https://launchpad.net/ubuntu/+source/gatb-core/1.4.1+git20181225.44d5a44+dfsg-2/+build/16664656 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-038 4.4.0-145-generic #171-Ubuntu SMP Tue Mar 26 12:45:17 UTC 2019 aarch64 Buildd toolchain package versions: launchpad-buildd_169 python-lpbuildd_169 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... 21 Apr 12:13:38 ntpdate[1891]: adjust time server 10.211.37.1 offset 0.003799 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=eoan --arch=arm64 PACKAGEBUILD-16664656 --image-type chroot /home/buildd/filecache-default/12198815be27835f4527655ec2ee7fabeb41ea11 Creating target for build PACKAGEBUILD-16664656 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=eoan --arch=arm64 PACKAGEBUILD-16664656 Starting target for build PACKAGEBUILD-16664656 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=eoan --arch=arm64 PACKAGEBUILD-16664656 'deb http://ftpmaster.internal/ubuntu eoan main universe' 'deb http://ftpmaster.internal/ubuntu eoan-security main universe' 'deb http://ftpmaster.internal/ubuntu eoan-updates main universe' 'deb http://ftpmaster.internal/ubuntu eoan-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-16664656 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=eoan --arch=arm64 PACKAGEBUILD-16664656 Updating target for build PACKAGEBUILD-16664656 Get:1 http://ftpmaster.internal/ubuntu eoan InRelease [215 kB] Get:2 http://ftpmaster.internal/ubuntu eoan-security InRelease [66.2 kB] Get:3 http://ftpmaster.internal/ubuntu eoan-updates InRelease [66.2 kB] Get:4 http://ftpmaster.internal/ubuntu eoan-proposed InRelease [66.2 kB] Get:5 http://ftpmaster.internal/ubuntu eoan/main arm64 Packages [956 kB] Get:6 http://ftpmaster.internal/ubuntu eoan/main Translation-en [509 kB] Get:7 http://ftpmaster.internal/ubuntu eoan/universe arm64 Packages [8839 kB] Get:8 http://ftpmaster.internal/ubuntu eoan/universe Translation-en [5251 kB] Get:9 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 Packages [7300 B] Get:10 http://ftpmaster.internal/ubuntu eoan-proposed/main Translation-en [3488 B] Get:11 http://ftpmaster.internal/ubuntu eoan-proposed/universe arm64 Packages [51.1 kB] Get:12 http://ftpmaster.internal/ubuntu eoan-proposed/universe Translation-en [35.6 kB] Fetched 16.1 MB in 7s (2349 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: gcc-9-base libreadline8 The following packages will be upgraded: adduser advancecomp apt base-files base-passwd bash binutils binutils-aarch64-linux-gnu binutils-common bsdutils build-essential ca-certificates coreutils cpp cpp-8 dash debconf debianutils diffutils dpkg dpkg-dev e2fslibs e2fsprogs fdisk findutils g++ g++-8 gcc gcc-8 gcc-8-base gpg gpg-agent gpgconf gpgv grep gzip init init-system-helpers libacl1 libapparmor1 libapt-pkg5.0 libargon2-1 libasan5 libassuan0 libatomic1 libattr1 libbinutils libblkid1 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcomerr2 libcryptsetup12 libdb5.3 libdebconfclient0 libdpkg-perl libext2fs2 libfdisk1 libgcc-8-dev libgcc1 libgdbm-compat4 libgdbm6 libgnutls30 libgomp1 libgpg-error0 libhogweed4 libidn11 libitm1 libjson-c3 libkmod2 liblsan0 liblz4-1 liblzma5 libmount1 libmpfr6 libncurses6 libncursesw6 libnettle6 libp11-kit0 libpam-modules libpam-modules-bin libpam-runtime libpam0g libpcre3 libperl5.28 libpng16-16 libprocps7 libsemanage-common libsemanage1 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++-8-dev libstdc++6 libsystemd0 libtinfo6 libtsan0 libubsan1 libudev1 libunistring2 libuuid1 libzstd1 linux-libc-dev login lsb-base mount multiarch-support ncurses-base ncurses-bin openssl optipng passwd perl perl-base perl-modules-5.28 pkgbinarymangler procps readline-common sed systemd systemd-sysv tar tzdata util-linux xz-utils zlib1g 132 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 68.3 MB of archives. After this operation, 8693 kB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu eoan/main arm64 libc6-dev arm64 2.29-0ubuntu2 [2079 kB] Get:2 http://ftpmaster.internal/ubuntu eoan/main arm64 libc-dev-bin arm64 2.29-0ubuntu2 [62.3 kB] Get:3 http://ftpmaster.internal/ubuntu eoan/main arm64 linux-libc-dev arm64 5.0.0-13.14 [1030 kB] Get:4 http://ftpmaster.internal/ubuntu eoan/main arm64 libc6 arm64 2.29-0ubuntu2 [2261 kB] Get:5 http://ftpmaster.internal/ubuntu eoan/main arm64 libc-bin arm64 2.29-0ubuntu2 [489 kB] Get:6 http://ftpmaster.internal/ubuntu eoan/main arm64 gcc-9-base arm64 9-20190420-1ubuntu1 [16.9 kB] Get:7 http://ftpmaster.internal/ubuntu eoan/main arm64 libgcc1 arm64 1:9-20190420-1ubuntu1 [34.1 kB] Get:8 http://ftpmaster.internal/ubuntu eoan/main arm64 base-files arm64 10.1ubuntu10 [60.0 kB] Get:9 http://ftpmaster.internal/ubuntu eoan/main arm64 debianutils arm64 4.8.6.1 [85.4 kB] Get:10 http://ftpmaster.internal/ubuntu eoan/main arm64 bash arm64 5.0-3ubuntu1 [603 kB] Get:11 http://ftpmaster.internal/ubuntu eoan/main arm64 bsdutils arm64 1:2.33.1-0.1ubuntu2 [61.3 kB] Get:12 http://ftpmaster.internal/ubuntu eoan/main arm64 coreutils arm64 8.30-1ubuntu1 [1173 kB] Get:13 http://ftpmaster.internal/ubuntu eoan/main arm64 lsb-base all 10.2019031300ubuntu1 [12.5 kB] Get:14 http://ftpmaster.internal/ubuntu eoan/main arm64 tar arm64 1.30+dfsg-5 [232 kB] Get:15 http://ftpmaster.internal/ubuntu eoan/main arm64 dpkg arm64 1.19.6ubuntu1 [1119 kB] Get:16 http://ftpmaster.internal/ubuntu eoan/main arm64 libperl5.28 arm64 5.28.1-6 [3666 kB] Get:17 http://ftpmaster.internal/ubuntu eoan/main arm64 perl arm64 5.28.1-6 [204 kB] Get:18 http://ftpmaster.internal/ubuntu eoan/main arm64 perl-base arm64 5.28.1-6 [1401 kB] Get:19 http://ftpmaster.internal/ubuntu eoan/main arm64 perl-modules-5.28 all 5.28.1-6 [2818 kB] Get:20 http://ftpmaster.internal/ubuntu eoan/main arm64 libdb5.3 arm64 5.3.28+dfsg1-0.5 [616 kB] Get:21 http://ftpmaster.internal/ubuntu eoan/main arm64 libgdbm6 arm64 1.18.1-4 [26.4 kB] Get:22 http://ftpmaster.internal/ubuntu eoan/main arm64 libgdbm-compat4 arm64 1.18.1-4 [6024 B] Get:23 http://ftpmaster.internal/ubuntu eoan/main arm64 zlib1g arm64 1:1.2.11.dfsg-1ubuntu2 [51.6 kB] Get:24 http://ftpmaster.internal/ubuntu eoan/main arm64 debconf all 1.5.71 [122 kB] Get:25 http://ftpmaster.internal/ubuntu eoan/main arm64 dash arm64 0.5.10.2-4ubuntu1 [84.1 kB] Get:26 http://ftpmaster.internal/ubuntu eoan/main arm64 diffutils arm64 1:3.7-2 [191 kB] Get:27 http://ftpmaster.internal/ubuntu eoan/main arm64 findutils arm64 4.6.0+git+20190209-2 [322 kB] Get:28 http://ftpmaster.internal/ubuntu eoan/main arm64 grep arm64 3.3-1 [143 kB] Get:29 http://ftpmaster.internal/ubuntu eoan/main arm64 gzip arm64 1.9-3 [91.6 kB] Get:30 http://ftpmaster.internal/ubuntu eoan/main arm64 libsmartcols1 arm64 2.33.1-0.1ubuntu2 [86.7 kB] Get:31 http://ftpmaster.internal/ubuntu eoan/main arm64 libuuid1 arm64 2.33.1-0.1ubuntu2 [20.5 kB] Get:32 http://ftpmaster.internal/ubuntu eoan/main arm64 libblkid1 arm64 2.33.1-0.1ubuntu2 [126 kB] Get:33 http://ftpmaster.internal/ubuntu eoan/main arm64 libfdisk1 arm64 2.33.1-0.1ubuntu2 [160 kB] Get:34 http://ftpmaster.internal/ubuntu eoan/main arm64 libmount1 arm64 2.33.1-0.1ubuntu2 [138 kB] Get:35 http://ftpmaster.internal/ubuntu eoan/main arm64 libncurses6 arm64 6.1+20181013-2ubuntu2 [91.9 kB] Get:36 http://ftpmaster.internal/ubuntu eoan/main arm64 libtinfo6 arm64 6.1+20181013-2ubuntu2 [79.3 kB] Get:37 http://ftpmaster.internal/ubuntu eoan/main arm64 libncursesw6 arm64 6.1+20181013-2ubuntu2 [119 kB] Get:38 http://ftpmaster.internal/ubuntu eoan/main arm64 fdisk arm64 2.33.1-0.1ubuntu2 [113 kB] Get:39 http://ftpmaster.internal/ubuntu eoan/main arm64 login arm64 1:4.5-1.1ubuntu2 [262 kB] Get:40 http://ftpmaster.internal/ubuntu eoan/main arm64 util-linux arm64 2.33.1-0.1ubuntu2 [962 kB] Get:41 http://ftpmaster.internal/ubuntu eoan/main arm64 ncurses-bin arm64 6.1+20181013-2ubuntu2 [159 kB] Get:42 http://ftpmaster.internal/ubuntu eoan/main arm64 sed arm64 4.7-1 [186 kB] Get:43 http://ftpmaster.internal/ubuntu eoan/main arm64 libdebconfclient0 arm64 0.247ubuntu1 [6416 B] Get:44 http://ftpmaster.internal/ubuntu eoan/main arm64 base-passwd arm64 3.5.46 [47.0 kB] Get:45 http://ftpmaster.internal/ubuntu eoan/main arm64 init-system-helpers all 1.56+nmu1 [38.2 kB] Get:46 http://ftpmaster.internal/ubuntu eoan/main arm64 ncurses-base all 6.1+20181013-2ubuntu2 [17.9 kB] Get:47 http://ftpmaster.internal/ubuntu eoan/main arm64 libnettle6 arm64 3.4.1-1 [122 kB] Get:48 http://ftpmaster.internal/ubuntu eoan/main arm64 libhogweed4 arm64 3.4.1-1 [137 kB] Get:49 http://ftpmaster.internal/ubuntu eoan/main arm64 libp11-kit0 arm64 0.23.15-2 [173 kB] Get:50 http://ftpmaster.internal/ubuntu eoan/main arm64 libunistring2 arm64 0.9.10-1ubuntu2 [361 kB] Get:51 http://ftpmaster.internal/ubuntu eoan/main arm64 libgnutls30 arm64 3.6.5-2ubuntu1 [699 kB] Get:52 http://ftpmaster.internal/ubuntu eoan/main arm64 liblz4-1 arm64 1.8.3-1ubuntu1 [64.6 kB] Get:53 http://ftpmaster.internal/ubuntu eoan/main arm64 liblzma5 arm64 5.2.4-1 [89.1 kB] Get:54 http://ftpmaster.internal/ubuntu eoan/main arm64 libstdc++6 arm64 9-20190420-1ubuntu1 [466 kB] Get:55 http://ftpmaster.internal/ubuntu eoan/main arm64 libudev1 arm64 240-6ubuntu5 [60.2 kB] Get:56 http://ftpmaster.internal/ubuntu eoan/main arm64 libzstd1 arm64 1.3.8+dfsg-3 [204 kB] Get:57 http://ftpmaster.internal/ubuntu eoan/main arm64 libapt-pkg5.0 arm64 1.8.0 [754 kB] Get:58 http://ftpmaster.internal/ubuntu eoan/main arm64 libpam0g arm64 1.3.1-5ubuntu1 [54.9 kB] Get:59 http://ftpmaster.internal/ubuntu eoan/main arm64 libsemanage-common all 2.8-2 [7016 B] Get:60 http://ftpmaster.internal/ubuntu eoan/main arm64 libsemanage1 arm64 2.8-2 [79.7 kB] Get:61 http://ftpmaster.internal/ubuntu eoan/main arm64 libpam-modules-bin arm64 1.3.1-5ubuntu1 [36.7 kB] Get:62 http://ftpmaster.internal/ubuntu eoan/main arm64 libpam-modules arm64 1.3.1-5ubuntu1 [242 kB] Get:63 http://ftpmaster.internal/ubuntu eoan/main arm64 passwd arm64 1:4.5-1.1ubuntu2 [791 kB] Get:64 http://ftpmaster.internal/ubuntu eoan/main arm64 adduser all 3.118ubuntu1 [163 kB] Get:65 http://ftpmaster.internal/ubuntu eoan/main arm64 libgpg-error0 arm64 1.35-1 [55.3 kB] Get:66 http://ftpmaster.internal/ubuntu eoan/main arm64 gpgv arm64 2.2.12-1ubuntu3 [182 kB] Get:67 http://ftpmaster.internal/ubuntu eoan/main arm64 apt arm64 1.8.0 [1162 kB] Get:68 http://ftpmaster.internal/ubuntu eoan/main arm64 systemd-sysv arm64 240-6ubuntu5 [9384 B] Get:69 http://ftpmaster.internal/ubuntu eoan/main arm64 libacl1 arm64 2.2.53-4 [17.5 kB] Get:70 http://ftpmaster.internal/ubuntu eoan/main arm64 libapparmor1 arm64 2.13.2-9ubuntu6 [33.7 kB] Get:71 http://ftpmaster.internal/ubuntu eoan/main arm64 libcap2 arm64 1:2.25-2 [13.3 kB] Get:72 http://ftpmaster.internal/ubuntu eoan/main arm64 libargon2-1 arm64 0~20171227-0.2 [18.4 kB] Get:73 http://ftpmaster.internal/ubuntu eoan/main arm64 libjson-c3 arm64 0.12.1+ds-2 [21.8 kB] Get:74 http://ftpmaster.internal/ubuntu eoan/main arm64 libssl1.1 arm64 1.1.1b-1ubuntu2 [1148 kB] Get:75 http://ftpmaster.internal/ubuntu eoan/main arm64 libcryptsetup12 arm64 2:2.1.0-1ubuntu1 [137 kB] Get:76 http://ftpmaster.internal/ubuntu eoan/main arm64 libidn11 arm64 1.33-2.2ubuntu2 [45.3 kB] Get:77 http://ftpmaster.internal/ubuntu eoan/main arm64 libkmod2 arm64 25-1ubuntu4 [38.6 kB] Get:78 http://ftpmaster.internal/ubuntu eoan/main arm64 mount arm64 2.33.1-0.1ubuntu2 [110 kB] Get:79 http://ftpmaster.internal/ubuntu eoan/main arm64 systemd arm64 240-6ubuntu5 [3097 kB] Get:80 http://ftpmaster.internal/ubuntu eoan/main arm64 libsystemd0 arm64 240-6ubuntu5 [225 kB] Get:81 http://ftpmaster.internal/ubuntu eoan/main arm64 libext2fs2 arm64 1.44.6-1 [153 kB] Get:82 http://ftpmaster.internal/ubuntu eoan/main arm64 e2fsprogs arm64 1.44.6-1 [492 kB] Get:83 http://ftpmaster.internal/ubuntu eoan/main arm64 init arm64 1.56+nmu1 [6080 B] Get:84 http://ftpmaster.internal/ubuntu eoan/main arm64 libattr1 arm64 1:2.4.48-4 [12.5 kB] Get:85 http://ftpmaster.internal/ubuntu eoan/main arm64 libcap-ng0 arm64 0.7.9-2 [10.5 kB] Get:86 http://ftpmaster.internal/ubuntu eoan/main arm64 libpam-runtime all 1.3.1-5ubuntu1 [37.3 kB] Get:87 http://ftpmaster.internal/ubuntu eoan/main arm64 libpcre3 arm64 2:8.39-12 [207 kB] Get:88 http://ftpmaster.internal/ubuntu eoan/main arm64 libcom-err2 arm64 1.44.6-1 [9420 B] Get:89 http://ftpmaster.internal/ubuntu eoan/main arm64 libprocps7 arm64 2:3.3.15-2ubuntu2 [31.8 kB] Get:90 http://ftpmaster.internal/ubuntu eoan/main arm64 libss2 arm64 1.44.6-1 [10.7 kB] Get:91 http://ftpmaster.internal/ubuntu eoan/main arm64 procps arm64 2:3.3.15-2ubuntu2 [228 kB] Get:92 http://ftpmaster.internal/ubuntu eoan/main arm64 openssl arm64 1.1.1b-1ubuntu2 [599 kB] Get:93 http://ftpmaster.internal/ubuntu eoan/main arm64 ca-certificates all 20190110 [146 kB] Get:94 http://ftpmaster.internal/ubuntu eoan/main arm64 readline-common all 8.0-1 [53.4 kB] Get:95 http://ftpmaster.internal/ubuntu eoan/main arm64 libreadline8 arm64 8.0-1 [123 kB] Get:96 http://ftpmaster.internal/ubuntu eoan/main arm64 libsqlite3-0 arm64 3.27.2-2 [496 kB] Get:97 http://ftpmaster.internal/ubuntu eoan/main arm64 tzdata all 2019a-1 [187 kB] Get:98 http://ftpmaster.internal/ubuntu eoan/main arm64 xz-utils arm64 5.2.4-1 [81.5 kB] Get:99 http://ftpmaster.internal/ubuntu eoan/main arm64 libpng16-16 arm64 1.6.36-6 [173 kB] Get:100 http://ftpmaster.internal/ubuntu eoan/main arm64 multiarch-support arm64 2.29-0ubuntu2 [6916 B] Get:101 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 advancecomp arm64 2.1-2 [181 kB] Get:102 http://ftpmaster.internal/ubuntu eoan/main arm64 binutils-aarch64-linux-gnu arm64 2.32-7ubuntu4 [2195 kB] Get:103 http://ftpmaster.internal/ubuntu eoan/main arm64 libbinutils arm64 2.32-7ubuntu4 [455 kB] Get:104 http://ftpmaster.internal/ubuntu eoan/main arm64 binutils arm64 2.32-7ubuntu4 [3368 B] Get:105 http://ftpmaster.internal/ubuntu eoan/main arm64 binutils-common arm64 2.32-7ubuntu4 [200 kB] Get:106 http://ftpmaster.internal/ubuntu eoan/main arm64 libubsan1 arm64 9-20190420-1ubuntu1 [121 kB] Get:107 http://ftpmaster.internal/ubuntu eoan/main arm64 libtsan0 arm64 9-20190420-1ubuntu1 [284 kB] Get:108 http://ftpmaster.internal/ubuntu eoan/main arm64 libgomp1 arm64 9-20190420-1ubuntu1 [80.5 kB] Get:109 http://ftpmaster.internal/ubuntu eoan/main arm64 libitm1 arm64 9-20190420-1ubuntu1 [25.0 kB] Get:110 http://ftpmaster.internal/ubuntu eoan/main arm64 libatomic1 arm64 9-20190420-1ubuntu1 [9164 B] Get:111 http://ftpmaster.internal/ubuntu eoan/main arm64 libasan5 arm64 9-20190420-1ubuntu1 [364 kB] Get:112 http://ftpmaster.internal/ubuntu eoan/main arm64 liblsan0 arm64 9-20190420-1ubuntu1 [126 kB] Get:113 http://ftpmaster.internal/ubuntu eoan/main arm64 g++-8 arm64 8.3.0-6ubuntu1 [8505 kB] Get:114 http://ftpmaster.internal/ubuntu eoan/main arm64 gcc-8 arm64 8.3.0-6ubuntu1 [8236 kB] Get:115 http://ftpmaster.internal/ubuntu eoan/main arm64 libstdc++-8-dev arm64 8.3.0-6ubuntu1 [1523 kB] Get:116 http://ftpmaster.internal/ubuntu eoan/main arm64 libgcc-8-dev arm64 8.3.0-6ubuntu1 [856 kB] Get:117 http://ftpmaster.internal/ubuntu eoan/main arm64 libcc1-0 arm64 9-20190420-1ubuntu1 [46.1 kB] Get:118 http://ftpmaster.internal/ubuntu eoan/main arm64 cpp-8 arm64 8.3.0-6ubuntu1 [7412 kB] Get:119 http://ftpmaster.internal/ubuntu eoan/main arm64 gcc-8-base arm64 8.3.0-6ubuntu1 [18.7 kB] Get:120 http://ftpmaster.internal/ubuntu eoan/main arm64 libmpfr6 arm64 4.0.2-1 [212 kB] Get:121 http://ftpmaster.internal/ubuntu eoan/main arm64 g++ arm64 4:8.3.0-1ubuntu3 [1584 B] Get:122 http://ftpmaster.internal/ubuntu eoan/main arm64 gcc arm64 4:8.3.0-1ubuntu3 [5228 B] Get:123 http://ftpmaster.internal/ubuntu eoan/main arm64 cpp arm64 4:8.3.0-1ubuntu3 [27.6 kB] Get:124 http://ftpmaster.internal/ubuntu eoan/main arm64 dpkg-dev all 1.19.6ubuntu1 [675 kB] Get:125 http://ftpmaster.internal/ubuntu eoan/main arm64 libdpkg-perl all 1.19.6ubuntu1 [230 kB] Get:126 http://ftpmaster.internal/ubuntu eoan/main arm64 build-essential arm64 12.6ubuntu1 [4664 B] Get:127 http://ftpmaster.internal/ubuntu eoan/main arm64 e2fslibs arm64 1.44.6-1 [2700 B] Get:128 http://ftpmaster.internal/ubuntu eoan/main arm64 libassuan0 arm64 2.5.2-1 [32.9 kB] Get:129 http://ftpmaster.internal/ubuntu eoan/main arm64 gpg arm64 2.2.12-1ubuntu3 [437 kB] Get:130 http://ftpmaster.internal/ubuntu eoan/main arm64 gpgconf arm64 2.2.12-1ubuntu3 [116 kB] Get:131 http://ftpmaster.internal/ubuntu eoan/main arm64 gpg-agent arm64 2.2.12-1ubuntu3 [213 kB] Get:132 http://ftpmaster.internal/ubuntu eoan/main arm64 libcomerr2 arm64 1.44.6-1 [2692 B] Get:133 http://ftpmaster.internal/ubuntu eoan/main arm64 optipng arm64 0.7.7-1 [81.2 kB] Get:134 http://ftpmaster.internal/ubuntu eoan/main arm64 pkgbinarymangler all 144 [55.