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/impl/ThreadLinux.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/impl/FileSystemLinux.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/impl/MemoryCommon.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/impl/ThreadMacos.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/impl/FileSystemMacos.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api/IMemory.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api/types.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api/config_sha1.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api/ISystemInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api/ISmartPointer.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api/IThread.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api/Exception.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api/ITime.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api/IFileSystem.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bcalm2 -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bcalm2/bcalm_algo.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bcalm2/bglue_algo.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bcalm2/ographBin.h -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bcalm2/ograph.h -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bcalm2/ThreadPool.h -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bcalm2/binSeq.h -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bcalm2/logging.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bcalm2/unionFind.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/AbstractBank.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/Alphabet.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankConverterAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankRandom.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankStrings.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/Banks.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankHelpers.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankAlbum.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankFasta.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankSplitter.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankComposite.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankBinary.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/impl/Bank.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/api -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/api/Sequence.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/api/IAlphabet.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/bank/api/IBank.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorSolidity.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/RepartitionAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/PartiInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Model.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Model.pri -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithm.pri -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessor.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithmFactory.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorDump.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BloomBuilder.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorCutoff.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorChain.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/LinearCounter.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorHistogram.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BloomAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/SortingCountAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/MPHFAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BankKmerIterator.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Configuration.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BankKmers.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomMinimizerAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/ConfigurationAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorProxy.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Sequence2SuperKmer.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorAbstract.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/impl/PartitionsCommand.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/api -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/api/IModel.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/kmer/api/ICountProcessor.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/template -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/designpattern -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/Observer.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/Command.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/impl/IteratorHelpers.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/Iterator.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/IObserver.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/designpattern/api/ICommand.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/Bloom.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/CollectionAbstract.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/OAHash.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BagCache.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/CollectionCache.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BloomGroup.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/MapMPHF.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BagFile.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/IteratorFile.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BooPHF.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/BagPartition.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/Hash16.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/IterableHelpers.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/impl/ContainerSet.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/api -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Iterable.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Bag.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Container.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/collections/api/Collection.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/compression -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/compression/HeaderCoder.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/compression/Leon.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/compression/DnaCoder.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/compression/RangeCoder.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/compression/CompressionUtils.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageHDF5.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageTools.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionHDF5.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionHDF5Patch.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/StorageFile.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Storage.tpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Cell.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/Storage.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/impl/CollectionFile.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/api -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/storage/api/ICell.