https://launchpad.net/ubuntu/+source/crac/2.5.2+dfsg-2/+build/17324696 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux bos02-arm64-036 4.4.0-157-generic #185-Ubuntu SMP Tue Jul 23 09:17:28 UTC 2019 aarch64 Buildd toolchain package versions: launchpad-buildd_176 python-lpbuildd_176 sbuild_0.67.0-2ubuntu7.1 bzr-builder_0.7.3+bzr174~ppa13~ubuntu14.10.1 bzr_2.7.0-2ubuntu3.1 git-build-recipe_0.3.6~git201906051340.ff11471~ubuntu16.04.1 git_1:2.7.4-0ubuntu1.6 dpkg-dev_1.18.4ubuntu1.5 python-debian_0.1.27ubuntu2. Syncing the system clock with the buildd NTP service... 27 Jul 05:14:33 ntpdate[1906]: adjust time server 10.211.37.1 offset -0.014077 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=eoan --arch=arm64 PACKAGEBUILD-17324696 --image-type chroot /home/buildd/filecache-default/12198815be27835f4527655ec2ee7fabeb41ea11 Creating target for build PACKAGEBUILD-17324696 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=eoan --arch=arm64 PACKAGEBUILD-17324696 Starting target for build PACKAGEBUILD-17324696 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=eoan --arch=arm64 PACKAGEBUILD-17324696 '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-17324696 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=eoan --arch=arm64 PACKAGEBUILD-17324696 Updating target for build PACKAGEBUILD-17324696 Get:1 http://ftpmaster.internal/ubuntu eoan InRelease [255 kB] Get:2 http://ftpmaster.internal/ubuntu eoan-security InRelease [79.7 kB] Get:3 http://ftpmaster.internal/ubuntu eoan-updates InRelease [79.7 kB] Get:4 http://ftpmaster.internal/ubuntu eoan-proposed InRelease [107 kB] Get:5 http://ftpmaster.internal/ubuntu eoan/main arm64 Packages [933 kB] Get:6 http://ftpmaster.internal/ubuntu eoan/main Translation-en [502 kB] Get:7 http://ftpmaster.internal/ubuntu eoan/universe arm64 Packages [8822 kB] Get:8 http://ftpmaster.internal/ubuntu eoan/universe Translation-en [5296 kB] Get:9 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 Packages [51.9 kB] Get:10 http://ftpmaster.internal/ubuntu eoan-proposed/main Translation-en [36.8 kB] Get:11 http://ftpmaster.internal/ubuntu eoan-proposed/universe arm64 Packages [258 kB] Get:12 http://ftpmaster.internal/ubuntu eoan-proposed/universe Translation-en [219 kB] Fetched 16.6 MB in 6s (2677 kB/s) Reading package lists... Reading package lists... Building dependency tree... Reading state information... Calculating upgrade... The following packages were automatically installed and are no longer required: g++-8 libapt-pkg5.0 libidn11 libisl19 libjson-c3 libreadline7 libstdc++-8-dev Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: cpp-9 g++-9 gcc-9 gcc-9-base libapt-pkg5.90 libgcc-9-dev libisl21 libjson-c4 libpcre2-8-0 libreadline8 libstdc++-9-dev The following packages will be upgraded: adduser advancecomp apt base-files base-passwd bash binutils binutils-aarch64-linux-gnu binutils-common bsdutils build-essential bzip2 ca-certificates coreutils cpp cpp-8 dash debconf debianutils diffutils dmsetup 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 libargon2-1 libasan5 libassuan0 libatomic1 libattr1 libaudit-common libaudit1 libbinutils libblkid1 libbz2-1.0 libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcap2 libcc1-0 libcom-err2 libcomerr2 libcryptsetup12 libdb5.3 libdebconfclient0 libdevmapper1.02.1 libdpkg-perl libext2fs2 libfdisk1 libgcc-8-dev libgcc1 libgcrypt20 libgdbm-compat4 libgdbm6 libgnutls30 libgomp1 libgpg-error0 libhogweed4 libidn11 libidn2-0 libitm1 libkmod2 liblockfile-bin liblockfile1 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 libseccomp2 libselinux1 libsemanage-common libsemanage1 libsepol1 libslang2 libsmartcols1 libsqlite3-0 libss2 libssl1.1 libstdc++-8-dev libstdc++6 libsystemd0 libtasn1-6 libtinfo6 libtsan0 libubsan1 libudev1 libunistring2 libuuid1 libzstd1 linux-libc-dev login lsb-base mount multiarch-support ncurses-base ncurses-bin openssl optipng passwd patch perl perl-base perl-modules-5.28 pinentry-curses pkgbinarymangler procps readline-common sed systemd systemd-sysv sysvinit-utils tar tzdata util-linux xz-utils zlib1g 148 upgraded, 11 newly installed, 0 to remove and 0 not upgraded. Need to get 99.7 MB of archives. After this operation, 107 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu eoan/main arm64 libc6-dev arm64 2.29-0ubuntu3 [2082 kB] Get:2 http://ftpmaster.internal/ubuntu eoan/main arm64 libc-dev-bin arm64 2.29-0ubuntu3 [62.5 kB] Get:3 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 linux-libc-dev arm64 5.2.0-9.10 [1042 kB] Get:4 http://ftpmaster.internal/ubuntu eoan/main arm64 libc6 arm64 2.29-0ubuntu3 [2259 kB] Get:5 http://ftpmaster.internal/ubuntu eoan/main arm64 libc-bin arm64 2.29-0ubuntu3 [493 kB] Get:6 http://ftpmaster.internal/ubuntu eoan/main arm64 gcc-9-base arm64 9.1.0-9ubuntu2 [17.7 kB] Get:7 http://ftpmaster.internal/ubuntu eoan/main arm64 libgcc1 arm64 1:9.1.0-9ubuntu2 [34.2 kB] Get:8 http://ftpmaster.internal/ubuntu eoan/main arm64 base-files arm64 10.2ubuntu4 [60.4 kB] Get:9 http://ftpmaster.internal/ubuntu eoan/main arm64 debianutils arm64 4.8.6.3 [85.4 kB] Get:10 http://ftpmaster.internal/ubuntu eoan/main arm64 bash arm64 5.0-4ubuntu1 [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 8.30-3ubuntu1 [1173 kB] Get:13 http://ftpmaster.internal/ubuntu eoan/main arm64 lsb-base all 10.2019051400ubuntu1 [12.4 kB] Get:14 http://ftpmaster.internal/ubuntu eoan/main arm64 tar arm64 1.30+dfsg-6 [231 kB] Get:15 http://ftpmaster.internal/ubuntu eoan/main arm64 dpkg arm64 1.19.7ubuntu1 [1115 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 bzip2 arm64 1.0.6-9.2 [33.0 kB] Get:21 http://ftpmaster.internal/ubuntu eoan/main arm64 libbz2-1.0 arm64 1.0.6-9.2 [32.9 kB] Get:22 http://ftpmaster.internal/ubuntu eoan/main arm64 libdb5.3 arm64 5.3.28+dfsg1-0.6ubuntu1 [617 kB] Get:23 http://ftpmaster.internal/ubuntu eoan/main arm64 libgdbm6 arm64 1.18.1-4 [26.4 kB] Get:24 http://ftpmaster.internal/ubuntu eoan/main arm64 libgdbm-compat4 arm64 1.18.1-4 [6024 B] Get:25 http://ftpmaster.internal/ubuntu eoan/main arm64 zlib1g arm64 1:1.2.11.dfsg-1ubuntu2 [51.6 kB] Get:26 http://ftpmaster.internal/ubuntu eoan/main arm64 debconf all 1.5.72 [122 kB] Get:27 http://ftpmaster.internal/ubuntu eoan/main arm64 dash arm64 0.5.10.2-6 [84.0 kB] Get:28 http://ftpmaster.internal/ubuntu eoan/main arm64 diffutils arm64 1:3.7-3 [191 kB] Get:29 http://ftpmaster.internal/ubuntu eoan/main arm64 findutils arm64 4.6.0+git+20190209-2ubuntu1 [319 kB] Get:30 http://ftpmaster.internal/ubuntu eoan/main arm64 grep arm64 3.3-1 [143 kB] Get:31 http://ftpmaster.internal/ubuntu eoan/main arm64 gzip arm64 1.10-0ubuntu1 [92.2 kB] Get:32 http://ftpmaster.internal/ubuntu eoan/main arm64 libsmartcols1 arm64 2.33.1-0.1ubuntu2 [86.7 kB] Get:33 http://ftpmaster.internal/ubuntu eoan/main arm64 libuuid1 arm64 2.33.1-0.1ubuntu2 [20.5 kB] Get:34 http://ftpmaster.internal/ubuntu eoan/main arm64 libblkid1 arm64 2.33.1-0.1ubuntu2 [126 kB] Get:35 http://ftpmaster.internal/ubuntu eoan/main arm64 libfdisk1 arm64 2.33.1-0.1ubuntu2 [160 kB] Get:36 http://ftpmaster.internal/ubuntu eoan/main arm64 libpcre2-8-0 arm64 10.32-5 [154 kB] Get:37 http://ftpmaster.internal/ubuntu eoan/main arm64 libselinux1 arm64 2.9-2 [65.8 kB] Get:38 http://ftpmaster.internal/ubuntu eoan/main arm64 libmount1 arm64 2.33.1-0.1ubuntu2 [138 kB] Get:39 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libncurses6 arm64 6.1+20190713-1ubuntu2 [91.9 kB] Get:40 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libtinfo6 arm64 6.1+20190713-1ubuntu2 [80.6 kB] Get:41 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libncursesw6 arm64 6.1+20190713-1ubuntu2 [120 kB] Get:42 http://ftpmaster.internal/ubuntu eoan/main arm64 fdisk arm64 2.33.1-0.1ubuntu2 [113 kB] Get:43 http://ftpmaster.internal/ubuntu eoan/main arm64 login arm64 1:4.5-1.1ubuntu2 [262 kB] Get:44 http://ftpmaster.internal/ubuntu eoan/main arm64 util-linux arm64 2.33.1-0.1ubuntu2 [962 kB] Get:45 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 ncurses-bin arm64 6.1+20190713-1ubuntu2 [162 kB] Get:46 http://ftpmaster.internal/ubuntu eoan/main arm64 sed arm64 4.7-1 [186 kB] Get:47 http://ftpmaster.internal/ubuntu eoan/main arm64 libdebconfclient0 arm64 0.249ubuntu1 [6376 B] Get:48 http://ftpmaster.internal/ubuntu eoan/main arm64 base-passwd arm64 3.5.46 [47.0 kB] Get:49 http://ftpmaster.internal/ubuntu eoan/main arm64 init-system-helpers all 1.57 [38.3 kB] Get:50 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 ncurses-base all 6.1+20190713-1ubuntu2 [18.1 kB] Get:51 http://ftpmaster.internal/ubuntu eoan/main arm64 sysvinit-utils arm64 2.95-2ubuntu1 [19.9 kB] Get:52 http://ftpmaster.internal/ubuntu eoan/main arm64 liblz4-1 arm64 1.9.1-1 [49.8 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 9.1.0-9ubuntu2 [466 kB] Get:55 http://ftpmaster.internal/ubuntu eoan/main arm64 libnettle6 arm64 3.4.1-1 [122 kB] Get:56 http://ftpmaster.internal/ubuntu eoan/main arm64 libhogweed4 arm64 3.4.1-1 [137 kB] Get:57 http://ftpmaster.internal/ubuntu eoan/main arm64 libunistring2 arm64 0.9.10-2 [358 kB] Get:58 http://ftpmaster.internal/ubuntu eoan/main arm64 libidn2-0 arm64 2.2.0-1 [49.3 kB] Get:59 http://ftpmaster.internal/ubuntu eoan/main arm64 libp11-kit0 arm64 0.23.15-2 [173 kB] Get:60 http://ftpmaster.internal/ubuntu eoan/main arm64 libtasn1-6 arm64 4.13-4 [35.4 kB] Get:61 http://ftpmaster.internal/ubuntu eoan/main arm64 libgnutls30 arm64 3.6.8-2 [714 kB] Get:62 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 systemd-sysv arm64 242-2ubuntu1 [9360 B] Get:63 http://ftpmaster.internal/ubuntu eoan/main arm64 libacl1 arm64 2.2.53-4 [17.5 kB] Get:64 http://ftpmaster.internal/ubuntu eoan/main arm64 libapparmor1 arm64 2.13.2-9ubuntu7 [33.7 kB] Get:65 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libaudit-common all 1:2.8.5-1ubuntu1 [4260 B] Get:66 http://ftpmaster.internal/ubuntu eoan/main arm64 libcap-ng0 arm64 0.7.9-2 [10.5 kB] Get:67 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libaudit1 arm64 1:2.8.5-1ubuntu1 [38.6 kB] Get:68 http://ftpmaster.internal/ubuntu eoan/main arm64 libcap2 arm64 1:2.25-2 [13.3 kB] Get:69 http://ftpmaster.internal/ubuntu eoan/main arm64 libjson-c4 arm64 0.13.1+dfsg-2 [27.9 kB] Get:70 http://ftpmaster.internal/ubuntu eoan/main arm64 libargon2-1 arm64 0~20171227-0.2 [18.4 kB] Get:71 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libudev1 arm64 242-2ubuntu1 [72.6 kB] Get:72 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libdevmapper1.02.1 arm64 2:1.02.155-2ubuntu5 [110 kB] Get:73 http://ftpmaster.internal/ubuntu eoan/main arm64 libssl1.1 arm64 1.1.1c-1ubuntu3 [1155 kB] Get:74 http://ftpmaster.internal/ubuntu eoan/main arm64 libcryptsetup12 arm64 2:2.1.0-5ubuntu2 [136 kB] Get:75 http://ftpmaster.internal/ubuntu eoan/main arm64 libgpg-error0 arm64 1.36-7 [54.8 kB] Get:76 http://ftpmaster.internal/ubuntu eoan/main arm64 libkmod2 arm64 26-1ubuntu1 [39.6 kB] Get:77 http://ftpmaster.internal/ubuntu eoan/main arm64 libpam0g arm64 1.3.1-5ubuntu1 [54.9 kB] Get:78 http://ftpmaster.internal/ubuntu eoan/main arm64 libseccomp2 arm64 2.4.1-0ubuntu0.19.10.3 [39.9 kB] Get:79 http://ftpmaster.internal/ubuntu eoan/main arm64 mount arm64 2.33.1-0.1ubuntu2 [110 kB] Get:80 http://ftpmaster.internal/ubuntu eoan/main arm64 libsepol1 arm64 2.9-2 [232 kB] Get:81 http://ftpmaster.internal/ubuntu eoan/main arm64 libsemanage-common all 2.9-3 [9760 B] Get:82 http://ftpmaster.internal/ubuntu eoan/main arm64 libsemanage1 arm64 2.9-3 [79.4 kB] Get:83 http://ftpmaster.internal/ubuntu eoan/main arm64 libpam-modules-bin arm64 1.3.1-5ubuntu1 [36.7 kB] Get:84 http://ftpmaster.internal/ubuntu eoan/main arm64 libpam-modules arm64 1.3.1-5ubuntu1 [242 kB] Get:85 http://ftpmaster.internal/ubuntu eoan/main arm64 passwd arm64 1:4.5-1.1ubuntu2 [791 kB] Get:86 http://ftpmaster.internal/ubuntu eoan/main arm64 adduser all 3.118ubuntu1 [163 kB] Get:87 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 systemd arm64 242-2ubuntu1 [3165 kB] Get:88 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libsystemd0 arm64 242-2ubuntu1 [242 kB] Get:89 http://ftpmaster.internal/ubuntu eoan/main arm64 libzstd1 arm64 1.3.8+dfsg-3 [204 kB] Get:90 http://ftpmaster.internal/ubuntu eoan/main arm64 libapt-pkg5.90 arm64 1.9.1 [755 kB] Get:91 http://ftpmaster.internal/ubuntu eoan/main arm64 libgcrypt20 arm64 1.8.4-5ubuntu1 [351 kB] Get:92 http://ftpmaster.internal/ubuntu eoan/main arm64 gpgv arm64 2.2.12-1ubuntu3 [182 kB] Get:93 http://ftpmaster.internal/ubuntu eoan/main arm64 apt arm64 1.9.1 [1228 kB] Get:94 http://ftpmaster.internal/ubuntu eoan/main arm64 libext2fs2 arm64 1.45.2-1ubuntu1 [177 kB] Get:95 http://ftpmaster.internal/ubuntu eoan/main arm64 e2fsprogs arm64 1.45.2-1ubuntu1 [509 kB] Get:96 http://ftpmaster.internal/ubuntu eoan/main arm64 init arm64 1.57 [6084 B] Get:97 http://ftpmaster.internal/ubuntu eoan/main arm64 libattr1 arm64 1:2.4.48-4 [12.5 kB] Get:98 http://ftpmaster.internal/ubuntu eoan/main arm64 libpam-runtime all 1.3.1-5ubuntu1 [37.3 kB] Get:99 http://ftpmaster.internal/ubuntu eoan/main arm64 libpcre3 arm64 2:8.39-12 [207 kB] Get:100 http://ftpmaster.internal/ubuntu eoan/main arm64 libcom-err2 arm64 1.45.2-1ubuntu1 [9724 B] Get:101 http://ftpmaster.internal/ubuntu eoan/main arm64 libprocps7 arm64 2:3.3.15-2ubuntu2 [31.8 kB] Get:102 http://ftpmaster.internal/ubuntu eoan/main arm64 libss2 arm64 1.45.2-1ubuntu1 [10.7 kB] Get:103 http://ftpmaster.internal/ubuntu eoan/main arm64 procps arm64 2:3.3.15-2ubuntu2 [228 kB] Get:104 http://ftpmaster.internal/ubuntu eoan/main arm64 openssl arm64 1.1.1c-1ubuntu3 [599 kB] Get:105 http://ftpmaster.internal/ubuntu eoan/main arm64 ca-certificates all 20190110 [146 kB] Get:106 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 dmsetup arm64 2:1.02.155-2ubuntu5 [68.3 kB] Get:107 http://ftpmaster.internal/ubuntu eoan/main arm64 libidn11 arm64 1.33-2.2ubuntu2 [45.3 kB] Get:108 http://ftpmaster.internal/ubuntu eoan/main arm64 readline-common all 8.0-2 [53.4 kB] Get:109 http://ftpmaster.internal/ubuntu eoan/main arm64 libreadline8 arm64 8.0-2 [123 kB] Get:110 http://ftpmaster.internal/ubuntu eoan/main arm64 libslang2 arm64 2.3.2-4 [394 kB] Get:111 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libsqlite3-0 arm64 3.29.0-1 [493 kB] Get:112 http://ftpmaster.internal/ubuntu eoan/main arm64 tzdata all 2019b-1 [187 kB] Get:113 http://ftpmaster.internal/ubuntu eoan/main arm64 xz-utils arm64 5.2.4-1 [81.5 kB] Get:114 http://ftpmaster.internal/ubuntu eoan/main arm64 libpng16-16 arm64 1.6.37-1 [173 kB] Get:115 http://ftpmaster.internal/ubuntu eoan/main arm64 multiarch-support arm64 2.29-0ubuntu3 [6924 B] Get:116 http://ftpmaster.internal/ubuntu eoan/main arm64 advancecomp arm64 2.1-2.1 [181 kB] Get:117 http://ftpmaster.internal/ubuntu eoan/main arm64 binutils-aarch64-linux-gnu arm64 2.32.51.20190702-1ubuntu1 [2234 kB] Get:118 http://ftpmaster.internal/ubuntu eoan/main arm64 libbinutils arm64 2.32.51.20190702-1ubuntu1 [471 kB] Get:119 http://ftpmaster.internal/ubuntu eoan/main arm64 binutils arm64 2.32.51.20190702-1ubuntu1 [3368 B] Get:120 http://ftpmaster.internal/ubuntu eoan/main arm64 binutils-common arm64 2.32.51.20190702-1ubuntu1 [202 kB] Get:121 http://ftpmaster.internal/ubuntu eoan/main arm64 libisl21 arm64 0.21-1 [525 kB] Get:122 http://ftpmaster.internal/ubuntu eoan/main arm64 libmpfr6 arm64 4.0.2-1 [212 kB] Get:123 http://ftpmaster.internal/ubuntu eoan/main arm64 cpp-9 arm64 9.1.0-9ubuntu2 [8367 kB] Get:124 http://ftpmaster.internal/ubuntu eoan/main arm64 g++ arm64 4:9.1.0-1ubuntu4 [1588 B] Get:125 http://ftpmaster.internal/ubuntu