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 68.3 MB in 3s (24.3 MB/s) (Reading database ... 12642 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Preparing to unpack .../libc6-dev_2.29-0ubuntu2_arm64.deb ... Unpacking libc6-dev:arm64 (2.29-0ubuntu2) over (2.28-0ubuntu1) ... Preparing to unpack .../libc-dev-bin_2.29-0ubuntu2_arm64.deb ... Unpacking libc-dev-bin (2.29-0ubuntu2) over (2.28-0ubuntu1) ... Preparing to unpack .../linux-libc-dev_5.0.0-13.14_arm64.deb ... Unpacking linux-libc-dev:arm64 (5.0.0-13.14) over (4.18.0-11.12) ... Preparing to unpack .../libc6_2.29-0ubuntu2_arm64.deb ... Unpacking libc6:arm64 (2.29-0ubuntu2) over (2.28-0ubuntu1) ... Setting up libc6:arm64 (2.29-0ubuntu2) ... (Reading database ... 12671 files and directories currently installed.) Preparing to unpack .../libc-bin_2.29-0ubuntu2_arm64.deb ... Unpacking libc-bin (2.29-0ubuntu2) over (2.28-0ubuntu1) ... Setting up libc-bin (2.29-0ubuntu2) ... Selecting previously unselected package gcc-9-base:arm64. (Reading database ... 12671 files and directories currently installed.) Preparing to unpack .../gcc-9-base_9-20190420-1ubuntu1_arm64.deb ... 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Setting up linux-libc-dev:arm64 (5.0.0-13.14) ... Setting up libcom-err2:arm64 (1.44.6-1) ... Setting up libassuan0:arm64 (2.5.2-1) ... Setting up libgomp1:arm64 (9-20190420-1ubuntu1) ... Setting up tzdata (2019a-1) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Apr 21 12:14:33 UTC 2019. Universal Time is now: Sun Apr 21 12:14:33 UTC 2019. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libasan5:arm64 (9-20190420-1ubuntu1) ... Setting up multiarch-support (2.29-0ubuntu2) ... Setting up libmpfr6:arm64 (4.0.2-1) ... Setting up libncurses6:arm64 (6.1+20181013-2ubuntu2) ... Setting up xz-utils (5.2.4-1) ... Setting up libpng16-16:arm64 (1.6.36-6) ... Setting up libatomic1:arm64 (9-20190420-1ubuntu1) ... Setting up libss2:arm64 (1.44.6-1) ... Setting up gcc-8-base:arm64 (8.3.0-6ubuntu1) ... Setting up libubsan1:arm64 (9-20190420-1ubuntu1) ... Setting up advancecomp (2.1-2) ... Setting up libcomerr2:arm64 (1.44.6-1) ... Setting up procps (2:3.3.15-2ubuntu2) ... Installing new version of config file /etc/sysctl.d/10-network-security.conf ... Setting up libbinutils:arm64 (2.32-7ubuntu4) ... Setting up cpp-8 (8.3.0-6ubuntu1) ... Setting up libc-dev-bin (2.29-0ubuntu2) ... Setting up openssl (1.1.1b-1ubuntu2) ... Installing new version of config file /etc/ssl/openssl.cnf ... Setting up readline-common (8.0-1) ... Setting up libcc1-0:arm64 (9-20190420-1ubuntu1) ... Setting up liblsan0:arm64 (9-20190420-1ubuntu1) ... Setting up libitm1:arm64 (9-20190420-1ubuntu1) ... Setting up libgdbm6:arm64 (1.18.1-4) ... Setting up libtsan0:arm64 (9-20190420-1ubuntu1) ... Setting up libreadline8:arm64 (8.0-1) ... Setting up binutils-aarch64-linux-gnu (2.32-7ubuntu4) ... Setting up e2fsprogs (1.44.6-1) ... Setting up binutils (2.32-7ubuntu4) ... Setting up ca-certificates (20190110) ... Updating certificates in /etc/ssl/certs... 2 added, 7 removed; done. Setting up optipng (0.7.7-1) ... 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Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-16664656 arm64 eoan-proposed -c chroot:build-PACKAGEBUILD-16664656 --arch=arm64 --dist=eoan-proposed --nolog gatb-core_1.4.1+git20181225.44d5a44+dfsg-2.dsc Initiating build PACKAGEBUILD-16664656 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-145-generic #171-Ubuntu SMP Tue Mar 26 12:45:17 UTC 2019 aarch64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos02-arm64-038.buildd +==============================================================================+ | gatb-core 1.4.1+git20181225.44d5a44+dfsg-2 (arm64) 21 Apr 2019 12:14 | +==============================================================================+ Package: gatb-core Version: 1.4.1+git20181225.44d5a44+dfsg-2 Source Version: 1.4.1+git20181225.44d5a44+dfsg-2 Distribution: eoan-proposed Machine Architecture: arm64 Host Architecture: arm64 Build Architecture: arm64 I: NOTICE: Log filtering will replace 'build/gatb-core-5FwnSD/gatb-core-1.4.1+git20181225.44d5a44+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/gatb-core-5FwnSD' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-16664656/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- gatb-core_1.4.1+git20181225.44d5a44+dfsg-2.dsc exists in .; copying to chroot Check architectures ------------------- Check dependencies ------------------ Merged Build-Depends: build-essential, fakeroot Filtered Build-Depends: build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<>/resolver-ycgvtO/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-ycgvtO/apt_archive ./ InRelease Get:2 copy:/<>/resolver-ycgvtO/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-ycgvtO/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-ycgvtO/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-ycgvtO/apt_archive ./ Packages [524 B] Fetched 2857 B in 0s (146 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 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-ycgvtO/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 ... 12772 files and directories currently installed.) Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_arm64.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-lr7emv/apt_archive/sbuild-build-depends-gatb-core-dummy.deb'. Ign:1 copy:/<>/resolver-lr7emv/apt_archive ./ InRelease Get:2 copy:/<>/resolver-lr7emv/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-lr7emv/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-lr7emv/apt_archive ./ Sources [266 B] Get:5 copy:/<>/resolver-lr7emv/apt_archive ./ Packages [584 B] Fetched 2969 B in 0s (147 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 libssh-4 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 libssh-4 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, 133 newly installed, 0 to remove and 0 not upgraded. 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Get:1 copy:/<>/resolver-lr7emv/apt_archive ./ sbuild-build-depends-gatb-core-dummy 0.invalid.0 [912 B] Get:2 http://ftpmaster.internal/ubuntu eoan/main arm64 libxau6 arm64 1:1.0.8-1 [7590 B] Get:3 http://ftpmaster.internal/ubuntu eoan/main arm64 libbsd0 arm64 0.9.1-2 [42.6 kB] Get:4 http://ftpmaster.internal/ubuntu eoan/main arm64 libxdmcp6 arm64 1:1.1.2-3 [9694 B] Get:5 http://ftpmaster.internal/ubuntu eoan/main arm64 libxcb1 arm64 1.13.1-2 [43.6 kB] Get:6 http://ftpmaster.internal/ubuntu eoan/main arm64 libx11-data all 2:1.6.7-1 [113 kB] Get:7 http://ftpmaster.internal/ubuntu eoan/main arm64 libx11-6 arm64 2:1.6.7-1 [552 kB] Get:8 http://ftpmaster.internal/ubuntu eoan/main arm64 libxext6 arm64 2:1.3.3-1 [25.4 kB] Get:9 http://ftpmaster.internal/ubuntu eoan/main arm64 bsdmainutils arm64 11.1.2ubuntu2 [175 kB] Get:10 http://ftpmaster.internal/ubuntu eoan/main arm64 libuchardet0 arm64 0.0.6-3 [65.0 kB] Get:11 http://ftpmaster.internal/ubuntu eoan/main arm64 groff-base arm64 1.22.4-3 [813 kB] Get:12 http://ftpmaster.internal/ubuntu eoan/main arm64 libpipeline1 arm64 1.5.1-2 [24.4 kB] Get:13 http://ftpmaster.internal/ubuntu eoan/main arm64 man-db arm64 2.8.5-2 [1085 kB] Get:14 http://ftpmaster.internal/ubuntu eoan/main arm64 libmagic-mgc arm64 1:5.35-4 [200 kB] Get:15 http://ftpmaster.internal/ubuntu eoan/main arm64 libmagic1 arm64 1:5.35-4 [71.0 kB] Get:16 http://ftpmaster.internal/ubuntu eoan/main arm64 file arm64 1:5.35-4 [23.0 kB] Get:17 http://ftpmaster.internal/ubuntu eoan/main arm64 libelf1 arm64 0.176-1 [43.6 kB] Get:18 http://ftpmaster.internal/ubuntu eoan/main arm64 libexpat1 arm64 2.2.6-1 [68.2 kB] Get:19 http://ftpmaster.internal/ubuntu eoan/main arm64 libfribidi0 arm64 1.0.5-3.1 [26.3 kB] Get:20 http://ftpmaster.internal/ubuntu eoan/main arm64 libglib2.0-0 arm64 2.60.0-1 [1163 kB] Get:21 http://ftpmaster.internal/ubuntu eoan/main arm64 libicu63 arm64 63.1-6 [8144 kB] Get:22 http://ftpmaster.internal/ubuntu eoan/main arm64 libxml2 arm64 2.9.4+dfsg1-7ubuntu3 [562 kB] Get:23 http://ftpmaster.internal/ubuntu eoan/main arm64 ucf all 3.0038+nmu1 [51.6 kB] Get:24 http://ftpmaster.internal/ubuntu eoan/main arm64 gettext-base arm64 0.19.8.1-9 [48.0 kB] Get:25 http://ftpmaster.internal/ubuntu eoan/main arm64 libedit2 arm64 3.1-20181209-1 [82.9 kB] Get:26 http://ftpmaster.internal/ubuntu eoan/main arm64 libkrb5support0 arm64 1.17-1 [32.6 kB] Get:27 http://ftpmaster.internal/ubuntu eoan/main arm64 libk5crypto3 arm64 1.17-1 [86.9 kB] Get:28 http://ftpmaster.internal/ubuntu eoan/main arm64 libkeyutils1 arm64 1.6-6 [9960 B] Get:29 http://ftpmaster.internal/ubuntu eoan/main arm64 libkrb5-3 arm64 1.17-1 [314 kB] Get:30 http://ftpmaster.internal/ubuntu eoan/main arm64 libgssapi-krb5-2 arm64 1.17-1 [114 kB] Get:31 http://ftpmaster.internal/ubuntu eoan/main arm64 libpsl5 arm64 0.20.2-2 [49.9 kB] Get:32 http://ftpmaster.internal/ubuntu eoan/main arm64 libsigsegv2 arm64 2.12-2 [13.3 kB] Get:33 http://ftpmaster.internal/ubuntu eoan/main arm64 m4 arm64 1.4.18-2 [194 kB] Get:34 http://ftpmaster.internal/ubuntu eoan/main arm64 autoconf all 2.69-11 [322 kB] Get:35 http://ftpmaster.internal/ubuntu eoan/main arm64 autotools-dev all 20180224.1 [39.6 kB] Get:36 http://ftpmaster.internal/ubuntu eoan/main arm64 automake all 1:1.16.1-4ubuntu3 [522 kB] Get:37 http://ftpmaster.internal/ubuntu eoan/main arm64 autopoint all 0.19.8.1-9 [412 kB] Get:38 http://ftpmaster.internal/ubuntu eoan/main arm64 cmake-data all 3.13.4-1 [1458 kB] Get:39 http://ftpmaster.internal/ubuntu eoan/main arm64 libarchive13 arm64 3.3.3-4 [283 kB] Get:40 http://ftpmaster.internal/ubuntu eoan/main arm64 libroken18-heimdal arm64 7.5.0+dfsg-2.1 [39.1 kB] Get:41 http://ftpmaster.internal/ubuntu eoan/main arm64 libasn1-8-heimdal arm64 7.5.0+dfsg-2.1 [149 kB] Get:42 http://ftpmaster.internal/ubuntu eoan/main arm64 libheimbase1-heimdal arm64 7.5.0+dfsg-2.1 [27.8 kB] Get:43 http://ftpmaster.internal/ubuntu eoan/main arm64 libhcrypto4-heimdal arm64 7.5.0+dfsg-2.1 [85.2 kB] Get:44 http://ftpmaster.internal/ubuntu eoan/main arm64 libwind0-heimdal arm64 7.5.0+dfsg-2.1 [47.4 kB] Get:45 http://ftpmaster.internal/ubuntu eoan/main arm64 libhx509-5-heimdal arm64 7.5.0+dfsg-2.1 [99.4 kB] Get:46 http://ftpmaster.internal/ubuntu eoan/main arm64 libkrb5-26-heimdal arm64 7.5.0+dfsg-2.1 [191 kB] Get:47 http://ftpmaster.internal/ubuntu eoan/main arm64 libheimntlm0-heimdal arm64 7.5.0+dfsg-2.1 [14.7 kB] Get:48 http://ftpmaster.internal/ubuntu eoan/main arm64 libgssapi3-heimdal arm64 7.5.0+dfsg-2.1 [88.2 kB] Get:49 http://ftpmaster.internal/ubuntu eoan/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg-1 [15.1 kB] Get:50 http://ftpmaster.internal/ubuntu eoan/main arm64 libsasl2-2 arm64 2.1.27+dfsg-1 [48.8 kB] Get:51 http://ftpmaster.internal/ubuntu eoan/main arm64 libldap-common all 2.4.47+dfsg-3ubuntu2 [16.6 kB] Get:52 http://ftpmaster.internal/ubuntu eoan/main arm64 libldap-2.4-2 arm64 2.4.47+dfsg-3ubuntu2 [145 kB] Get:53 http://ftpmaster.internal/ubuntu eoan/main arm64 libnghttp2-14 arm64 1.36.0-2 [76.0 kB] Get:54 http://ftpmaster.internal/ubuntu eoan/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2 [49.8 kB] Get:55 http://ftpmaster.internal/ubuntu eoan/main arm64 libssh-4 arm64 0.8.6-3 [175 kB] Get:56 http://ftpmaster.internal/ubuntu eoan/main arm64 libcurl4 arm64 7.64.0-2ubuntu1 [214 kB] Get:57 http://ftpmaster.internal/ubuntu eoan/main arm64 libjsoncpp1 arm64 1.7.4-3 [69.2 kB] Get:58 http://ftpmaster.internal/ubuntu eoan/main arm64 librhash0 arm64 1.3.8-1 [111 kB] Get:59 http://ftpmaster.internal/ubuntu eoan/main arm64 libuv1 arm64 1.24.1-1 [64.6 kB] Get:60 http://ftpmaster.internal/ubuntu eoan/main arm64 cmake arm64 3.13.4-1 [3030 kB] Get:61 http://ftpmaster.internal/ubuntu eoan/universe arm64 d-shlibs all 0.84ubuntu2 [10.5 kB] Get:62 http://ftpmaster.internal/ubuntu eoan/main arm64 libtool all 2.4.6-10 [194 kB] Get:63 http://ftpmaster.internal/ubuntu eoan/main arm64 dh-autoreconf all 19 [16.1 kB] Get:64 http://ftpmaster.internal/ubuntu eoan/main arm64 libarchive-zip-perl all 1.64-1 [84.9 kB] Get:65 http://ftpmaster.internal/ubuntu eoan/main arm64 libfile-stripnondeterminism-perl all 1.1.2-1 [13.7 kB] Get:66 http://ftpmaster.internal/ubuntu eoan/main arm64 dh-strip-nondeterminism all 1.1.2-1 [5208 B] Get:67 http://ftpmaster.internal/ubuntu eoan/main arm64 dwz arm64 0.12-3 [71.8 kB] Get:68 http://ftpmaster.internal/ubuntu eoan/main arm64 libcroco3 arm64 0.6.12-3 [76.8 kB] Get:69 http://ftpmaster.internal/ubuntu eoan/main arm64 gettext arm64 0.19.8.1-9 [853 kB] Get:70 http://ftpmaster.internal/ubuntu eoan/main arm64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:71 http://ftpmaster.internal/ubuntu eoan/main arm64 po-debconf all 1.0.21 [233 kB] Get:72 http://ftpmaster.internal/ubuntu eoan/main arm64 debhelper all 12.1.1ubuntu1 [899 kB] Get:73 http://ftpmaster.internal/ubuntu eoan/main arm64 libllvm7 arm64 1:7.0.1-8 [10.8 MB] Get:74 http://ftpmaster.internal/ubuntu eoan/universe arm64 libclang1-7 arm64 1:7.0.1-8 [4855 kB] Get:75 http://ftpmaster.internal/ubuntu eoan/universe arm64 libxapian30 arm64 1.4.10-1 [594 kB] Get:76 http://ftpmaster.internal/ubuntu eoan/universe arm64 doxygen arm64 1.8.13-10ubuntu1 [3551 kB] Get:77 http://ftpmaster.internal/ubuntu eoan/main arm64 libfreetype6 arm64 2.9.1-3 [312 kB] Get:78 http://ftpmaster.internal/ubuntu eoan/main arm64 fonts-dejavu-core all 2.37-1 [1041 kB] Get:79 http://ftpmaster.internal/ubuntu eoan/main arm64 fontconfig-config all 2.13.1-2ubuntu2 [28.9 kB] Get:80 http://ftpmaster.internal/ubuntu eoan/main arm64 libfontconfig1 arm64 2.13.1-2ubuntu2 [111 kB] Get:81 http://ftpmaster.internal/ubuntu eoan/main arm64 fontconfig arm64 2.13.1-2ubuntu2 [171 kB] Get:82 http://ftpmaster.internal/ubuntu eoan/universe arm64 libcdt5 arm64 2.40.1-6 [18.3 kB] Get:83 http://ftpmaster.internal/ubuntu eoan/universe arm64 libcgraph6 arm64 2.40.1-6 [38.4 kB] Get:84 http://ftpmaster.internal/ubuntu eoan/main arm64 libjpeg-turbo8 arm64 2.0.1-0ubuntu2 [100 kB] Get:85 http://ftpmaster.internal/ubuntu eoan/main arm64 libjpeg8 arm64 8c-2ubuntu8 [2198 B] Get:86 http://ftpmaster.internal/ubuntu eoan/main arm64 libjbig0 arm64 2.1-3.1build1 [24.0 kB] Get:87 http://ftpmaster.internal/ubuntu eoan/main arm64 libwebp6 arm64 0.6.1-2 [155 kB] Get:88 http://ftpmaster.internal/ubuntu eoan/main arm64 libtiff5 arm64 4.0.10-4 [146 kB] Get:89 http://ftpmaster.internal/ubuntu eoan/main arm64 libxpm4 arm64 1:3.5.12-1 [28.8 kB] Get:90 http://ftpmaster.internal/ubuntu eoan/main arm64 libgd3 arm64 2.2.5-5.1 [108 kB] Get:91 http://ftpmaster.internal/ubuntu eoan/universe arm64 libgts-0.7-5 arm64 0.7.6+darcs121130-4 [117 kB] Get:92 http://ftpmaster.internal/ubuntu eoan/main arm64 libpixman-1-0 arm64 0.36.0-1 [128 kB] Get:93 http://ftpmaster.internal/ubuntu eoan/main arm64 libxcb-render0 arm64 1.13.1-2 [14.5 kB] Get:94 http://ftpmaster.internal/ubuntu eoan/main arm64 libxcb-shm0 arm64 1.13.1-2 [5628 B] Get:95 http://ftpmaster.internal/ubuntu eoan/main arm64 libxrender1 arm64 1:0.9.10-1 [16.1 kB] Get:96 http://ftpmaster.internal/ubuntu eoan/main arm64 libcairo2 arm64 1.16.0-4 [539 kB] Get:97 http://ftpmaster.internal/ubuntu eoan/main arm64 libltdl7 arm64 2.4.6-10 [37.5 kB] Get:98 http://ftpmaster.internal/ubuntu eoan/main arm64 libthai-data all 0.1.28-2 [134 kB] Get:99 http://ftpmaster.internal/ubuntu eoan/main arm64 libdatrie1 arm64 0.2.12-2 [17.8 kB] Get:100 http://ftpmaster.internal/ubuntu eoan/main arm64 libthai0 arm64 0.1.28-2 [16.8 kB] Get:101 http://ftpmaster.internal/ubuntu eoan/main arm64 libpango-1.0-0 arm64 1.42.4-6 [148 kB] Get:102 http://ftpmaster.internal/ubuntu eoan/main arm64 libgraphite2-3 arm64 1.3.13-7 [68.4 kB] Get:103 http://ftpmaster.internal/ubuntu eoan/main arm64 libharfbuzz0b arm64 2.3.1-1 [327 kB] Get:104 http://ftpmaster.internal/ubuntu eoan/main arm64 libpangoft2-1.0-0 arm64 1.42.4-6 [33.0 kB] Get:105 http://ftpmaster.internal/ubuntu eoan/main arm64 libpangocairo-1.0-0 arm64 1.42.4-6 [21.7 kB] Get:106 http://ftpmaster.internal/ubuntu eoan/universe arm64 libpathplan4 arm64 2.40.1-6 [20.5 kB] Get:107 http://ftpmaster.internal/ubuntu eoan/universe arm64 libgvc6 arm64 2.40.1-6 [546 kB] Get:108 http://ftpmaster.internal/ubuntu eoan/universe arm64 libgvpr2 arm64 2.40.1-6 [160 kB] Get:109 http://ftpmaster.internal/ubuntu eoan/universe arm64 liblab-gamut1 arm64 2.40.1-6 [178 kB] Get:110 http://ftpmaster.internal/ubuntu eoan/main arm64 x11-common all 1:7.7+19ubuntu12 [22.4 kB] Get:111 http://ftpmaster.internal/ubuntu eoan/main arm64 libice6 arm64 2:1.0.9-2 [33.7 kB] Get:112 http://ftpmaster.internal/ubuntu eoan/main arm64 libsm6 arm64 2:1.2.3-1 [15.1 kB] Get:113 http://ftpmaster.internal/ubuntu eoan/main arm64 libxt6 arm64 1:1.1.5-1 [128 kB] Get:114 http://ftpmaster.internal/ubuntu eoan/main arm64 libxmu6 arm64 2:1.1.2-2 [38.8 kB] Get:115 http://ftpmaster.internal/ubuntu eoan/main arm64 libxaw7 arm64 2:1.0.13-1 [137 kB] Get:116 http://ftpmaster.internal/ubuntu eoan/universe arm64 graphviz arm64 2.40.1-6 [525 kB] Get:117 http://ftpmaster.internal/ubuntu eoan/universe arm64 hdf5-helpers arm64 1.10.4+repack-10 [13.9 kB] Get:118 http://ftpmaster.internal/ubuntu eoan/universe arm64 libaec0 arm64 1.0.2-1 [17.8 kB] Get:119 http://ftpmaster.internal/ubuntu eoan/main arm64 libboost1.67-dev arm64 1.67.0-13 [8362 kB] Get:120 http://ftpmaster.internal/ubuntu eoan/main arm64 libboost-dev arm64 1.67.0.1 [3228 B] Get:121 http://ftpmaster.internal/ubuntu eoan/universe arm64 libcppunit-1.14-0 arm64 1.14.0-3 [72.6 kB] Get:122 http://ftpmaster.internal/ubuntu eoan/universe arm64 libcppunit-dev arm64 1.14.0-3 [132 kB] Get:123 http://ftpmaster.internal/ubuntu eoan/main arm64 libgfortran5 arm64 9-20190420-1ubuntu1 [331 kB] Get:124 http://ftpmaster.internal/ubuntu eoan/universe arm64 libsz2 arm64 1.0.2-1 [4948 B] Get:125 http://ftpmaster.internal/ubuntu eoan/universe arm64 libhdf5-103 arm64 1.10.4+repack-10 [1145 kB] Get:126 http://ftpmaster.internal/ubuntu eoan/universe arm64 libhdf5-cpp-103 arm64 1.10.4+repack-10 [108 kB] Get:127 http://ftpmaster.internal/ubuntu eoan/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-1ubuntu2 [170 kB] Get:128 http://ftpmaster.internal/ubuntu eoan/main arm64 libjpeg-turbo8-dev arm64 2.0.1-0ubuntu2 [214 kB] Get:129 http://ftpmaster.internal/ubuntu eoan/main arm64 libjpeg8-dev arm64 8c-2ubuntu8 [1550 B] Get:130 http://ftpmaster.internal/ubuntu eoan/main arm64 libjpeg-dev arm64 8c-2ubuntu8 [1546 B] Get:131 http://ftpmaster.internal/ubuntu eoan/universe arm64 libaec-dev arm64 1.0.2-1 [15.5 kB] Get:132 http://ftpmaster.internal/ubuntu eoan/universe arm64 libhdf5-dev arm64 1.10.4+repack-10 [2658 kB] Get:133 http://ftpmaster.internal/ubuntu eoan/main arm64 libjsoncpp-dev arm64 1.7.4-3 [82.9 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 63.4 MB in 2s (31.3 MB/s) Selecting previously unselected package libxau6:arm64. (Reading database ... 