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math/FastMinimizer.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt128.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt64.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt8.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt32.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt2.pri -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt1.pri -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt16.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/math/Integer.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Pool.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Tool.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Histogram.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/XmlReader.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/HostInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/OptionsParser.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Algorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Progress.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Property.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Stringify.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/LibraryInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Tokenizer.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/TimeInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/StringLine.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Data.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IOptionsParser.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IProperty.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Range.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Macros.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Abundance.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Vector.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IHistogram.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/StringsRepository.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Enums.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/gatb/system/api/config.hpp -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test/gatb-core-cppunit -- Set runtime path of "/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test/gatb-core-cppunit" to "" -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/sample.fastq.gz -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/query.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/sample2.fa -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/leon1.fastq -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/reads1.fa -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/sample1.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/album.txt -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/leon2.fastq -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/leon1.fastq.leon-ref -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/query.fa -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/reads1_list_ids.txt -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/microsnp.fa -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/reads1.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/README.md -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/sample.fastq -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/reads3.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/celegans_reads.h5 -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/reads2.fa -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/sample1.fa -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/test//db/leon2.fastq.leon-ref -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/bin/dbgh5 -- Set runtime path of "/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/bin/dbgh5" to "" -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/bin/dbginfo -- Set runtime path of "/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/bin/dbginfo" to "" -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/bin/leon -- Set runtime path of "/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/bin/leon" to "" -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/BooPHF -- Installing: /<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/debian/tmp/usr/include/BooPHF/BooPHF.h make[1]: Leaving directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+dfsg/obj-x86_64-linux-gnu' debian/rules override_dh_install-arch make[1]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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/libgatbcore1/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+git20180206.6f8fce8+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 debian/libgatbcore1/usr/lib/x86_64-linux-gnu PKGDEV=libgatbcore-dev PKGSHL=libgatbcore1 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+git20180206.6f8fce8+dfsg' debian/rules override_dh_install-indep make[1]: Entering directory '/<>/gatb-core-1.4.1+git20180206.6f8fce8+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+git20180206.6f8fce8+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 dh_shlibdeps -O--sourcedirectory=gatb-core dpkg-shlibdeps: warning: symbol gzclose used by debian/libgatbcore1/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Tset_size used by debian/libgatbcore1/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Aget_space used by debian/libgatbcore1/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Dread used by debian/libgatbcore1/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Aexists used by debian/libgatbcore1/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 found in none of the libraries dpkg-shlibdeps: warning: symbol H5T_C_S1_g used by debian/libgatbcore1/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Fcreate used by debian/libgatbcore1/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Sget_simple_extent_dims used by debian/libgatbcore1/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 found in none of the libraries dpkg-shlibdeps: warning: symbol gzread used by debian/libgatbcore1/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Gopen2 used by debian/libgatbcore1/usr/lib/x86_64-linux-gnu/libgatbcore.so.1 found in none of the libraries dpkg-shlibdeps: warning: 57 other similar warnings have been skipped (use -v to see them all) dh_installdeb -O--sourcedirectory=gatb-core dh_gencontrol -O--sourcedirectory=gatb-core dpkg-gencontrol: warning: Depends field of package gatb-core-testdata: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: Depends field of package libgatbcore-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -O--sourcedirectory=gatb-core dh_builddeb -O--sourcedirectory=gatb-core INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 INFO: pkgstriptranslations version 143 pkgstriptranslations: processing libgatbcore1 (in debian/libgatbcore1); do_strip: , oemstrip: pkgstriptranslations: processing gatb-core (in debian/gatb-core); do_strip: , oemstrip: pkgstriptranslations: processing libgatbcore-dev (in debian/libgatbcore-dev); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libgatbcore1/DEBIAN/control, package libgatbcore1, directory debian/libgatbcore1 INFO: pkgstripfiles: waiting for lock (libgatbcore1) ... pkgstripfiles: processing control file: debian/gatb-core/DEBIAN/control, package gatb-core, directory debian/gatb-core pkgstripfiles: processing control file: debian/libgatbcore-dev/DEBIAN/control, package libgatbcore-dev, directory debian/libgatbcore-dev INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... pkgstripfiles: Running PNG optimization (using 4 cpus) for package gatb-core ... pkgstripfiles: No PNG files. dpkg-deb: building package 'gatb-core' in '../gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package libgatbcore1 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libgatbcore1' in '../libgatbcore1_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb'. Searching for duplicated docs in dependency libgatbcore1... symlinking changelog.Debian.gz in libgatbcore-dev to file in libgatbcore1 pkgstripfiles: Running PNG optimization (using 4 cpus) for package libgatbcore-dev ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libgatbcore-dev' in '../libgatbcore-dev_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb'. INFO: pkgstriptranslations version 143 pkgstriptranslations: processing libgatbcore1-dbgsym (in debian/.debhelper/libgatbcore1/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/libgatbcore1/dbgsym-root/DEBIAN/control, package libgatbcore1-dbgsym, directory debian/.debhelper/libgatbcore1/dbgsym-root dpkg-deb: building package 'libgatbcore1-dbgsym' in 'debian/.debhelper/scratch-space/build-libgatbcore1/libgatbcore1-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb'. INFO: pkgstriptranslations version 143 pkgstriptranslations: processing gatb-core-dbgsym (in debian/.debhelper/gatb-core/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/gatb-core/dbgsym-root/DEBIAN/control, package gatb-core-dbgsym, directory debian/.debhelper/gatb-core/dbgsym-root dpkg-deb: building package 'gatb-core-dbgsym' in 'debian/.debhelper/scratch-space/build-gatb-core/gatb-core-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb'. INFO: pkgstriptranslations version 143 pkgstriptranslations: processing gatb-core-testdata (in debian/gatb-core-testdata); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/gatb-core-testdata/DEBIAN/control, package gatb-core-testdata, directory debian/gatb-core-testdata Searching for duplicated docs in dependency gatb-core... symlinking changelog.Debian.gz in gatb-core-testdata to file in gatb-core pkgstripfiles: Running PNG optimization (using 4 cpus) for package gatb-core-testdata ... pkgstripfiles: No PNG files. dpkg-deb: building package 'gatb-core-testdata' in '../gatb-core-testdata_1.4.1+git20180206.6f8fce8+dfsg-1_all.deb'. Renaming libgatbcore1-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb to libgatbcore1-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.ddeb Renaming gatb-core-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb to gatb-core-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.ddeb dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary -mLaunchpad Build Daemon >../gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20190123-0551 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.changes: --------------------------------------------------------- Format: 1.8 Date: Tue, 22 Jan 2019 16:58:53 +0100 Source: gatb-core Binary: gatb-core libgatbcore1 libgatbcore-dev gatb-core-testdata Architecture: amd64 all Version: 1.4.1+git20180206.6f8fce8+dfsg-1 Distribution: disco-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: gatb-core - Genome Analysis Toolbox with de-Bruijn graph gatb-core-testdata - Genome Analysis Toolbox with de-Bruijn graph (test data) libgatbcore-dev - development library of the Genome Analysis Toolbox libgatbcore1 - dynamic library of the Genome Analysis Toolbox Changes: gatb-core (1.4.1+git20180206.6f8fce8+dfsg-1) unstable; urgency=medium . * New upstream commit to fit needs of minia and discosnp * Add symbols file * Bump SOVERSION due to changed symbols Checksums-Sha1: 7c1aafade24c0870344394cd9b2d045469a5ba6a 84097900 gatb-core-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.ddeb 1f3ef191ec8d5f6b786d1ab2132f3e0861181953 1793836 gatb-core-testdata_1.4.1+git20180206.6f8fce8+dfsg-1_all.deb 68a86d694d2bc565bba38d71ff465c0c6dbe03f1 10306 gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.buildinfo 67cbadbf3658680ffcfca5c07a1abe485cea4df8 3451616 gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb 1450cf7c2959687e267db6f57ab2508d26ce3c44 3690444 libgatbcore-dev_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb 6548cbf363bf4a94129d062081a5776a73a63d7a 47675104 libgatbcore1-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.ddeb 73ef1be10a4c337a207ab3f74274bffc4a8110be 1708048 libgatbcore1_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb Checksums-Sha256: a8979c2313b8ff9b3a04b95fbb59f37dd3ae49c9b53f04bcd40f71bba7bf078b 84097900 gatb-core-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.ddeb 54ac23a179e8f5d1f307c4be5b160c21f03b8dd5c556d0f50c27e059e8f6fb87 1793836 gatb-core-testdata_1.4.1+git20180206.6f8fce8+dfsg-1_all.deb 2f30b52228693ac82e5c0b29d2d2469e7445afcbdc85d54fc38ddeb5e3e72cb5 10306 gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.buildinfo 3fa721c032199d2f1053e4a33f5c99cfa5e089d9c3447f5a223a486ae802c897 3451616 gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb 5a9af1e2c4194ae47bf959dcbc5ac6ab1ff71c5e5f5c3e4164699a86c391a448 3690444 libgatbcore-dev_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb f236e3744e8068d98a304dbe3f20045a9c5fae1db85abffc9c8550c66a1c5e10 47675104 libgatbcore1-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.ddeb 936179a1fa2d18f9e215d56c1c748fc7d336ae802863d2269c71740daf179525 1708048 libgatbcore1_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb Files: dc12f62d76495875ebbfbeb7e048a15b 84097900 debug optional gatb-core-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.ddeb 680c6980311bf0b2b0e363f26e7302d5 1793836 science optional gatb-core-testdata_1.4.1+git20180206.6f8fce8+dfsg-1_all.deb 407b0321dc2fec5b58064832ff0b6105 10306 science optional gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.buildinfo fc6deeab4cc76168f59982d3867c9605 3451616 science optional gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb 20a8bffcc7b7d8351e0932931ee7bab7 3690444 libdevel optional libgatbcore-dev_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb cb8dba2120288756d1942fb1e9a4009f 47675104 debug optional libgatbcore1-dbgsym_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.ddeb cca74e06cd220675e504d91cd9692500 1708048 libs optional libgatbcore1_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ gatb-core-testdata_1.4.1+git20180206.6f8fce8+dfsg-1_all.deb ----------------------------------------------------------- new debian package, version 2.0. size 1793836 bytes: control archive=1440 bytes. 