eoan/main arm64 gcc arm64 4:9.1.0-1ubuntu4 [5228 B] Get:126 http://ftpmaster.internal/ubuntu eoan/main arm64 cpp arm64 4:9.1.0-1ubuntu4 [27.6 kB] Get:127 http://ftpmaster.internal/ubuntu eoan/main arm64 libcc1-0 arm64 9.1.0-9ubuntu2 [46.5 kB] Get:128 http://ftpmaster.internal/ubuntu eoan/main arm64 libgomp1 arm64 9.1.0-9ubuntu2 [80.5 kB] Get:129 http://ftpmaster.internal/ubuntu eoan/main arm64 libitm1 arm64 9.1.0-9ubuntu2 [25.1 kB] Get:130 http://ftpmaster.internal/ubuntu eoan/main arm64 libatomic1 arm64 9.1.0-9ubuntu2 [9168 B] Get:131 http://ftpmaster.internal/ubuntu eoan/main arm64 libasan5 arm64 9.1.0-9ubuntu2 [364 kB] Get:132 http://ftpmaster.internal/ubuntu eoan/main arm64 liblsan0 arm64 9.1.0-9ubuntu2 [126 kB] Get:133 http://ftpmaster.internal/ubuntu eoan/main arm64 libtsan0 arm64 9.1.0-9ubuntu2 [283 kB] Get:134 http://ftpmaster.internal/ubuntu eoan/main arm64 libubsan1 arm64 9.1.0-9ubuntu2 [121 kB] Get:135 http://ftpmaster.internal/ubuntu eoan/main arm64 libgcc-9-dev arm64 9.1.0-9ubuntu2 [905 kB] Get:136 http://ftpmaster.internal/ubuntu eoan/main arm64 gcc-9 arm64 9.1.0-9ubuntu2 [8968 kB] Get:137 http://ftpmaster.internal/ubuntu eoan/main arm64 libstdc++-9-dev arm64 9.1.0-9ubuntu2 [1649 kB] Get:138 http://ftpmaster.internal/ubuntu eoan/main arm64 g++-9 arm64 9.1.0-9ubuntu2 [9568 kB] Get:139 http://ftpmaster.internal/ubuntu eoan/main arm64 dpkg-dev all 1.19.7ubuntu1 [679 kB] Get:140 http://ftpmaster.internal/ubuntu eoan/main arm64 libdpkg-perl all 1.19.7ubuntu1 [230 kB] Get:141 http://ftpmaster.internal/ubuntu eoan/main arm64 patch arm64 2.7.6-5 [98.0 kB] Get:142 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 build-essential arm64 12.6ubuntu2 [4680 B] Get:143 http://ftpmaster.internal/ubuntu eoan/universe arm64 g++-8 arm64 8.3.0-19ubuntu1 [8314 kB] Get:144 http://ftpmaster.internal/ubuntu eoan/universe arm64 gcc-8 arm64 8.3.0-19ubuntu1 [7959 kB] Get:145 http://ftpmaster.internal/ubuntu eoan/universe arm64 libstdc++-8-dev arm64 8.3.0-19ubuntu1 [1511 kB] Get:146 http://ftpmaster.internal/ubuntu eoan/universe arm64 libgcc-8-dev arm64 8.3.0-19ubuntu1 [859 kB] Get:147 http://ftpmaster.internal/ubuntu eoan/universe arm64 cpp-8 arm64 8.3.0-19ubuntu1 [7223 kB] Get:148 http://ftpmaster.internal/ubuntu eoan/universe arm64 gcc-8-base arm64 8.3.0-19ubuntu1 [18.6 kB] Get:149 http://ftpmaster.internal/ubuntu eoan/main arm64 e2fslibs arm64 1.45.2-1ubuntu1 [2716 B] Get:150 http://ftpmaster.internal/ubuntu eoan/main arm64 libassuan0 arm64 2.5.3-7ubuntu1 [33.0 kB] Get:151 http://ftpmaster.internal/ubuntu eoan/main arm64 pinentry-curses arm64 1.1.0-2 [34.3 kB] Get:152 http://ftpmaster.internal/ubuntu eoan/main arm64 gpg arm64 2.2.12-1ubuntu3 [437 kB] Get:153 http://ftpmaster.internal/ubuntu eoan/main arm64 gpgconf arm64 2.2.12-1ubuntu3 [116 kB] Get:154 http://ftpmaster.internal/ubuntu eoan/main arm64 gpg-agent arm64 2.2.12-1ubuntu3 [213 kB] Get:155 http://ftpmaster.internal/ubuntu eoan/main arm64 libcomerr2 arm64 1.45.2-1ubuntu1 [2704 B] Get:156 http://ftpmaster.internal/ubuntu eoan/main arm64 liblockfile-bin arm64 1.15-1 [11.7 kB] Get:157 http://ftpmaster.internal/ubuntu eoan/main arm64 liblockfile1 arm64 1.15-1 [6592 B] Get:158 http://ftpmaster.internal/ubuntu eoan/main arm64 optipng arm64 0.7.7-1 [81.2 kB] Get:159 http://ftpmaster.internal/ubuntu eoan/main arm64 pkgbinarymangler all 144 [55.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 99.7 MB in 5s (19.3 MB/s) (Reading database ... 12642 files and directories currently installed.) 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Setting up libgdbm6:arm64 (1.18.1-4) ... Setting up libtsan0:arm64 (9.1.0-9ubuntu2) ... Setting up pinentry-curses (1.1.0-2) ... Setting up libreadline8:arm64 (8.0-2) ... Setting up binutils-aarch64-linux-gnu (2.32.51.20190702-1ubuntu1) ... Setting up e2fsprogs (1.45.2-1ubuntu1) ... Installing new version of config file /etc/mke2fs.conf ... Created symlink /etc/systemd/system/timers.target.wants/e2scrub_all.timer -> /lib/systemd/system/e2scrub_all.timer. Created symlink /etc/systemd/system/default.target.wants/e2scrub_reap.service -> /lib/systemd/system/e2scrub_reap.service. Setting up binutils (2.32.51.20190702-1ubuntu1) ... Setting up libgcc-9-dev:arm64 (9.1.0-9ubuntu2) ... Setting up ca-certificates (20190110) ... Updating certificates in /etc/ssl/certs... 2 added, 7 removed; done. Setting up optipng (0.7.7-1) ... Setting up libgdbm-compat4:arm64 (1.18.1-4) ... Setting up libgcc-8-dev:arm64 (8.3.0-19ubuntu1) ... Setting up libperl5.28:arm64 (5.28.1-6) ... Setting up cpp (4:9.1.0-1ubuntu4) ... Setting up gpgconf (2.2.12-1ubuntu3) ... Setting up libc6-dev:arm64 (2.29-0ubuntu3) ... Setting up gpg (2.2.12-1ubuntu3) ... Setting up libstdc++-8-dev:arm64 (8.3.0-19ubuntu1) ... Setting up gcc-9 (9.1.0-9ubuntu2) ... Setting up gcc-8 (8.3.0-19ubuntu1) ... Setting up gpg-agent (2.2.12-1ubuntu3) ... Setting up libstdc++-9-dev:arm64 (9.1.0-9ubuntu2) ... Setting up pkgbinarymangler (144) ... Setting up gcc (4:9.1.0-1ubuntu4) ... Setting up perl (5.28.1-6) ... Setting up g++-9 (9.1.0-9ubuntu2) ... Setting up libdpkg-perl (1.19.7ubuntu1) ... Setting up g++ (4:9.1.0-1ubuntu4) ... Setting up g++-8 (8.3.0-19ubuntu1) ... Setting up dpkg-dev (1.19.7ubuntu1) ... Setting up build-essential (12.6ubuntu2) ... Processing triggers for systemd (242-2ubuntu1) ... Processing triggers for libc-bin (2.29-0ubuntu3) ... Processing triggers for ca-certificates (20190110) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-17324696 arm64 eoan-proposed -c chroot:build-PACKAGEBUILD-17324696 --arch=arm64 --dist=eoan-proposed --nolog crac_2.5.2+dfsg-2.dsc Initiating build PACKAGEBUILD-17324696 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 4.4.0-157-generic #185-Ubuntu SMP Tue Jul 23 09:17:28 UTC 2019 aarch64 sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on bos02-arm64-036.buildd +==============================================================================+ | crac 2.5.2+dfsg-2 (arm64) 27 Jul 2019 05:16 | +==============================================================================+ Package: crac Version: 2.5.2+dfsg-2 Source Version: 2.5.2+dfsg-2 Distribution: eoan-proposed Machine Architecture: arm64 Host Architecture: arm64 Build Architecture: arm64 I: NOTICE: Log filtering will replace 'build/crac-UwYqYV/crac-2.5.2+dfsg' with '<>' I: NOTICE: Log filtering will replace 'build/crac-UwYqYV' with '<>' I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-17324696/chroot-autobuild' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- crac_2.5.2+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-y9SgT4/apt_archive/sbuild-build-depends-core-dummy.deb'. Ign:1 copy:/<>/resolver-y9SgT4/apt_archive ./ InRelease Get:2 copy:/<>/resolver-y9SgT4/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-y9SgT4/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-y9SgT4/apt_archive ./ Sources [214 B] Get:5 copy:/<>/resolver-y9SgT4/apt_archive ./ Packages [526 B] Fetched 2859 B in 0s (92.8 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install core build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: g++-8 libapt-pkg5.0 libidn11 libisl19 libjson-c3 libreadline7 libstdc++-8-dev Use 'apt autoremove' to remove them. The following NEW packages will be installed: sbuild-build-depends-core-dummy 0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded. Need to get 852 B of archives. After this operation, 0 B of additional disk space will be used. Get:1 copy:/<>/resolver-y9SgT4/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 ... 13863 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-compat (= 12), zlib1g-dev, libhts-dev, libjellyfish-2.0-dev, libgzstream-dev, libgkarrays-dev, pkg-config, rsync Filtered Build-Depends: debhelper-compat (= 12), zlib1g-dev, libhts-dev, libjellyfish-2.0-dev, libgzstream-dev, libgkarrays-dev, pkg-config, rsync dpkg-deb: building package 'sbuild-build-depends-crac-dummy' in '/<>/resolver-kYx9Dd/apt_archive/sbuild-build-depends-crac-dummy.deb'. Ign:1 copy:/<>/resolver-kYx9Dd/apt_archive ./ InRelease Get:2 copy:/<>/resolver-kYx9Dd/apt_archive ./ Release [2119 B] Ign:3 copy:/<>/resolver-kYx9Dd/apt_archive ./ Release.gpg Get:4 copy:/<>/resolver-kYx9Dd/apt_archive ./ Sources [264 B] Get:5 copy:/<>/resolver-kYx9Dd/apt_archive ./ Packages [585 B] Fetched 2968 B in 0s (119 kB/s) Reading package lists... Reading package lists... +------------------------------------------------------------------------------+ | Install crac build dependencies (apt-based resolver) | +------------------------------------------------------------------------------+ Installing build dependencies Reading package lists... Building dependency tree... Reading state information... The following packages were automatically installed and are no longer required: g++-8 libapt-pkg5.0 libidn11 libisl19 libjson-c3 libreadline7 libstdc++-8-dev Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasn1-8-heimdal libbsd0 libcroco3 libcurl3-gnutls libdeflate0 libelf1 libfile-stripnondeterminism-perl libgkarrays-dev libgkarrays1 libglib2.0-0 libgssapi-krb5-2 libgssapi3-heimdal libgzstream-dev libgzstream0 libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts-dev libhts2 libhx509-5-heimdal libicu63 libjellyfish-2.0-2 libjellyfish-2.0-dev libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpopt0 libpsl5 libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libsub-override-perl libtool libuchardet0 libwind0-heimdal libxml2 m4 man-db pkg-config po-debconf rsync zlib1g-dev Suggested packages: autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff krb5-doc krb5-user liblzma-doc libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl openssh-client openssh-server Recommended packages: curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs krb5-locales publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdmainutils debhelper dh-autoreconf dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian libarchive-zip-perl libasn1-8-heimdal libbsd0 libcroco3 libcurl3-gnutls libdeflate0 libelf1 libfile-stripnondeterminism-perl libgkarrays-dev libgkarrays1 libglib2.0-0 libgssapi-krb5-2 libgssapi3-heimdal libgzstream-dev libgzstream0 libhcrypto4-heimdal libheimbase1-heimdal libheimntlm0-heimdal libhts-dev libhts2 libhx509-5-heimdal libicu63 libjellyfish-2.0-2 libjellyfish-2.0-dev libk5crypto3 libkeyutils1 libkrb5-26-heimdal libkrb5-3 libkrb5support0 libldap-2.4-2 libldap-common liblzma-dev libmagic-mgc libmagic1 libnghttp2-14 libpipeline1 libpopt0 libpsl5 libroken18-heimdal librtmp1 libsasl2-2 libsasl2-modules-db libsigsegv2 libssh-4 libsub-override-perl libtool libuchardet0 libwind0-heimdal libxml2 m4 man-db pkg-config po-debconf rsync sbuild-build-depends-crac-dummy zlib1g-dev 0 upgraded, 70 newly installed, 0 to remove and 0 not upgraded. Need to get 24.2 MB of archives. After this operation, 82.3 MB of additional disk space will be used. Get:1 copy:/<>/resolver-kYx9Dd/apt_archive ./ sbuild-build-depends-crac-dummy 0.invalid.0 [912 B] Get:2 http://ftpmaster.internal/ubuntu eoan/main arm64 libbsd0 arm64 0.9.1-2 [42.6 kB] Get:3 http://ftpmaster.internal/ubuntu eoan/main arm64 bsdmainutils arm64 11.1.2ubuntu2 [175 kB] Get:4 http://ftpmaster.internal/ubuntu eoan/main arm64 libuchardet0 arm64 0.0.6-3 [65.0 kB] Get:5 http://ftpmaster.internal/ubuntu eoan/main arm64 groff-base arm64 1.22.4-3 [813 kB] Get:6 http://ftpmaster.internal/ubuntu eoan/main arm64 libpipeline1 arm64 1.5.1-2 [24.4 kB] Get:7 http://ftpmaster.internal/ubuntu eoan/main arm64 man-db arm64 2.8.5-2 [1085 kB] Get:8 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libmagic-mgc arm64 1:5.37-4 [210 kB] Get:9 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libmagic1 arm64 1:5.37-4 [71.1 kB] Get:10 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 file arm64 1:5.37-4 [24.2 kB] Get:11 http://ftpmaster.internal/ubuntu eoan/main arm64 libelf1 arm64 0.176-1.1 [43.6 kB] Get:12 http://ftpmaster.internal/ubuntu eoan/main arm64 libglib2.0-0 arm64 2.61.1-2 [1171 kB] Get:13 http://ftpmaster.internal/ubuntu eoan/main arm64 libicu63 arm64 63.2-2 [8146 kB] Get:14 http://ftpmaster.internal/ubuntu eoan/main arm64 libpopt0 arm64 1.16-12 [25.1 kB] Get:15 http://ftpmaster.internal/ubuntu eoan/main arm64 libxml2 arm64 2.9.4+dfsg1-7ubuntu3 [562 kB] Get:16 http://ftpmaster.internal/ubuntu eoan/main arm64 gettext-base arm64 0.19.8.1-9 [48.0 kB] Get:17 http://ftpmaster.internal/ubuntu eoan/main arm64 libkrb5support0 arm64 1.17-5 [30.8 kB] Get:18 http://ftpmaster.internal/ubuntu eoan/main arm64 libk5crypto3 arm64 1.17-5 [80.5 kB] Get:19 http://ftpmaster.internal/ubuntu eoan/main arm64 libkeyutils1 arm64 1.6-6 [9960 B] Get:20 http://ftpmaster.internal/ubuntu eoan/main arm64 libkrb5-3 arm64 1.17-5 [312 kB] Get:21 http://ftpmaster.internal/ubuntu eoan/main arm64 libgssapi-krb5-2 arm64 1.17-5 [113 kB] Get:22 http://ftpmaster.internal/ubuntu eoan/main arm64 libpsl5 arm64 0.20.2-2 [49.9 kB] Get:23 http://ftpmaster.internal/ubuntu eoan/main arm64 rsync arm64 3.1.3-6 [322 kB] Get:24 http://ftpmaster.internal/ubuntu eoan/main arm64 libsigsegv2 arm64 2.12-2 [13.3 kB] Get:25 http://ftpmaster.internal/ubuntu eoan/main arm64 m4 arm64 1.4.18-2 [194 kB] Get:26 http://ftpmaster.internal/ubuntu eoan/main arm64 autoconf all 2.69-11 [322 kB] Get:27 http://ftpmaster.internal/ubuntu eoan/main arm64 autotools-dev all 20180224.1 [39.6 kB] Get:28 http://ftpmaster.internal/ubuntu eoan/main arm64 automake all 1:1.16.1-4ubuntu3 [522 kB] Get:29 http://ftpmaster.internal/ubuntu eoan/main arm64 autopoint all 0.19.8.1-9 [412 kB] Get:30 http://ftpmaster.internal/ubuntu eoan/main arm64 libtool all 2.4.6-10 [194 kB] Get:31 http://ftpmaster.internal/ubuntu eoan/main arm64 dh-autoreconf all 19 [16.1 kB] Get:32 http://ftpmaster.internal/ubuntu eoan/main arm64 libarchive-zip-perl all 1.64-1 [84.9 kB] Get:33 http://ftpmaster.internal/ubuntu eoan/main arm64 libsub-override-perl all 0.09-2 [9532 B] Get:34 http://ftpmaster.internal/ubuntu eoan/main arm64 libfile-stripnondeterminism-perl all 1.3.0-1 [14.5 kB] Get:35 http://ftpmaster.internal/ubuntu eoan/main arm64 dh-strip-nondeterminism all 1.3.0-1 [5200 B] Get:36 http://ftpmaster.internal/ubuntu eoan/main arm64 dwz arm64 0.12.20190723-1 [72.9 kB] Get:37 http://ftpmaster.internal/ubuntu eoan/main arm64 libcroco3 arm64 0.6.12-3 [76.8 kB] Get:38 http://ftpmaster.internal/ubuntu eoan/main arm64 gettext arm64 0.19.8.1-9 [853 kB] Get:39 http://ftpmaster.internal/ubuntu eoan/main arm64 intltool-debian all 0.35.0+20060710.5 [24.9 kB] Get:40 http://ftpmaster.internal/ubuntu eoan/main arm64 po-debconf all 1.0.21 [233 kB] Get:41 http://ftpmaster.internal/ubuntu eoan/main arm64 debhelper all 12.2.3ubuntu1 [907 kB] Get:42 http://ftpmaster.internal/ubuntu eoan/main arm64 libroken18-heimdal arm64 7.5.0+dfsg-3 [39.4 kB] Get:43 http://ftpmaster.internal/ubuntu eoan/main arm64 libasn1-8-heimdal arm64 7.5.0+dfsg-3 [149 kB] Get:44 http://ftpmaster.internal/ubuntu eoan/main arm64 libheimbase1-heimdal arm64 7.5.0+dfsg-3 [27.9 kB] Get:45 http://ftpmaster.internal/ubuntu eoan/main arm64 libhcrypto4-heimdal arm64 7.5.0+dfsg-3 [84.3 kB] Get:46 http://ftpmaster.internal/ubuntu eoan/main arm64 libwind0-heimdal arm64 7.5.0+dfsg-3 [47.6 kB] Get:47 http://ftpmaster.internal/ubuntu eoan/main arm64 libhx509-5-heimdal arm64 7.5.0+dfsg-3 [99.1 kB] Get:48 http://ftpmaster.internal/ubuntu eoan/main arm64 libkrb5-26-heimdal arm64 7.5.0+dfsg-3 [191 kB] Get:49 http://ftpmaster.internal/ubuntu eoan/main arm64 libheimntlm0-heimdal arm64 7.5.0+dfsg-3 [14.7 kB] Get:50 http://ftpmaster.internal/ubuntu eoan/main arm64 libgssapi3-heimdal arm64 7.5.0+dfsg-3 [88.4 kB] Get:51 http://ftpmaster.internal/ubuntu eoan/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg-1 [15.1 kB] Get:52 http://ftpmaster.internal/ubuntu eoan/main arm64 libsasl2-2 arm64 2.1.27+dfsg-1 [48.8 kB] Get:53 http://ftpmaster.internal/ubuntu eoan/main arm64 libldap-common all 2.4.47+dfsg-3ubuntu2 [16.6 kB] Get:54 http://ftpmaster.internal/ubuntu eoan/main arm64 libldap-2.4-2 arm64 2.4.47+dfsg-3ubuntu2 [145 kB] Get:55 http://ftpmaster.internal/ubuntu eoan/main arm64 libnghttp2-14 arm64 1.37.0-1 [75.9 kB] Get:56 http://ftpmaster.internal/ubuntu eoan/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2 [49.8 kB] Get:57 http://ftpmaster.internal/ubuntu eoan-proposed/main arm64 libssh-4 arm64 0.9.0-1 [186 kB] Get:58 http://ftpmaster.internal/ubuntu eoan/main arm64 libcurl3-gnutls arm64 7.65.1-1ubuntu1 [209 kB] Get:59 http://ftpmaster.internal/ubuntu eoan/universe arm64 libdeflate0 arm64 1.2-1 [51.4 kB] Get:60 http://ftpmaster.internal/ubuntu eoan/universe arm64 libgkarrays1 arm64 2.1.0+dfsg-2 [45.7 kB] Get:61 http://ftpmaster.internal/ubuntu eoan/universe arm64 libgkarrays-dev arm64 2.1.0+dfsg-2 [74.3 kB] Get:62 http://ftpmaster.internal/ubuntu eoan/universe arm64 libgzstream0 arm64 1.5+dfsg-4 [6584 B] Get:63 http://ftpmaster.internal/ubuntu eoan/universe arm64 libgzstream-dev arm64 1.5+dfsg-4 [6412 B] Get:64 http://ftpmaster.internal/ubuntu eoan-proposed/universe arm64 libhts2 arm64 1.9-11 [264 kB] Get:65 http://ftpmaster.internal/ubuntu eoan/main arm64 liblzma-dev arm64 5.2.4-1 [144 kB] Get:66 http://ftpmaster.internal/ubuntu eoan/main arm64 zlib1g-dev arm64 1:1.2.11.dfsg-1ubuntu2 [170 kB] Get:67 http://ftpmaster.internal/ubuntu eoan-proposed/universe arm64 libhts-dev arm64 1.9-11 [4325 kB] Get:68 http://ftpmaster.internal/ubuntu eoan/universe arm64 libjellyfish-2.0-2 arm64 2.2.10-2 [57.0 kB] Get:69 http://ftpmaster.internal/ubuntu eoan/universe arm64 libjellyfish-2.0-dev arm64 2.2.10-2 [129 kB] Get:70 http://ftpmaster.internal/ubuntu eoan/main arm64 pkg-config arm64 0.29.1-0ubuntu3 [43.7 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 24.2 MB in 7s (3530 kB/s) Selecting previously unselected package libbsd0:arm64. (Reading database ... 