https://launchpad.net/ubuntu/+source/centrifuge/1.0.3-11/+build/24606708 RUN: /usr/share/launchpad-buildd/bin/builder-prep Kernel version: Linux lcy02-amd64-105 5.4.0-131-generic #147-Ubuntu SMP Fri Oct 14 17:07:22 UTC 2022 x86_64 Buildd toolchain package versions: launchpad-buildd_223~593~ubuntu20.04.1 python3-lpbuildd_223~593~ubuntu20.04.1 sbuild_0.79.0-1ubuntu1 git-build-recipe_0.3.6 git_1:2.25.1-1ubuntu3.6 dpkg-dev_1.19.7ubuntu3.2 python3-debian_0.1.36ubuntu1. Syncing the system clock with the buildd NTP service... 6 Nov 02:12:58 ntpdate[1772]: adjust time server 10.131.248.1 offset 0.000227 sec RUN: /usr/share/launchpad-buildd/bin/in-target unpack-chroot --backend=chroot --series=lunar --arch=amd64 PACKAGEBUILD-24606708 --image-type chroot /home/buildd/filecache-default/93056656ffca866e6c2a454f453b424a388b800f Creating target for build PACKAGEBUILD-24606708 RUN: /usr/share/launchpad-buildd/bin/in-target mount-chroot --backend=chroot --series=lunar --arch=amd64 PACKAGEBUILD-24606708 Starting target for build PACKAGEBUILD-24606708 RUN: /usr/share/launchpad-buildd/bin/in-target override-sources-list --backend=chroot --series=lunar --arch=amd64 PACKAGEBUILD-24606708 'deb http://ftpmaster.internal/ubuntu lunar main universe' 'deb http://ftpmaster.internal/ubuntu lunar-security main universe' 'deb http://ftpmaster.internal/ubuntu lunar-updates main universe' 'deb http://ftpmaster.internal/ubuntu lunar-proposed main universe' Overriding sources.list in build-PACKAGEBUILD-24606708 RUN: /usr/share/launchpad-buildd/bin/in-target update-debian-chroot --backend=chroot --series=lunar --arch=amd64 PACKAGEBUILD-24606708 Updating target for build PACKAGEBUILD-24606708 Get:1 http://ftpmaster.internal/ubuntu lunar InRelease [224 kB] Get:2 http://ftpmaster.internal/ubuntu lunar-security InRelease [74.9 kB] Get:3 http://ftpmaster.internal/ubuntu lunar-updates InRelease [74.9 kB] Get:4 http://ftpmaster.internal/ubuntu lunar-proposed InRelease [74.9 kB] Get:5 http://ftpmaster.internal/ubuntu lunar/main amd64 Packages [1390 kB] Get:6 http://ftpmaster.internal/ubuntu lunar/main Translation-en [510 kB] Get:7 http://ftpmaster.internal/ubuntu lunar/universe amd64 Packages [14.5 MB] Get:8 http://ftpmaster.internal/ubuntu lunar/universe Translation-en [5791 kB] Get:9 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 Packages [222 kB] Get:10 http://ftpmaster.internal/ubuntu lunar-proposed/main Translation-en [78.2 kB] Get:11 http://ftpmaster.internal/ubuntu lunar-proposed/universe amd64 Packages [594 kB] Get:12 http://ftpmaster.internal/ubuntu lunar-proposed/universe Translation-en [237 kB] Fetched 23.7 MB in 2s (10.8 MB/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: libperl5.34 perl-modules-5.34 sgml-base Use 'sudo apt autoremove' to remove them. The following NEW packages will be installed: libperl5.36 perl-modules-5.36 The following packages will be upgraded: apt base-files bash binutils binutils-common binutils-x86-64-linux-gnu cpp-12 fakeroot g++-12 gcc-12 gcc-12-base gpg gpg-agent gpgconf gpgv libapparmor1 libapt-pkg6.0 libasan8 libatomic1 libaudit-common libaudit1 libbinutils libc-bin libc-dev-bin libc6 libc6-dev libcap-ng0 libcc1-0 libctf-nobfd0 libctf0 libfakeroot libgcc-12-dev libgcc-s1 libgnutls30 libgomp1 libgpg-error0 libgprofng0 libidn2-0 libitm1 liblsan0 libp11-kit0 libpng16-16 libquadmath0 libreadline8 libseccomp2 libselinux1 libsemanage-common libsemanage2 libsqlite3-0 libstdc++-12-dev libstdc++6 libsystemd-shared libsystemd0 libtsan2 libubsan1 libudev1 linux-libc-dev lto-disabled-list perl perl-base readline-common systemd systemd-sysv tzdata usrmerge zlib1g 66 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 90.6 MB of archives. After this operation, 47.3 MB of additional disk space will be used. Get:1 http://ftpmaster.internal/ubuntu lunar/main amd64 libc6-dev amd64 2.36-0ubuntu4 [2088 kB] Get:2 http://ftpmaster.internal/ubuntu lunar/main amd64 libc-dev-bin amd64 2.36-0ubuntu4 [20.0 kB] Get:3 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 linux-libc-dev amd64 5.19.0-23.24 [1345 kB] Get:4 http://ftpmaster.internal/ubuntu lunar/main amd64 libcc1-0 amd64 12.2.0-9ubuntu1 [46.4 kB] Get:5 http://ftpmaster.internal/ubuntu lunar/main amd64 gcc-12-base amd64 12.2.0-9ubuntu1 [19.5 kB] Get:6 http://ftpmaster.internal/ubuntu lunar/main amd64 libgcc-s1 amd64 12.2.0-9ubuntu1 [54.2 kB] Get:7 http://ftpmaster.internal/ubuntu lunar/main amd64 libgomp1 amd64 12.2.0-9ubuntu1 [125 kB] Get:8 http://ftpmaster.internal/ubuntu lunar/main amd64 libitm1 amd64 12.2.0-9ubuntu1 [29.4 kB] Get:9 http://ftpmaster.internal/ubuntu lunar/main amd64 libatomic1 amd64 12.2.0-9ubuntu1 [10.4 kB] Get:10 http://ftpmaster.internal/ubuntu lunar/main amd64 libasan8 amd64 12.2.0-9ubuntu1 [2433 kB] Get:11 http://ftpmaster.internal/ubuntu lunar/main amd64 liblsan0 amd64 12.2.0-9ubuntu1 [1060 kB] Get:12 http://ftpmaster.internal/ubuntu lunar/main amd64 libtsan2 amd64 12.2.0-9ubuntu1 [2456 kB] Get:13 http://ftpmaster.internal/ubuntu lunar/main amd64 libubsan1 amd64 12.2.0-9ubuntu1 [969 kB] Get:14 http://ftpmaster.internal/ubuntu lunar/main amd64 libquadmath0 amd64 12.2.0-9ubuntu1 [152 kB] Get:15 http://ftpmaster.internal/ubuntu lunar/main amd64 g++-12 amd64 12.2.0-9ubuntu1 [12.0 MB] Get:16 http://ftpmaster.internal/ubuntu lunar/main amd64 libstdc++-12-dev amd64 12.2.0-9ubuntu1 [2158 kB] Get:17 http://ftpmaster.internal/ubuntu lunar/main amd64 libgcc-12-dev amd64 12.2.0-9ubuntu1 [2577 kB] Get:18 http://ftpmaster.internal/ubuntu lunar/main amd64 gcc-12 amd64 12.2.0-9ubuntu1 [21.4 MB] Get:19 http://ftpmaster.internal/ubuntu lunar/main amd64 cpp-12 amd64 12.2.0-9ubuntu1 [10.6 MB] Get:20 http://ftpmaster.internal/ubuntu lunar/main amd64 libstdc++6 amd64 12.2.0-9ubuntu1 [678 kB] Get:21 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 zlib1g amd64 1:1.2.11.dfsg-4.1ubuntu2 [58.8 kB] Get:22 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libgprofng0 amd64 2.39-8ubuntu2 [897 kB] Get:23 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libctf0 amd64 2.39-8ubuntu2 [97.4 kB] Get:24 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libctf-nobfd0 amd64 2.39-8ubuntu2 [99.9 kB] Get:25 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libbinutils amd64 2.39-8ubuntu2 [610 kB] Get:26 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 binutils-common amd64 2.39-8ubuntu2 [233 kB] Get:27 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 