1130 bytes, 25 lines control 1526 bytes, 19 lines md5sums Package: gatb-core-testdata Source: gatb-core Version: 1.4.1+git20180206.6f8fce8+dfsg-1 Architecture: all Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1818 Depends: gatb-core Section: science Priority: optional Homepage: https://github.com/GATB/gatb-core Description: Genome Analysis Toolbox with de-Bruijn graph (test data) The GATB-CORE project provides a set of highly efficient algorithms to analyse NGS data sets. These methods enable the analysis of data sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any kind of organisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). Read more about GATB at https://gatb.inria.fr/. By itself GATB-CORE is not an NGS data analysis tool. However, it can be used to create such tools. There already exist a set of ready-to-use tools relying on GATB-CORE library: see https://gatb.inria.fr/software/ . This package contains some data to test the library. drwxr-xr-x root/root 0 2019-01-22 15:58 ./ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/gatb-core-testdata/ lrwxrwxrwx root/root 0 2019-01-22 15:58 ./usr/share/doc/gatb-core-testdata/changelog.Debian.gz -> ../gatb-core/changelog.Debian.gz -rw-r--r-- root/root 34732 2019-01-22 15:58 ./usr/share/doc/gatb-core-testdata/copyright drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/gatb-core/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/gatb-core/test/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/gatb-core/test/db/ -rw-r--r-- root/root 762 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/README.md -rw-r--r-- root/root 19 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/album.txt -rw-r--r-- root/root 26648 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/celegans_reads.h5.gz -rw-r--r-- root/root 2220 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/leon1.fastq -rw-r--r-- root/root 2158 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/leon1.fastq.leon-ref.gz -rw-r--r-- root/root 2220 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/leon2.fastq -rw-r--r-- root/root 2158 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/leon2.fastq.leon-ref.gz -rw-r--r-- root/root 52 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/microsnp.fa -rw-r--r-- root/root 25848 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/query.fa.gz -rw-r--r-- root/root 28676 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/reads1.fa.gz -rw-r--r-- root/root 4 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/reads1_list_ids.txt -rw-r--r-- root/root 141726 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/reads2.fa.gz -rw-r--r-- root/root 1565367 2019-01-22 15:58 ./usr/share/doc/gatb-core/test/db/reads3.fa.gz -rw-r--r-- root/root 2220 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/sample.fastq -rw-r--r-- root/root 477 2019-01-22 15:58 ./usr/share/doc/gatb-core/test/db/sample.fastq.gz -rw-r--r-- root/root 710 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/sample1.fa -rw-r--r-- root/root 180 2019-01-22 15:58 ./usr/share/doc/gatb-core/test/db/sample1.fa.gz -rw-r--r-- root/root 131 2019-01-22 15:13 ./usr/share/doc/gatb-core/test/db/sample2.fa lrwxrwxrwx root/root 0 2019-01-22 15:58 ./usr/share/doc/gatb-core/test/gatb-core-cppunit -> ../../../../lib/gatb-core/gatb-core-cppunit gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb ---------------------------------------------------- new debian package, version 2.0. size 3451616 bytes: control archive=1268 bytes. 1135 bytes, 22 lines control 623 bytes, 10 lines md5sums Package: gatb-core Version: 1.4.1+git20180206.6f8fce8+dfsg-1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 24189 Depends: libc6 (>= 2.27), libcppunit-1.14-0, libgcc1 (>= 1:3.0), libhdf5-103, libstdc++6 (>= 7), zlib1g (>= 1:1.1.4) Section: science Priority: optional Homepage: https://github.com/GATB/gatb-core Description: Genome Analysis Toolbox with de-Bruijn graph The GATB-CORE project provides a set of highly efficient algorithms to analyse NGS data sets. These methods enable the analysis of data sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any kind of organisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). Read more about GATB at https://gatb.inria.fr/. By itself GATB-CORE is not an NGS data analysis tool. However, it can be used to create such tools. There already exist a set of ready-to-use tools relying on GATB-CORE library: see https://gatb.inria.fr/software/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/bin/ -rwxr-xr-x root/root 6752944 2019-01-22 15:58 ./usr/bin/dbgh5 -rwxr-xr-x root/root 6736544 2019-01-22 15:58 ./usr/bin/dbginfo -rwxr-xr-x root/root 1980968 2019-01-22 15:58 ./usr/bin/leon drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/lib/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/lib/gatb-core/ -rwxr-xr-x root/root 9242128 2019-01-22 15:58 ./usr/lib/gatb-core/gatb-core-cppunit drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/gatb-core/ -rw-r--r-- root/root 3802 2019-01-22 15:13 ./usr/share/doc/gatb-core/README.txt -rw-r--r-- root/root 522 2019-01-22 15:58 ./usr/share/doc/gatb-core/changelog.Debian.gz -rw-r--r-- root/root 34732 2019-01-22 15:58 ./usr/share/doc/gatb-core/copyright drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/man/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/man/man1/ -rw-r--r-- root/root 1391 2019-01-22 15:58 ./usr/share/man/man1/dbgh5.1.gz -rw-r--r-- root/root 300 2019-01-22 15:58 ./usr/share/man/man1/dbginfo.1.gz -rw-r--r-- root/root 652 2019-01-22 15:58 ./usr/share/man/man1/leon.1.gz libgatbcore-dev_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb ---------------------------------------------------------- new debian package, version 2.0. size 3690444 bytes: control archive=7856 bytes. 1201 bytes, 26 lines control 23964 bytes, 281 lines md5sums Package: libgatbcore-dev Source: gatb-core Version: 1.4.1+git20180206.6f8fce8+dfsg-1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 70828 Depends: libgatbcore1 (= 1.4.1+git20180206.6f8fce8+dfsg-1) Section: libdevel Priority: optional Homepage: https://github.com/GATB/gatb-core Description: development library of the Genome Analysis Toolbox The GATB-CORE project provides a set of highly efficient algorithms to analyse NGS data sets. These methods enable the analysis of data sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any kind of organisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). Read more about GATB at https://gatb.inria.fr/. By itself GATB-CORE is not an NGS data analysis tool. However, it can be used to create such tools. There already exist a set of ready-to-use tools relying on GATB-CORE library: see https://gatb.inria.fr/software/ . This package contains the static library and the header files of the gatb-core library. drwxr-xr-x root/root 0 2019-01-22 15:58 ./ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/BooPHF/ -rw-r--r-- root/root 33854 2019-01-22 15:58 ./usr/include/BooPHF/BooPHF.h drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/bank/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/bank/api/ -rw-r--r-- root/root 2480 2019-01-22 15:13 ./usr/include/gatb/bank/api/IAlphabet.hpp -rw-r--r-- root/root 7592 2019-01-22 15:13 ./usr/include/gatb/bank/api/IBank.hpp -rw-r--r-- root/root 10441 2019-01-22 15:14 ./usr/include/gatb/bank/api/Sequence.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/bank/impl/ -rw-r--r-- root/root 3647 2019-01-22 15:13 ./usr/include/gatb/bank/impl/AbstractBank.hpp -rw-r--r-- root/root 2453 2019-01-22 15:13 ./usr/include/gatb/bank/impl/Alphabet.hpp -rw-r--r-- root/root 6527 2019-01-22 15:13 ./usr/include/gatb/bank/impl/Bank.hpp -rw-r--r-- root/root 4914 2019-01-22 15:13 ./usr/include/gatb/bank/impl/BankAlbum.hpp -rw-r--r-- root/root 6611 2019-01-22 15:13 ./usr/include/gatb/bank/impl/BankBinary.hpp -rw-r--r-- root/root 6466 2019-01-22 15:13 ./usr/include/gatb/bank/impl/BankComposite.hpp -rw-r--r-- root/root 3833 2019-01-22 15:13 ./usr/include/gatb/bank/impl/BankConverterAlgorithm.hpp -rw-r--r-- root/root 8647 2019-01-22 15:13 ./usr/include/gatb/bank/impl/BankFasta.hpp -rw-r--r-- root/root 7447 2019-01-22 15:13 ./usr/include/gatb/bank/impl/BankHelpers.hpp -rw-r--r-- root/root 3917 2019-01-22 15:13 ./usr/include/gatb/bank/impl/BankRandom.hpp -rw-r--r-- root/root 5133 2019-01-22 15:13 ./usr/include/gatb/bank/impl/BankSplitter.hpp -rw-r--r-- root/root 4749 2019-01-22 15:13 ./usr/include/gatb/bank/impl/BankStrings.hpp -rw-r--r-- root/root 1434 2019-01-22 15:13 ./usr/include/gatb/bank/impl/Banks.