13863 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_arm64.deb ... Unpacking libbsd0:arm64 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2ubuntu2_arm64.deb ... Unpacking bsdmainutils (11.1.2ubuntu2) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../02-libuchardet0_0.0.6-3_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.6-3) ... Selecting previously unselected package groff-base. Preparing to unpack .../03-groff-base_1.22.4-3_arm64.deb ... Unpacking groff-base (1.22.4-3) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../04-libpipeline1_1.5.1-2_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.1-2) ... Selecting previously unselected package man-db. Preparing to unpack .../05-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 libheimbase1-heimdal:arm64 (7.5.0+dfsg-3) ... Selecting previously unselected package libhcrypto4-heimdal:arm64. Preparing to unpack .../43-libhcrypto4-heimdal_7.5.0+dfsg-3_arm64.deb ... Unpacking libhcrypto4-heimdal:arm64 (7.5.0+dfsg-3) ... Selecting previously unselected package libwind0-heimdal:arm64. Preparing to unpack .../44-libwind0-heimdal_7.5.0+dfsg-3_arm64.deb ... Unpacking libwind0-heimdal:arm64 (7.5.0+dfsg-3) ... Selecting previously unselected package libhx509-5-heimdal:arm64. Preparing to unpack .../45-libhx509-5-heimdal_7.5.0+dfsg-3_arm64.deb ... Unpacking libhx509-5-heimdal:arm64 (7.5.0+dfsg-3) ... Selecting previously unselected package libkrb5-26-heimdal:arm64. Preparing to unpack .../46-libkrb5-26-heimdal_7.5.0+dfsg-3_arm64.deb ... Unpacking libkrb5-26-heimdal:arm64 (7.5.0+dfsg-3) ... Selecting previously unselected package libheimntlm0-heimdal:arm64. Preparing to unpack .../47-libheimntlm0-heimdal_7.5.0+dfsg-3_arm64.deb ... Unpacking libheimntlm0-heimdal:arm64 (7.5.0+dfsg-3) ... Selecting previously unselected package libgssapi3-heimdal:arm64. Preparing to unpack .../48-libgssapi3-heimdal_7.5.0+dfsg-3_arm64.deb ... Unpacking libgssapi3-heimdal:arm64 (7.5.0+dfsg-3) ... Selecting previously unselected package libsasl2-modules-db:arm64. Preparing to unpack .../49-libsasl2-modules-db_2.1.27+dfsg-1_arm64.deb ... Unpacking libsasl2-modules-db:arm64 (2.1.27+dfsg-1) ... Selecting previously unselected package libsasl2-2:arm64. Preparing to unpack .../50-libsasl2-2_2.1.27+dfsg-1_arm64.deb ... Unpacking libsasl2-2:arm64 (2.1.27+dfsg-1) ... Selecting previously unselected package libldap-common. Preparing to unpack .../51-libldap-common_2.4.47+dfsg-3ubuntu2_all.deb ... Unpacking libldap-common (2.4.47+dfsg-3ubuntu2) ... Selecting previously unselected package libldap-2.4-2:arm64. Preparing to unpack .../52-libldap-2.4-2_2.4.47+dfsg-3ubuntu2_arm64.deb ... Unpacking libldap-2.4-2:arm64 (2.4.47+dfsg-3ubuntu2) ... Selecting previously unselected package libnghttp2-14:arm64. Preparing to unpack .../53-libnghttp2-14_1.37.0-1_arm64.deb ... Unpacking libnghttp2-14:arm64 (1.37.0-1) ... Selecting previously unselected package librtmp1:arm64. Preparing to unpack .../54-librtmp1_2.4+20151223.gitfa8646d.1-2_arm64.deb ... Unpacking librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2) ... Selecting previously unselected package libssh-4:arm64. Preparing to unpack .../55-libssh-4_0.9.0-1_arm64.deb ... Unpacking libssh-4:arm64 (0.9.0-1) ... Selecting previously unselected package libcurl3-gnutls:arm64. Preparing to unpack .../56-libcurl3-gnutls_7.65.1-1ubuntu1_arm64.deb ... Unpacking libcurl3-gnutls:arm64 (7.65.1-1ubuntu1) ... Selecting previously unselected package libdeflate0:arm64. Preparing to unpack .../57-libdeflate0_1.2-1_arm64.deb ... Unpacking libdeflate0:arm64 (1.2-1) ... Selecting previously unselected package libgkarrays1. Preparing to unpack .../58-libgkarrays1_2.1.0+dfsg-2_arm64.deb ... Unpacking libgkarrays1 (2.1.0+dfsg-2) ... Selecting previously unselected package libgkarrays-dev. Preparing to unpack .../59-libgkarrays-dev_2.1.0+dfsg-2_arm64.deb ... Unpacking libgkarrays-dev (2.1.0+dfsg-2) ... Selecting previously unselected package libgzstream0. Preparing to unpack .../60-libgzstream0_1.5+dfsg-4_arm64.deb ... Unpacking libgzstream0 (1.5+dfsg-4) ... Selecting previously unselected package libgzstream-dev. Preparing to unpack .../61-libgzstream-dev_1.5+dfsg-4_arm64.deb ... Unpacking libgzstream-dev (1.5+dfsg-4) ... Selecting previously unselected package libhts2:arm64. Preparing to unpack .../62-libhts2_1.9-11_arm64.deb ... Unpacking libhts2:arm64 (1.9-11) ... Selecting previously unselected package liblzma-dev:arm64. Preparing to unpack .../63-liblzma-dev_5.2.4-1_arm64.deb ... Unpacking liblzma-dev:arm64 (5.2.4-1) ... Selecting previously unselected package zlib1g-dev:arm64. Preparing to unpack .../64-zlib1g-dev_1%3a1.2.11.dfsg-1ubuntu2_arm64.deb ... Unpacking zlib1g-dev:arm64 (1:1.2.11.dfsg-1ubuntu2) ... Selecting previously unselected package libhts-dev:arm64. Preparing to unpack .../65-libhts-dev_1.9-11_arm64.deb ... Unpacking libhts-dev:arm64 (1.9-11) ... Selecting previously unselected package libjellyfish-2.0-2:arm64. Preparing to unpack .../66-libjellyfish-2.0-2_2.2.10-2_arm64.deb ... Unpacking libjellyfish-2.0-2:arm64 (2.2.10-2) ... Selecting previously unselected package libjellyfish-2.0-dev:arm64. Preparing to unpack .../67-libjellyfish-2.0-dev_2.2.10-2_arm64.deb ... Unpacking libjellyfish-2.0-dev:arm64 (2.2.10-2) ... Selecting previously unselected package pkg-config. Preparing to unpack .../68-pkg-config_0.29.1-0ubuntu3_arm64.deb ... Unpacking pkg-config (0.29.1-0ubuntu3) ... Selecting previously unselected package sbuild-build-depends-crac-dummy. Preparing to unpack .../69-sbuild-build-depends-crac-dummy_0.invalid.0_arm64.deb ... Unpacking sbuild-build-depends-crac-dummy (0.invalid.0) ... Setting up libpipeline1:arm64 (1.5.1-2) ... Setting up libkeyutils1:arm64 (1.6-6) ... Setting up libpsl5:arm64 (0.20.2-2) ... Setting up libgkarrays1 (2.1.0+dfsg-2) ... Setting up libgkarrays-dev (2.1.0+dfsg-2) ... Setting up libmagic-mgc (1:5.37-4) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libglib2.0-0:arm64 (2.61.1-2) ... No schema files found: doing nothing. Setting up libnghttp2-14:arm64 (1.37.0-1) ... Setting up libmagic1:arm64 (1:5.37-4) ... Setting up libdeflate0:arm64 (1.2-1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.37-4) ... Setting up libldap-common (2.4.47+dfsg-3ubuntu2) ... Setting up libicu63:arm64 (63.2-2) ... Setting up libkrb5support0:arm64 (1.17-5) ... Setting up libsasl2-modules-db:arm64 (2.1.27+dfsg-1) ... Setting up libjellyfish-2.0-2:arm64 (2.2.10-2) ... Setting up autotools-dev (20180224.1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-2) ... Setting up libsigsegv2:arm64 (2.12-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up pkg-config (0.29.1-0ubuntu3) ... Setting up libk5crypto3:arm64 (1.17-5) ... Setting up libsasl2-2:arm64 (2.1.27+dfsg-1) ... Setting up libroken18-heimdal:arm64 (7.5.0+dfsg-3) ... Setting up libgzstream0 (1.5+dfsg-4) ... Setting up liblzma-dev:arm64 (5.2.4-1) ... Setting up zlib1g-dev:arm64 (1:1.2.11.dfsg-1ubuntu2) ... Setting up libuchardet0:arm64 (0.0.6-3) ... Setting up libsub-override-perl (0.09-2) ... Setting up libkrb5-3:arm64 (1.17-5) ... Setting up libbsd0:arm64 (0.9.1-2) ... Setting up libelf1:arm64 (0.176-1.1) ... Setting up libxml2:arm64 (2.9.4+dfsg1-7ubuntu3) ... Setting up libheimbase1-heimdal:arm64 (7.5.0+dfsg-3) ... Setting up libpopt0:arm64 (1.16-12) ... Setting up libfile-stripnondeterminism-perl (1.3.0-1) ... Setting up libjellyfish-2.0-dev:arm64 (2.2.10-2) ... Setting up libtool (2.4.6-10) ... Setting up libasn1-8-heimdal:arm64 (7.5.0+dfsg-3) ... Setting up m4 (1.4.18-2) ... Setting up libhcrypto4-heimdal:arm64 (7.5.0+dfsg-3) ... Setting up libgzstream-dev (1.5+dfsg-4) ... Setting up libwind0-heimdal:arm64 (7.5.0+dfsg-3) ... Setting up bsdmainutils (11.1.2ubuntu2) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libgssapi-krb5-2:arm64 (1.17-5) ... Setting up libcroco3:arm64 (0.6.12-3) ... Setting up libssh-4:arm64 (0.9.0-1) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12.20190723-1) ... Setting up groff-base (1.22.4-3) ... Setting up rsync (3.1.3-6) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of restart. Created symlink /etc/systemd/system/multi-user.target.wants/rsync.service → /lib/systemd/system/rsync.service. 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 gettext (0.19.8.1-9) ... Setting up libhx509-5-heimdal:arm64 (7.5.0+dfsg-3) ... 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 intltool-debian (0.35.0+20060710.5) ... Setting up libkrb5-26-heimdal:arm64 (7.5.0+dfsg-3) ... Setting up po-debconf (1.0.21) ... Setting up libheimntlm0-heimdal:arm64 (7.5.0+dfsg-3) ... Setting up libgssapi3-heimdal:arm64 (7.5.0+dfsg-3) ... Setting up libldap-2.4-2:arm64 (2.4.47+dfsg-3ubuntu2) ... Setting up libcurl3-gnutls:arm64 (7.65.1-1ubuntu1) ... Setting up libhts2:arm64 (1.9-11) ... Setting up libhts-dev:arm64 (1.9-11) ... Setting up debhelper (12.2.3ubuntu1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.3.0-1) ... Setting up sbuild-build-depends-crac-dummy (0.invalid.0) ... Processing triggers for libc-bin (2.29-0ubuntu3) ... Processing triggers for systemd (242-2ubuntu1) ... +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 4.4.0-157-generic arm64 (aarch64) Toolchain package versions: binutils_2.32.51.20190702-1ubuntu1 dpkg-dev_1.19.7ubuntu1 g++-8_8.3.0-19ubuntu1 g++-9_9.1.0-9ubuntu2 gcc-8_8.3.0-19ubuntu1 gcc-9_9.1.0-9ubuntu2 libc6-dev_2.29-0ubuntu3 libstdc++-8-dev_8.3.0-19ubuntu1 libstdc++-9-dev_9.1.0-9ubuntu2 libstdc++6_9.1.0-9ubuntu2 linux-libc-dev_5.2.0-9.10 Package versions: adduser_3.118ubuntu1 advancecomp_2.1-2.1 apt_1.9.1 autoconf_2.69-11 automake_1:1.16.1-4ubuntu3 autopoint_0.19.8.1-9 autotools-dev_20180224.1 base-files_10.2ubuntu4 base-passwd_3.5.46 bash_5.0-4ubuntu1 binutils_2.32.51.20190702-1ubuntu1 binutils-aarch64-linux-gnu_2.32.51.20190702-1ubuntu1 binutils-common_2.32.51.20190702-1ubuntu1 bsdmainutils_11.1.2ubuntu2 bsdutils_1:2.33.1-0.1ubuntu2 build-essential_12.6ubuntu2 bzip2_1.0.6-9.2 ca-certificates_20190110 coreutils_8.30-3ubuntu1 cpp_4:9.1.0-1ubuntu4 cpp-8_8.3.0-19ubuntu1 cpp-9_9.1.0-9ubuntu2 dash_0.5.10.2-6 debconf_1.5.72 debhelper_12.2.3ubuntu1 debianutils_4.8.6.3 dh-autoreconf_19 dh-strip-nondeterminism_1.3.0-1 diffutils_1:3.7-3 dmsetup_2:1.02.155-2ubuntu5 dpkg_1.19.7ubuntu1 dpkg-dev_1.19.7ubuntu1 dwz_0.12.20190723-1 e2fslibs_1.45.2-1ubuntu1 e2fsprogs_1.45.2-1ubuntu1 fakeroot_1.23-1 fdisk_2.33.1-0.1ubuntu2 file_1:5.37-4 findutils_4.6.0+git+20190209-2ubuntu1 g++_4:9.1.0-1ubuntu4 g++-8_8.3.0-19ubuntu1 g++-9_9.1.0-9ubuntu2 gcc_4:9.1.0-1ubuntu4 gcc-8_8.3.0-19ubuntu1 gcc-8-base_8.3.0-19ubuntu1 gcc-9_9.1.0-9ubuntu2 gcc-9-base_9.1.0-9ubuntu2 gettext_0.19.8.1-9 gettext-base_0.19.8.1-9 gpg_2.2.12-1ubuntu3 gpg-agent_2.2.12-1ubuntu3 gpgconf_2.2.12-1ubuntu3 gpgv_2.2.12-1ubuntu3 grep_3.3-1 groff-base_1.22.4-3 gzip_1.10-0ubuntu1 hostname_3.21 init_1.57 init-system-helpers_1.57 initscripts_2.88dsf-59.3ubuntu2 insserv_1.14.0-5ubuntu3 intltool-debian_0.35.0+20060710.5 libacl1_2.2.53-4 libapparmor1_2.13.2-9ubuntu7 libapt-pkg5.0_1.8.0~alpha2ubuntu1 libapt-pkg5.90_1.9.1 libarchive-zip-perl_1.64-1 libargon2-1_0~20171227-0.2 libasan5_9.1.0-9ubuntu2 libasn1-8-heimdal_7.5.0+dfsg-3 libassuan0_2.5.3-7ubuntu1 libatomic1_9.1.0-9ubuntu2 libattr1_1:2.4.48-4 libaudit-common_1:2.8.5-1ubuntu1 libaudit1_1:2.8.5-1ubuntu1 libbinutils_2.32.51.20190702-1ubuntu1 libblkid1_2.33.1-0.1ubuntu2 libbsd0_0.9.1-2 libbz2-1.0_1.0.6-9.2 libc-bin_2.29-0ubuntu3 libc-dev-bin_2.29-0ubuntu3 libc6_2.29-0ubuntu3 libc6-dev_2.29-0ubuntu3 libcap-ng0_0.7.9-2 libcap2_1:2.25-2 libcc1-0_9.1.0-9ubuntu2 libcom-err2_1.45.2-1ubuntu1 libcomerr2_1.45.2-1ubuntu1 libcroco3_0.6.12-3 libcryptsetup12_2:2.1.0-5ubuntu2 libcurl3-gnutls_7.65.1-1ubuntu1 libdb5.3_5.3.28+dfsg1-0.6ubuntu1 libdebconfclient0_0.249ubuntu1 libdeflate0_1.2-1 libdevmapper1.02.1_2:1.02.155-2ubuntu5 libdpkg-perl_1.19.7ubuntu1 libelf1_0.176-1.1 libext2fs2_1.45.2-1ubuntu1 libfakeroot_1.23-1 libfdisk1_2.33.1-0.1ubuntu2 libffi6_3.2.1-9 libfile-stripnondeterminism-perl_1.3.0-1 libgcc-8-dev_8.3.0-19ubuntu1 libgcc-9-dev_9.1.0-9ubuntu2 libgcc1_1:9.1.0-9ubuntu2 libgcrypt20_1.8.4-5ubuntu1 libgdbm-compat4_1.18.1-4 libgdbm6_1.18.1-4 libgkarrays-dev_2.1.0+dfsg-2 libgkarrays1_2.1.0+dfsg-2 libglib2.0-0_2.61.1-2 libgmp10_2:6.1.2+dfsg-4 libgnutls30_3.6.8-2 libgomp1_9.1.0-9ubuntu2 libgpg-error0_1.36-7 libgssapi-krb5-2_1.17-5 libgssapi3-heimdal_7.5.0+dfsg-3 libgzstream-dev_1.5+dfsg-4 libgzstream0_1.5+dfsg-4 libhcrypto4-heimdal_7.5.0+dfsg-3 libheimbase1-heimdal_7.5.0+dfsg-3 libheimntlm0-heimdal_7.5.0+dfsg-3 libhogweed4_3.4.1-1 libhts-dev_1.9-11 libhts2_1.9-11 libhx509-5-heimdal_7.5.0+dfsg-3 libicu63_63.2-2 libidn11_1.33-2.2ubuntu2 libidn2-0_2.2.0-1 libip4tc0_1.6.1-2ubuntu3 libisl19_0.20-2 libisl21_0.21-1 libitm1_9.1.0-9ubuntu2 libjellyfish-2.0-2_2.2.10-2 libjellyfish-2.0-dev_2.2.10-2 libjson-c3_0.12.1-1.3 libjson-c4_0.13.1+dfsg-2 libk5crypto3_1.17-5 libkeyutils1_1.6-6 libkmod2_26-1ubuntu1 libkrb5-26-heimdal_7.5.0+dfsg-3 libkrb5-3_1.17-5 libkrb5support0_1.17-5 libldap-2.4-2_2.4.47+dfsg-3ubuntu2 libldap-common_2.4.47+dfsg-3ubuntu2 liblockfile-bin_1.15-1 liblockfile1_1.15-1 liblsan0_9.1.0-9ubuntu2 liblz4-1_1.9.1-1 liblzma-dev_5.2.4-1 liblzma5_5.2.4-1 libmagic-mgc_1:5.37-4 libmagic1_1:5.37-4 libmount1_2.33.1-0.1ubuntu2 libmpc3_1.1.0-1 libmpfr6_4.0.2-1 