12772 files and directories currently installed.) Preparing to unpack .../000-libxau6_1%3a1.0.8-1_arm64.deb ... Unpacking libxau6:arm64 (1:1.0.8-1) ... Selecting previously unselected package libbsd0:arm64. Preparing to unpack .../001-libbsd0_0.9.1-2_arm64.deb ... Unpacking libbsd0:arm64 (0.9.1-2) ... Selecting previously unselected package libxdmcp6:arm64. Preparing to unpack .../002-libxdmcp6_1%3a1.1.2-3_arm64.deb ... Unpacking libxdmcp6:arm64 (1:1.1.2-3) ... Selecting previously unselected package libxcb1:arm64. Preparing to unpack .../003-libxcb1_1.13.1-2_arm64.deb ... Unpacking libxcb1:arm64 (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:arm64. Preparing to unpack .../005-libx11-6_2%3a1.6.7-1_arm64.deb ... Unpacking libx11-6:arm64 (2:1.6.7-1) ... Selecting previously unselected package libxext6:arm64. Preparing to unpack .../006-libxext6_2%3a1.3.3-1_arm64.deb ... Unpacking libxext6:arm64 (2:1.3.3-1) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../007-bsdmainutils_11.1.2ubuntu2_arm64.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../008-libuchardet0_0.0.6-3_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../009-groff-base_1.22.4-3_arm64.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../010-libpipeline1_1.5.1-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../011-man-db_2.8.5-2_arm64.deb ... Unpacking man-db (2.8.5-2) ... Selecting previously unselected package libmagic-mgc. 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Unpacking libglib2.0-0:arm64 (2.60.0-1) ... Selecting previously unselected package libicu63:arm64. Preparing to unpack .../019-libicu63_63.1-6_arm64.deb ... Unpacking libicu63:arm64 (63.1-6) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../020-libxml2_2.9.4+dfsg1-7ubuntu3_arm64.deb ... Unpacking libxml2:arm64 (2.9.4+dfsg1-7ubuntu3) ... Selecting previously unselected package ucf. Preparing to unpack .../021-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 .../022-gettext-base_0.19.8.1-9_arm64.deb ... Unpacking gettext-base (0.19.8.1-9) ... Selecting previously unselected package libedit2:arm64. Preparing to unpack .../023-libedit2_3.1-20181209-1_arm64.deb ... Unpacking libedit2:arm64 (3.1-20181209-1) ... Selecting previously unselected package libkrb5support0:arm64. Preparing to unpack .../024-libkrb5support0_1.17-1_arm64.deb ... Unpacking libkrb5support0:arm64 (1.17-1) ... Selecting previously unselected package libk5crypto3:arm64. Preparing to unpack .../025-libk5crypto3_1.17-1_arm64.deb ... Unpacking libk5crypto3:arm64 (1.17-1) ... Selecting previously unselected package libkeyutils1:arm64. Preparing to unpack .../026-libkeyutils1_1.6-6_arm64.deb ... Unpacking libkeyutils1:arm64 (1.6-6) ... Selecting previously unselected package libkrb5-3:arm64. Preparing to unpack .../027-libkrb5-3_1.17-1_arm64.deb ... Unpacking libkrb5-3:arm64 (1.17-1) ... Selecting previously unselected package libgssapi-krb5-2:arm64. Preparing to unpack .../028-libgssapi-krb5-2_1.17-1_arm64.deb ... Unpacking libgssapi-krb5-2:arm64 (1.17-1) ... Selecting previously unselected package libpsl5:arm64. Preparing to unpack .../029-libpsl5_0.20.2-2_arm64.deb ... Unpacking libpsl5:arm64 (0.20.2-2) ... Selecting previously unselected package libsigsegv2:arm64. Preparing to unpack .../030-libsigsegv2_2.12-2_arm64.deb ... 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Setting up libpsl5:arm64 (0.20.2-2) ... Setting up hdf5-helpers (1.10.4+repack-10) ... Setting up libdatrie1:arm64 (0.2.12-2) ... Setting up libmagic-mgc (1:5.35-4) ... Setting up libcppunit-1.14-0:arm64 (1.14.0-3) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libglib2.0-0:arm64 (2.60.0-1) ... No schema files found: doing nothing. Setting up liblab-gamut1 (2.40.1-6) ... Setting up x11-common (1:7.7+19ubuntu12) ... 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 libnghttp2-14:arm64 (1.36.0-2) ... Setting up libmagic1:arm64 (1:5.35-4) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4) ... Setting up libldap-common (2.4.47+dfsg-3ubuntu2) ... Setting up libjbig0:arm64 (2.1-3.1build1) ... Setting up libaec0:arm64 (1.0.2-1) ... Setting up libicu63:arm64 (63.1-6) ... Setting up libkrb5support0:arm64 (1.17-1) ... Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg-1) ... Setting up libgts-0.7-5:arm64 (0.7.6+darcs121130-4) ... Setting up autotools-dev (20180224.1) ... Setting up libuv1:arm64 (1.24.1-1) ... Setting up libfreetype6:arm64 (2.9.1-3) ... Setting up libx11-data (2:1.6.7-1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libpathplan4 (2.40.1-6) ... Setting up libsigsegv2:arm64 (2.12-2) ... Setting up libfribidi0:arm64 (1.0.5-3.1) ... Setting up autopoint (0.19.8.1-9) ... Setting up libwebp6:arm64 (0.6.1-2) ... Setting up fonts-dejavu-core (2.37-1) ... Setting up d-shlibs (0.84ubuntu2) ... Setting up ucf (3.0038+nmu1) ... Setting up libk5crypto3:arm64 (1.17-1) ... Setting up libjpeg-turbo8:arm64 (2.0.1-0ubuntu2) ... Setting up libltdl7:arm64 (2.4.6-10) ... Setting up libsasl2-2:arm64 (2.1.27+dfsg-1) ... Setting up libgfortran5:arm64 (9-20190420-1ubuntu1) ... Setting up libroken18-heimdal:arm64 (7.5.0+dfsg-2.1) ... Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-1ubuntu2) ... Setting up librhash0:arm64 (1.3.8-1) ... Setting up libuchardet0:arm64 (0.0.6-3) ... Setting up libharfbuzz0b:arm64 (2.3.1-1) ... Setting up libthai-data (0.1.28-2) ... Setting up cmake-data (3.13.4-1) ... Setting up libcdt5 (2.40.1-6) ... Setting up libkrb5-3:arm64 (1.17-1) ... Setting up libcgraph6 (2.40.1-6) ... Setting up libboost-dev:arm64 (1.67.0.1) ... Setting up libcppunit-dev (1.14.0-3) ... Setting up libbsd0:arm64 (0.9.1-2) ... Setting up libelf1:arm64 (0.176-1) ... Setting up libxml2:arm64 (2.9.4+dfsg1-7ubuntu3) ... Setting up libsz2:arm64 (1.0.2-1) ... Setting up libjsoncpp1:arm64 (1.7.4-3) ... Setting up libheimbase1-heimdal:arm64 (7.5.0+dfsg-2.1) ... Setting up libjpeg8:arm64 (8c-2ubuntu8) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libice6:arm64 (2:1.0.9-2) ... Setting up libjsoncpp-dev:arm64 (1.7.4-3) ... Setting up libjpeg-turbo8-dev:arm64 (2.0.1-0ubuntu2) ... Setting up libxdmcp6:arm64 (1:1.1.2-3) ... Setting up libxcb1:arm64 (1.13.1-2) ... Setting up libtool (2.4.6-10) ... Setting up libarchive13:arm64 (3.3.3-4) ... Setting up libxcb-render0:arm64 (1.13.1-2) ... Setting up fontconfig-config (2.13.1-2ubuntu2) ... Setting up libasn1-8-heimdal:arm64 (7.5.0+dfsg-2.1) ... Setting up libedit2:arm64 (3.1-20181209-1) ... Setting up libaec-dev:arm64 (1.0.2-1) ... Setting up m4 (1.4.18-2) ... Setting up libxcb-shm0:arm64 (1.13.1-2) ... Setting up libhcrypto4-heimdal:arm64 (7.5.0+dfsg-2.1) ... Setting up libthai0:arm64 (0.1.28-2) ... Setting up libwind0-heimdal:arm64 (7.5.0+dfsg-2.1) ... Setting up libhdf5-103:arm64 (1.10.4+repack-10) ... 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 libgssapi-krb5-2:arm64 (1.17-1) ... Setting up libcroco3:arm64 (0.6.12-3) ... Setting up libssh-4:arm64 (0.8.6-3) ... Setting up autoconf (2.69-11) ... Setting up libgvpr2 (2.40.1-6) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3) ... Setting up libllvm7:arm64 (1:7.0.1-8) ... Setting up libx11-6:arm64 (2:1.6.7-1) ... Setting up libtiff5:arm64 (4.0.10-4) ... Setting up libfontconfig1:arm64 (2.13.1-2ubuntu2) ... Setting up libclang1-7 (1:7.0.1-8) ... Setting up libjpeg8-dev:arm64 (8c-2ubuntu8) ... Setting up libsm6:arm64 (2:1.2.3-1) ... Setting up automake (1:1.16.1-4ubuntu3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up fontconfig (2.13.1-2ubuntu2) ... Regenerating fonts cache... done. Setting up gettext (0.19.8.1-9) ... Setting up libxpm4:arm64 (1:3.5.12-1) ... Setting up libxrender1:arm64 (1:0.9.10-1) ... Setting up libhx509-5-heimdal:arm64 (7.5.0+dfsg-2.1) ... Setting up libpango-1.0-0:arm64 (1.42.4-6) ... Setting up libhdf5-cpp-103:arm64 (1.10.4+repack-10) ... Setting up libjpeg-dev:arm64 (8c-2ubuntu8) ... Setting up libxext6:arm64 (2:1.3.3-1) ... Setting up man-db (2.8.5-2) ... 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 libcairo2:arm64 (1.16.0-4) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up doxygen (1.8.13-10ubuntu1) ... Setting up libhdf5-dev (1.10.4+repack-10) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/pkgconfig/hdf5-serial.pc to provide /usr/lib/aarch64-linux-gnu/pkgconfig/hdf5.pc (hdf5.pc) in auto mode Setting up libgd3:arm64 (2.2.5-5.1) ... Setting up libxt6:arm64 (1:1.1.5-1) ... Setting up libpangoft2-1.0-0:arm64 (1.42.4-6) ... Setting up libpangocairo-1.0-0:arm64 (1.42.4-6) ... Setting up libkrb5-26-heimdal:arm64 (7.5.0+dfsg-2.1) ... Setting up libxmu6:arm64 (2:1.1.2-2) ... Setting up po-debconf (1.0.21) ... Setting up libxaw7:arm64 (2:1.0.13-1) ... Setting up libheimntlm0-heimdal:arm64 (7.5.0+dfsg-2.1) ... Setting up libgssapi3-heimdal:arm64 (7.5.0+dfsg-2.1) ... Setting up libgvc6 (2.40.1-6) ... Setting up graphviz (2.40.1-6) ... Setting up libldap-2.4-2:arm64 (2.4.47+dfsg-3ubuntu2) ... Setting up libcurl4:arm64 (7.64.0-2ubuntu1) ... Setting up cmake (3.13.4-1) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Setting up debhelper (12.1.1ubuntu1) ... Setting up dh-autoreconf (19) ... Setting up sbuild-build-depends-gatb-core-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.29-0ubuntu2) ... Processing triggers for systemd (240-6ubuntu5) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-145-generic arm64 (aarch64) Toolchain package versions: binutils_2.32-7ubuntu4 dpkg-dev_1.19.6ubuntu1 g++-8_8.3.0-6ubuntu1 gcc-8_8.3.0-6ubuntu1 libc6-dev_2.29-0ubuntu2 libstdc++-8-dev_8.3.0-6ubuntu1 libstdc++6_9-20190420-1ubuntu1 linux-libc-dev_5.0.0-13.14 Package versions: adduser_3.118ubuntu1 advancecomp_2.1-2 apt_1.8.0 autoconf_2.69-11 automake_1:1.16.1-4ubuntu3 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.1ubuntu10 base-passwd_3.5.46 bash_5.0-3ubuntu1 binutils_2.32-7ubuntu4 binutils-aarch64-linux-gnu_2.32-7ubuntu4 binutils-common_2.32-7ubuntu4 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.33.1-0.1ubuntu2 build-essential_12.6ubuntu1 bzip2_1.0.6-9 ca-certificates_20190110 cmake_3.13.4-1 cmake-data_3.13.4-1 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libssl1.1_1.1.1b-1ubuntu2 libstdc++-8-dev_8.3.0-6ubuntu1 libstdc++6_9-20190420-1ubuntu1 libsystemd0_240-6ubuntu5 libsz2_1.0.2-1 libtasn1-6_4.13-3 libthai-data_0.1.28-2 libthai0_0.1.28-2 libtiff5_4.0.10-4 libtinfo6_6.1+20181013-2ubuntu2 libtool_2.4.6-10 libtsan0_9-20190420-1ubuntu1 libubsan1_9-20190420-1ubuntu1 libuchardet0_0.0.6-3 libudev1_240-6ubuntu5 libunistring2_0.9.10-1ubuntu2 libusb-0.1-4_2:0.1.12-32 libustr-1.0-1_1.0.4-6 libuuid1_2.33.1-0.1ubuntu2 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_1.4.10-1 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_5.0.0-13.14 lockfile-progs_0.1.18 login_1:4.5-1.1ubuntu2 lsb-base_10.2019031300ubuntu1 m4_1.4.18-2 make_4.2.1-1.2 man-db_2.8.5-2 mawk_1.3.3-17ubuntu3 mount_2.33.1-0.1ubuntu2 multiarch-support_2.29-0ubuntu2 ncurses-base_6.1+20181013-2ubuntu2 ncurses-bin_6.1+20181013-2ubuntu2 openssl_1.1.1b-1ubuntu2 optipng_0.7.7-1 passwd_1:4.5-1.1ubuntu2 patch_2.7.6-3 perl_5.28.1-6 perl-base_5.28.1-6 perl-modules-5.28_5.28.1-6 pinentry-curses_1.1.0-1build2 pkgbinarymangler_144 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 procps_2:3.3.15-2ubuntu2 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_240-6ubuntu5 systemd-sysv_240-6ubuntu5 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.88dsf-59.10ubuntu2 tar_1.30+dfsg-5 tzdata_2019a-1 ubuntu-keyring_2018.09.18.1 ucf_3.0038+nmu1 util-linux_2.33.1-0.1ubuntu2 x11-common_1:7.7+19ubuntu12 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-1ubuntu2 zlib1g-dev_1:1.2.11.dfsg-1ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- gpgv: Signature made Mon Mar 18 09:02:26 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+git20181225.44d5a44+dfsg-2.dsc dpkg-source: info: extracting gatb-core in gatb-core-1.4.1+git20181225.44d5a44+dfsg dpkg-source: info: unpacking gatb-core_1.4.1+git20181225.44d5a44+dfsg.orig.tar.xz dpkg-source: info: unpacking gatb-core_1.4.1+git20181225.44d5a44+dfsg-2.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-16664656 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-16664656 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-16664656 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+git20181225.44d5a44+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 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-arch dh build-arch --sourcedirectory=gatb-core dh_update_autotools_config -a -O--sourcedirectory=gatb-core dh_autoreconf -a -O--sourcedirectory=gatb-core dh_auto_configure -a -O--sourcedirectory=gatb-core cd obj-aarch64-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/aarch64-linux-gnu ../gatb-core -- The C compiler identification is GNU 8.3.0 -- The CXX compiler identification is GNU 8.3.0 -- Check for working C compiler: /usr/bin/cc -- Check for working C compiler: /usr/bin/cc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/c++ -- Check for working CXX compiler: /usr/bin/c++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- CppUnit: found headers (in /usr/include) but not the static library (/usr/include/../lib/libcppunit.a) -- CppUnit FOUND (/usr/include) -- Looking for sys/types.h -- Looking for sys/types.h - found -- Looking for stdint.h -- Looking for stdint.h - found -- Looking for stddef.h -- Looking for stddef.h - found -- Check size of __uint128 -- Check size of __uint128 - failed -- Check size of __uint128_t -- Check size of __uint128_t - done -- 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/aarch64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/aarch64-linux-gnu/libpthread.so;/usr/lib/aarch64-linux-gnu/libsz.so;/usr/lib/aarch64-linux-gnu/libz.so;/usr/lib/aarch64-linux-gnu/libdl.so;/usr/lib/aarch64-linux-gnu/libm.so (found version "1.10.4") -- HDF5_LIBRARIES="/usr/lib/aarch64-linux-gnu/hdf5/serial/libhdf5.so/usr/lib/aarch64-linux-gnu/libpthread.so/usr/lib/aarch64-linux-gnu/libsz.so/usr/lib/aarch64-linux-gnu/libz.so/usr/lib/aarch64-linux-gnu/libdl.so/usr/lib/aarch64-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/aarch64-linux-gnu/hdf5/serial/libhdf5.so;/usr/lib/aarch64-linux-gnu/libpthread.so;/usr/lib/aarch64-linux-gnu/libsz.so;/usr/lib/aarch64-linux-gnu/libz.so;/usr/lib/aarch64-linux-gnu/libdl.so;/usr/lib/aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu debian/rules override_dh_auto_build-arch make[1]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg' dh_auto_build -a cd obj-aarch64-linux-gnu && make -j4 "INSTALL=install --strip-program=true" make[2]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -S/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core -B/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/CMakeFiles /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/depend make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/depend make -f thirdparty/CMakeFiles/thirdparty_copy.dir/build.make thirdparty/CMakeFiles/thirdparty_copy.