binutils amd64 2.39-8ubuntu2 [3240 B] Get:28 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 binutils-x86-64-linux-gnu amd64 2.39-8ubuntu2 [2402 kB] Get:29 http://ftpmaster.internal/ubuntu lunar/main amd64 libc6 amd64 2.36-0ubuntu4 [3163 kB] Get:30 http://ftpmaster.internal/ubuntu lunar/main amd64 base-files amd64 12.3ubuntu1 [73.4 kB] Get:31 http://ftpmaster.internal/ubuntu lunar/main amd64 bash amd64 5.2-1ubuntu2 [788 kB] Get:32 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 perl-modules-5.36 all 5.36.0-4ubuntu2 [2984 kB] Get:33 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libperl5.36 amd64 5.36.0-4ubuntu2 [4808 kB] Get:34 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 perl amd64 5.36.0-4ubuntu2 [235 kB] Get:35 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 perl-base amd64 5.36.0-4ubuntu2 [1779 kB] Get:36 http://ftpmaster.internal/ubuntu lunar/main amd64 libc-bin amd64 2.36-0ubuntu4 [675 kB] Get:37 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libapparmor1 amd64 3.0.7-1ubuntu3 [36.8 kB] Get:38 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libaudit-common all 1:3.0.7-1ubuntu2 [5018 B] Get:39 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libcap-ng0 amd64 0.8.3-1build1 [15.2 kB] Get:40 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libaudit1 amd64 1:3.0.7-1ubuntu2 [45.4 kB] Get:41 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libseccomp2 amd64 2.5.4-1ubuntu2 [46.2 kB] Get:42 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libselinux1 amd64 3.4-1build1 [77.9 kB] Get:43 http://ftpmaster.internal/ubuntu lunar/main amd64 systemd-sysv amd64 251.4-1ubuntu7 [11.2 kB] Get:44 http://ftpmaster.internal/ubuntu lunar/main amd64 systemd amd64 251.4-1ubuntu7 [2808 kB] Get:45 http://ftpmaster.internal/ubuntu lunar/main amd64 libsystemd-shared amd64 251.4-1ubuntu7 [1703 kB] Get:46 http://ftpmaster.internal/ubuntu lunar/main amd64 libsystemd0 amd64 251.4-1ubuntu7 [323 kB] Get:47 http://ftpmaster.internal/ubuntu lunar/main amd64 libudev1 amd64 251.4-1ubuntu7 [79.8 kB] Get:48 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libapt-pkg6.0 amd64 2.5.4 [902 kB] Get:49 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libgpg-error0 amd64 1.46-1 [68.9 kB] Get:50 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 gpgv amd64 2.2.40-1ubuntu1 [137 kB] Get:51 http://ftpmaster.internal/ubuntu lunar/main amd64 libidn2-0 amd64 2.3.3-1build1 [62.9 kB] Get:52 http://ftpmaster.internal/ubuntu lunar/main amd64 libp11-kit0 amd64 0.24.1-1ubuntu2 [246 kB] Get:53 http://ftpmaster.internal/ubuntu lunar/main amd64 libgnutls30 amd64 3.7.7-2ubuntu2 [976 kB] Get:54 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 apt amd64 2.5.4 [1378 kB] Get:55 http://ftpmaster.internal/ubuntu lunar/main amd64 libsemanage-common all 3.4-1build1 [9544 B] Get:56 http://ftpmaster.internal/ubuntu lunar/main amd64 libsemanage2 amd64 3.4-1build1 [93.2 kB] Get:57 http://ftpmaster.internal/ubuntu lunar/main amd64 usrmerge all 29ubuntu2 [55.8 kB] Get:58 http://ftpmaster.internal/ubuntu lunar/main amd64 readline-common all 8.2-1 [55.1 kB] Get:59 http://ftpmaster.internal/ubuntu lunar/main amd64 libreadline8 amd64 8.2-1 [150 kB] Get:60 http://ftpmaster.internal/ubuntu lunar/main amd64 libsqlite3-0 amd64 3.39.3-1 [655 kB] Get:61 http://ftpmaster.internal/ubuntu lunar/main amd64 tzdata all 2022f-0ubuntu1 [400 kB] Get:62 http://ftpmaster.internal/ubuntu lunar/main amd64 libpng16-16 amd64 1.6.38-2 [186 kB] Get:63 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 libfakeroot amd64 1.30.1-1ubuntu1 [30.9 kB] Get:64 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 fakeroot amd64 1.30.1-1ubuntu1 [60.1 kB] Get:65 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 gpg amd64 2.2.40-1ubuntu1 [523 kB] Get:66 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 gpgconf amd64 2.2.40-1ubuntu1 [93.8 kB] Get:67 http://ftpmaster.internal/ubuntu lunar-proposed/main amd64 gpg-agent amd64 2.2.40-1ubuntu1 [217 kB] Get:68 http://ftpmaster.internal/ubuntu lunar/main amd64 lto-disabled-list all 35 [12.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 90.6 MB in 1s (160 MB/s) (Reading database ... 13569 files and directories currently installed.) 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Processing triggers for debianutils (5.7-0.3) ... Processing triggers for libc-bin (2.36-0ubuntu4) ... RUN: /usr/share/launchpad-buildd/bin/sbuild-package PACKAGEBUILD-24606708 amd64 lunar-proposed -c chroot:build-PACKAGEBUILD-24606708 --arch=amd64 --dist=lunar-proposed --nolog -A centrifuge_1.0.3-11.dsc Initiating build PACKAGEBUILD-24606708 with 4 jobs across 4 processor cores. Kernel reported to sbuild: 5.4.0-131-generic #147-Ubuntu SMP Fri Oct 14 17:07:22 UTC 2022 x86_64 sbuild (Debian sbuild) 0.79.0 (05 February 2020) on lcy02-amd64-105.buildd +==============================================================================+ | centrifuge 1.0.3-11 (amd64) Sun, 06 Nov 2022 02:13:17 +0000 | +==============================================================================+ Package: centrifuge Version: 1.0.3-11 Source Version: 1.0.3-11 Distribution: lunar-proposed Machine Architecture: amd64 Host Architecture: amd64 Build Architecture: amd64 Build Type: binary I: NOTICE: Log filtering will replace 'home/buildd/build-PACKAGEBUILD-24606708/chroot-autobuild' with '<>' I: NOTICE: Log filtering will replace 'build/centrifuge-p4rQSG/resolver-PfGmDT' with '<>' +------------------------------------------------------------------------------+ | Fetch source files | +------------------------------------------------------------------------------+ Local sources ------------- centrifuge_1.0.3-11.dsc exists in .; copying to chroot I: NOTICE: Log filtering will replace 'build/centrifuge-p4rQSG/centrifuge-1.0.3' with '<>' I: NOTICE: Log filtering will replace 'build/centrifuge-p4rQSG' with '<>' +------------------------------------------------------------------------------+ | Install package build dependencies | +------------------------------------------------------------------------------+ Setup apt archive ----------------- Merged Build-Depends: debhelper-compat (= 13), dh-python, dh-sequence-python3, jellyfish, build-essential, fakeroot Filtered Build-Depends: debhelper-compat (= 13), dh-python, dh-sequence-python3, jellyfish, build-essential, fakeroot dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<>/apt_archive/sbuild-build-depends-main-dummy.deb'. Ign:1 copy:/<>/apt_archive ./ InRelease Get:2 copy:/<>/apt_archive ./ Release [957 B] Ign:3 copy:/<>/apt_archive ./ Release.gpg Get:4 copy:/<>/apt_archive ./ Sources [396 B] Get:5 copy:/<>/apt_archive ./ Packages [476 B] Fetched 1829 B in 0s (0 B/s) Reading package lists... Reading package lists... Install main 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: libperl5.34 perl-modules-5.34 sgml-base Use 'apt autoremove' to remove them. The following additional packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian jellyfish libarchive-zip-perl libbrotli1 libcurl3-gnutls libdebhelper-perl libdeflate0 libdw1 libelf1 libexpat1 libfile-stripnondeterminism-perl libhts3 libhtscodecs2 libicu71 libjellyfish-2.0-2 libldap-2.5-0 libmagic-mgc libmagic1 libmpdec3 libnghttp2-14 libpipeline1 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib librtmp1 libsasl2-2 libsasl2-modules-db libssh-4 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db media-types po-debconf python3 python3-distutils python3-lib2to3 python3-minimal python3.10 python3.10-minimal Suggested packages: autoconf-archive gnu-standards autoconf-doc dh-make flit python3-build python3-tomli python3-installer gettext-doc libasprintf-dev libgettextpo-dev groff libtool-doc gfortran | fortran95-compiler gcj-jdk m4-doc apparmor less www-browser libmail-box-perl python3-doc python3-tk python3-venv python3.10-venv python3.10-doc binfmt-support Recommended packages: curl | wget | lynx libarchive-cpio-perl libldap-common publicsuffix libsasl2-modules libltdl-dev libmail-sendmail-perl The following NEW packages will be installed: autoconf automake autopoint autotools-dev bsdextrautils debhelper debugedit dh-autoreconf dh-python dh-strip-nondeterminism dwz file gettext gettext-base groff-base intltool-debian jellyfish libarchive-zip-perl libbrotli1 libcurl3-gnutls libdebhelper-perl libdeflate0 libdw1 libelf1 libexpat1 libfile-stripnondeterminism-perl libhts3 libhtscodecs2 libicu71 libjellyfish-2.0-2 libldap-2.5-0 libmagic-mgc libmagic1 libmpdec3 libnghttp2-14 libpipeline1 libpsl5 libpython3-stdlib libpython3.10-minimal libpython3.10-stdlib librtmp1 libsasl2-2 libsasl2-modules-db libssh-4 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db media-types po-debconf python3 python3-distutils python3-lib2to3 python3-minimal python3.10 python3.10-minimal sbuild-build-depends-main-dummy 0 upgraded, 59 newly installed, 0 to remove and 0 not upgraded. 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Setting up libtool (2.4.7-4) ... Setting up libldap-2.5-0:amd64 (2.5.13+dfsg-1ubuntu2) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libpython3.10-stdlib:amd64 (3.10.8-1) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.13.0-1) ... Setting up dwz (0.14-1build2) ... Setting up groff-base (1.22.4-8build1) ... Setting up debugedit (1:5.0-5) ... Setting up libpython3-stdlib:amd64 (3.10.6-1ubuntu1) ... Setting up python3.10 (3.10.8-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libcurl3-gnutls:amd64 (7.86.0-1) ... Setting up python3 (3.10.6-1ubuntu1) ... Setting up man-db (2.10.2-2) ... 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 python3-lib2to3 (3.10.8-1) ... Setting up python3-distutils (3.10.8-1) ... Setting up dh-python (5.20221001) ... Setting up libhts3:amd64 (1.13+ds-2build2) ... 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Processing triggers for libc-bin (2.36-0ubuntu4) ... +------------------------------------------------------------------------------+ | Check architectures | +------------------------------------------------------------------------------+ Arch check ok (amd64 included in any) +------------------------------------------------------------------------------+ | Build environment | +------------------------------------------------------------------------------+ Kernel: Linux 5.4.0-131-generic #147-Ubuntu SMP Fri Oct 14 17:07:22 UTC 2022 amd64 (x86_64) Toolchain package versions: binutils_2.39-8ubuntu2 dpkg-dev_1.21.9ubuntu1 g++-12_12.2.0-9ubuntu1 gcc-12_12.2.0-9ubuntu1 libc6-dev_2.36-0ubuntu4 libstdc++-12-dev_12.2.0-9ubuntu1 libstdc++6_12.2.0-9ubuntu1 linux-libc-dev_5.19.0-23.24 Package versions: adduser_3.121ubuntu1 advancecomp_2.3-1 apt_2.5.4 autoconf_2.71-2 automake_1:1.16.5-1.3 autopoint_0.21-8 autotools-dev_20220109.1 base-files_12.3ubuntu1 base-passwd_3.6.0 bash_5.2-1ubuntu2 binutils_2.39-8ubuntu2 binutils-common_2.39-8ubuntu2 binutils-x86-64-linux-gnu_2.39-8ubuntu2 bsdextrautils_2.38-4ubuntu1 bsdutils_1:2.38-4ubuntu1 build-essential_12.9ubuntu3 bzip2_1.0.8-5build1 ca-certificates_20211016 coreutils_8.32-4.1ubuntu1 cpp_4:12.2.0-1ubuntu1 cpp-12_12.2.0-9ubuntu1 dash_0.5.11+git20210903+057cd650a4ed-8ubuntu1 debconf_1.5.79ubuntu1 debhelper_13.10.1ubuntu1 debianutils_5.7-0.3 debugedit_1:5.0-5 dh-autoreconf_20 dh-python_5.20221001 dh-strip-nondeterminism_1.13.0-1 diffutils_1:3.8-1 dpkg_1.21.9ubuntu1 dpkg-dev_1.21.9ubuntu1 dwz_0.14-1build2 e2fsprogs_1.46.5-2ubuntu2 fakeroot_1.30.1-1ubuntu1 file_1:5.41-4 findutils_4.9.0-3ubuntu1 g++_4:12.2.0-1ubuntu1 g++-12_12.2.0-9ubuntu1 gcc_4:12.2.0-1ubuntu1 gcc-12_12.2.0-9ubuntu1 gcc-12-base_12.2.0-9ubuntu1 gettext_0.21-8 gettext-base_0.21-8 gpg_2.2.40-1ubuntu1 gpg-agent_2.2.40-1ubuntu1 gpgconf_2.2.40-1ubuntu1 gpgv_2.2.40-1ubuntu1 grep_3.7-1build1 groff-base_1.22.4-8build1 gzip_1.12-1ubuntu1 hostname_3.23ubuntu2 init_1.64 init-system-helpers_1.64 intltool-debian_0.35.0+20060710.5 jellyfish_2.3.0-14 libacl1_2.3.1-1 libapparmor1_3.0.7-1ubuntu3 libapt-pkg6.0_2.5.4 libarchive-zip-perl_1.68-1 libargon2-1_0~20171227-0.3 libasan8_12.2.0-9ubuntu1 libassuan0_2.5.5-4 libatomic1_12.2.0-9ubuntu1 libattr1_1:2.5.1-1build1 libaudit-common_1:3.0.7-1ubuntu2 libaudit1_1:3.0.7-1ubuntu2 libbinutils_2.39-8ubuntu2 libblkid1_2.38-4ubuntu1 libbrotli1_1.0.9-2build7 libbz2-1.0_1.0.8-5build1 libc-bin_2.36-0ubuntu4 libc-dev-bin_2.36-0ubuntu4 libc6_2.36-0ubuntu4 libc6-dev_2.36-0ubuntu4 libcap-ng0_0.8.3-1build1 libcap2_1:2.44-1build3 libcc1-0_12.2.0-9ubuntu1 libcom-err2_1.46.5-2ubuntu2 libcrypt-dev_1:4.4.28-2 libcrypt1_1:4.4.28-2 libcryptsetup12_2:2.5.0-2ubuntu1 libctf-nobfd0_2.39-8ubuntu2 libctf0_2.39-8ubuntu2 libcurl3-gnutls_7.86.0-1 libdb5.3_5.3.28+dfsg1-0.10 libdebconfclient0_0.264ubuntu1 libdebhelper-perl_13.10.1ubuntu1 libdeflate0_1.12-1 libdevmapper1.02.1_2:1.02.185-1ubuntu1 libdpkg-perl_1.21.9ubuntu1 