libncurses6_6.1+20190713-1ubuntu2 libncursesw6_6.1+20190713-1ubuntu2 libnettle6_3.4.1-1 libnghttp2-14_1.37.0-1 libnpth0_1.6-1 libp11-kit0_0.23.15-2 libpam-modules_1.3.1-5ubuntu1 libpam-modules-bin_1.3.1-5ubuntu1 libpam-runtime_1.3.1-5ubuntu1 libpam0g_1.3.1-5ubuntu1 libpcre2-8-0_10.32-5 libpcre3_2:8.39-12 libperl5.28_5.28.1-6 libpipeline1_1.5.1-2 libpng16-16_1.6.37-1 libpopt0_1.16-12 libprocps7_2:3.3.15-2ubuntu2 libpsl5_0.20.2-2 libreadline7_7.0-5 libreadline8_8.0-2 libroken18-heimdal_7.5.0+dfsg-3 librtmp1_2.4+20151223.gitfa8646d.1-2 libsasl2-2_2.1.27+dfsg-1 libsasl2-modules-db_2.1.27+dfsg-1 libseccomp2_2.4.1-0ubuntu0.19.10.3 libselinux1_2.9-2 libsemanage-common_2.9-3 libsemanage1_2.9-3 libsepol1_2.9-2 libsigsegv2_2.12-2 libslang2_2.3.2-4 libsmartcols1_2.33.1-0.1ubuntu2 libsqlite3-0_3.29.0-1 libss2_1.45.2-1ubuntu1 libssh-4_0.9.0-1 libssl1.1_1.1.1c-1ubuntu3 libstdc++-8-dev_8.3.0-19ubuntu1 libstdc++-9-dev_9.1.0-9ubuntu2 libstdc++6_9.1.0-9ubuntu2 libsub-override-perl_0.09-2 libsystemd0_242-2ubuntu1 libtasn1-6_4.13-4 libtinfo6_6.1+20190713-1ubuntu2 libtool_2.4.6-10 libtsan0_9.1.0-9ubuntu2 libubsan1_9.1.0-9ubuntu2 libuchardet0_0.0.6-3 libudev1_242-2ubuntu1 libunistring2_0.9.10-2 libusb-0.1-4_2:0.1.12-32 libustr-1.0-1_1.0.4-6 libuuid1_2.33.1-0.1ubuntu2 libwind0-heimdal_7.5.0+dfsg-3 libxml2_2.9.4+dfsg1-7ubuntu3 libzstd1_1.3.8+dfsg-3 linux-libc-dev_5.2.0-9.10 lockfile-progs_0.1.18 login_1:4.5-1.1ubuntu2 lsb-base_10.2019051400ubuntu1 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_2.29-0ubuntu3 ncurses-base_6.1+20190713-1ubuntu2 ncurses-bin_6.1+20190713-1ubuntu2 openssl_1.1.1c-1ubuntu3 optipng_0.7.7-1 passwd_1:4.5-1.1ubuntu2 patch_2.7.6-5 perl_5.28.1-6 perl-base_5.28.1-6 perl-modules-5.28_5.28.1-6 pinentry-curses_1.1.0-2 pkg-config_0.29.1-0ubuntu3 pkgbinarymangler_144 po-debconf_1.0.21 policyrcd-script-zg2_0.1-3 procps_2:3.3.15-2ubuntu2 readline-common_8.0-2 rsync_3.1.3-6 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-crac-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12 systemd_242-2ubuntu1 systemd-sysv_242-2ubuntu1 sysv-rc_2.88dsf-59.3ubuntu2 sysvinit-utils_2.95-2ubuntu1 tar_1.30+dfsg-6 tzdata_2019b-1 ubuntu-keyring_2018.09.18.1 util-linux_2.33.1-0.1ubuntu2 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 Fri Jul 26 20:44:09 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 ./crac_2.5.2+dfsg-2.dsc dpkg-source: info: extracting crac in crac-2.5.2+dfsg dpkg-source: info: unpacking crac_2.5.2+dfsg.orig.tar.xz dpkg-source: info: unpacking crac_2.5.2+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_libgzstream.patch dpkg-source: info: applying use_debian_packaged_libjellyfish.patch dpkg-source: info: applying skip_failed_test_bug-14958.patch dpkg-source: info: applying use_debian_packages_libgtarrays.patch dpkg-source: info: applying reproducible_build.patch dpkg-source: info: applying cross.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-17324696 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-17324696 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-17324696 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- dpkg-buildpackage: info: source package crac dpkg-buildpackage: info: source version 2.5.2+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 fakeroot debian/rules clean dh clean dh_clean debian/rules build-arch dh build-arch dh_update_autotools_config -a dh_autoreconf -a aclocal: warning: couldn't open directory 'config/m4': No such file or directory libtoolize: putting auxiliary files in AC_CONFIG_AUX_DIR, 'config'. libtoolize: copying file 'config/ltmain.sh' libtoolize: putting macros in AC_CONFIG_MACRO_DIRS, 'config/m4'. libtoolize: copying file 'config/m4/libtool.m4' libtoolize: copying file 'config/m4/ltoptions.m4' libtoolize: copying file 'config/m4/ltsugar.m4' libtoolize: copying file 'config/m4/ltversion.m4' libtoolize: copying file 'config/m4/lt~obsolete.m4' configure.ac:147: installing 'config/compile' configure.ac:139: installing 'config/config.guess' configure.ac:139: installing 'config/config.sub' configure.ac:137: installing 'config/install-sh' configure.ac:137: installing 'config/missing' src/Makefile.am: installing 'config/depcomp' test_f/Makefile.am:109: warning: shell find . -name "*.should_get": non-POSIX variable name test_f/Makefile.am:109: (probably a GNU make extension) test_f/Makefile.am:110: warning: shell find . -name "*.fasta" -o -name "*.fa": non-POSIX variable name test_f/Makefile.am:110: (probably a GNU make extension) test_f/Makefile.am:111: warning: shell find . -name "*.fastq" -o -name "*.fq": non-POSIX variable name test_f/Makefile.am:111: (probably a GNU make extension) parallel-tests: installing 'config/test-driver' dh_auto_configure -a ./configure --build=aarch64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/aarch64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking build system type... aarch64-unknown-linux-gnu checking host system type... aarch64-unknown-linux-gnu checking for gawk... (cached) mawk checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... none checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking how to run the C preprocessor... gcc -E checking whether make sets $(MAKE)... (cached) yes checking whether ln -s works... yes checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking the maximum length of command line arguments... 1572864 checking how to convert aarch64-unknown-linux-gnu file names to aarch64-unknown-linux-gnu format... func_convert_file_noop checking how to convert aarch64-unknown-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for ANSI C header files... no checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for ld used by gcc... (cached) /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... (cached) yes checking for dpkg... /usr/bin/dpkg checking for rpmbuild... no checking for sqrt in -lm... yes checking for pthread_join in -lpthread... yes checking for size_t... yes checking for working alloca.h... yes checking for alloca... yes checking whether sys/types.h defines makedev... no checking sys/mkdev.h usability... no checking sys/mkdev.h presence... no checking for sys/mkdev.h... no checking sys/sysmacros.h usability... yes checking sys/sysmacros.h presence... yes checking for sys/sysmacros.h... yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking for inttypes.h... (cached) yes checking libintl.h usability... yes checking libintl.h presence... yes checking for libintl.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking locale.h usability... yes checking locale.h presence... yes checking for locale.h... yes checking for memory.h... (cached) yes checking for stdint.h... (cached) yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for strings.h... (cached) yes checking sys/file.h usability... yes checking sys/file.h presence... yes checking for sys/file.h... yes checking sys/param.h usability... yes checking sys/param.h presence... yes checking for sys/param.h... yes checking sys/time.h usability... yes checking sys/time.h presence... yes checking for sys/time.h... yes checking for unistd.h... (cached) yes checking utime.h usability... yes checking utime.h presence... yes checking for utime.h... yes checking for stdbool.h that conforms to C99... no checking for _Bool... no checking for inline... inline checking for int64_t... yes checking for off_t... yes checking for size_t... (cached) yes checking for struct stat.st_blksize... yes checking for uint32_t... yes checking for uint8_t... yes checking for ptrdiff_t... no checking for GNU libc compatible malloc... yes checking for stdlib.h... (cached) yes checking for GNU libc compatible realloc... yes checking for floor... yes checking for gettimeofday... yes checking for memchr... yes checking for memmove... yes checking for memset... yes checking for mkfifo... yes checking for pow... yes checking for select... yes checking for sqrt... yes checking for strrchr... yes checking for strstr... yes checking for strtol... yes checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for PROGRESSBAR... yes checking for gzread in -lz... yes checking for hts_hopen in -lhts... yes checking for GKARRAYS... yes checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating control config.status: creating crac.spec config.status: creating Makefile config.status: creating src/Makefile config.status: creating scripts/Makefile config.status: creating src/libReadsInfo/Makefile config.status: creating src/libSSA/Makefile config.status: creating src/libReadsReader/Makefile config.status: creating src/libReadsReader/kseq/Makefile config.status: creating man/Makefile config.status: creating man/crac.1 config.status: creating scripts/crac-client config.status: creating test_f/Makefile config.status: creating test_f/bug/Makefile config.status: creating test_f/causes/Makefile config.status: creating test_f/cigar/Makefile config.status: creating test_f/splices_adjust/Makefile config.status: creating config/config.h config.status: executing depfiles commands config.status: executing libtool commands dh_auto_build -a make -j4 make[1]: Entering directory '/<>/crac-2.5.2+dfsg' Making all in src make[2]: Entering directory '/<>/crac-2.5.2+dfsg/src' Making all in libReadsInfo make[3]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsInfo' g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-BioTagIndelInfo.o `test -f 'BioTagIndelInfo.cpp' || echo './'`BioTagIndelInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-BioUndeterminedInfo.o `test -f 'BioUndeterminedInfo.cpp' || echo './'`BioUndeterminedInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-cigarTypes.o `test -f 'cigarTypes.cpp' || echo './'`cigarTypes.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-Cigar.o `test -f 'Cigar.cpp' || echo './'`Cigar.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-DuplicationInfo.o `test -f 'DuplicationInfo.cpp' || echo './'`DuplicationInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-genericInfo.o `test -f 'genericInfo.cpp' || echo './'`genericInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-IndelInfo.o `test -f 'IndelInfo.cpp' || echo './'`IndelInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-repetitionInfo.o `test -f 'repetitionInfo.cpp' || echo './'`repetitionInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SeqErrInfo.o `test -f 'SeqErrInfo.cpp' || echo './'`SeqErrInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SNPInfo.o `test -f 'SNPInfo.cpp' || echo './'`SNPInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SpliceInfo.o `test -f 'SpliceInfo.cpp' || echo './'`SpliceInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SpliceInterInfo.o `test -f 'SpliceInterInfo.cpp' || echo './'`SpliceInterInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SpliceIntraInfo.o `test -f 'SpliceIntraInfo.cpp' || echo './'`SpliceIntraInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SpliceNoCoverInfo.o `test -f 'SpliceNoCoverInfo.cpp' || echo './'`SpliceNoCoverInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-SplicingInfo.o `test -f 'SplicingInfo.cpp' || echo './'`SplicingInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-samLine.o `test -f 'samLine.cpp' || echo './'`samLine.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-samHeader.o `test -f 'samHeader.cpp' || echo './'`samHeader.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-bamUtils.o `test -f 'bamUtils.cpp' || echo './'`bamUtils.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-tagInfo.o `test -f 'tagInfo.cpp' || echo './'`tagInfo.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsInfo_a-undeterminedErrorInfo.o `test -f 'undeterminedErrorInfo.cpp' || echo './'`undeterminedErrorInfo.cpp samHeader.cpp: In member function ‘bam_hdr_t* SamHeader::writeBamHeader(samFile*)’: samHeader.cpp:160:15: warning: ignoring return value of ‘int sam_hdr_write(samFile*, const bam_hdr_t*)’, declared with attribute warn_unused_result [-Wunused-result] 160 | sam_hdr_write(out,h); | ~~~~~~~~~~~~~^~~~~~~ In file included from /usr/include/string.h:494, from /usr/include/htslib/kstring.h:30, from samLine.h:60, from samLine.cpp:52: In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘CharOptionalField::CharOptionalField(const char*, char)’ at samLine.cpp:91:34: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘IntOptionalField::IntOptionalField(const char*, int)’ at samLine.cpp:117:34: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘IntOptionalField::IntOptionalField(const char*, uint)’ at samLine.cpp:121:34: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘StringOptionalField::StringOptionalField(const char*, char*)’ at samLine.cpp:150:34: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ../libReadsReader/readsReader.h:57, from ../Read.h:55, from ../ReadIndex.h:52, from ../Support.h:59, from tagInfo.h:71, from tagInfo.cpp:53: ../libReadsReader/kseq/kseq.h:169:14: warning: ‘int kseq_read(kseq_t*)’ defined but not used [-Wunused-function] 169 | static int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ ../libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro ‘__KSEQ_READ’ 227 | __KSEQ_READ | ^~~~~~~~~~~ ../libReadsReader/readsReader.h:59:1: note: in expansion of macro ‘KSEQ_INIT’ 59 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘StringOptionalField::StringOptionalField(const char*, std::string)’ at samLine.cpp:147:34: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘IntOptionalField::IntOptionalField(const char*, int)’ at samLine.cpp:117:34, inlined from ‘void SamLine::addOptionalField(const char*, int)’ at samLine.cpp:485:67: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘CharOptionalField::CharOptionalField(const char*, char)’ at samLine.cpp:91:34, inlined from ‘void SamLine::addOptionalField(const char*, char)’ at samLine.cpp:476:68: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In function ‘char* strncpy(char*, const char*, size_t)’, inlined from ‘OptionalField::OptionalField(const char*, char)’ at samLine.cpp:60:10, inlined from ‘IntOptionalField::IntOptionalField(const char*, uint)’ at samLine.cpp:121:34, inlined from ‘void SamLine::addOptionalField(const char*, uint)’ at samLine.cpp:494:67: /usr/include/aarch64-linux-gnu/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, long unsigned int)’ specified bound 2 equals destination size [-Wstringop-truncation] 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ rm -f libReadsInfo.a ar cru libReadsInfo.a libReadsInfo_a-BioTagIndelInfo.o libReadsInfo_a-BioUndeterminedInfo.o libReadsInfo_a-cigarTypes.o libReadsInfo_a-Cigar.o libReadsInfo_a-DuplicationInfo.o libReadsInfo_a-genericInfo.o libReadsInfo_a-IndelInfo.o libReadsInfo_a-repetitionInfo.o libReadsInfo_a-SeqErrInfo.o libReadsInfo_a-SNPInfo.o libReadsInfo_a-SpliceInfo.o libReadsInfo_a-SpliceInterInfo.o libReadsInfo_a-SpliceIntraInfo.o libReadsInfo_a-SpliceNoCoverInfo.o libReadsInfo_a-SplicingInfo.o libReadsInfo_a-samLine.o libReadsInfo_a-samHeader.o libReadsInfo_a-bamUtils.o libReadsInfo_a-tagInfo.o libReadsInfo_a-undeterminedErrorInfo.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libReadsInfo.a make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsInfo' Making all in libSSA make[3]: Entering directory '/<>/crac-2.5.2+dfsg/src/libSSA' g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o cracIndex.o cracIndex.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o bitarray.o bitarray.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o bitrankw32int.o bitrankw32int.