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/gatbcore-static.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/gatbcore-dynamic.dir/DependInfo.cmake --color= make[4]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty/CMakeFiles/thirdparty_copy.dir/DependInfo.cmake --color= Scanning dependencies of target thirdparty_copy make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/json cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty/BooPHF/BooPHF.h /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/ cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty/json/json.hpp /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/json/ make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 0%] Built target thirdparty_copy Scanning dependencies of target gatbcore-dynamic Scanning dependencies of target gatbcore-static make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/build make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make[4]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 2%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankAlbum.cpp.o [ 2%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/Bank.cpp.o [ 2%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankBinary.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankAlbum.cpp cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp [ 2%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/Bank.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In function ‘bool gatb::core::bank::impl::checkMagic(FILE*)’: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~ ~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/Bank.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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-static.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankConverterAlgorithm.cpp [ 2%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankFasta.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankFasta.cpp [ 3%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankAlbum.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankAlbum.cpp [ 4%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankHelpers.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankHelpers.cpp [ 4%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankRandom.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankRandom.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bank/impl/BankSplitter.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankSplitter.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bcalm_algo.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankBinary.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp [ 5%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/bglue_algo.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp [ 6%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/logging.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankBinary.cpp: In function ‘bool gatb::core::bank::impl::checkMagic(FILE*)’: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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 ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 6%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/bcalm2/ograph.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp [ 7%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 8%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankConverterAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 8%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Frontline.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp [ 8%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Graph.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp [ 9%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp:24: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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/bank/impl/BankFasta.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankFasta.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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-static.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp [ 10%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/LinkTigs.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/LinkTigs.cpp [ 10%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankHelpers.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankHelpers.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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-dynamic.dir/gatb/bank/impl/BankRandom.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankRandom.cpp [ 11%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Simplifications.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp [ 11%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Terminator.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp:24: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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-dynamic.dir/gatb/bank/impl/BankSplitter.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bank/impl/BankSplitter.cpp [ 12%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bcalm_algo.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp [ 13%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/debruijn/impl/Traversal.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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/UnitigsConstructionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp [ 13%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/bglue_algo.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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/kmer/impl/BloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/BloomBuilder.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomBuilder.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Configuration.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Configuration.cpp [ 14%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/logging.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/logging.cpp [ 15%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/ConfigurationAlgorithm.cpp [ 16%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/bcalm2/ograph.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp [ 16%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/DebloomAlgorithm.cpp [ 16%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/BranchingAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp [ 17%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp [ 17%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/LinearCounter.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/LinearCounter.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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/kmer/impl/MPHFAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp [ 18%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Frontline.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp [ 19%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/Model.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Frontline.cpp:24: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 19%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/ModelData.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/ModelData.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartiInfo.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/PartitionsCommand.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Graph.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp [ 20%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/RepartitionAlgorithm.cpp [ 21%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 21%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemCommon.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemCommon.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemLinux.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemLinux.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/FileSystemMacos.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemMacos.cpp [ 22%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/System.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/System.cpp [ 23%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/SystemInfoCommon.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/SystemInfoCommon.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 23%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadLinux.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/system/impl/ThreadMacos.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/ThreadMacos.cpp [ 25%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/collections/impl/Bloom.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.cpp /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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 ) ; ^~~ [ 25%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/DnaCoder.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp [ 26%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/HeaderCoder.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeNumeric()’: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta()’: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta2()’: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp: In member function ‘kmer_type DnaDecoder::extendAnchor(kmer_type, int, bool)’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:205:23: warning: array subscript 255 is above array bounds of ‘const int [5]’ [-Warray-bounds] return bin2ntTab[nt]; ~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:205:23: warning: array subscript 255 is above array bounds of ‘const int [5]’ [-Warray-bounds] return bin2ntTab[nt]; ~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp: In member function ‘void DnaDecoder::decodeAnchorRead()’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:205:23: warning: array subscript 255 is above array bounds of ‘const int [5]’ [-Warray-bounds] return bin2ntTab[nt]; ~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:205:23: warning: array subscript 255 is above array bounds of ‘const int [5]’ [-Warray-bounds] return bin2ntTab[nt]; ~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:205:23: warning: array subscript 255 is above array bounds of ‘const int [5]’ [-Warray-bounds] return bin2ntTab[nt]; ~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:205:23: warning: array subscript 255 is above array bounds of ‘const int [5]’ [-Warray-bounds] return bin2ntTab[nt]; ~~~~~~~~~~~~^ [ 26%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/Leon.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp [ 27%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/compression/RangeCoder.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/RangeCoder.cpp [ 27%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Command.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Command.cpp [ 27%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/designpattern/impl/Observer.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Observer.cpp [ 28%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/api/Data.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-static.dir/gatb/tools/misc/api/Data.cpp.o -c /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/api/Data.cpp [ 28%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Algorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.cpp [ 29%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Histogram.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Histogram.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:71, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 29%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/OptionsParser.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/OptionsParser.cpp [ 29%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Progress.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp [ 30%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Property.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp [ 30%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/TimeInfo.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/TimeInfo.cpp [ 31%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tokenizer.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Tokenizer.cpp [ 31%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/Tool.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Tool.cpp [ 31%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/misc/impl/XmlReader.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/XmlReader.cpp [ 32%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/Storage.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~~~~~~ [ 32%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/tools/storage/impl/StorageTools.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageTools.cpp [ 33%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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; ~~~~~^~~~~~~~~~~~~~~ [ 33%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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; ~~~~~^~~~~~~~~~~~~~~ [ 33%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp [ 34%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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; ~~~~~^~~~~~~~~~~~~~~ [ 34%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:3: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of ‘void gatb::core::debruijn::impl::graph3::debruijn() [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:31:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable ‘debug_index’ [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ [ 34%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/GraphUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of ‘void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 128]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable ‘first_index’ [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 35%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp [ 35%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp [ 36%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/IterativeExtensions.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:3: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of ‘void gatb::core::debruijn::impl::graph3::debruijn() [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:31:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable ‘debug_index’ [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/IterativeExtensions.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of ‘void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 32]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable ‘first_index’ [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:3: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of ‘void gatb::core::debruijn::impl::graph3::debruijn() [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:31:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable ‘debug_index’ [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ [ 36%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/LinkTigs.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/LinkTigs.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of ‘void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 64]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable ‘first_index’ [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 37%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Simplifications.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 37%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Terminator.