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/bcalm2/ -rw-r--r-- root/root 4030 2019-01-22 15:13 ./usr/include/gatb/bcalm2/ThreadPool.h -rw-r--r-- root/root 1436 2019-01-22 15:13 ./usr/include/gatb/bcalm2/bcalm_algo.hpp -rw-r--r-- root/root 4723 2019-01-22 15:14 ./usr/include/gatb/bcalm2/bglue_algo.hpp -rw-r--r-- root/root 1152 2019-01-22 15:13 ./usr/include/gatb/bcalm2/binSeq.h -rw-r--r-- root/root 175 2019-01-22 15:13 ./usr/include/gatb/bcalm2/logging.hpp -rw-r--r-- root/root 3031 2019-01-22 15:13 ./usr/include/gatb/bcalm2/ograph.h -rw-r--r-- root/root 1198 2019-01-22 15:13 ./usr/include/gatb/bcalm2/ographBin.h -rw-r--r-- root/root 19669 2019-01-22 15:14 ./usr/include/gatb/bcalm2/unionFind.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/debruijn/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/debruijn/api/ -rw-r--r-- root/root 2432 2019-01-22 15:13 ./usr/include/gatb/debruijn/api/IContainerNode.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/debruijn/impl/ -rw-r--r-- root/root 4594 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/BranchingAlgorithm.hpp -rw-r--r-- root/root 6854 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/ContainerNode.hpp -rw-r--r-- root/root 2509 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/ExtremityInfo.hpp -rw-r--r-- root/root 5679 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/Frontline.hpp -rw-r--r-- root/root 58653 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/Graph.hpp -rw-r--r-- root/root 22051 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/GraphUnitigs.hpp -rw-r--r-- root/root 5719 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/IterativeExtensions.hpp -rw-r--r-- root/root 1539 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/LinkTigs.hpp -rw-r--r-- root/root 5478 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/NodesDeleter.hpp -rw-r--r-- root/root 5512 2019-01-22 15:14 ./usr/include/gatb/debruijn/impl/Simplifications.hpp -rw-r--r-- root/root 11140 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/Terminator.hpp -rw-r--r-- root/root 15192 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/Traversal.hpp -rw-r--r-- root/root 3324 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/UnitigsConstructionAlgorithm.hpp -rw-r--r-- root/root 8544 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/dag_vector.hpp -rw-r--r-- root/root 3436 2019-01-22 15:13 ./usr/include/gatb/debruijn/impl/rank_vector.hpp -rw-r--r-- root/root 4431 2019-01-22 15:13 ./usr/include/gatb/gatb_core.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/kmer/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/kmer/api/ -rw-r--r-- root/root 9454 2019-01-22 15:13 ./usr/include/gatb/kmer/api/ICountProcessor.hpp -rw-r--r-- root/root 3629 2019-01-22 15:13 ./usr/include/gatb/kmer/api/IModel.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/kmer/impl/ -rw-r--r-- root/root 9901 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/BankKmerIterator.hpp -rw-r--r-- root/root 8051 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/BankKmers.hpp -rw-r--r-- root/root 3265 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/BloomAlgorithm.hpp -rw-r--r-- root/root 7309 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/BloomBuilder.hpp -rw-r--r-- root/root 4212 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/Configuration.hpp -rw-r--r-- root/root 2692 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/ConfigurationAlgorithm.hpp -rw-r--r-- root/root 1520 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/CountProcessor.hpp -rw-r--r-- root/root 4365 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/CountProcessorAbstract.hpp -rw-r--r-- root/root 7217 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/CountProcessorChain.hpp -rw-r--r-- root/root 6198 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/CountProcessorCutoff.hpp -rw-r--r-- root/root 8885 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/CountProcessorDump.hpp -rw-r--r-- root/root 6509 2019-01-22 15:14 ./usr/include/gatb/kmer/impl/CountProcessorHistogram.hpp -rw-r--r-- root/root 4661 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/CountProcessorProxy.hpp -rw-r--r-- root/root 13153 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/CountProcessorSolidity.hpp -rw-r--r-- root/root 8419 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/DebloomAlgorithm.hpp -rw-r--r-- root/root 4860 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/DebloomAlgorithm.pri -rw-r--r-- root/root 3555 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/DebloomAlgorithmFactory.hpp -rw-r--r-- root/root 3357 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/DebloomMinimizerAlgorithm.hpp -rw-r--r-- root/root 2645 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/LinearCounter.hpp -rw-r--r-- root/root 8667 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/MPHFAlgorithm.hpp -rw-r--r-- root/root 64635 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/Model.hpp -rw-r--r-- root/root 9117 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/Model.pri -rw-r--r-- root/root 15211 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/PartiInfo.hpp -rw-r--r-- root/root 14719 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/PartitionsCommand.hpp -rw-r--r-- root/root 3306 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/RepartitionAlgorithm.hpp -rw-r--r-- root/root 7629 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/Sequence2SuperKmer.hpp -rw-r--r-- root/root 11434 2019-01-22 15:13 ./usr/include/gatb/kmer/impl/SortingCountAlgorithm.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/system/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/system/api/ -rw-r--r-- root/root 5795 2019-01-22 15:13 ./usr/include/gatb/system/api/Exception.hpp -rw-r--r-- root/root 11165 2019-01-22 15:13 ./usr/include/gatb/system/api/IFileSystem.hpp -rw-r--r-- root/root 5840 2019-01-22 15:13 ./usr/include/gatb/system/api/IMemory.hpp -rw-r--r-- root/root 9305 2019-01-22 15:13 ./usr/include/gatb/system/api/ISmartPointer.hpp -rw-r--r-- root/root 4829 2019-01-22 15:13 ./usr/include/gatb/system/api/ISystemInfo.hpp -rw-r--r-- root/root 7881 2019-01-22 15:13 ./usr/include/gatb/system/api/IThread.hpp -rw-r--r-- root/root 3576 2019-01-22 15:13 ./usr/include/gatb/system/api/ITime.hpp -rw-r--r-- root/root 1362 2019-01-22 15:58 ./usr/include/gatb/system/api/config.hpp -rw-r--r-- root/root 30 2019-01-22 15:13 ./usr/include/gatb/system/api/config_sha1.hpp -rw-r--r-- root/root 2362 2019-01-22 15:13 ./usr/include/gatb/system/api/types.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/system/impl/ -rw-r--r-- root/root 7665 2019-01-22 15:13 ./usr/include/gatb/system/impl/FileSystemCommon.hpp -rw-r--r-- root/root 2668 2019-01-22 15:13 ./usr/include/gatb/system/impl/FileSystemLinux.hpp -rw-r--r-- root/root 2665 2019-01-22 15:13 ./usr/include/gatb/system/impl/FileSystemMacos.hpp -rw-r--r-- root/root 15273 2019-01-22 15:13 ./usr/include/gatb/system/impl/MemoryCommon.hpp -rw-r--r-- root/root 12357 2019-01-22 15:13 ./usr/include/gatb/system/impl/System.hpp -rw-r--r-- root/root 6104 2019-01-22 15:13 ./usr/include/gatb/system/impl/SystemInfoCommon.hpp -rw-r--r-- root/root 2272 2019-01-22 15:13 ./usr/include/gatb/system/impl/ThreadLinux.hpp -rw-r--r-- root/root 2272 2019-01-22 15:13 ./usr/include/gatb/system/impl/ThreadMacos.hpp -rw-r--r-- root/root 5247 2019-01-22 15:13 ./usr/include/gatb/system/impl/TimeCommon.