libdw1_0.187-4 libelf1_0.187-4 libexpat1_2.4.8-2 libext2fs2_1.46.5-2ubuntu2 libfakeroot_1.30.1-1ubuntu1 libfdisk1_2.38-4ubuntu1 libffi8_3.4.2-4 libfile-stripnondeterminism-perl_1.13.0-1 libgcc-12-dev_12.2.0-9ubuntu1 libgcc-s1_12.2.0-9ubuntu1 libgcrypt20_1.10.1-2ubuntu1 libgdbm-compat4_1.23-1 libgdbm6_1.23-1 libgmp10_2:6.2.1+dfsg1-1ubuntu2 libgnutls30_3.7.7-2ubuntu2 libgomp1_12.2.0-9ubuntu1 libgpg-error0_1.46-1 libgprofng0_2.39-8ubuntu2 libgssapi-krb5-2_1.20-1 libhogweed6_3.8.1-2 libhts3_1.13+ds-2build2 libhtscodecs2_1.2.2-1 libicu71_71.1-3ubuntu1 libidn2-0_2.3.3-1build1 libip4tc2_1.8.7-1ubuntu6 libisl23_0.25-1 libitm1_12.2.0-9ubuntu1 libjellyfish-2.0-2_2.3.0-14 libjson-c5_0.16-1 libk5crypto3_1.20-1 libkeyutils1_1.6.3-1 libkmod2_30+20220630-3ubuntu1 libkrb5-3_1.20-1 libkrb5support0_1.20-1 libldap-2.5-0_2.5.13+dfsg-1ubuntu2 liblockfile-bin_1.17-1build2 liblockfile1_1.17-1build2 liblsan0_12.2.0-9ubuntu1 liblz4-1_1.9.3-2build2 liblzma5_5.2.5-2.1 libmagic-mgc_1:5.41-4 libmagic1_1:5.41-4 libmount1_2.38-4ubuntu1 libmpc3_1.2.1-2build1 libmpdec3_2.5.1-2build2 libmpfr6_4.1.0-3build3 libncurses6_6.3+20220423-2 libncursesw6_6.3+20220423-2 libnettle8_3.8.1-2 libnghttp2-14_1.49.0-1 libnpth0_1.6-3build2 libnsl-dev_1.3.0-2build2 libnsl2_1.3.0-2build2 libp11-kit0_0.24.1-1ubuntu2 libpam-modules_1.5.2-2ubuntu1 libpam-modules-bin_1.5.2-2ubuntu1 libpam-runtime_1.5.2-2ubuntu1 libpam0g_1.5.2-2ubuntu1 libpcre2-8-0_10.40-1ubuntu1 libpcre3_2:8.39-14 libperl5.34_5.34.0-5ubuntu1 libperl5.36_5.36.0-4ubuntu2 libpipeline1_1.5.6-2 libpng16-16_1.6.38-2 libprocps8_2:3.3.17-7ubuntu1 libpsl5_0.21.0-1.2build2 libpython3-stdlib_3.10.6-1ubuntu1 libpython3.10-minimal_3.10.8-1 libpython3.10-stdlib_3.10.8-1 libquadmath0_12.2.0-9ubuntu1 libreadline8_8.2-1 librtmp1_2.4+20151223.gitfa8646d.1-2build4 libsasl2-2_2.1.28+dfsg-6ubuntu2 libsasl2-modules-db_2.1.28+dfsg-6ubuntu2 libseccomp2_2.5.4-1ubuntu2 libselinux1_3.4-1build1 libsemanage-common_3.4-1build1 libsemanage2_3.4-1build1 libsepol2_3.4-2 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passwd_1:4.11.1+dfsg1-2ubuntu1 patch_2.7.6-7build2 perl_5.36.0-4ubuntu2 perl-base_5.36.0-4ubuntu2 perl-modules-5.34_5.34.0-5ubuntu1 perl-modules-5.36_5.36.0-4ubuntu2 pinentry-curses_1.2.0-2ubuntu1 pkgbinarymangler_149 po-debconf_1.0.21+nmu1 policyrcd-script-zg2_0.1-3.1 procps_2:3.3.17-7ubuntu1 python3_3.10.6-1ubuntu1 python3-distutils_3.10.8-1 python3-lib2to3_3.10.8-1 python3-minimal_3.10.6-1ubuntu1 python3.10_3.10.8-1 python3.10-minimal_3.10.8-1 readline-common_8.2-1 rpcsvc-proto_1.4.2-0ubuntu6 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.8-1ubuntu2 sensible-utils_0.0.17 sgml-base_1.30 systemd_251.4-1ubuntu7 systemd-sysv_251.4-1ubuntu7 sysvinit-utils_3.04-1ubuntu1 tar_1.34+dfsg-1build3 tzdata_2022f-0ubuntu1 ubuntu-keyring_2021.03.26 usrmerge_29ubuntu2 util-linux_2.38-4ubuntu1 util-linux-extra_2.38-4ubuntu1 xz-utils_5.2.5-2.1 zlib1g_1:1.2.11.dfsg-4.1ubuntu2 +------------------------------------------------------------------------------+ | Build | +------------------------------------------------------------------------------+ Unpack source ------------- -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: centrifuge Binary: centrifuge Architecture: any Version: 1.0.3-11 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://ccb.jhu.edu/software/centrifuge/ Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/centrifuge Vcs-Git: https://salsa.debian.org/med-team/centrifuge.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-python, dh-sequence-python3, jellyfish Package-List: centrifuge deb science optional arch=any Checksums-Sha1: c31fc38298b74f5b81f1d3704f7c4311231d6bc0 701273 centrifuge_1.0.3.orig.tar.gz 8be8e53beb61d1f6a4b681b1e383999e99bde55d 15220 centrifuge_1.0.3-11.debian.tar.xz Checksums-Sha256: 71340f5c0c20dd4f7c4d98ea87f9edcbb1443fff8434e816a5465cbebaca9343 701273 centrifuge_1.0.3.orig.tar.gz bdf867738f93e51112837a45b213b0fb3be9950bda5062f9cd179f9f348d5429 15220 centrifuge_1.0.3-11.debian.tar.xz Files: 4ab20730ae43f26a98b754d83213e10c 701273 centrifuge_1.0.3.orig.tar.gz 2e0e361b6c2198258d63e58f6cc8758e 15220 centrifuge_1.0.3-11.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmNDtB0RHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHXPhAAm3zgl7OYJTpQav3J3S8BBp54/PHpvJKM dHvdrB8do4YyXlSU5nmHy2iwrevfQrx8mwIhfHMn9xnlr2ruWjq77KIbzTFlTL4k qE7em+qENDPAurDKptBhnePWLopygWgTKFes9QiX1IPu5I7BPXPqzekv7rnPXzDe LRCehwzgEuL6yGRNKh3gW7SO2lKUOHZoOK90cn46AqeDoGVRVKGqaOzu87hc89Te EmW6xEP75VjT5Oc9JaO6cThmSi77fTnJFfyeKGjGky3zroXgg0uCWzCSgwMw1rcw iqmvo88fecgdQN3TZHMiA1IvMtK6ZXAGtHBqFyvqTb5dTO/i58Z7cnL9Ogt4ucOI I/ngUUcNZcRuMv75LhiA8tC94qwLNeIt3ivQxzeCiNhr5Za8u5+nHQ0u3Lr89Z9E DemyrkR+6beiRH1cETCN92PUONgwFit8LT1wCIE0i54USDQ54w28kbCoNIpuOpVZ OheWUXLtqtIqzBL/fP1uyi9BlS/WlpYTqZjNlXjIsTsWzk2wRorUd2VViY7M022/ /UvrSOsymKOj1U9Z8zpdHtUNh0XI6mF8LD2wKHb98k9B3zGKp0xeDUtThlQG49Ub 4T/IoX9PCH9qHzUTUxaE+HFrmcgrWG0pOJ0xtZth0ISNWTHh6IjCtoF8nAvS+iy0 oLuHATRcYdg= =4KSz -----END PGP SIGNATURE----- gpgv: Signature made Mon Oct 10 05:56:45 2022 UTC gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify signature ./centrifuge_1.0.3-11.dsc dpkg-source: info: extracting centrifuge in /<> dpkg-source: info: unpacking centrifuge_1.0.3.orig.tar.gz dpkg-source: info: unpacking centrifuge_1.0.3-11.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 0001-Makefile-Use-consistent-build-time-and-build-host.patch dpkg-source: info: applying fix_auto_ptr_usage_in_gcc-7.patch dpkg-source: info: applying 0002-Fix-build-with-rank.patch dpkg-source: info: applying 0003-Fix-make-install-DESTDIR.patch dpkg-source: info: applying hardening.patch dpkg-source: info: applying no_msse2.patch dpkg-source: info: applying 2to3.patch dpkg-source: info: applying fix_arm_build.patch Check disk 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-24606708 SCHROOT_CHROOT_NAME=build-PACKAGEBUILD-24606708 SCHROOT_COMMAND=env SCHROOT_GID=2501 SCHROOT_GROUP=buildd SCHROOT_SESSION_ID=build-PACKAGEBUILD-24606708 SCHROOT_UID=2001 SCHROOT_USER=buildd SHELL=/bin/sh TERM=unknown USER=buildd V=1 dpkg-buildpackage ----------------- Command: dpkg-buildpackage -us -uc -mLaunchpad Build Daemon -b -rfakeroot dpkg-buildpackage: info: source package centrifuge dpkg-buildpackage: info: source version 1.0.3-11 dpkg-buildpackage: info: source distribution unstable dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with python3 dh_auto_clean make -j4 clean make[1]: Entering directory '/<>' rm -f centrifuge-build-bin centrifuge-class centrifuge-inspect-bin centrifuge-build-bin-debug centrifuge-class-debug centrifuge-inspect-bin-debug \ centrifuge-build-bin.exe centrifuge-class.exe centrifuge-inspect-bin.exe centrifuge-build-bin-debug.exe centrifuge-class-debug.exe centrifuge-inspect-bin-debug.exe \ centrifuge-src.zip centrifuge-bin.zip rm -f core.