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.cpp:24: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 37%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/Traversal.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 37%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:3: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of ‘void gatb::core::debruijn::impl::graph3::debruijn() [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:31:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable ‘debug_index’ [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of ‘void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 96]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable ‘first_index’ [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ [ 38%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/UnitigsConstructionAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 39%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp [ 39%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp [ 39%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:26: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); ^~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:25: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: 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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:26: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); ^~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:25: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: 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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/BloomBuilder.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomBuilder.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Configuration.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Configuration.cpp [ 40%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ConfigurationAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/ConfigurationAlgorithm.cpp [ 41%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/DebloomAlgorithm.cpp [ 41%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/DebloomMinimizerAlgorithm.cpp [ 42%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/LinearCounter.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/LinearCounter.cpp [ 42%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/MPHFAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 42%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/Model.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp [ 43%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/ModelData.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/ModelData.cpp [ 43%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartiInfo.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartiInfo.cpp [ 44%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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++) ~~^~~~~~~~~~~~~~~~~~~~~ [ 45%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/PartitionsCommand.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/PartitionsCommand.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:26: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); ^~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:25: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: 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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 45%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/RepartitionAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/RepartitionAlgorithm.cpp [ 45%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:26: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); ^~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:25: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: 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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~~~~~~ [ 45%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/kmer/impl/SortingCountAlgorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp [ 46%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemCommon.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemCommon.cpp [ 46%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemLinux.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemLinux.cpp [ 47%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/FileSystemMacos.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/FileSystemMacos.cpp [ 47%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/System.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/System.cpp [ 47%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/SystemInfoCommon.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/SystemInfoCommon.cpp [ 48%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadLinux.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/ThreadLinux.cpp /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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 ) ; ^~~ [ 48%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/system/impl/ThreadMacos.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/system/impl/ThreadMacos.cpp [ 50%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/collections/impl/Bloom.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.cpp [ 50%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/DnaCoder.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/DnaCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp: In member function ‘kmer_type DnaDecoder::extendAnchor(kmer_type, int, bool)’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:205:23: warning: array subscript 255 is above array bounds of ‘const int [5]’ [-Warray-bounds] return bin2ntTab[nt]; ~~~~~~~~~~~~^ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:205:23: warning: array subscript 255 is above array bounds of ‘const int [5]’ [-Warray-bounds] return bin2ntTab[nt]; ~~~~~~~~~~~~^ [ 51%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~~~~~~ [ 51%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/HeaderCoder.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeNumeric()’: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta()’: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp: In member function ‘void HeaderDecoder::decodeDelta2()’: /<>/gatb-core-1.4.1+git20181225.44d5a44+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); ^~~~~~ ~~~~~ [ 51%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.hpp:35, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/HeaderCoder.cpp:21: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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-dynamic.dir/gatb/tools/compression/Leon.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp [ 53%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:71, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:48, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/Bloom.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 53%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 53%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 54%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 54%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization4.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 55%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp [ 55%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 55%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/compression/RangeCoder.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/RangeCoder.cpp [ 56%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Command.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Command.cpp [ 56%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp [ 56%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/designpattern/impl/Observer.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/designpattern/impl/Observer.cpp [ 56%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/api/Data.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/api/Data.cpp.o -c /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/api/Data.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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-dynamic.dir/gatb/tools/misc/impl/Algorithm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 57%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Histogram.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Histogram.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 58%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/OptionsParser.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/OptionsParser.cpp [ 58%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Progress.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Progress.cpp [ 58%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Property.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Property.cpp [ 59%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/TimeInfo.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/TimeInfo.cpp [ 59%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/Tokenizer.cpp.o cd 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/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Tool.cpp [ 60%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/misc/impl/XmlReader.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/XmlReader.cpp [ 60%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/tools/storage/impl/Storage.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.cpp:22: /<>/gatb-core-1.4.1+git20181225.44d5a44+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-dynamic.dir/gatb/tools/storage/impl/StorageTools.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageTools.cpp [ 61%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_128.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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; ~~~~~^~~~~~~~~~~~~~~ [ 62%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_32.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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; ~~~~~^~~~~~~~~~~~~~~ [ 62%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_64.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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/TemplateSpecialization5.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp [ 63%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp [ 63%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization1.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization1.cpp.in_96.cpp:13:17: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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; ~~~~~^~~~~~~~~~~~~~~ [ 64%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 65%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp [ 65%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:3: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of ‘void gatb::core::debruijn::impl::graph3::debruijn() [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:31:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable ‘debug_index’ [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of ‘void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 128]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable ‘first_index’ [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 65%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 66%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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/TemplateSpecialization10.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:3: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of ‘void gatb::core::debruijn::impl::graph3::debruijn() [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:31:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable ‘debug_index’ [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of ‘void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 32]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable ‘first_index’ [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 67%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 68%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:3: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of ‘void gatb::core::debruijn::impl::graph3::debruijn() [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:31:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable ‘debug_index’ [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of ‘void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 64]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable ‘first_index’ [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 68%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 68%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 68%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization10.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:3: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp: In instantiation of ‘void gatb::core::debruijn::impl::graph3::debruijn() [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:31:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.cpp:236:10: warning: unused variable ‘debug_index’ [-Wunused-variable] uint debug_index = 0; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:8, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:765:60: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp: In instantiation of ‘void gatb::core::debruijn::impl::determine_order_sequences(std::vector >&, const std::vector >&, int, bool) [with int SPAN = 96]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:1106:48: 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:29:9: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bglue_algo.cpp:258:18: warning: unused variable ‘first_index’ [-Wunused-variable] uint32_t first_index = markedSequence_index; ^~~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.hpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:1, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/ograph.h:15, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/bcalm2/bcalm_algo.cpp:5, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization10.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 69%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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/TemplateSpecialization8.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 70%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp [ 70%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 128]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:26: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); ^~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:25: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: 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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 70%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_128.cpp [ 70%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_32.cpp [ 71%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_64.cpp [ 71%] Building CXX object src/CMakeFiles/gatbcore-static.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_96.cpp [ 72%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ [ 72%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 32]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:26: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); ^~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:25: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: 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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 64]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:26: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); ^~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:25: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: 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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 73%] Linking CXX static library ../lib/None/libgatbcore.a cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -P CMakeFiles/gatbcore-static.dir/cmake_clean_target.cmake cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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 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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 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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 /usr/bin/ranlib ../lib/None/libgatbcore.a make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 73%] 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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 73%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bank/TestBank.