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o chrPosition.o chrPosition.cpp cracIndex.cpp:85:30: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 85 | cerr << "\tCompiled on " <<__DATE__ << endl << endl; | ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o HuffAlphabetRank.o HuffAlphabetRank.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Huffman_Codes.o Huffman_Codes.cpp In file included from ./seqan/basic.h:64, from ./seqan/sequence.h:27, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/basic/basic_holder.h: In function ‘void seqan::setValue(seqan::Holder&, TValue&)’: ./seqan/basic/basic_holder.h:1001:59: warning: typedef ‘THolderType’ locally defined but not used [-Wunused-local-typedefs] 1001 | typedef typename Value >::Type THolderType; | ^~~~~~~~~~~ ./seqan/basic/basic_holder.h: In function ‘typename seqan::Reference >::Type seqan::value(seqan::Holder&)’: ./seqan/basic/basic_holder.h:1027:59: warning: typedef ‘THolderType’ locally defined but not used [-Wunused-local-typedefs] 1027 | typedef typename Value >::Type THolderType; | ^~~~~~~~~~~ ./seqan/basic/basic_holder.h: In function ‘void seqan::assignValue(seqan::Holder&, const TSource&)’: ./seqan/basic/basic_holder.h:1051:59: warning: typedef ‘THostValue’ locally defined but not used [-Wunused-local-typedefs] 1051 | typedef typename Value >::Type THostValue; | ^~~~~~~~~~ In file included from ./seqan/sequence.h:38, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/lexical.h: In function ‘void seqan::compare_(seqan::Lexical&, TLeft&, TRight&)’: ./seqan/sequence/lexical.h:239:38: warning: typedef ‘TLeftValue’ locally defined but not used [-Wunused-local-typedefs] 239 | typedef typename Value::Type TLeftValue; | ^~~~~~~~~~ In file included from ./seqan/sequence.h:51, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/string_base.h: In function ‘void seqan::assign(seqan::String&, const TSource&, seqan::Tag)’: ./seqan/sequence/string_base.h:811:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 811 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::assign(seqan::String&, const TSource&, TSize, seqan::Tag)’: ./seqan/sequence/string_base.h:821:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 821 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::assign(seqan::String&, const TSourceValue*, seqan::Tag)’: ./seqan/sequence/string_base.h:834:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 834 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::assign(seqan::String&, const TSourceValue*, TSize, seqan::Tag)’: ./seqan/sequence/string_base.h:844:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 844 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::append(seqan::String&, const TSource&, seqan::Tag)’: ./seqan/sequence/string_base.h:1044:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1044 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::append(seqan::String&, const TSource&, typename seqan::Size >::Type, seqan::Tag)’: ./seqan/sequence/string_base.h:1056:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1056 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::append(seqan::String&, TSourceValue*, seqan::Tag)’: ./seqan/sequence/string_base.h:1070:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1070 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::append(seqan::String&, TSourceValue*, typename seqan::Size >::Type, seqan::Tag)’: ./seqan/sequence/string_base.h:1082:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1082 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::replace(seqan::String&, typename seqan::Size >::Type, typename seqan::Size >::Type, const TSource&, seqan::Tag)’: ./seqan/sequence/string_base.h:1249:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1249 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::replace(seqan::String&, typename seqan::Size >::Type, typename seqan::Size >::Type, const TSource&, typename seqan::Size >::Type, seqan::Tag)’: ./seqan/sequence/string_base.h:1263:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1263 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::replace(seqan::String&, typename seqan::Size >::Type, typename seqan::Size >::Type, const TSourceValue*, seqan::Tag)’: ./seqan/sequence/string_base.h:1279:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1279 | typedef String TTarget; | ^~~~~~~ ./seqan/sequence/string_base.h: In function ‘void seqan::replace(seqan::String&, typename seqan::Size >::Type, typename seqan::Size >::Type, const TSourceValue*, typename seqan::Size >::Type, seqan::Tag)’: ./seqan/sequence/string_base.h:1293:44: warning: typedef ‘TTarget’ locally defined but not used [-Wunused-local-typedefs] 1293 | typedef String TTarget; | ^~~~~~~ In file included from ./seqan/sequence.h:53, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/string_alloc.h: In function ‘typename seqan::Size > >::Type seqan::reserve(seqan::String >&, _TSize, Insist)’: ./seqan/sequence/string_alloc.h:456:63: warning: typedef ‘TSize’ locally defined but not used [-Wunused-local-typedefs] 456 | typedef typename Size< String > >::Type TSize; | ^~~~~ In file included from ./seqan/sequence.h:57, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/string_packed.h: In static member function ‘static typename seqan::Size::Type seqan::_ClearSpace_String_Packed_::_clearSpace_(T&, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type, typename seqan::Size::Type)’: ./seqan/sequence/string_packed.h:594:48: warning: typedef ‘TIterator’ locally defined but not used [-Wunused-local-typedefs] 594 | typedef typename Iterator::Type TIterator; | ^~~~~~~~~ ./seqan/sequence/string_packed.h: In function ‘typename seqan::Size > >::Type seqan::reserve(seqan::String >&, _TSize, Insist)’: ./seqan/sequence/string_packed.h:758:63: warning: typedef ‘TSize’ locally defined but not used [-Wunused-local-typedefs] 758 | typedef typename Size< String > >::Type TSize; | ^~~~~ In file included from ./seqan/sequence.h:62, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/sequence_multiple.h: In function ‘void seqan::subset(seqan::StringSet > >&, seqan::StringSet > >&, TIds, TLength)’: ./seqan/sequence/sequence_multiple.h:1647:41: warning: typedef ‘TId’ locally defined but not used [-Wunused-local-typedefs] 1647 | typedef typename Id::Type TId; | ^~~ g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o locateOnGenome.o locateOnGenome.cpp In file included from ./seqan/index.h:82, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:11, from cracIndex.cpp:67: ./seqan/index/shape_base.h: In function ‘typename seqan::Value > >::Type seqan::hash(seqan::Shape >&, TIter)’: ./seqan/index/shape_base.h:273:62: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 273 | typedef typename Value< Shape >::Type THValue; | ^~~~~~~ ./seqan/index/shape_base.h: In function ‘typename seqan::Value > >::Type seqan::hash(seqan::Shape >&, TIter)’: ./seqan/index/shape_base.h:309:65: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 309 | typedef typename Value< Shape > >::Type THValue; | ^~~~~~~ ./seqan/index/shape_base.h:310:64: warning: typedef ‘TSize’ locally defined but not used [-Wunused-local-typedefs] 310 | typedef typename Size< Shape > >::Type TSize; | ^~~~~ ./seqan/index/shape_base.h: In function ‘typename seqan::Value >::Type seqan::hash(seqan::Shape&, TIter, TSize)’: ./seqan/index/shape_base.h:322:56: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 322 | typedef typename Value< Shape >::Type THValue; | ^~~~~~~ ./seqan/index/shape_base.h: In function ‘typename seqan::Value >::Type seqan::hashUpper(seqan::Shape&, TIter, TSize)’: ./seqan/index/shape_base.h:424:56: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 424 | typedef typename Value< Shape >::Type THValue; | ^~~~~~~ ./seqan/index/shape_base.h: In function ‘typename seqan::Value >::Type seqan::hash2(seqan::Shape&, TIter, TSize)’: ./seqan/index/shape_base.h:492:56: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 492 | typedef typename Value< Shape >::Type THValue; | ^~~~~~~ In file included from ./seqan/index.h:83, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:11, from cracIndex.cpp:67: ./seqan/index/shape_gapped.h: In function ‘typename seqan::Value > > >::Type seqan::hash(seqan::Shape > >&, TIter)’: ./seqan/index/shape_gapped.h:370:62: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 370 | typedef typename Value< Shape >::Type THValue; | ^~~~~~~ ./seqan/index/shape_gapped.h: In function ‘typename seqan::Value > >::Type seqan::hash(seqan::Shape >&, TIter, TSize)’: ./seqan/index/shape_gapped.h:387:75: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 387 | typedef typename Value< Shape > >::Type THValue; | ^~~~~~~ ./seqan/index/shape_gapped.h: In function ‘typename seqan::Value > >::Type seqan::hashUpper(seqan::Shape >&, TIter, TSize)’: ./seqan/index/shape_gapped.h:415:75: warning: typedef ‘THValue’ locally defined but not used [-Wunused-local-typedefs] 415 | typedef typename Value< Shape > >::Type THValue; | ^~~~~~~ In file included from ./seqan/file.h:66, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/multikey_qsort.h:6, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:8, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:13, from cracIndex.cpp:67: ./seqan/file/file_format_fasta_align.h: In function ‘void seqan::read(TFile&, seqan::Align&, FastaAlign)’: ./seqan/file/file_format_fasta_align.h:138:37: warning: typedef ‘TRow’ locally defined but not used [-Wunused-local-typedefs] 138 | typedef typename Row::Type TRow; | ^~~~ ./seqan/file/file_format_fasta_align.h: In function ‘void seqan::_write_impl(TFile&, seqan::Align&, TStringContainer&, FastaAlign)’: ./seqan/file/file_format_fasta_align.h:252:42: warning: typedef ‘TPosition’ locally defined but not used [-Wunused-local-typedefs] 252 | typedef typename Position::Type TPosition; | ^~~~~~~~~ In file included from ./seqan/file.h:69, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/multikey_qsort.h:6, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:8, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:13, from cracIndex.cpp:67: ./seqan/file/file_format_cgviz.h: In function ‘void seqan::_write_impl(TFile&, seqan::Align&, TStringContainer&, CGViz)’: ./seqan/file/file_format_cgviz.h:66:37: warning: typedef ‘TRow’ locally defined but not used [-Wunused-local-typedefs] 66 | typedef typename Row::Type TRow; | ^~~~ In file included from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:13, from cracIndex.cpp:67: /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:156:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 156 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:156:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 156 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:157:6: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 157 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/diff_sample.h:157:32: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 157 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from cracIndex.cpp:67: /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h: In destructor ‘KarkkainenBlockwiseSA::~KarkkainenBlockwiseSA()’: /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:206:3: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 206 | if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample | ^~ /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:206:31: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 206 | if(_dc != NULL) delete _dc; _dc = NULL; // difference cover sample | ^~~ /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h: In member function ‘void KarkkainenBlockwiseSA::buildSamples()’: /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:380:37: warning: typedef ‘TAlphabet’ locally defined but not used [-Wunused-local-typedefs] 380 | typedef typename Value::Type TAlphabet; | ^~~~~~~~~ /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h: In member function ‘virtual void KarkkainenBlockwiseSA::nextBlock()’: /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:745:37: warning: typedef ‘TAlphabet’ locally defined but not used [-Wunused-local-typedefs] 745 | typedef typename Value::Type TAlphabet; | ^~~~~~~~~ In file included from ./seqan/sequence.h:57, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/sequence/string_packed.h: In instantiation of ‘struct seqan::_PackedConsts, seqan::Packed<> > >’: ./seqan/sequence/string_packed.h:906:43: required from ‘typename seqan::Position > >::Type seqan::position(const seqan::Iter >&) [with TContainer = const seqan::String, seqan::Packed<> >; THostspec = seqan::Alloc; typename seqan::Position > >::Type = long unsigned int]’ ./seqan/sequence/string_packed.h:1237:17: required from ‘typename seqan::Difference > >::Type seqan::operator-(const seqan::Iter >&, const seqan::Iter >&) [with TContainer = const seqan::String, seqan::Packed<> >; THostspec = seqan::Alloc; typename seqan::Difference > >::Type = long int]’ ./seqan/sequence/string_base.h:181:29: required from ‘typename seqan::Size >::Type seqan::length(const seqan::String&) [with TValue = seqan::SimpleType; TSpec = seqan::Packed<>; typename seqan::Size >::Type = long unsigned int]’ /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:354:32: required from here ./seqan/sequence/string_packed.h:294:37: warning: comparison between ‘enum seqan::BitsPerValue >::’ and ‘enum seqan::BitsPerValue::’ [-Wenum-compare] 294 | VALUES_PER_WORD = (BITS_PER_VALUE > BITS_PER_HOST_VALUE) ? 