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/template/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/collections/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/collections/api/ -rw-r--r-- root/root 3293 2019-01-22 15:13 ./usr/include/gatb/tools/collections/api/Bag.hpp -rw-r--r-- root/root 3221 2019-01-22 15:13 ./usr/include/gatb/tools/collections/api/Collection.hpp -rw-r--r-- root/root 2327 2019-01-22 15:13 ./usr/include/gatb/tools/collections/api/Container.hpp -rw-r--r-- root/root 4171 2019-01-22 15:13 ./usr/include/gatb/tools/collections/api/Iterable.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/collections/impl/ -rw-r--r-- root/root 9789 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/BagCache.hpp -rw-r--r-- root/root 9591 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/BagFile.hpp -rw-r--r-- root/root 4982 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/BagPartition.hpp -rw-r--r-- root/root 44536 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/Bloom.hpp -rw-r--r-- root/root 14525 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/BloomGroup.hpp -rw-r--r-- root/root 12711 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/BooPHF.hpp -rw-r--r-- root/root 5244 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/CollectionAbstract.hpp -rw-r--r-- root/root 4750 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/CollectionCache.hpp -rw-r--r-- root/root 2931 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/ContainerSet.hpp -rw-r--r-- root/root 10687 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/Hash16.hpp -rw-r--r-- root/root 6476 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/IterableHelpers.hpp -rw-r--r-- root/root 19432 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/IteratorFile.hpp -rw-r--r-- root/root 8307 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/MapMPHF.hpp -rw-r--r-- root/root 9199 2019-01-22 15:13 ./usr/include/gatb/tools/collections/impl/OAHash.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/compression/ -rw-r--r-- root/root 6182 2019-01-22 15:13 ./usr/include/gatb/tools/compression/CompressionUtils.hpp -rw-r--r-- root/root 7582 2019-01-22 15:13 ./usr/include/gatb/tools/compression/DnaCoder.hpp -rw-r--r-- root/root 4966 2019-01-22 15:13 ./usr/include/gatb/tools/compression/HeaderCoder.hpp -rw-r--r-- root/root 11304 2019-01-22 15:13 ./usr/include/gatb/tools/compression/Leon.hpp -rw-r--r-- root/root 3366 2019-01-22 15:13 ./usr/include/gatb/tools/compression/RangeCoder.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/designpattern/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/designpattern/api/ -rw-r--r-- root/root 15194 2019-01-22 15:13 ./usr/include/gatb/tools/designpattern/api/ICommand.hpp -rw-r--r-- root/root 6238 2019-01-22 15:13 ./usr/include/gatb/tools/designpattern/api/IObserver.hpp -rw-r--r-- root/root 11254 2019-01-22 15:13 ./usr/include/gatb/tools/designpattern/api/Iterator.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/designpattern/impl/ -rw-r--r-- root/root 5124 2019-01-22 15:13 ./usr/include/gatb/tools/designpattern/impl/Command.hpp -rw-r--r-- root/root 30983 2019-01-22 15:13 ./usr/include/gatb/tools/designpattern/impl/IteratorHelpers.hpp -rw-r--r-- root/root 3343 2019-01-22 15:13 ./usr/include/gatb/tools/designpattern/impl/Observer.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/math/ -rw-r--r-- root/root 6294 2019-01-22 15:13 ./usr/include/gatb/tools/math/FastMinimizer.hpp -rw-r--r-- root/root 25292 2019-01-22 15:13 ./usr/include/gatb/tools/math/Integer.hpp -rw-r--r-- root/root 31633 2019-01-22 15:58 ./usr/include/gatb/tools/math/LargeInt.hpp -rw-r--r-- root/root 13349 2019-01-22 15:13 ./usr/include/gatb/tools/math/LargeInt1.pri -rw-r--r-- root/root 12789 2019-01-22 15:13 ./usr/include/gatb/tools/math/LargeInt2.pri -rw-r--r-- root/root 9560 2019-01-22 15:58 ./usr/include/gatb/tools/math/NativeInt128.hpp -rw-r--r-- root/root 4400 2019-01-22 15:58 ./usr/include/gatb/tools/math/NativeInt16.hpp -rw-r--r-- root/root 4400 2019-01-22 15:58 ./usr/include/gatb/tools/math/NativeInt32.hpp -rw-r--r-- root/root 10416 2019-01-22 15:58 ./usr/include/gatb/tools/math/NativeInt64.hpp -rw-r--r-- root/root 4279 2019-01-22 15:58 ./usr/include/gatb/tools/math/NativeInt8.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/misc/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/misc/api/ -rw-r--r-- root/root 5009 2019-01-22 15:58 ./usr/include/gatb/tools/misc/api/Abundance.hpp -rw-r--r-- root/root 6747 2019-01-22 15:14 ./usr/include/gatb/tools/misc/api/Data.hpp -rw-r--r-- root/root 11773 2019-01-22 15:13 ./usr/include/gatb/tools/misc/api/Enums.hpp -rw-r--r-- root/root 5472 2019-01-22 15:58 ./usr/include/gatb/tools/misc/api/IHistogram.hpp -rw-r--r-- root/root 7238 2019-01-22 15:13 ./usr/include/gatb/tools/misc/api/IOptionsParser.hpp -rw-r--r-- root/root 11471 2019-01-22 15:13 ./usr/include/gatb/tools/misc/api/IProperty.hpp -rw-r--r-- root/root 1696 2019-01-22 15:13 ./usr/include/gatb/tools/misc/api/Macros.hpp -rw-r--r-- root/root 5102 2019-01-22 15:13 ./usr/include/gatb/tools/misc/api/Range.hpp -rw-r--r-- root/root 12082 2019-01-22 15:14 ./usr/include/gatb/tools/misc/api/StringsRepository.hpp -rw-r--r-- root/root 5077 2019-01-22 15:13 ./usr/include/gatb/tools/misc/api/Vector.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/misc/impl/ -rw-r--r-- root/root 8121 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/Algorithm.hpp -rw-r--r-- root/root 7647 2019-01-22 15:14 ./usr/include/gatb/tools/misc/impl/Histogram.hpp -rw-r--r-- root/root 3129 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/HostInfo.hpp -rw-r--r-- root/root 3887 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/LibraryInfo.hpp -rw-r--r-- root/root 13420 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/OptionsParser.hpp -rw-r--r-- root/root 12539 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/Pool.hpp -rw-r--r-- root/root 9266 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/Progress.hpp -rw-r--r-- root/root 9772 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/Property.hpp -rw-r--r-- root/root 2978 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/StringLine.hpp -rw-r--r-- root/root 3625 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/Stringify.hpp -rw-r--r-- root/root 5811 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/TimeInfo.hpp -rw-r--r-- root/root 3484 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/Tokenizer.hpp -rw-r--r-- root/root 11240 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/Tool.hpp -rw-r--r-- root/root 6337 2019-01-22 15:13 ./usr/include/gatb/tools/misc/impl/XmlReader.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/storage/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/storage/api/ -rw-r--r-- root/root 3217 2019-01-22 15:13 ./usr/include/gatb/tools/storage/api/ICell.