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestBank.cpp [ 75%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization2.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:14:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessor.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp: In instantiation of ‘void gatb::core::kmer::impl::CountProcessorHistogram::end() [with long unsigned int span = 96]’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:104:10: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:117:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=0; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:120:21: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int jj=0; jj<= _histogram->getLength2(); jj++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:122:26: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 3 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo2Dfile,"\t%6lli", _histogram->get2D(ii,jj)); ^~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:135:20: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] for(int ii=1; ii<= _histogram->getLength(); ii++) ~~^~~~~~~~~~~~~~~~~~~~~~~~~~ /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/CountProcessorHistogram.hpp:137:25: warning: format ‘%lli’ expects argument of type ‘long long int’, but argument 4 has type ‘u_int64_t’ {aka ‘long unsigned int’} [-Wformat=] fprintf(histo1Dfile,"%i\t%lli",ii,_histogram->get(ii)); ^~~~~~~~~~ In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1057:5: 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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:1048:8: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/LargeInt.hpp:42, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/Integer.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/misc/impl/Algorithm.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:31, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.cpp:24, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization2.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 76%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bank/TestLeon.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestLeon.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/compression/Leon.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestLeon.cpp:32: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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 test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bank/TestSequence.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c++11 -O3 -DNDEBUG -Wall -Wno-unused-function -Wno-unknown-pragmas -Wno-invalid-offsetof -o CMakeFiles/gatb-core-cppunit.dir/src/bank/TestSequence.cpp.o -c /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bank/TestSequence.cpp [ 77%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/bcalm/TestBcalm.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/bcalm/TestBcalm.cpp [ 77%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp [ 77%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp [ 77%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijn.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijn.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijn.cpp:33: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~~~~~~ [ 77%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijnUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijnUnitigs.cpp [ 78%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestDebruijnUnitigs.cpp:33: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~~~~~~ [ 78%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization3.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp [ 79%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:45, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/BloomAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization3.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_128.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 80%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplifications.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestSimplifications.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestSimplifications.cpp:33: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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/TemplateSpecialization4.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_32.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 80%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplificationsUnitigs.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestSimplificationsUnitigs.cpp [ 80%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization4.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/GraphUnitigs.hpp:27, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/debruijn/TestSimplificationsUnitigs.cpp:33: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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/TemplateSpecialization4.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_64.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:6: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization4.cpp.in_96.cpp:13:16: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.cpp:311:21: warning: unused variable ‘abundance’ [-Wunused-variable] Abundance_t abundance = (*_abundanceMap)[count.value]; ^~~~~~~~~ [ 81%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp [ 82%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDSK.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestDSK.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 83%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 83%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_128.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 83%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDebloom.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_32.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_64.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp:25: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/api/ICountProcessor.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/SortingCountAlgorithm.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestDebloom.cpp:25: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 83%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmer.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestKmer.cpp [ 84%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmerBank.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestKmerBank.cpp [ 84%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestMPHF.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestMPHF.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/kmer/TestMPHF.cpp:27: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 85%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/main.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/main.cpp [ 85%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/system/TestSystem.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/system/TestSystem.cpp [ 85%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestBag.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/collections/TestBag.cpp [ 86%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestCollection.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/collections/TestCollection.cpp [ 87%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization5.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp [ 87%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_128.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 87%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp [ 87%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestContainer.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/collections/TestContainer.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_32.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/BranchingAlgorithm.cpp:20, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization5.cpp.in_96.cpp:5: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 88%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestIterable.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/collections/TestIterable.cpp [ 88%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestMap.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/collections/TestMap.cpp [ 89%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/collections/TestMap.cpp:24: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_64.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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 src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization6.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Terminator.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.hpp:23, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Traversal.cpp:21, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization6.cpp.in_96.cpp:2: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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/tools/designpattern/TestIterators.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/designpattern/TestIterators.cpp [ 90%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/math/TestMath.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/math/TestMath.cpp [ 91%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 91%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/misc/TestMisc.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/misc/TestMisc.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 92%] Building CXX object test/unit/CMakeFiles/gatb-core-cppunit.dir/src/tools/storage/TestStorage.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp:23: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/test/unit/src/tools/storage/TestStorage.cpp:31: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/math/NativeInt64.hpp:48:7: note: ‘class gatb::core::tools::math::NativeInt64’ declared here class NativeInt64 ^~~~~~~~~~~ [ 92%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 92%] Linking CXX executable ../../bin/None/gatb-core-cppunit cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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/bank/TestSequence.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/bcalm/TestBcalm.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijn.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestDebruijnUnitigs.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplifications.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/debruijn/TestSimplificationsUnitigs.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDSK.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestDebloom.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmer.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestKmerBank.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/kmer/TestMPHF.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/main.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/system/TestSystem.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestBag.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestCollection.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestContainer.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestIterable.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/collections/TestMap.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/designpattern/TestIterators.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/math/TestMath.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/misc/TestMisc.cpp.o CMakeFiles/gatb-core-cppunit.dir/src/tools/storage/TestStorage.cpp.o -o ../../bin/None/gatb-core-cppunit -Wl,-rpath,/usr/lib/aarch64-linux-gnu/hdf5/serial: ../../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/aarch64-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm -lcppunit make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 92%] Built target gatb-core-cppunit make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools/CMakeFiles/dbgh5.dir/DependInfo.cmake --color= Scanning dependencies of target dbgh5 make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 93%] Building CXX object tools/CMakeFiles/dbgh5.dir/dbgh5.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/tools/dbgh5.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools/dbgh5.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+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+git20181225.44d5a44+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()); ~~~~~~~~~^~~~~~~~~~~~~~~~~~~ [ 93%] Linking CXX executable ../bin/None/dbgh5 cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/dbgh5.dir/dbgh5.cpp.o -o ../bin/None/dbgh5 -Wl,-rpath,/usr/lib/aarch64-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/aarch64-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 93%] Built target dbgh5 make -f tools/CMakeFiles/dbginfo.dir/build.make tools/CMakeFiles/dbginfo.dir/depend make[4]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools/CMakeFiles/dbginfo.dir/DependInfo.cmake --color= Scanning dependencies of target dbginfo make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/dbginfo.dir/build.make tools/CMakeFiles/dbginfo.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 94%] Building CXX object tools/CMakeFiles/dbginfo.dir/dbginfo.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/tools/dbginfo.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools/dbginfo.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools/CMakeFiles/leon.dir/DependInfo.cmake --color= Scanning dependencies of target leon make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/leon.dir/build.make tools/CMakeFiles/leon.dir/build make[4]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 94%] Building CXX object tools/CMakeFiles/leon.dir/leon.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools && /usr/bin/c++ -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/gatb-core/tools/leon.cpp [ 94%] Linking CXX executable ../bin/None/dbginfo cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/dbginfo.dir/dbginfo.cpp.o -o ../bin/None/dbginfo -Wl,-rpath,/usr/lib/aarch64-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/aarch64-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/gatb_core.hpp:78, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools/leon.cpp:20: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 95%] Linking CXX executable ../bin/None/leon cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/leon.dir/leon.cpp.o -o ../bin/None/leon -Wl,-rpath,/usr/lib/aarch64-linux-gnu/hdf5/serial: ../lib/None/libgatbcore.a -ldl -lpthread -lz /usr/lib/aarch64-linux-gnu/hdf5/serial/libhdf5.so -lpthread -lsz -lz -ldl -lm make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 95%] Built target dbginfo [ 95%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 95%] Built target leon [ 96%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization7.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/StorageHDF5.hpp:34, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.tpp:509, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/Storage.hpp:666, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/Model.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/storage/impl/CollectionHDF5Patch.hpp:335:25: required from here /<>/gatb-core-1.4.1+git20181225.44d5a44+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+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:37, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization7.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+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 ^~~~~ [ 96%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_128.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 97%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_32.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 97%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_64.