1 : (BITS_PER_HOST_VALUE / BITS_PER_VALUE), | ~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o locateTags.o locateTags.cpp ./seqan/sequence/string_packed.h: In instantiation of ‘struct seqan::_PackedConsts, seqan::Packed<> > >’: ./seqan/sequence/string_packed.h:958:50: required from ‘typename seqan::GetValue > >::Type seqan::getValue(const seqan::Iter >&) [with TContainer = seqan::String, seqan::Packed<> >; THostspec = seqan::Alloc; typename seqan::GetValue > >::Type = seqan::SimpleType]’ ./seqan/basic/basic_proxy.h:242:17: required from ‘typename seqan::GetValue >::Type seqan::getValue(const seqan::Proxy&) [with TSpec = seqan::IteratorProxy, seqan::Packed<> >, seqan::Packed<> > >; typename seqan::GetValue >::Type = seqan::SimpleType]’ ./seqan/basic/basic_proxy.h:272:34: required from ‘typename seqan::Convert >::Type seqan::convertImpl(seqan::Convert, const seqan::Proxy&) [with TTarget = char; T = seqan::Proxy, seqan::Packed<> >, seqan::Packed<> > > >; TSpec = seqan::IteratorProxy, seqan::Packed<> >, seqan::Packed<> > >; typename seqan::Convert >::Type = char]’ ./seqan/basic/basic_converter.h:111:20: required from ‘typename seqan::Convert::Type seqan::convert(const TSource&) [with TTarget = char; TSource = seqan::Proxy, seqan::Packed<> >, seqan::Packed<> > > >; typename seqan::Convert::Type = char]’ cracIndex.cpp:224:50: required from here ./seqan/sequence/string_packed.h:294:37: warning: comparison between ‘enum seqan::BitsPerValue >::’ and ‘enum seqan::BitsPerValue::’ [-Wenum-compare] In file included from ./seqan/basic.h:101, from ./seqan/sequence.h:27, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/basic/basic_alphabet_trait_basic.h: In instantiation of ‘void seqan::_arrayCopyForward_Pointer(TValue*, TValue*, TValue*, seqan::True) [with TValue = seqan::SimpleType]’: ./seqan/basic/basic_alphabet_trait_basic.h:226:27: required from ‘void seqan::arrayCopyForward(TValue*, TValue*, TValue*) [with TValue = seqan::SimpleType]’ ./seqan/basic/basic_alphabet_trait_basic.h:102:18: required from ‘void seqan::_arrayConstructCopy_Pointer(TValue*, TValue*, TValue*, seqan::True) [with TValue = seqan::SimpleType]’ ./seqan/basic/basic_alphabet_trait_basic.h:121:29: required from ‘void seqan::arrayConstructCopy(TValue*, TValue*, TValue*) [with TValue = seqan::SimpleType]’ ./seqan/sequence/string_alloc.h:421:21: required from ‘typename seqan::Size > >::Type seqan::reserve(seqan::String >&, _TSize, seqan::Tag) [with TValue = seqan::SimpleType; TSpec = void; _TSize = long unsigned int; TExpand = seqan::TagExact_; typename seqan::Size > >::Type = long unsigned int]’ ./seqan/sequence/string_base.h:1433:33: required from ‘static typename seqan::Size::Type seqan::_Resize_String::resize_(T&, typename seqan::Size::Type) [with T = seqan::String, seqan::Alloc >; TExpand = const seqan::Tag; typename seqan::Size::Type = long unsigned int]’ ./seqan/sequence/string_base.h:1459:52: required from ‘typename seqan::Size >::Type seqan::resize(seqan::String&, TSize, seqan::Tag) [with TValue = seqan::SimpleType; TSpec = seqan::Alloc; TSize = long unsigned int; TExpand = seqan::TagExact_; typename seqan::Size >::Type = long unsigned int]’ ./seqan/sequence/sequence_interface.h:1360:15: required from ‘typename seqan::Size::Type seqan::resize(T&, TSize) [with T = seqan::String, seqan::Alloc >; TSize = long unsigned int; typename seqan::Size::Type = long unsigned int]’ ./seqan/file/file_format_fasta.h:269:8: required from ‘void seqan::read(TFile&, TData&, TSize, Fasta) [with TFile = std::basic_ifstream; TData = seqan::String, seqan::Alloc >; TSize = long unsigned int; seqan::Fasta = const seqan::Tag]’ ./seqan/file/file_format_fasta.h:309:6: required from ‘void seqan::read(TFile&, TData&, Fasta) [with TFile = std::basic_ifstream; TData = seqan::String, seqan::Alloc >; seqan::Fasta = const seqan::Tag]’ cracIndex.cpp:142:40: required from here ./seqan/basic/basic_alphabet_trait_basic.h:207:9: warning: ‘void* memmove(void*, const void*, size_t)’ writing to an object of type ‘struct seqan::SimpleType’ with no trivial copy-assignment; use copy-assignment or copy-initialization instead [-Wclass-memaccess] 207 | memmove(target_begin, source_begin, (source_end - source_begin) * sizeof(TValue)); | ~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from ./seqan/basic.h:106, from ./seqan/sequence.h:27, from /<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt/blockwise_sa.h:10, from cracIndex.cpp:67: ./seqan/basic/basic_alphabet_simple.h:57:8: note: ‘struct seqan::SimpleType’ declared here 57 | struct SimpleType | ^~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o SSA.o SSA.cpp In file included from /usr/include/libGkArrays/readsReader.h:109, from locateTags.h:60, from locateTags.cpp:53: /usr/include/libGkArrays/kseq/kseq.h:169:14: warning: ‘int kseq_read(kseq_t*)’ defined but not used [-Wunused-function] 169 | static int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ /usr/include/libGkArrays/kseq/kseq.h:227:3: note: in expansion of macro ‘__KSEQ_READ’ 227 | __KSEQ_READ | ^~~~~~~~~~~ /usr/include/libGkArrays/readsReader.h:111:1: note: in expansion of macro ‘KSEQ_INIT’ 111 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o utils.o utils.cpp g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bwt -I/usr/include/libGkArrays -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o GenomeInfo.o GenomeInfo.cpp rm -f libSSA.a ar cru libSSA.a bitarray.o bitrankw32int.o chrPosition.o HuffAlphabetRank.o Huffman_Codes.o locateOnGenome.o locateTags.o SSA.o utils.o GenomeInfo.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libSSA.a /bin/bash ../../libtool --tag=CXX --mode=link g++ -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lm -lpthread -lSSA -L/<>/crac-2.5.2+dfsg/src/libSSA/ -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o crac-index cracIndex.o libSSA.a -lhts -lz -lpthread -lm libtool: link: g++ -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o crac-index cracIndex.o -lSSA -L/<>/crac-2.5.2+dfsg/src/libSSA/ libSSA.a -lhts -lz -lpthread -lm make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libSSA' Making all in libReadsReader make[3]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' Making all in kseq make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader/kseq' make[4]: Nothing to be done for 'all'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader/kseq' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' g++ -DHAVE_CONFIG_H -I. -I../../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o libReadsReader_a-readsReader.o `test -f 'readsReader.cpp' || echo './'`readsReader.cpp rm -f libReadsReader.a ar cru libReadsReader.a libReadsReader_a-readsReader.o ar: `u' modifier ignored since `D' is the default (see `U') ranlib libReadsReader.a make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' make[3]: Entering directory '/<>/crac-2.5.2+dfsg/src' g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Classifier.o Classifier.cpp g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o classifyTags.o classifyTags.cpp g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o GkReadIndex.o GkReadIndex.cpp g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o JellyReadIndex.o JellyReadIndex.cpp classifyTags.cpp:421:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 421 | headerTemplate << "#Created on " <<__DATE__ << endl << "#" << endl; | ^~~~~~~~ In file included from /usr/include/libGkArrays/bitvector.hxx:104, from /usr/include/libGkArrays/solArray.h:106, from /usr/include/libGkArrays/gkArrays.h:112, from GkReadIndex.h:60, from GkReadIndex.cpp:55: /usr/include/libGkArrays/largebinvect.hxx:119:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 119 | LargeBinVect(const CountWordSize length = 0, const bool value = 0) throw (std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:120:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 120 | LargeBinVect(const char *binary_string) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:121:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 121 | LargeBinVect(const LargeBinVect &v) throw (std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:127:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 127 | inline LargeBinVect &operator=(const LargeBinVect &v) throw (std::bad_alloc); | ^~~~~ In file included from /usr/include/libGkArrays/bitvector.hxx:104, from /usr/include/libGkArrays/solArray.h:106, from /usr/include/libGkArrays/gkArrays.h:112, from GkReadIndex.h:60, from GkReadIndex.cpp:55: /usr/include/libGkArrays/largebinvect.hxx:155:128: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 155 | inline LargeBinVect operator()(const CountWordSize b = 0, const CountWordSize lg = ~((CountWordSize)0)) const throw (std::bad_alloc, std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:158:116: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 158 | inline unsigned long int GetValue(const CountWordSize b = 0, const CountWordSize lg = ~((CountWordSize)0)) const throw (std::bad_alloc, std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:161:55: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 161 | inline bool operator[](const CountWordSize i) const throw (std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:177:51: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 177 | inline bool GetBit(const CountWordSize i) const throw (std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:179:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 179 | inline LargeBinVect &SetBit(const CountWordSize i, const bool value) throw (std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:182:128: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 182 | inline LargeBinVect &SetBitRange(const CountWordSize i, const CountWordSize j, const long unsigned int value) throw (std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:191:96: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 191 | inline LargeBinVect &Resize(const CountWordSize length, const bool value = 0) throw (std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:194:64: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 194 | inline LargeBinVect &Append(const bool value) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:197:65: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 197 | inline LargeBinVect &Prepend(const bool value) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:200:88: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 200 | inline LargeBinVect &operator+=(const LargeBinVect &v) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:203:52: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 203 | inline LargeBinVect &operator++() throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:205:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 205 | inline LargeBinVect operator++(int) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:208:52: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 208 | inline LargeBinVect &operator--() throw (BinVectOverflow); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:210:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 210 | inline LargeBinVect operator--(int) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:214:67: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 214 | inline LargeBinVect Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc); | ^~~~~ In file included from /usr/include/libGkArrays/largebinvect.hxx:241, from /usr/include/libGkArrays/bitvector.hxx:104, from /usr/include/libGkArrays/solArray.h:106, from /usr/include/libGkArrays/gkArrays.h:112, from GkReadIndex.h:60, from GkReadIndex.cpp:55: /usr/include/libGkArrays/largebinvect.cxx:121:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 121 | unsigned char *MyCalloc(const CountWordSize w, const int value = -1) throw (std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:136:89: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 136 | LargeBinVect::LargeBinVect(const CountWordSize length, const bool value) throw (std::bad_alloc) | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:147:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 147 | LargeBinVect::LargeBinVect(const char *binary_string) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:167:81: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 167 | LargeBinVect::LargeBinVect(const LargeBinVect &v) throw (std::bad_alloc) | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:184:107: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 184 | LargeBinVect &LargeBinVect::operator=(const LargeBinVect &v) throw (std::bad_alloc) { | ^~~~~ In file included from /usr/include/libGkArrays/largebinvect.hxx:241, from /usr/include/libGkArrays/bitvector.hxx:104, from /usr/include/libGkArrays/solArray.h:106, from /usr/include/libGkArrays/gkArrays.h:112, from GkReadIndex.h:60, from GkReadIndex.cpp:55: /usr/include/libGkArrays/largebinvect.cxx:339:123: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 339 | LargeBinVect LargeBinVect::operator()(const CountWordSize b, const CountWordSize lg) const throw (std::bad_alloc, std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:363:110: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 363 | unsigned long int LargeBinVect::GetValue(const CountWordSize b, const CountWordSize lg) const throw (std::bad_alloc, std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:397:75: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 397 | bool LargeBinVect::operator[](const CountWordSize i) const throw (std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:478:71: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 478 | bool LargeBinVect::GetBit(const CountWordSize i) const throw (std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:493:107: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 493 | LargeBinVect &LargeBinVect::SetBit(const CountWordSize i, const bool value) throw (std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:513:148: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 513 | LargeBinVect &LargeBinVect::SetBitRange(const CountWordSize i, const CountWordSize j, const long unsigned int value) throw (std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:619:112: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 619 | LargeBinVect &LargeBinVect::Resize(const CountWordSize length, const bool value) throw (std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:653:84: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 653 | LargeBinVect &LargeBinVect::Append(const bool value) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:661:85: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 661 | LargeBinVect &LargeBinVect::Prepend(const bool value) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:673:108: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 673 | LargeBinVect &LargeBinVect::operator+=(const LargeBinVect &v) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:711:72: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 711 | LargeBinVect &LargeBinVect::operator++() throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:727:74: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 727 | LargeBinVect LargeBinVect::operator++(int) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:734:72: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 734 | LargeBinVect &LargeBinVect::operator--() throw (BinVectOverflow) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:750:74: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 750 | LargeBinVect LargeBinVect::operator--(int) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:757:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 757 | LargeBinVect LargeBinVect::Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc) { | ^~~~~ In file included from /usr/include/libGkArrays/gkArrays.h:112, from GkReadIndex.h:60, from GkReadIndex.cpp:55: /usr/include/libGkArrays/solArray.h:160:58: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 160 | SolArray(void *ptr, array_type t, uintSA nbElements) throw (invalid_argument); | ^~~~~ /usr/include/libGkArrays/solArray.h:202:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 202 | void realloc(uintSA nbElements) throw (logic_error); | ^~~~~ In file included from libReadsReader/readsReader.h:57, from Read.h:55, from ReadIndex.h:52, from GkReadIndex.h:59, from GkReadIndex.cpp:55: libReadsReader/kseq/kseq.h:169:14: warning: ‘int kseq_read(kseq_t*)’ defined but not used [-Wunused-function] 169 | static int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro ‘__KSEQ_READ’ 227 | __KSEQ_READ | ^~~~~~~~~~~ libReadsReader/readsReader.h:59:1: note: in expansion of macro ‘KSEQ_INIT’ 59 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o crac.o crac.cpp In file included from libReadsReader/readsReader.h:57, from Read.h:55, from ReadIndex.h:52, from classifyTags.h:53, from classifyTags.cpp:52: libReadsReader/kseq/kseq.h:169:14: warning: ‘int kseq_read(kseq_t*)’ defined but not used [-Wunused-function] 169 | static int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro ‘__KSEQ_READ’ 227 | __KSEQ_READ | ^~~~~~~~~~~ libReadsReader/readsReader.h:59:1: note: in expansion of macro ‘KSEQ_INIT’ 59 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ crac.cpp:213:34: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 213 | printf("\tCompiled on %s.