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/include/gatb/tools/storage/impl/ -rw-r--r-- root/root 2965 2019-01-22 15:13 ./usr/include/gatb/tools/storage/impl/Cell.hpp -rw-r--r-- root/root 7256 2019-01-22 15:13 ./usr/include/gatb/tools/storage/impl/CollectionFile.hpp -rw-r--r-- root/root 15536 2019-01-22 15:58 ./usr/include/gatb/tools/storage/impl/CollectionHDF5.hpp -rw-r--r-- root/root 19318 2019-01-22 15:58 ./usr/include/gatb/tools/storage/impl/CollectionHDF5Patch.hpp -rw-r--r-- root/root 23997 2019-01-22 15:13 ./usr/include/gatb/tools/storage/impl/Storage.hpp -rw-r--r-- root/root 25930 2019-01-22 15:13 ./usr/include/gatb/tools/storage/impl/Storage.tpp -rw-r--r-- root/root 15794 2019-01-22 15:13 ./usr/include/gatb/tools/storage/impl/StorageFile.hpp -rw-r--r-- root/root 15155 2019-01-22 15:58 ./usr/include/gatb/tools/storage/impl/StorageHDF5.hpp -rw-r--r-- root/root 7380 2019-01-22 15:13 ./usr/include/gatb/tools/storage/impl/StorageTools.hpp drwxr-xr-x root/root 0 2019-01-22 15:13 ./usr/include/json/ -rw-r--r-- root/root 21900 2019-01-22 15:13 ./usr/include/json/json.hpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/lib/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/lib/x86_64-linux-gnu/ drwxr-xr-x root/root 0 2019-01-22 15:14 ./usr/lib/x86_64-linux-gnu/cmake/ -rw-r--r-- root/root 753 2019-01-22 15:13 ./usr/lib/x86_64-linux-gnu/cmake/CheckCompiler.cmake -rw-r--r-- root/root 1300 2019-01-22 15:14 ./usr/lib/x86_64-linux-gnu/cmake/CppUnit.cmake -rw-r--r-- root/root 1903 2019-01-22 15:13 ./usr/lib/x86_64-linux-gnu/cmake/DefineInteger.cmake -rw-r--r-- root/root 5750 2019-01-22 15:13 ./usr/lib/x86_64-linux-gnu/cmake/Delivery.cmake -rw-r--r-- root/root 2081 2019-01-22 15:13 ./usr/lib/x86_64-linux-gnu/cmake/GatbCore.cmake -rw-r--r-- root/root 30565 2019-01-22 15:13 ./usr/lib/x86_64-linux-gnu/cmake/UseLATEX.cmake -rw-r--r-- root/root 70498450 2019-01-22 15:58 ./usr/lib/x86_64-linux-gnu/libgatbcore.a lrwxrwxrwx root/root 0 2019-01-22 15:58 ./usr/lib/x86_64-linux-gnu/libgatbcore.so -> libgatbcore.so.1 drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/libgatbcore-dev/ lrwxrwxrwx root/root 0 2019-01-22 15:58 ./usr/share/doc/libgatbcore-dev/changelog.Debian.gz -> ../libgatbcore1/changelog.Debian.gz -rw-r--r-- root/root 34732 2019-01-22 15:58 ./usr/share/doc/libgatbcore-dev/copyright drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/libgatbcore-dev/examples/ -rw-r--r-- root/root 1193 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/CMakeLists.txt -rw-r--r-- root/root 470 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/Makefile -rw-r--r-- root/root 3072 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/README.md drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/libgatbcore-dev/examples/bank/ -rw-r--r-- root/root 1799 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank1.cpp -rw-r--r-- root/root 5206 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank10.cpp -rw-r--r-- root/root 2373 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank11.cpp -rw-r--r-- root/root 3413 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank12.cpp -rw-r--r-- root/root 3183 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank13.cpp -rw-r--r-- root/root 2514 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank14.cpp -rw-r--r-- root/root 2097 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank15.cpp -rw-r--r-- root/root 2991 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank16.cpp -rw-r--r-- root/root 2421 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank17.cpp -rw-r--r-- root/root 2938 2019-01-22 15:14 ./usr/share/doc/libgatbcore-dev/examples/bank/bank18.cpp -rw-r--r-- root/root 2206 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank19.cpp -rw-r--r-- root/root 2071 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank2.cpp -rw-r--r-- root/root 1852 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank20.cpp -rw-r--r-- root/root 3814 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank21.cpp -rw-r--r-- root/root 1790 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank22.cpp -rw-r--r-- root/root 2106 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank23.cpp -rw-r--r-- root/root 2727 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank24.cpp -rw-r--r-- root/root 3567 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank25.cpp -rw-r--r-- root/root 1963 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank26.cpp -rw-r--r-- root/root 2983 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank27.cpp -rw-r--r-- root/root 2578 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank28.cpp -rw-r--r-- root/root 2345 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank3.cpp -rw-r--r-- root/root 2604 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank4.cpp -rw-r--r-- root/root 1854 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank5.cpp -rw-r--r-- root/root 3855 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank6.cpp -rw-r--r-- root/root 2795 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank7.cpp -rw-r--r-- root/root 3918 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank8.cpp -rw-r--r-- root/root 3448 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/bank/bank9.cpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/libgatbcore-dev/examples/debruijn/ -rw-r--r-- root/root 1730 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn1.cpp -rw-r--r-- root/root 2315 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn10.cpp -rw-r--r-- root/root 3480 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn11.cpp -rw-r--r-- root/root 1947 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn12.cpp -rw-r--r-- root/root 1375 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn13.cpp -rw-r--r-- root/root 1836 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn14.cpp -rw-r--r-- root/root 1841 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn15.cpp -rw-r--r-- root/root 2288 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn16.cpp -rw-r--r-- root/root 2497 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn17.cpp -rw-r--r-- root/root 6173 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn18.cpp -rw-r--r-- root/root 9747 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn19.cpp -rw-r--r-- root/root 1720 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn2.cpp -rw-r--r-- root/root 10749 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn20.cpp -rw-r--r-- root/root 2782 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn21.cpp -rw-r--r-- root/root 8661 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn22.cpp -rw-r--r-- root/root 414 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn23.cpp -rw-r--r-- root/root 5654 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn24.cpp -rw-r--r-- root/root 4945 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn25.cpp -rw-r--r-- root/root 1629 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn26.cpp -rw-r--r-- root/root 2509 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn27.cpp -rw-r--r-- root/root 1707 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn3.cpp -rw-r--r-- root/root 1721 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn4.cpp -rw-r--r-- root/root 1945 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn5.cpp -rw-r--r-- root/root 2474 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn6.cpp -rw-r--r-- root/root 3246 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn7.cpp -rw-r--r-- root/root 2453 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn8.cpp -rw-r--r-- root/root 2245 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/debruijn9.cpp -rw-r--r-- root/root 3568 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/traversal1.cpp -rw-r--r-- root/root 3612 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/debruijn/traversal2.cpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/libgatbcore-dev/examples/kmer/ -rw-r--r-- root/root 1159 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer1.cpp -rw-r--r-- root/root 3064 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer10.cpp -rw-r--r-- root/root 6455 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer11.cpp -rw-r--r-- root/root 7914 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer12.cpp -rw-r--r-- root/root 6599 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer13.cpp -rw-r--r-- root/root 6464 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer14.cpp -rw-r--r-- root/root 6987 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer15.cpp -rw-r--r-- root/root 2631 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer16.cpp -rw-r--r-- root/root 4985 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer17.cpp -rw-r--r-- root/root 6752 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer2.cpp -rw-r--r-- root/root 1440 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer3.cpp -rw-r--r-- root/root 3183 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer4.cpp -rw-r--r-- root/root 6368 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer5.cpp -rw-r--r-- root/root 1544 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer6.cpp -rw-r--r-- root/root 5070 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer7.cpp -rw-r--r-- root/root 5952 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer8.cpp -rw-r--r-- root/root 1910 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/kmer/kmer9.cpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/libgatbcore-dev/examples/protos/ -rw-r--r-- root/root 3789 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/protos/MicroSNP.cpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/libgatbcore-dev/examples/storage/ -rw-r--r-- root/root 2299 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/storage/storage1.cpp -rw-r--r-- root/root 2167 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/storage/storage10.cpp -rw-r--r-- root/root 2210 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/storage/storage2.cpp -rw-r--r-- root/root 1465 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/storage/storage3.cpp -rw-r--r-- root/root 1717 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/storage/storage4.cpp -rw-r--r-- root/root 305 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/storage/storage5.cpp -rw-r--r-- root/root 4174 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/storage/storage6.cpp -rw-r--r-- root/root 1338 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/storage/storage7.cpp -rw-r--r-- root/root 2838 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/storage/storage8.cpp -rw-r--r-- root/root 1404 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/storage/storage9.cpp drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/libgatbcore-dev/examples/tools/ -rw-r--r-- root/root 5435 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/ToyTool.cpp -rw-r--r-- root/root 837 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/iterators1.cpp -rw-r--r-- root/root 1179 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/iterators2.cpp -rw-r--r-- root/root 962 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/iterators3.cpp -rw-r--r-- root/root 1676 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/iterators4.cpp -rw-r--r-- root/root 1080 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/iterators5.cpp -rw-r--r-- root/root 1259 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/iterators6.cpp -rw-r--r-- root/root 1079 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/iterators7.cpp -rw-r--r-- root/root 1394 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/iterators8.cpp -rw-r--r-- root/root 1175 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/iterators9.cpp -rw-r--r-- root/root 2363 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/multithreading1.cpp -rw-r--r-- root/root 3709 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/multithreading2.cpp -rw-r--r-- root/root 2001 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/multithreading3.cpp -rw-r--r-- root/root 2290 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/multithreading4.cpp -rw-r--r-- root/root 2894 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/multithreading5.cpp -rw-r--r-- root/root 3069 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/multithreading6.cpp -rw-r--r-- root/root 2601 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/multithreading7.cpp -rw-r--r-- root/root 3479 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/multithreading8.cpp -rw-r--r-- root/root 1641 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/observer1.cpp -rw-r--r-- root/root 1503 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/optionsparser1.cpp -rw-r--r-- root/root 749 2019-01-22 15:13 ./usr/share/doc/libgatbcore-dev/examples/tools/optionsparser2.cpp libgatbcore1_1.4.1+git20180206.6f8fce8+dfsg-1_amd64.deb ------------------------------------------------------- new debian package, version 2.0. size 1708048 bytes: control archive=73896 bytes. 1149 bytes, 25 lines control 228 bytes, 3 lines md5sums 63 bytes, 1 lines shlibs 2454732 bytes, 16156 lines symbols 70 bytes, 2 lines triggers Package: libgatbcore1 Source: gatb-core Version: 1.4.1+git20180206.6f8fce8+dfsg-1 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 12070 Depends: libc6 (>= 2.27), libgcc1 (>= 1:3.0), libstdc++6 (>= 7) Section: libs Priority: optional Homepage: https://github.com/GATB/gatb-core Description: dynamic library of the Genome Analysis Toolbox The GATB-CORE project provides a set of highly efficient algorithms to analyse NGS data sets. These methods enable the analysis of data sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any kind of organisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). Read more about GATB at https://gatb.inria.fr/. By itself GATB-CORE is not an NGS data analysis tool. However, it can be used to create such tools. There already exist a set of ready-to-use tools relying on GATB-CORE library: see https://gatb.inria.fr/software/ . This package contains the dynamic library. drwxr-xr-x root/root 0 2019-01-22 15:58 ./ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/lib/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/lib/x86_64-linux-gnu/ -rw-r--r-- root/root 9857408 2019-01-22 15:58 ./usr/lib/x86_64-linux-gnu/libgatbcore.so.1 drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-01-22 15:58 ./usr/share/doc/libgatbcore1/ -rw-r--r-- root/root 522 2019-01-22 15:58 ./usr/share/doc/libgatbcore1/changelog.Debian.gz -rw-r--r-- root/root 34732 2019-01-22 15:58 ./usr/share/doc/libgatbcore1/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build-Space: 3785296 Build-Time: 2248 Distribution: disco-proposed Host Architecture: amd64 Install-Time: 48 Job: gatb-core_1.4.1+git20180206.6f8fce8+dfsg-1.dsc Machine Architecture: amd64 Package: gatb-core Package-Time: 2299 Source-Version: 1.4.1+git20180206.6f8fce8+dfsg-1 Space: 3785296 Status: successful Version: 1.4.1+git20180206.6f8fce8+dfsg-1 -------------------------------------------------------------------------------- Finished at 20190123-0551 Build needed 00:38:19, 3785296k disc space RUN: /usr/share/launchpad-buildd/slavebin/in-target scan-for-processes --backend=chroot --series=disco --arch=amd64 PACKAGEBUILD-16311943 Scanning for processes to kill in build PACKAGEBUILD-16311943