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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=] [ 97%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp In file included from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/BooPHF.hpp:33, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/tools/collections/impl/MapMPHF.hpp:32, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/kmer/impl/MPHFAlgorithm.hpp:29, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Graph.hpp:43, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.hpp:25, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src/gatb/debruijn/impl/Simplifications.cpp:40, from /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization8.cpp.in_96.cpp:1: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/BooPHF.h: In member function ‘void boomphf::bitVector::print() const’: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-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 src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_128.cpp [ 98%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_32.cpp [100%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_64.cpp [100%] Building CXX object src/CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/c++ -Dgatbcore_dynamic_EXPORTS -I/usr/include/hdf5/serial -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src -I/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty -g -O2 -fdebug-prefix-map=/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/gatb/template/TemplateSpecialization9.cpp.in_96.cpp [100%] Linking CXX shared library ../lib/None/libgatbcore.so cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgatbcore.so.2 -o ../lib/None/libgatbcore.so.2 CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/Bank.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankAlbum.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankBinary.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankConverterAlgorithm.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankFasta.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankHelpers.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/bank/impl/BankRandom.cpp.o 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CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization8.cpp.in_96.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_128.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_32.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_64.cpp.o CMakeFiles/gatbcore-dynamic.dir/gatb/template/TemplateSpecialization9.cpp.in_96.cpp.o cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src && /usr/bin/cmake -E cmake_symlink_library ../lib/None/libgatbcore.so.2 ../lib/None/libgatbcore.so.2 ../lib/None/libgatbcore.so make[4]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [100%] Built target gatbcore-dynamic make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start 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/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty/CMakeFiles/thirdparty_copy.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/json cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty && /usr/bin/cmake -E make_directory /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF make[3]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/gatbcore-static.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/src /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/src/CMakeFiles/gatbcore-dynamic.dir/DependInfo.cmake --color= cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty/BooPHF/BooPHF.h /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/BooPHF/ cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/thirdparty && /usr/bin/cmake -E copy_if_different /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/thirdparty/json/json.hpp /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/include/None/json/ make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 0%] Built target thirdparty_copy make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/gatbcore-dynamic.dir/build.make src/CMakeFiles/gatbcore-dynamic.dir/build make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make -f src/CMakeFiles/gatbcore-static.dir/build.make src/CMakeFiles/gatbcore-static.dir/build make[3]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make[3]: Nothing to be done for 'src/CMakeFiles/gatbcore-dynamic.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make[3]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make[3]: Nothing to be done for 'src/CMakeFiles/gatbcore-static.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 42%] Built target gatbcore-dynamic [ 86%] 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directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools/CMakeFiles/dbginfo.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/tools /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/tools/CMakeFiles/leon.dir/DependInfo.cmake --color= make[3]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' cd /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/gatb-core/test/unit /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/test/unit/CMakeFiles/gatb-core-cppunit.dir/DependInfo.cmake --color= make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make -f tools/CMakeFiles/dbgh5.dir/build.make tools/CMakeFiles/dbgh5.dir/build make[3]: 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'tools/CMakeFiles/leon.dir/build'. make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [ 87%] Built target dbgh5 [ 88%] Built target dbginfo make[3]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make -f test/unit/CMakeFiles/gatb-core-cppunit.dir/build.make test/unit/CMakeFiles/gatb-core-cppunit.dir/build [ 89%] Built target leon make[3]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-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+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' [100%] Built target gatb-core-cppunit make[2]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu/CMakeFiles 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators4.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading4.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading1.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/ToyTool.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators3.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading2.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/optionsparser1.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading8.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators6.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading3.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators9.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators5.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading7.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading5.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators8.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/observer1.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators1.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators7.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/iterators2.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/optionsparser2.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/tools/multithreading6.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/README.md -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank17.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank16.cpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/share/doc/gatb-core/examples/bank/bank26.cpp -- Installing: 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/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IOptionsParser.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Macros.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Vector.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Abundance.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/IHistogram.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/api/Data.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Stringify.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Tokenizer.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/XmlReader.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/OptionsParser.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Histogram.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Pool.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Progress.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/LibraryInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/HostInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Tool.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/StringLine.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Algorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/Property.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/misc/impl/TimeInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt2.pri -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt64.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math/Integer.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt16.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt128.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt8.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math/NativeInt32.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math/LargeInt1.pri -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/tools/math/FastMinimizer.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/api -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/api/IBank.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/api/IAlphabet.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/api/Sequence.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankSplitter.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/AbstractBank.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankBinary.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankComposite.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankConverterAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankRandom.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/Banks.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/Bank.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankAlbum.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/Alphabet.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankHelpers.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankStrings.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bank/impl/BankFasta.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/api -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/api/ICountProcessor.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/api/IModel.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorDump.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/PartiInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Model.pri -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessor.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorHistogram.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/MPHFAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithm.pri -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BloomAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorCutoff.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorProxy.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Model.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorAbstract.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithmFactory.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BankKmers.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Sequence2SuperKmer.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorChain.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/CountProcessorSolidity.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/SortingCountAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/PartitionsCommand.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/Configuration.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BloomBuilder.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/RepartitionAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/LinearCounter.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/BankKmerIterator.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomMinimizerAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/DebloomAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/kmer/impl/ConfigurationAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/api -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/api/IContainerNode.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Terminator.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/LinkTigs.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/ExtremityInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Simplifications.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/BranchingAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Graph.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Frontline.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/rank_vector.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/ContainerNode.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/UnitigsConstructionAlgorithm.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/IterativeExtensions.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/NodesDeleter.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/GraphUnitigs.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/Traversal.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/debruijn/impl/dag_vector.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bcalm2 -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bcalm2/bglue_algo.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bcalm2/unionFind.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bcalm2/binSeq.h -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bcalm2/logging.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bcalm2/bcalm_algo.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bcalm2/ographBin.h -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bcalm2/ThreadPool.h -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/bcalm2/ograph.h -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/ITime.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/ISmartPointer.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/Exception.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/ISystemInfo.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/IThread.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/IFileSystem.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/types.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/IMemory.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/config_sha1.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/impl -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/impl/SystemInfoCommon.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/impl/ThreadLinux.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/impl/TimeCommon.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/impl/FileSystemMacos.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/impl/ThreadMacos.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/impl/FileSystemLinux.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/impl/FileSystemCommon.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/impl/System.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/impl/MemoryCommon.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/gatb_core.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/template -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/gatb/system/api/config.hpp -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test/gatb-core-cppunit -- Set runtime path of "/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test/gatb-core-cppunit" to "" -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/query.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/leon2.fastq.leon-ref -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/README.md -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/sample1.fa -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/sample.fastq -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/reads3.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/leon2.fastq -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/microsnp.fa -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/reads1.