\n\n",__DATE__); | ^~~~~~~~ In file included from ./libReadsReader/readsReader.h:57, from ./Read.h:55, from ./ReadIndex.h:52, from ./Classifier.h:56, from Classifier.cpp:52: ./libReadsReader/kseq/kseq.h:169:14: warning: ‘int kseq_read(kseq_t*)’ defined but not used [-Wunused-function] 169 | static int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ ./libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro ‘__KSEQ_READ’ 227 | __KSEQ_READ | ^~~~~~~~~~~ ./libReadsReader/readsReader.h:59:1: note: in expansion of macro ‘KSEQ_INIT’ 59 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In file included from libReadsReader/readsReader.h:57, from Read.h:55, from ReadIndex.h:52, from JellyReadIndex.h:59, from JellyReadIndex.cpp:55: libReadsReader/kseq/kseq.h:169:14: warning: ‘int kseq_read(kseq_t*)’ defined but not used [-Wunused-function] 169 | static int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro ‘__KSEQ_READ’ 227 | __KSEQ_READ | ^~~~~~~~~~~ libReadsReader/readsReader.h:59:1: note: in expansion of macro ‘KSEQ_INIT’ 59 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ In file included from /usr/include/libGkArrays/bitvector.hxx:104, from /usr/include/libGkArrays/solArray.h:106, from /usr/include/libGkArrays/gkArrays.h:112, from crac.cpp:69: /usr/include/libGkArrays/largebinvect.hxx:119:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 119 | LargeBinVect(const CountWordSize length = 0, const bool value = 0) throw (std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:120:43: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 120 | LargeBinVect(const char *binary_string) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:121:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 121 | LargeBinVect(const LargeBinVect &v) throw (std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:127:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 127 | inline LargeBinVect &operator=(const LargeBinVect &v) throw (std::bad_alloc); | ^~~~~ In file included from /usr/include/libGkArrays/bitvector.hxx:104, from /usr/include/libGkArrays/solArray.h:106, from /usr/include/libGkArrays/gkArrays.h:112, from crac.cpp:69: /usr/include/libGkArrays/largebinvect.hxx:155:128: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 155 | inline LargeBinVect operator()(const CountWordSize b = 0, const CountWordSize lg = ~((CountWordSize)0)) const throw (std::bad_alloc, std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:158:116: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 158 | inline unsigned long int GetValue(const CountWordSize b = 0, const CountWordSize lg = ~((CountWordSize)0)) const throw (std::bad_alloc, std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:161:55: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 161 | inline bool operator[](const CountWordSize i) const throw (std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:177:51: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 177 | inline bool GetBit(const CountWordSize i) const throw (std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:179:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 179 | inline LargeBinVect &SetBit(const CountWordSize i, const bool value) throw (std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:182:128: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 182 | inline LargeBinVect &SetBitRange(const CountWordSize i, const CountWordSize j, const long unsigned int value) throw (std::out_of_range); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:191:96: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 191 | inline LargeBinVect &Resize(const CountWordSize length, const bool value = 0) throw (std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:194:64: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 194 | inline LargeBinVect &Append(const bool value) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:197:65: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 197 | inline LargeBinVect &Prepend(const bool value) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:200:88: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 200 | inline LargeBinVect &operator+=(const LargeBinVect &v) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:203:52: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 203 | inline LargeBinVect &operator++() throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:205:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 205 | inline LargeBinVect operator++(int) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:208:52: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 208 | inline LargeBinVect &operator--() throw (BinVectOverflow); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:210:54: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 210 | inline LargeBinVect operator--(int) throw (BinVectOverflow, std::bad_alloc); | ^~~~~ /usr/include/libGkArrays/largebinvect.hxx:214:67: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 214 | inline LargeBinVect Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc); | ^~~~~ In file included from /usr/include/libGkArrays/largebinvect.hxx:241, from /usr/include/libGkArrays/bitvector.hxx:104, from /usr/include/libGkArrays/solArray.h:106, from /usr/include/libGkArrays/gkArrays.h:112, from crac.cpp:69: /usr/include/libGkArrays/largebinvect.cxx:121:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 121 | unsigned char *MyCalloc(const CountWordSize w, const int value = -1) throw (std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:136:89: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 136 | LargeBinVect::LargeBinVect(const CountWordSize length, const bool value) throw (std::bad_alloc) | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:147:70: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 147 | LargeBinVect::LargeBinVect(const char *binary_string) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:167:81: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 167 | LargeBinVect::LargeBinVect(const LargeBinVect &v) throw (std::bad_alloc) | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:184:107: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 184 | LargeBinVect &LargeBinVect::operator=(const LargeBinVect &v) throw (std::bad_alloc) { | ^~~~~ In file included from /usr/include/libGkArrays/largebinvect.hxx:241, from /usr/include/libGkArrays/bitvector.hxx:104, from /usr/include/libGkArrays/solArray.h:106, from /usr/include/libGkArrays/gkArrays.h:112, from crac.cpp:69: /usr/include/libGkArrays/largebinvect.cxx:339:123: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 339 | LargeBinVect LargeBinVect::operator()(const CountWordSize b, const CountWordSize lg) const throw (std::bad_alloc, std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:363:110: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 363 | unsigned long int LargeBinVect::GetValue(const CountWordSize b, const CountWordSize lg) const throw (std::bad_alloc, std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:397:75: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 397 | bool LargeBinVect::operator[](const CountWordSize i) const throw (std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:478:71: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 478 | bool LargeBinVect::GetBit(const CountWordSize i) const throw (std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:493:107: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 493 | LargeBinVect &LargeBinVect::SetBit(const CountWordSize i, const bool value) throw (std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:513:148: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 513 | LargeBinVect &LargeBinVect::SetBitRange(const CountWordSize i, const CountWordSize j, const long unsigned int value) throw (std::out_of_range) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:619:112: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 619 | LargeBinVect &LargeBinVect::Resize(const CountWordSize length, const bool value) throw (std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:653:84: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 653 | LargeBinVect &LargeBinVect::Append(const bool value) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:661:85: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 661 | LargeBinVect &LargeBinVect::Prepend(const bool value) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:673:108: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 673 | LargeBinVect &LargeBinVect::operator+=(const LargeBinVect &v) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:711:72: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 711 | LargeBinVect &LargeBinVect::operator++() throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:727:74: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 727 | LargeBinVect LargeBinVect::operator++(int) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:734:72: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 734 | LargeBinVect &LargeBinVect::operator--() throw (BinVectOverflow) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:750:74: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 750 | LargeBinVect LargeBinVect::operator--(int) throw (BinVectOverflow, std::bad_alloc) { | ^~~~~ /usr/include/libGkArrays/largebinvect.cxx:757:87: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 757 | LargeBinVect LargeBinVect::Split(const CountWordSize i) throw (std::out_of_range, std::bad_alloc) { | ^~~~~ In file included from /usr/include/libGkArrays/gkArrays.h:112, from crac.cpp:69: /usr/include/libGkArrays/solArray.h:160:58: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 160 | SolArray(void *ptr, array_type t, uintSA nbElements) throw (invalid_argument); | ^~~~~ /usr/include/libGkArrays/solArray.h:202:37: warning: dynamic exception specifications are deprecated in C++11 [-Wdeprecated] 202 | void realloc(uintSA nbElements) throw (logic_error); | ^~~~~ Classifier.cpp: In member function ‘virtual void SingleReadClassifier::classify()’: Classifier.cpp:203:33: warning: ‘bioundetermined_type’ may be used uninitialized in this function [-Wmaybe-uninitialized] 203 | taginfo->addBioUndetermined(suppoBreak->getLocationStartBreak(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 204 | suppoBreak->getPositionStartBreak(), | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 205 | bioundetermined_type, | ~~~~~~~~~~~~~~~~~~~~~ 206 | message.c_str()); | ~~~~~~~~~~~~~~~~ crac.cpp: In function ‘int main(int, char**)’: crac.cpp:1009:26: warning: catching polymorphic type ‘class std::bad_alloc’ by value [-Wcatch-value=] 1009 | } catch (bad_alloc e) { | ^ g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Parameters.o Parameters.cpp g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o SupportBreak.o SupportBreak.cpp In file included from libReadsReader/readsReader.h:57, from Read.h:55, from ReadIndex.h:52, from classifyTags.h:53, from crac.cpp:66: libReadsReader/readsReader.h: At global scope: libReadsReader/kseq/kseq.h:169:14: warning: ‘int kseq_read(kseq_t*)’ defined but not used [-Wunused-function] 169 | static int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro ‘__KSEQ_READ’ 227 | __KSEQ_READ | ^~~~~~~~~~~ libReadsReader/readsReader.h:59:1: note: in expansion of macro ‘KSEQ_INIT’ 59 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o BreakList.o BreakList.cpp g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o CandidatBreak.o CandidatBreak.cpp In file included from libReadsReader/readsReader.h:57, from Read.h:55, from ReadIndex.h:52, from Support.h:59, from SupportBreak.cpp:55: libReadsReader/kseq/kseq.h:169:14: warning: ‘int kseq_read(kseq_t*)’ defined but not used [-Wunused-function] 169 | static int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro ‘__KSEQ_READ’ 227 | __KSEQ_READ | ^~~~~~~~~~~ libReadsReader/readsReader.h:59:1: note: in expansion of macro ‘KSEQ_INIT’ 59 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Support.o Support.cpp g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o locateServer.o locateServer.cpp In file included from libReadsReader/readsReader.h:57, from Read.h:55, from ReadIndex.h:52, from Support.h:59, from Support.cpp:57: libReadsReader/kseq/kseq.h:169:14: warning: ‘int kseq_read(kseq_t*)’ defined but not used [-Wunused-function] 169 | static int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro ‘__KSEQ_READ’ 227 | __KSEQ_READ | ^~~~~~~~~~~ libReadsReader/readsReader.h:59:1: note: in expansion of macro ‘KSEQ_INIT’ 59 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ locateServer.cpp: In function ‘void* launchSubServer(void*)’: locateServer.cpp:464:8: warning: unused variable ‘threshold’ [-Wunused-variable] 464 | uint threshold = indexTags->getFactorLength(); | ^~~~~~~~~ locateServer.cpp:466:9: warning: variable ‘dontCare’ set but not used [-Wunused-but-set-variable] 466 | char *dontCare, *variable, *tag_length, *factor; | ^~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o utils.o utils.cpp locateServer.cpp: In function ‘void locateServer(ClassifyTags*, const char*, const char*)’: locateServer.cpp:717:9: warning: variable ‘dontCare’ set but not used [-Wunused-but-set-variable] 717 | char *dontCare; | ^~~~~~~~ In file included from libReadsReader/readsReader.h:57, from Read.h:55, from ReadIndex.h:52, from classifyTags.h:53, from locateServer.cpp:59: libReadsReader/readsReader.h: At global scope: libReadsReader/kseq/kseq.h:169:14: warning: ‘int kseq_read(kseq_t*)’ defined but not used [-Wunused-function] 169 | static int kseq_read(kseq_t *seq) \ | ^~~~~~~~~ libReadsReader/kseq/kseq.h:227:3: note: in expansion of macro ‘__KSEQ_READ’ 227 | __KSEQ_READ | ^~~~~~~~~~~ libReadsReader/readsReader.h:59:1: note: in expansion of macro ‘KSEQ_INIT’ 59 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I../config -I/<>/crac-2.5.2+dfsg -I/<>/crac-2.5.2+dfsg/src -I/<>/crac-2.5.2+dfsg/src/libSSA -I/<>/crac-2.5.2+dfsg/src/libSSA/karkkainen_bw -I/usr/include/jellyfish -I/usr/include/libGkArrays -I/usr/include/libProgressBar -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -ansi -funroll-loops -O4 -DNDEBUG -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Bitset.o Bitset.cpp ln -s -f /<>/crac-2.5.2+dfsg/src/libSSA/crac-index crac-index /bin/bash ../libtool --tag=CXX --mode=link g++ -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -lGkArrays -ljellyfish-2.0 -lm -lpthread -lhts -lSSA -lReadsInfo -lReadsReader -lgzstream -L/<>/crac-2.5.2+dfsg/src/libSSA -L/<>/crac-2.5.2+dfsg/src/libReadsInfo -L/<>/crac-2.5.2+dfsg/src/libReadsReader -ljellyfish-2.0 -lGkArrays -lProgressBar -Wl,-Bsymbolic-functions -Wl,-z,relro -Wl,-z,now -o crac Classifier.o classifyTags.o GkReadIndex.o JellyReadIndex.o crac.o Parameters.o SupportBreak.o BreakList.o CandidatBreak.o Support.o locateServer.o utils.o Bitset.o /<>/crac-2.5.2+dfsg/src/libSSA/libSSA.a /<>/crac-2.5.2+dfsg/src/libReadsInfo/libReadsInfo.a /<>/crac-2.5.2+dfsg/src/libReadsReader/libReadsReader.a -lhts -lz -lpthread -lm libtool: link: g++ -std=c++0x -g -O2 -fdebug-prefix-map=/<>/crac-2.5.