* .tmp.head rm -rf *.dSYM make[1]: Leaving directory '/<>' dh_clean debian/rules binary dh binary --with python3 dh_update_autotools_config dh_autoreconf dh_auto_configure debian/rules override_dh_auto_build make[1]: Entering directory '/<>' dh_auto_build -- BITS=64 BITS_FLAG= make -j4 "INSTALL=install --strip-program=true" BITS=64 BITS_FLAG= make[2]: Entering directory '/<>' /usr/bin/g++ -O3 -funroll-loops -g3 -DCOMPILER_OPTIONS="\"-O3 -funroll-loops -g3 \"" \ -fno-strict-aliasing -DCENTRIFUGE_VERSION="\"1.0.3-beta\"" -DBUILD_HOST="\"BUILDHOST\"" -DBUILD_TIME="\"`date --utc --date=@1665381161 +%F`\"" -DCOMPILER_VERSION="\"`/usr/bin/g++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -DBOWTIE_MM -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -DCENTRIFUGE -DBOWTIE2 -DBOWTIE_64BIT_INDEX -DNDEBUG -Wall \ \ -o centrifuge-build-bin centrifuge_build.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp reference.cpp ds.cpp limit.cpp random_source.cpp tinythread.cpp diff_sample.cpp centrifuge_build_main.cpp \ -lpthread /usr/bin/g++ -O3 -funroll-loops -g3 -DCOMPILER_OPTIONS="\"-O3 -funroll-loops -g3 \"" \ -fno-strict-aliasing -DCENTRIFUGE_VERSION="\"1.0.3-beta\"" -DBUILD_HOST="\"BUILDHOST\"" -DBUILD_TIME="\"`date --utc --date=@1665381161 +%F`\"" -DCOMPILER_VERSION="\"`/usr/bin/g++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -DBOWTIE_MM -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -DCENTRIFUGE -DBOWTIE2 -DBOWTIE_64BIT_INDEX -DNDEBUG -Wall \ \ -o centrifuge-class centrifuge.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp reference.cpp ds.cpp limit.cpp random_source.cpp tinythread.cpp qual.cpp pat.cpp read_qseq.cpp ref_coord.cpp mask.cpp pe.cpp aligner_seed_policy.cpp scoring.cpp presets.cpp simple_func.cpp random_util.cpp outq.cpp centrifuge_main.cpp \ -lpthread /usr/bin/g++ -O3 -funroll-loops -g3 \ -DCOMPILER_OPTIONS="\"-O3 -funroll-loops -g3 \"" \ -fno-strict-aliasing -DCENTRIFUGE_VERSION="\"1.0.3-beta\"" -DBUILD_HOST="\"BUILDHOST\"" -DBUILD_TIME="\"`date --utc --date=@1665381161 +%F`\"" -DCOMPILER_VERSION="\"`/usr/bin/g++ -v 2>&1 | tail -1`\"" -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_GNU_SOURCE -g -O2 -ffile-prefix-map=/<>=. -flto=auto -ffat-lto-objects -flto=auto -ffat-lto-objects -fstack-protector-strong -Wformat -Werror=format-security -DBOWTIE_MM -Wl,-Bsymbolic-functions -flto=auto -ffat-lto-objects -flto=auto -Wl,-z,relro -Wl,-z,now -DCENTRIFUGE -DBOWTIE2 -DBOWTIE_64BIT_INDEX -Wall \ -I . \ -o centrifuge-inspect-bin centrifuge_inspect.cpp \ ccnt_lut.cpp ref_read.cpp alphabet.cpp shmem.cpp edit.cpp bt2_idx.cpp reference.cpp ds.cpp limit.cpp random_source.cpp tinythread.cpp \ -lpthread In file included from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge_build.cpp:27: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from blockwise_sa.h:29, from bt2_idx.h:44, from centrifuge.cpp:34: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from blockwise_sa.h:29, from bt2_idx.h:44, from hier_idx.h:24, from centrifuge_inspect.cpp:28: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ bt2_idx.h: In instantiation of ‘void Ebwt::buildToDisk(InorderBlockwiseSA&, const TStr&, std::ostream&, std::ostream&, std::ostream*, std::ostream*, const EList&, int) [with TStr = SString; index_t = long unsigned int; std::ostream = std::basic_ostream]’: bt2_idx.h:1492:16: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const std::string&, const std::string&, const std::string&, const std::string&, const std::string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = SString; index_t = long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const std::string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const std::string&, const std::string&, const std::string&, const std::string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = SString; index_t = long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const std::string&, EList >&, const std::string&, const std::string&, const std::string&, const std::string&, const std::string&, bool, int) [with TStr = SString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:677:28: required from here bt2_idx.h:3452:41: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 3452 | for(size_t k = 0; k < kmer_size; k++) { | ~~^~~~~~~~~~~ bt2_idx.h:3641:27: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 3641 | for(size_t k = 0; k < kmer_size; k++) { | ~~^~~~~~~~~~~ bt2_idx.h: In instantiation of ‘void Ebwt::buildToDisk(InorderBlockwiseSA&, const TStr&, std::ostream&, std::ostream&, std::ostream*, std::ostream*, const EList&, int) [with TStr = S2bDnaString; index_t = long unsigned int; std::ostream = std::basic_ostream]’: bt2_idx.h:1492:16: required from ‘void Ebwt::initFromVector(TStr&, EList&, EList&, index_t, const RefReadInParams&, std::ofstream&, std::ofstream&, std::ofstream*, std::ofstream*, int, const std::string&, const std::string&, const std::string&, const std::string&, const std::string&, bool, index_t, index_t, index_t, int, int, uint32_t, bool) [with TStr = S2bDnaString; index_t = long unsigned int; std::ofstream = std::basic_ofstream; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ bt2_idx.h:881:23: required from ‘Ebwt::Ebwt(TStr&, bool, int, int, int32_t, int32_t, int32_t, const std::string&, bool, bool, index_t, index_t, index_t, int, int, EList&, EList&, index_t, const std::string&, const std::string&, const std::string&, const std::string&, const RefReadInParams&, uint32_t, int32_t, bool, bool, int, bool, bool, bool) [with TStr = S2bDnaString; index_t = long unsigned int; int32_t = int; std::string = std::__cxx11::basic_string; uint32_t = unsigned int]’ centrifuge_build.cpp:472:19: required from ‘void driver(const std::string&, EList >&, const std::string&, const std::string&, const std::string&, const std::string&, const std::string&, bool, int) [with TStr = S2bDnaString; std::string = std::__cxx11::basic_string]’ centrifuge_build.cpp:697:25: required from here