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/sample.fastq.gz -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/album.txt -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/sample2.fa -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/sample1.fa.gz -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/reads2.fa -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/celegans_reads.h5 -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/query.fa -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/reads1_list_ids.txt -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/leon1.fastq -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/leon1.fastq.leon-ref -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/test//db/reads1.fa -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/dbgh5 -- Set runtime path of "/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/dbgh5" to "" -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/dbginfo -- Set runtime path of "/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/dbginfo" to "" -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/leon -- Set runtime path of "/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/bin/leon" to "" -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/BooPHF -- Installing: /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/include/BooPHF/BooPHF.h make[1]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/obj-aarch64-linux-gnu' debian/rules override_dh_install-arch make[1]: Entering directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+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/aarch64-linux-gnu install -d -m 755 debian/libgatbcore2/usr/lib/aarch64-linux-gnu mv debian/tmp/usr/lib/aarch64-linux-gnu/libgatbcore.a debian/libgatbcore-dev/usr/lib/aarch64-linux-gnu mv debian/tmp/usr/lib/aarch64-linux-gnu/libgatbcore.so debian/libgatbcore-dev/usr/lib/aarch64-linux-gnu mv /<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg/debian/tmp/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 debian/libgatbcore2/usr/lib/aarch64-linux-gnu PKGDEV=libgatbcore-dev PKGSHL=libgatbcore2 install -d -m 755 debian/libgatbcore-dev/usr mv debian/tmp/usr/include debian/libgatbcore-dev/usr install -d -m 755 debian/libgatbcore-dev/usr/lib/aarch64-linux-gnu mv gatb-core/cmake debian/libgatbcore-dev/usr/lib/aarch64-linux-gnu mkdir -p debian/gatb-core/usr/lib/gatb-core dh_install -a make[1]: Leaving directory '/<>/gatb-core-1.4.1+git20181225.44d5a44+dfsg' dh_installdocs -a -O--sourcedirectory=gatb-core dh_installchangelogs -a -O--sourcedirectory=gatb-core dh_installexamples -a -O--sourcedirectory=gatb-core dh_installman -a -O--sourcedirectory=gatb-core dh_installinit -a -O--sourcedirectory=gatb-core dh_installsystemduser -a -O--sourcedirectory=gatb-core dh_perl -a -O--sourcedirectory=gatb-core dh_link -a -O--sourcedirectory=gatb-core dh_strip_nondeterminism -a -O--sourcedirectory=gatb-core dh_compress -a -O--sourcedirectory=gatb-core dh_fixperms -a -O--sourcedirectory=gatb-core dh_missing -a -O--sourcedirectory=gatb-core dh_dwz -a -O--sourcedirectory=gatb-core dh_strip -a -O--sourcedirectory=gatb-core dh_makeshlibs -a -O--sourcedirectory=gatb-core dh_shlibdeps -a -O--sourcedirectory=gatb-core dpkg-shlibdeps: warning: symbol gzread used by debian/libgatbcore2/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Tcreate used by debian/libgatbcore2/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5T_NATIVE_UINT64_g used by debian/libgatbcore2/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Pclose used by debian/libgatbcore2/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Aexists used by debian/libgatbcore2/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol pthread_attr_setstacksize used by debian/libgatbcore2/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol inflateEnd used by debian/libgatbcore2/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Gopen2 used by debian/libgatbcore2/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5check_version used by debian/libgatbcore2/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: symbol H5Sclose used by debian/libgatbcore2/usr/lib/aarch64-linux-gnu/libgatbcore.so.2 found in none of the libraries dpkg-shlibdeps: warning: 57 other similar warnings have been skipped (use -v to see them all) dh_installdeb -a -O--sourcedirectory=gatb-core dh_gencontrol -a -O--sourcedirectory=gatb-core dpkg-gencontrol: warning: Depends field of package libgatbcore-dev: substitution variable ${shlibs:Depends} used, but is not defined dh_md5sums -a -O--sourcedirectory=gatb-core dh_builddeb -a -O--sourcedirectory=gatb-core INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 pkgstriptranslations: processing libgatbcore-dev (in debian/libgatbcore-dev); do_strip: , oemstrip: pkgstriptranslations: processing libgatbcore2 (in debian/libgatbcore2); do_strip: , oemstrip: pkgstriptranslations: processing gatb-core (in debian/gatb-core); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libgatbcore-dev/DEBIAN/control, package libgatbcore-dev, directory debian/libgatbcore-dev INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/libgatbcore2/DEBIAN/control, package libgatbcore2, directory debian/libgatbcore2 INFO: pkgstripfiles: waiting for lock (libgatbcore2) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore2) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore2) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore2) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore2) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore2) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore2) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore2) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore2) ... INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... INFO: pkgstripfiles: waiting for lock (libgatbcore2) ... pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " INFO: pkgstripfiles: waiting for lock (libgatbcore-dev) ... pkgstripfiles: processing control file: debian/gatb-core/DEBIAN/control, package gatb-core, directory debian/gatb-core 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+git20181225.44d5a44+dfsg-2_arm64.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package libgatbcore2 ... pkgstripfiles: No PNG files. dpkg-deb: building package 'libgatbcore2' in '../libgatbcore2_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb'. Searching for duplicated docs in dependency libgatbcore2... symlinking changelog.Debian.gz in libgatbcore-dev to file in libgatbcore2 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+git20181225.44d5a44+dfsg-2_arm64.deb'. INFO: pkgstriptranslations version 144 pkgstriptranslations: processing libgatbcore2-dbgsym (in debian/.debhelper/libgatbcore2/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/libgatbcore2/dbgsym-root/DEBIAN/control, package libgatbcore2-dbgsym, directory debian/.debhelper/libgatbcore2/dbgsym-root dpkg-deb: building package 'libgatbcore2-dbgsym' in 'debian/.debhelper/scratch-space/build-libgatbcore2/libgatbcore2-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb'. INFO: pkgstriptranslations version 144 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+git20181225.44d5a44+dfsg-2_arm64.deb'. Renaming libgatbcore2-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb to libgatbcore2-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.ddeb Renaming gatb-core-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb to gatb-core-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.ddeb dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../gatb-core_1.4.1+git20181225.44d5a44+dfsg-2_arm64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 20190421-1251 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ gatb-core_1.4.1+git20181225.44d5a44+dfsg-2_arm64.changes: --------------------------------------------------------- Format: 1.8 Date: Mon, 18 Mar 2019 09:45:17 +0100 Source: gatb-core Binary: gatb-core libgatbcore-dev libgatbcore2 Architecture: arm64 Version: 1.4.1+git20181225.44d5a44+dfsg-2 Distribution: eoan-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: gatb-core - Genome Analysis Toolbox with de-Bruijn graph libgatbcore-dev - development library of the Genome Analysis Toolbox libgatbcore2 - dynamic library of the Genome Analysis Toolbox Closes: 924849 Changes: gatb-core (1.4.1+git20181225.44d5a44+dfsg-2) unstable; urgency=medium . * Rebuild for new version of gcc to fix symbols Closes: #924849 Checksums-Sha1: 7d7499f14ebe29ace7eac70235bcf1c1d32c3b5e 47752324 gatb-core-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.ddeb 1105b0d9e416d5aaee22ac2aed16630eff3bc274 9923 gatb-core_1.4.1+git20181225.44d5a44+dfsg-2_arm64.buildinfo 89749152737455c6ab86f1248f3f54e82de91ce7 1811724 gatb-core_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb e31bbf175ce03a75aa99800fd32876e377ff4ce7 3814740 libgatbcore-dev_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb 4fb5d12ae8735072a098e90a06c8afc094c67cd9 47083360 libgatbcore2-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.ddeb bdbb4161222a716cc740e16d57a590768ea1cf5c 1540584 libgatbcore2_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb Checksums-Sha256: 26ee9c734ff7d097f857f284c9156090860c7d5699372a28bff9498bbe506ec2 47752324 gatb-core-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.ddeb fd8c49b82e53221e614cbf0e48a0809b2c15885fe3a72cdd83d3d153589f3612 9923 gatb-core_1.4.1+git20181225.44d5a44+dfsg-2_arm64.buildinfo cf30c20010a562499f98523aed7a906e7930c310adc733998827fb362db80513 1811724 gatb-core_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb 3c8d15344cb3acfb68e24b1b38eee37cd21c5164b79e0eca32c991afd7676604 3814740 libgatbcore-dev_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb c5105cb4776b120f1d70d4aa1e2d0ded4f0e771e0a93c77a468b798286ab555a 47083360 libgatbcore2-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.ddeb 40b20f0fb3c58f7ad05b4524c36e7a7b58ffa7d1efe5202f9642ed503d0fbad8 1540584 libgatbcore2_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb Files: ef5b19a9bdc7ced7068d1c53992c052c 47752324 debug optional gatb-core-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.ddeb e9e89e6581e8b65ae92b23d0a7437c06 9923 science optional gatb-core_1.4.1+git20181225.44d5a44+dfsg-2_arm64.buildinfo 6ad3ae9f9a82da5c1eb46f95bf187f22 1811724 science optional gatb-core_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb 6a0a68fe10d6ba10117d1cb0faaf9a89 3814740 libdevel optional libgatbcore-dev_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb 54dc4fddf4ca3070655aa1f149e832ec 47083360 debug optional libgatbcore2-dbgsym_1.4.1+git20181225.44d5a44+dfsg-2_arm64.ddeb 1abdb2ddbe80172ba1ea007223aa0891 1540584 libs optional libgatbcore2_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ gatb-core_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb ---------------------------------------------------- new debian package, version 2.0. size 1811724 bytes: control archive=1228 bytes. 1118 bytes, 22 lines control 553 bytes, 9 lines md5sums Package: gatb-core Version: 1.4.1+git20181225.44d5a44+dfsg-2 Architecture: arm64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 14927 Depends: libc6 (>= 2.29), libgcc1 (>= 1:3.0), libhdf5-103, libstdc++6 (>= 5.2), zlib1g (>= 1:1.1.4) Section: science Priority: optional Homepage: https://github.com/GATB/gatb-core Description: Genome Analysis Toolbox with de-Bruijn graph The GATB-CORE project provides a set of highly efficient algorithms to analyse NGS data sets. These methods enable the analysis of data sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any kind of organisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). Read more about GATB at https://gatb.inria.fr/. By itself GATB-CORE is not an NGS data analysis tool. However, it can be used to create such tools. There already exist a set of ready-to-use tools relying on GATB-CORE library: see https://gatb.inria.fr/software/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/bin/ -rwxr-xr-x root/root 6646376 2019-03-18 08:45 ./usr/bin/dbgh5 -rwxr-xr-x root/root 6638168 2019-03-18 08:45 ./usr/bin/dbginfo -rwxr-xr-x root/root 1944040 2019-03-18 08:45 ./usr/bin/leon drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/lib/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/lib/gatb-core/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/share/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/share/doc/gatb-core/ -rw-r--r-- root/root 3802 2018-12-25 00:10 ./usr/share/doc/gatb-core/README.txt -rw-r--r-- root/root 658 2019-03-18 08:45 ./usr/share/doc/gatb-core/changelog.Debian.gz -rw-r--r-- root/root 34732 2019-03-18 08:45 ./usr/share/doc/gatb-core/copyright drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/share/man/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/share/man/man1/ -rw-r--r-- root/root 1391 2019-03-18 08:45 ./usr/share/man/man1/dbgh5.1.gz -rw-r--r-- root/root 300 2019-03-18 08:45 ./usr/share/man/man1/dbginfo.1.gz -rw-r--r-- root/root 652 2019-03-18 08:45 ./usr/share/man/man1/leon.1.gz libgatbcore-dev_1.4.1+git20181225.44d5a44+dfsg-2_arm64.deb ---------------------------------------------------------- new debian package, version 2.0. size 3814740 bytes: control archive=7880 bytes. 1201 bytes, 26 lines control 24063 bytes, 282 lines md5sums Package: libgatbcore-dev Source: gatb-core Version: 1.4.1+git20181225.44d5a44+dfsg-2 Architecture: arm64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 73813 Depends: libgatbcore2 (= 1.4.1+git20181225.44d5a44+dfsg-2) Section: libdevel Priority: optional Homepage: https://github.com/GATB/gatb-core Description: development library of the Genome Analysis Toolbox The GATB-CORE project provides a set of highly efficient algorithms to analyse NGS data sets. These methods enable the analysis of data sets of any size on multi-core desktop computers, including very huge amount of reads data coming from any kind of organisms such as bacteria, plants, animals and even complex samples (e.g. metagenomes). Read more about GATB at https://gatb.inria.fr/. By itself GATB-CORE is not an NGS data analysis tool. However, it can be used to create such tools. There already exist a set of ready-to-use tools relying on GATB-CORE library: see https://gatb.inria.fr/software/ . This package contains the static library and the header files of the gatb-core library. drwxr-xr-x root/root 0 2019-03-18 08:45 ./ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/include/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/include/BooPHF/ -rw-r--r-- root/root 33854 2019-03-18 08:45 ./usr/include/BooPHF/BooPHF.h drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/include/gatb/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/include/gatb/bank/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/include/gatb/bank/api/ -rw-r--r-- root/root 2480 2018-12-25 00:10 ./usr/include/gatb/bank/api/IAlphabet.hpp -rw-r--r-- root/root 7592 2018-12-25 00:10 ./usr/include/gatb/bank/api/IBank.hpp -rw-r--r-- root/root 11212 2018-12-25 00:10 ./usr/include/gatb/bank/api/Sequence.hpp drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/include/gatb/bank/impl/ -rw-r--r-- root/root 3647 2018-12-25 00:10 ./usr/include/gatb/bank/impl/AbstractBank.hpp -rw-r--r-- root/root 2453 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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 2019-03-18 08:45 ./ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/lib/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/lib/aarch64-linux-gnu/ -rw-r--r-- root/root 9586992 2019-03-18 08:45 ./usr/lib/aarch64-linux-gnu/libgatbcore.so.2 drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/share/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/share/doc/ drwxr-xr-x root/root 0 2019-03-18 08:45 ./usr/share/doc/libgatbcore2/ -rw-r--r-- root/root 658 2019-03-18 08:45 ./usr/share/doc/libgatbcore2/changelog.Debian.gz -rw-r--r-- root/root 34732 2019-03-18 08:45 ./usr/share/doc/libgatbcore2/copyright +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build-Space: 3711604 Build-Time: 2152 Distribution: eoan-proposed Host Architecture: arm64 Install-Time: 40 Job: gatb-core_1.4.1+git20181225.44d5a44+dfsg-2.dsc Machine Architecture: arm64 Package: gatb-core Package-Time: 2194 Source-Version: 1.4.1+git20181225.44d5a44+dfsg-2 Space: 3711604 Status: successful Version: 1.4.1+git20181225.44d5a44+dfsg-2 -------------------------------------------------------------------------------- Finished at 20190421-1251 Build needed 00:36:34, 3711604k disc space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=eoan --arch=arm64 PACKAGEBUILD-16664656 Scanning for processes to kill in build PACKAGEBUILD-16664656