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-Bsymbolic-functions -Wl,-z -Wl,relro -Wl,-z -Wl,now -o crac Classifier.o classifyTags.o GkReadIndex.o JellyReadIndex.o crac.o Parameters.o SupportBreak.o BreakList.o CandidatBreak.o Support.o locateServer.o utils.o Bitset.o -lSSA -lReadsInfo -lReadsReader -lgzstream -L/<>/crac-2.5.2+dfsg/src/libSSA -L/<>/crac-2.5.2+dfsg/src/libReadsInfo -L/<>/crac-2.5.2+dfsg/src/libReadsReader /usr/lib/aarch64-linux-gnu/libjellyfish-2.0.so -lGkArrays -lProgressBar /<>/crac-2.5.2+dfsg/src/libSSA/libSSA.a /<>/crac-2.5.2+dfsg/src/libReadsInfo/libReadsInfo.a /<>/crac-2.5.2+dfsg/src/libReadsReader/libReadsReader.a -lhts -lz -lpthread -lm make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/src' make[2]: Leaving directory '/<>/crac-2.5.2+dfsg/src' Making all in man make[2]: Entering directory '/<>/crac-2.5.2+dfsg/man' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/<>/crac-2.5.2+dfsg/man' Making all in scripts make[2]: Entering directory '/<>/crac-2.5.2+dfsg/scripts' make[2]: Nothing to be done for 'all'. make[2]: Leaving directory '/<>/crac-2.5.2+dfsg/scripts' Making all in test_f make[2]: Entering directory '/<>/crac-2.5.2+dfsg/test_f' Making all in causes make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/causes' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/causes' Making all in bug make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/bug' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/bug' Making all in cigar make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/cigar' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/cigar' Making all in splices_adjust make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/splices_adjust' make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/splices_adjust' make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f' make[2]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f' make[2]: Entering directory '/<>/crac-2.5.2+dfsg' make[2]: Nothing to be done for 'all-am'. make[2]: Leaving directory '/<>/crac-2.5.2+dfsg' make[1]: Leaving directory '/<>/crac-2.5.2+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/<>/crac-2.5.2+dfsg' # Sequence of tests is important so parallel execution is no option dh_auto_test --no-parallel make -j1 check VERBOSE=1 make[2]: Entering directory '/<>/crac-2.5.2+dfsg' Making check in src make[3]: Entering directory '/<>/crac-2.5.2+dfsg/src' Making check in libReadsInfo make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsInfo' make[4]: Nothing to be done for 'check'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsInfo' Making check in libSSA make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src/libSSA' make[4]: Nothing to be done for 'check'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libSSA' Making check in libReadsReader make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' Making check in kseq make[5]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader/kseq' make[5]: Nothing to be done for 'check'. make[5]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader/kseq' make[5]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' make[5]: Nothing to be done for 'check-am'. make[5]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src' make[4]: Nothing to be done for 'check-am'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/src' Making check in man make[3]: Entering directory '/<>/crac-2.5.2+dfsg/man' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/man' Making check in scripts make[3]: Entering directory '/<>/crac-2.5.2+dfsg/scripts' make[3]: Nothing to be done for 'check'. make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/scripts' Making check in test_f make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f' Making check in causes make[4]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/causes' make[4]: Nothing to be done for 'check'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/causes' Making check in bug make[4]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/bug' make[4]: Nothing to be done for 'check'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/bug' Making check in cigar make[4]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/cigar' make[4]: Nothing to be done for 'check'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/cigar' Making check in splices_adjust make[4]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/splices_adjust' make[4]: Nothing to be done for 'check'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/splices_adjust' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/test_f' make check-TESTS make[5]: Entering directory '/<>/crac-2.5.2+dfsg/test_f' make[6]: Entering directory '/<>/crac-2.5.2+dfsg/test_f' PASS: index_genomes.sh PASS: launch_sg.sh PASS: test_index.sh ============================================================================ Testsuite summary for crac 2.5.2 ============================================================================ # TOTAL: 3 # PASS: 3 # SKIP: 0 # XFAIL: 0 # FAIL: 0 # XPASS: 0 # ERROR: 0 ============================================================================ make[6]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f' make[5]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f' make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f' make[3]: Entering directory '/<>/crac-2.5.2+dfsg' make[3]: Nothing to be done for 'check-am'. make[3]: Leaving directory '/<>/crac-2.5.2+dfsg' make[2]: Leaving directory '/<>/crac-2.5.2+dfsg' make[1]: Leaving directory '/<>/crac-2.5.2+dfsg' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary-arch dh binary-arch dh_testroot -a dh_prep -a dh_auto_install -a make -j1 install DESTDIR=/<>/crac-2.5.2\+dfsg/debian/crac AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/<>/crac-2.5.2+dfsg' Making install in src make[2]: Entering directory '/<>/crac-2.5.2+dfsg/src' Making install in libReadsInfo make[3]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsInfo' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsInfo' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsInfo' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsInfo' Making install in libSSA make[3]: Entering directory '/<>/crac-2.5.2+dfsg/src/libSSA' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src/libSSA' /bin/mkdir -p '/<>/crac-2.5.2+dfsg/debian/crac/usr/bin' /bin/bash ../../libtool --mode=install /usr/bin/install -c crac-index '/<>/crac-2.5.2+dfsg/debian/crac/usr/bin' libtool: install: /usr/bin/install -c crac-index /<>/crac-2.5.2+dfsg/debian/crac/usr/bin/crac-index make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libSSA' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libSSA' Making install in libReadsReader make[3]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' Making install in kseq make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader/kseq' make[5]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader/kseq' make[5]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/crac-2.5.2+dfsg/debian/crac/usr/include/crac-2.5.2/kseq' /usr/bin/install -c -m 644 kseq.h '/<>/crac-2.5.2+dfsg/debian/crac/usr/include/crac-2.5.2/kseq' make[5]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader/kseq' make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader/kseq' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' make[5]: Entering directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' make[5]: Nothing to be done for 'install-exec-am'. make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/src/libReadsReader' make[3]: Entering directory '/<>/crac-2.5.2+dfsg/src' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/src' /bin/mkdir -p '/<>/crac-2.5.2+dfsg/debian/crac/usr/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c crac '/<>/crac-2.5.2+dfsg/debian/crac/usr/bin' libtool: install: /usr/bin/install -c crac /<>/crac-2.5.2+dfsg/debian/crac/usr/bin/crac make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/src' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/src' make[2]: Leaving directory '/<>/crac-2.5.2+dfsg/src' Making install in man make[2]: Entering directory '/<>/crac-2.5.2+dfsg/man' make[3]: Entering directory '/<>/crac-2.5.2+dfsg/man' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/<>/crac-2.5.2+dfsg/debian/crac/usr/share/man/man1' /usr/bin/install -c -m 644 crac.1 '/<>/crac-2.5.2+dfsg/debian/crac/usr/share/man/man1' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/man' make[2]: Leaving directory '/<>/crac-2.5.2+dfsg/man' Making install in scripts make[2]: Entering directory '/<>/crac-2.5.2+dfsg/scripts' make[3]: Entering directory '/<>/crac-2.5.2+dfsg/scripts' /bin/mkdir -p '/<>/crac-2.5.2+dfsg/debian/crac/usr/bin' /usr/bin/install -c crac-client '/<>/crac-2.5.2+dfsg/debian/crac/usr/bin' make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/scripts' make[2]: Leaving directory '/<>/crac-2.5.2+dfsg/scripts' Making install in test_f make[2]: Entering directory '/<>/crac-2.5.2+dfsg/test_f' Making install in causes make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/causes' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/causes' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/causes' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/causes' Making install in bug make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/bug' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/bug' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/bug' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/bug' Making install in cigar make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/cigar' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/cigar' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/cigar' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/cigar' Making install in splices_adjust make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/splices_adjust' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/test_f/splices_adjust' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/splices_adjust' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f/splices_adjust' make[3]: Entering directory '/<>/crac-2.5.2+dfsg/test_f' make[4]: Entering directory '/<>/crac-2.5.2+dfsg/test_f' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f' make[3]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f' make[2]: Leaving directory '/<>/crac-2.5.2+dfsg/test_f' make[2]: Entering directory '/<>/crac-2.5.2+dfsg' make[3]: Entering directory '/<>/crac-2.5.2+dfsg' make[3]: Nothing to be done for 'install-exec-am'. make[3]: Nothing to be done for 'install-data-am'. make[3]: Leaving directory '/<>/crac-2.5.2+dfsg' make[2]: Leaving directory '/<>/crac-2.5.2+dfsg' make[1]: Leaving directory '/<>/crac-2.5.2+dfsg' dh_installdocs -a dh_installchangelogs -a debian/rules override_dh_installexamples make[1]: Entering directory '/<>/crac-2.5.2+dfsg' mkdir debian/crac/usr/share/doc/crac/examples rsync -a --exclude=Makefile* test_f debian/crac/usr/share/doc/crac/examples sed -i 's+${abs_top_builddir:-\.\./\.\.}/src/crac+crac+' `grep -wRl crac debian/crac/usr/share/doc/crac/examples/*` sed -i 's+$abs_top_builddir/src/crac-index+crac-index+' `grep -wRl crac-index debian/crac/usr/share/doc/crac/examples/*` make[1]: Leaving directory '/<>/crac-2.5.2+dfsg' dh_installman -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dh_md5sums -a dh_builddeb -a INFO: pkgstriptranslations version 144 INFO: pkgstriptranslations version 144 pkgstriptranslations: processing crac-dbgsym (in debian/.debhelper/crac/dbgsym-root); do_strip: , oemstrip: pkgstriptranslations: processing crac (in debian/crac); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/.debhelper/crac/dbgsym-root/DEBIAN/control, package crac-dbgsym, directory debian/.debhelper/crac/dbgsym-root dpkg-deb: building package 'crac-dbgsym' in 'debian/.debhelper/scratch-space/build-crac/crac-dbgsym_2.5.2+dfsg-2_arm64.deb'. Renaming crac-dbgsym_2.5.2+dfsg-2_arm64.deb to crac-dbgsym_2.5.2+dfsg-2_arm64.ddeb pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/crac/DEBIAN/control, package crac, directory debian/crac pkgstripfiles: Running PNG optimization (using 4 cpus) for package crac ... pkgstripfiles: No PNG files. dpkg-deb: building package 'crac' in '../crac_2.5.2+dfsg-2_arm64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any -mLaunchpad Build Daemon >../crac_2.5.2+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 20190727-0518 Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Post Build Chroot | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ crac_2.5.2+dfsg-2_arm64.changes: -------------------------------- Format: 1.8 Date: Fri, 26 Jul 2019 22:40:52 +0200 Source: crac Binary: crac Architecture: arm64 Version: 2.5.2+dfsg-2 Distribution: eoan-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: crac - integrated RNA-Seq read analysis Closes: 933024 Changes: crac (2.5.2+dfsg-2) unstable; urgency=medium . [ Helmut Grohne ] * Do not use pkg-config in Makefile.am to enable cross building Closes: #933024 . [ Andreas Tille ] * debhelper-compat 12 Checksums-Sha1: e3629998845d3d0b3421e79fc3ba20632ca2b82a 1799792 crac-dbgsym_2.5.2+dfsg-2_arm64.ddeb 9ece5d5d75db6966e6916c3f7564ef57cca23ff9 6555 crac_2.5.2+dfsg-2_arm64.buildinfo 9441bf319ecb056f688287357bc5fb8972b5ed2c 914856 crac_2.5.2+dfsg-2_arm64.deb Checksums-Sha256: e08418913899d1d6abfec3de0ae30e0e6911341a0086c5da9e971a0e7acfba46 1799792 crac-dbgsym_2.5.2+dfsg-2_arm64.ddeb 8461172e804534defb643a4dd673b54175e81b1d3c0ca2c939588313d7475f33 6555 crac_2.5.2+dfsg-2_arm64.buildinfo 578b9b32efe9b0f45eac4e16e7e769d7f2c2ea58391b8536252ab24091f35244 914856 crac_2.5.2+dfsg-2_arm64.deb Files: b0ba9e36bb81d2b8dd530f8d6dc29826 1799792 debug optional crac-dbgsym_2.5.2+dfsg-2_arm64.ddeb a534ff076f94f4ea4d63a878a05f8a57 6555 science optional crac_2.5.2+dfsg-2_arm64.buildinfo a4c87188aecbbf615965fddadc83510b 914856 science optional crac_2.5.2+dfsg-2_arm64.deb +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ crac_2.5.2+dfsg-2_arm64.deb --------------------------- new debian package, version 2.0. size 914856 bytes: control archive=6576 bytes. 1546 bytes, 26 lines control 22351 bytes, 248 lines md5sums Package: crac Version: 2.5.2+dfsg-2 Architecture: arm64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 3631 Depends: libc6 (>= 2.29), libgcc1 (>= 1:3.0), libgkarrays1, libgzstream0 (>= 1.5+dfsg), libhts2 (>= 1.0), libjellyfish-2.0-2, libstdc++6 (>= 9), zlib1g (>= 1:1.1.4) Section: science Priority: optional Homepage: http://crac.gforge.inria.fr/ Description: integrated RNA-Seq read analysis CRAC is a tool to analyze High Throughput Sequencing (HTS) data in comparison to a reference genome. It is intended for transcriptomic and genomic sequencing reads. More precisely, with transcriptomic reads as input, it predicts point mutations, indels, splice junction, and chimeric RNAs (ie, non colinear splice junctions). CRAC can also output positions and nature of sequence error that it detects in the reads. CRAC uses a genome index. This index must be computed before running the read analysis. For this sake, use the command "crac-index" on your genome files. You can then process the reads using the command crac. See the man page of CRAC (help file) by typing "man crac". CRAC requires large amount of main memory on your computer. For processing against the Human genome, say 50 million reads of 100 nucleotide each, CRAC requires about 40 gigabytes of main memory. 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+------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: arm64 Build-Space: 56904 Build-Time: 144 Distribution: eoan-proposed Host Architecture: arm64 Install-Time: 28 Job: crac_2.5.2+dfsg-2.dsc Machine Architecture: arm64 Package: crac Package-Time: 173 Source-Version: 2.5.2+dfsg-2 Space: 56904 Status: successful Version: 2.5.2+dfsg-2 -------------------------------------------------------------------------------- Finished at 20190727-0518 Build needed 00:02:53, 56904k disc space RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=eoan --arch=arm64 PACKAGEBUILD-17324696 Scanning for processes to kill in build PACKAGEBUILD-17324696