bt2_idx.h:3452:41: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 3452 | for(size_t k = 0; k < kmer_size; k++) { | ~~^~~~~~~~~~~ bt2_idx.h:3641:27: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘int’ [-Wsign-compare] 3641 | for(size_t k = 0; k < kmer_size; k++) { | ~~^~~~~~~~~~~ In file included from centrifuge.cpp:47: classifier.h: In instantiation of ‘int Classifier::go(const Scoring&, const Ebwt&, const Ebwt&, const BitPairReference&, WalkMetrics&, PerReadMetrics&, HIMetrics&, SpeciesMetrics&, RandomSource&, AlnSinkWrap&) [with index_t = long unsigned int; local_index_t = short unsigned int]’: centrifuge.cpp:2660:34: required from here classifier.h:299:38: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘long unsigned int’} and ‘const THitInt’ {aka ‘const long int’} [-Wsign-compare] 299 | if(coords.size() > rp.ihits) { | ~~~~~~~~~~~~~~^~~~~~~~~~ classifier.h:411:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 411 | if(i + 1 < _hitMap.size()) { | ~~~~~~^~~~~~~~~~~~~~~~ classifier.h:432:48: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 432 | if(_hitMap[i].rank + 1 >= _hitMap[i].path.size()) { | ~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ classifier.h:442:55: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 442 | uint64_t parent_taxID = (rank + 1 >= _hitMap[i].path.size() ? 1 : _hitMap[i].path[rank + 1]); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ classifier.h:475:63: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 475 | uint64_t cur_parent_taxID = (rank + 1 >= _hitMap[i].path.size() ? 1 : _hitMap[i].path[rank + 1]); | ~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~ classifier.h: In instantiation of ‘void Classifier::searchForwardAndReverse(index_t, const Ebwt&, const Scoring&, RandomSource&, const ReportingParams&, index_t) [with index_t = long unsigned int; local_index_t = short unsigned int]’: classifier.h:238:13: required from ‘int Classifier::go(const Scoring&, const Ebwt&, const Ebwt&, const BitPairReference&, WalkMetrics&, PerReadMetrics&, HIMetrics&, SpeciesMetrics&, RandomSource&, AlnSinkWrap&) [with index_t = long unsigned int; local_index_t = short unsigned int]’ centrifuge.cpp:2660:34: required from here classifier.h:850:50: warning: comparison of integer expressions of different signedness: ‘long unsigned int’ and ‘const THitInt’ {aka ‘const long int’} [-Wsign-compare] 850 | hit.size() + rchit.size() > rp.ihits) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ classifier.h:647:16: warning: variable ‘cur’ set but not used [-Wunused-but-set-variable] 647 | size_t cur[2] = {0, 0} ; | ^~~ In file included from centrifuge.cpp:41: aln_sink.h: In instantiation of ‘void AlnSinkSam::appendMate(Ebwt&, BTString&, const Read&, const Read*, TReadId, AlnRes*, AlnRes*, const AlnSetSumm&, const PerReadMetrics&, SpeciesMetrics&, size_t) [with index_t = long unsigned int; BTString = SStringExpandable; TReadId = long unsigned int; size_t = long unsigned int]’: aln_sink.h:1407:9: required from ‘void AlnSinkSam::append(BTString&, size_t, const Read*, const Read*, TReadId, AlnRes*, AlnRes*, const AlnSetSumm&, const PerReadMetrics&, SpeciesMetrics&, bool, size_t) [with index_t = long unsigned int; BTString = SStringExpandable; size_t = long unsigned int; TReadId = long unsigned int]’ aln_sink.h:1392:15: required from here aln_sink.h:2302:25: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘long unsigned int’} [-Wsign-compare] 2302 | for (int i=0; i < this->tab_fmt_cols_.size(); ++i) { | ~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In file included from blockwise_sa.h:29, from bt2_idx.h:44, from bt2_idx.cpp:25: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ ds.h: In member function ‘alloc’: ds.h:1268:37: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1268 | EList *tmp = new EList[sz]; | ^ /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopyExact’ at ds.h:948:17, inlined from ‘expandCopy’ at ds.h:939:18, inlined from ‘push_back’ at ds.h:471:29: ds.h:908:26: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 908 | T* tmp = new T[sz]; | ^ /usr/include/c++/12/new: In member function ‘push_back’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopyExact’ at ds.h:948:17, inlined from ‘expandCopy’ at ds.h:939:18, inlined from ‘expand’ at ds.h:480:29, inlined from ‘__ct_base .constprop’ at bt2_idx.h:651:35: ds.h:908:26: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 908 | T* tmp = new T[sz]; | ^ /usr/include/c++/12/new: In member function ‘__ct_base .constprop’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In file included from diff_sample.cpp:20: diff_sample.h: In function ‘void calcExhaustiveDC(T, bool, bool)’: diff_sample.h:175:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~ diff_sample.h:175:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 175 | if(!diffs[d1]) diffCnt++; diffs[d1] = true; | ^~~~~ diff_sample.h:176:41: warning: this ‘if’ clause does not guard... [-Wmisleading-indentation] 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~ diff_sample.h:176:67: note: ...this statement, but the latter is misleadingly indented as if it were guarded by the ‘if’ 176 | if(!diffs[d2]) diffCnt++; diffs[d2] = true; | ^~~~~ In member function ‘alloc’, inlined from ‘expandCopy’ at ds.h:1301:28, inlined from ‘resize’ at ds.h:1140:14, inlined from ‘resize’ at ds.h:1133:7, inlined from ‘mkeyQSortSuf2.constprop.isra’ at multikey_qsort.h:539:34: ds.h:1268:37: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1268 | EList *tmp = new EList[sz]; | ^ /usr/include/c++/12/new: In function ‘mkeyQSortSuf2.constprop.isra’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopy’ at ds.h:1301:28, inlined from ‘resize’ at ds.h:1140:14, inlined from ‘resize’ at ds.h:1133:7, inlined from ‘mkeyQSortSuf2.constprop.isra’ at multikey_qsort.h:539:34: ds.h:1268:37: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1268 | EList *tmp = new EList[sz]; | ^ /usr/include/c++/12/new: In function ‘mkeyQSortSuf2.constprop.isra’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopy’ at ds.h:1301:28, inlined from ‘resize’ at ds.h:1140:14, inlined from ‘resize’ at ds.h:1133:7, inlined from ‘bucketSortSufDcU8’ at multikey_qsort.h:1041:34, inlined from ‘mkeyQSortSufDcU8.constprop’ at multikey_qsort.h:1161:20: ds.h:1268:37: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1268 | EList *tmp = new EList[sz]; | ^ /usr/include/c++/12/new: In function ‘mkeyQSortSufDcU8.constprop’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopy’ at ds.h:1301:28, inlined from ‘resize’ at ds.h:1140:14, inlined from ‘resize’ at ds.h:1133:7, inlined from ‘bucketSortSufDcU8’ at multikey_qsort.h:1041:34, inlined from ‘mkeyQSortSufDcU8.constprop’ at multikey_qsort.h:1161:20: ds.h:1268:37: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1268 | EList *tmp = new EList[sz]; | ^ /usr/include/c++/12/new: In function ‘mkeyQSortSufDcU8.constprop’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopyExact’ at ds.h:948:17, inlined from ‘expandCopy’ at ds.h:939:18, inlined from ‘push_back’ at ds.h:471:29, inlined from ‘report.constprop’ at aln_sink.h:1840:18: ds.h:908:26: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 908 | T* tmp = new T[sz]; | ^ /usr/include/c++/12/new: In member function ‘report.constprop’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopyExact’ at ds.h:948:17, inlined from ‘expandCopy’ at ds.h:939:18, inlined from ‘expand’ at ds.h:480:29, inlined from ‘__ct_base .constprop’ at bt2_idx.h:651:35: ds.h:908:26: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 908 | T* tmp = new T[sz]; | ^ /usr/include/c++/12/new: In member function ‘__ct_base .constprop’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopyExact’ at ds.h:948:17, inlined from ‘expandCopy’ at ds.h:939:18, inlined from ‘expand’ at ds.h:480:29, inlined from ‘parseFasta’ at sequence_io.h:88:15: ds.h:908:26: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 908 | T* tmp = new T[sz]; | ^ /usr/include/c++/12/new: In function ‘parseFasta’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopyExact’ at ds.h:948:17, inlined from ‘expandCopy’ at ds.h:939:18, inlined from ‘expand’ at ds.h:480:29, inlined from ‘parseFasta’ at sequence_io.h:89:14: ds.h:908:26: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 908 | T* tmp = new T[sz]; | ^ /usr/include/c++/12/new: In function ‘parseFasta’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopyExact’ at ds.h:948:17, inlined from ‘expandCopy’ at ds.h:939:18, inlined from ‘expand’ at ds.h:480:29, inlined from ‘__ct_base ’ at pat.cpp:536:12: ds.h:908:26: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 908 | T* tmp = new T[sz]; | ^ /usr/include/c++/12/new: In member function ‘__ct_base ’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopyExact’ at ds.h:948:17, inlined from ‘expandCopy’ at ds.h:939:18, inlined from ‘push_back’ at ds.h:471:29, inlined from ‘__ct_base ’ at pat.cpp:538:19: ds.h:908:26: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 908 | T* tmp = new T[sz]; | ^ /usr/include/c++/12/new: In member function ‘__ct_base ’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ In member function ‘alloc’, inlined from ‘expandCopyExact’ at ds.h:948:17, inlined from ‘expandCopy’ at ds.h:939:18, inlined from ‘push_back’ at ds.h:471:29, inlined from ‘__ct_base ’ at pat.cpp:543:19: ds.h:908:26: warning: argument 1 value ‘18446744073709551615’ exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 908 | T* tmp = new T[sz]; | ^ /usr/include/c++/12/new: In member function ‘__ct_base ’: /usr/include/c++/12/new:128:26: note: in a call to allocation function ‘operator new []’ declared here 128 | _GLIBCXX_NODISCARD void* operator new[](std::size_t) _GLIBCXX_THROW (std::bad_alloc) | ^ make[2]: Leaving directory '/<>' make[1]: Leaving directory '/<>' dh_auto_test create-stamp debian/debhelper-build-stamp dh_prep debian/rules override_dh_auto_install make[1]: Entering directory '/<>' dh_auto_install -- prefix=/usr/lib/centrifuge make -j4 install DESTDIR=/<>/debian/centrifuge AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" prefix=/usr/lib/centrifuge make[2]: Entering directory '/<>' mkdir -p /<>/debian/centrifuge/usr/lib/centrifuge/bin mkdir -p /<>/debian/centrifuge/usr/lib/centrifuge/share/centrifuge/indices install -m 0644 indices/Makefile /<>/debian/centrifuge/usr/lib/centrifuge/share/centrifuge/indices install -d -m 0755 /<>/debian/centrifuge/usr/lib/centrifuge/share/centrifuge/doc install -m 0644 doc/* /<>/debian/centrifuge/usr/lib/centrifuge/share/centrifuge/doc for file in centrifuge-build-bin centrifuge-class centrifuge-inspect-bin centrifuge centrifuge-build centrifuge-inspect centrifuge-download centrifuge-kreport centrifuge-BuildSharedSequence.pl centrifuge-RemoveEmptySequence.pl centrifuge-RemoveN.pl centrifuge-compress.pl centrifuge-sort-nt.pl; do \ install -m 0755 $file /<>/debian/centrifuge/usr/lib/centrifuge/bin ; \ done make[2]: Leaving directory '/<>' mv debian/centrifuge/usr/lib/centrifuge/bin/* debian/centrifuge/usr/lib/centrifuge/ rmdir debian/centrifuge/usr/lib/centrifuge/bin # move documentation to correct location mkdir -p debian/centrifuge/usr/share/doc/centrifuge/html mv debian/centrifuge/usr/lib/centrifuge/share/centrifuge/doc/*html \ debian/centrifuge/usr/lib/centrifuge/share/centrifuge/doc/*css \ debian/centrifuge/usr/share/doc/centrifuge/html # remove useless stuff in documentation dir rm -rf debian/centrifuge/usr/lib/centrifuge/share/doc/ make[1]: Leaving directory '/<>' debian/rules override_dh_install make[1]: Entering directory '/<>' dh_install for pl in `grep -Rl '#![[:space:]]*/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#![[:space:]]*/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done rm -rf debian/*/usr/lib/centrifuge/share/centrifuge/doc find debian -name manual.inc.html | xargs rm -rf make[1]: Leaving directory '/<>' dh_installdocs dh_installchangelogs dh_installman dh_python3 dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a debugedit: debian/centrifuge/usr/lib/centrifuge/centrifuge-inspect-bin: Unknown DWARF DW_FORM_0x1f21 2666cb12f6f575f9d996577846db2415f3a6ae36 debugedit: debian/centrifuge/usr/lib/centrifuge/centrifuge-class: Unknown DWARF DW_FORM_0x1f21 fb59943d64970c0e2144874fb3bab8fdee8211c8 debugedit: debian/centrifuge/usr/lib/centrifuge/centrifuge-build-bin: Unknown DWARF DW_FORM_0x1f21 cfc83804ad118550afd9625166d48a471b7080d2 dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dpkg-gencontrol: warning: package centrifuge: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package centrifuge: substitution variable ${perl:Depends} unused, but is defined dh_md5sums dh_builddeb INFO: pkgstriptranslations version 149 INFO: pkgstriptranslations version 149 pkgstriptranslations: processing centrifuge (in debian/centrifuge); do_strip: , oemstrip: pkgstriptranslations: processing centrifuge-dbgsym (in debian/.debhelper/centrifuge/dbgsym-root); do_strip: , oemstrip: pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgmaintainermangler: Maintainer field overridden to "Ubuntu Developers " pkgstripfiles: processing control file: debian/centrifuge/DEBIAN/control, package centrifuge, directory debian/centrifuge pkgstripfiles: processing control file: debian/.debhelper/centrifuge/dbgsym-root/DEBIAN/control, package centrifuge-dbgsym, directory debian/.debhelper/centrifuge/dbgsym-root dpkg-deb: building package 'centrifuge-dbgsym' in 'debian/.debhelper/scratch-space/build-centrifuge/centrifuge-dbgsym_1.0.3-11_amd64.deb'. pkgstripfiles: Running PNG optimization (using 4 cpus) for package centrifuge ... pkgstripfiles: No PNG files. dpkg-deb: building package 'centrifuge' in '../centrifuge_1.0.3-11_amd64.deb'. Renaming centrifuge-dbgsym_1.0.3-11_amd64.deb to centrifuge-dbgsym_1.0.3-11_amd64.ddeb dpkg-genbuildinfo --build=binary -O../centrifuge_1.0.3-11_amd64.buildinfo dpkg-genchanges --build=binary -mLaunchpad Build Daemon -O../centrifuge_1.0.3-11_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) -------------------------------------------------------------------------------- Build finished at 2022-11-06T02:14:08Z Finished -------- I: Built successfully +------------------------------------------------------------------------------+ | Changes | +------------------------------------------------------------------------------+ centrifuge_1.0.3-11_amd64.changes: ---------------------------------- Format: 1.8 Date: Mon, 10 Oct 2022 07:52:41 +0200 Source: centrifuge Binary: centrifuge Built-For-Profiles: noudeb Architecture: amd64 Version: 1.0.3-11 Distribution: lunar-proposed Urgency: medium Maintainer: Launchpad Build Daemon Changed-By: Andreas Tille Description: centrifuge - rapid and memory-efficient system for classification of DNA seque Closes: 1021513 Changes: centrifuge (1.0.3-11) unstable; urgency=medium . * Builds reproducibly (thanks for the patch to Vagrant Cascadian) Closes: #1021513 * Standards-Version: 4.6.1 (routine-update) * Set upstream metadata fields: Repository-Browse. * Lintian-overrides for false positive (see lintian bug #1017966) Checksums-Sha1: f80437071c6b66c98f2e5ee4a66416e2612119c3 2432490 centrifuge-dbgsym_1.0.3-11_amd64.ddeb 7ed114fedef6e26a0d8c6e0b6bea3e36d036b8db 7395 centrifuge_1.0.3-11_amd64.buildinfo 1b0cec2050cec85b3667cadd6bb83b53759d0109 461374 centrifuge_1.0.3-11_amd64.deb Checksums-Sha256: a76e55e40e0ebe7148efe6690012ffe5d13f41b17cacb142642b8d236e080475 2432490 centrifuge-dbgsym_1.0.3-11_amd64.ddeb 79e0442096068c9bb02bd880b664fbf26227c29e97cf8e42e3328c9758a3b815 7395 centrifuge_1.0.3-11_amd64.buildinfo 5dc899ae659c382460408cda7f2627141a7d339831e4580f8b71b90f5f09d23e 461374 centrifuge_1.0.3-11_amd64.deb Files: 3d672f4b89c7f671ada190a45a96cbd9 2432490 debug optional centrifuge-dbgsym_1.0.3-11_amd64.ddeb 5ec653f83d075973f33a1cb013324f03 7395 science optional centrifuge_1.0.3-11_amd64.buildinfo 10bde40ec26e3fba0a3ec21a7f53b0dd 461374 science optional centrifuge_1.0.3-11_amd64.deb /<>/centrifuge_1.0.3-11_amd64.changes.new could not be renamed to /<>/centrifuge_1.0.3-11_amd64.changes: Illegal seek Distribution field may be wrong!!! +------------------------------------------------------------------------------+ | Buildinfo | +------------------------------------------------------------------------------+ Format: 1.0 Source: centrifuge Binary: centrifuge centrifuge-dbgsym Architecture: amd64 Version: 1.0.3-11 Checksums-Md5: 3d672f4b89c7f671ada190a45a96cbd9 2432490 centrifuge-dbgsym_1.0.3-11_amd64.ddeb 10bde40ec26e3fba0a3ec21a7f53b0dd 461374 centrifuge_1.0.3-11_amd64.deb Checksums-Sha1: f80437071c6b66c98f2e5ee4a66416e2612119c3 2432490 centrifuge-dbgsym_1.0.3-11_amd64.ddeb 1b0cec2050cec85b3667cadd6bb83b53759d0109 461374 centrifuge_1.0.3-11_amd64.deb Checksums-Sha256: a76e55e40e0ebe7148efe6690012ffe5d13f41b17cacb142642b8d236e080475 2432490 centrifuge-dbgsym_1.0.3-11_amd64.ddeb 5dc899ae659c382460408cda7f2627141a7d339831e4580f8b71b90f5f09d23e 461374 centrifuge_1.0.3-11_amd64.deb Build-Origin: Ubuntu Build-Architecture: amd64 Build-Date: Sun, 06 Nov 2022 02:14:07 +0000 Build-Path: /<> Build-Tainted-By: merged-usr-via-aliased-dirs usr-local-has-programs Installed-Build-Depends: adduser (= 3.121ubuntu1), autoconf (= 2.71-2), automake (= 1:1.16.5-1.3), autopoint (= 0.21-8), autotools-dev (= 20220109.1), base-files (= 12.3ubuntu1), base-passwd (= 3.6.0), bash (= 5.2-1ubuntu2), binutils (= 2.39-8ubuntu2), binutils-common (= 2.39-8ubuntu2), binutils-x86-64-linux-gnu (= 2.39-8ubuntu2), bsdextrautils (= 2.38-4ubuntu1), bsdutils (= 1:2.38-4ubuntu1), build-essential (= 12.9ubuntu3), bzip2 (= 1.0.8-5build1), coreutils (= 8.32-4.1ubuntu1), cpp (= 4:12.2.0-1ubuntu1), cpp-12 (= 12.2.0-9ubuntu1), dash (= 0.5.11+git20210903+057cd650a4ed-8ubuntu1), debconf (= 1.5.79ubuntu1), debhelper (= 13.10.1ubuntu1), debianutils (= 5.7-0.3), debugedit (= 1:5.0-5), dh-autoreconf (= 20), dh-python (= 5.20221001), dh-strip-nondeterminism (= 1.13.0-1), diffutils (= 1:3.8-1), dpkg (= 1.21.9ubuntu1), dpkg-dev (= 1.21.9ubuntu1), dwz (= 0.14-1build2), file (= 1:5.41-4), findutils (= 4.9.0-3ubuntu1), g++ (= 4:12.2.0-1ubuntu1), g++-12 (= 12.2.0-9ubuntu1), gcc (= 4:12.2.0-1ubuntu1), gcc-12 (= 12.2.0-9ubuntu1), gcc-12-base (= 12.2.0-9ubuntu1), gettext (= 0.21-8), gettext-base (= 0.21-8), grep (= 3.7-1build1), groff-base (= 1.22.4-8build1), gzip (= 1.12-1ubuntu1), hostname (= 3.23ubuntu2), init-system-helpers (= 1.64), intltool-debian (= 0.35.0+20060710.5), jellyfish (= 2.3.0-14), libacl1 (= 2.3.1-1), libapparmor1 (= 3.0.7-1ubuntu3), libarchive-zip-perl (= 1.68-1), libargon2-1 (= 0~20171227-0.3), libasan8 (= 12.2.0-9ubuntu1), libatomic1 (= 12.2.0-9ubuntu1), libattr1 (= 1:2.5.1-1build1), libaudit-common (= 1:3.0.7-1ubuntu2), libaudit1 (= 1:3.0.7-1ubuntu2), libbinutils (= 2.39-8ubuntu2), libblkid1 (= 2.38-4ubuntu1), libbrotli1 (= 1.0.9-2build7), libbz2-1.0 (= 1.0.8-5build1), libc-bin (= 2.36-0ubuntu4), libc-dev-bin (= 2.36-0ubuntu4), libc6 (= 2.36-0ubuntu4), libc6-dev (= 2.36-0ubuntu4), libcap-ng0 (= 0.8.3-1build1), libcap2 (= 1:2.44-1build3), libcc1-0 (= 12.2.0-9ubuntu1), libcom-err2 (= 1.46.5-2ubuntu2), libcrypt-dev (= 1:4.4.28-2), libcrypt1 (= 1:4.4.28-2), libcryptsetup12 (= 2:2.5.0-2ubuntu1), libctf-nobfd0 (= 2.39-8ubuntu2), libctf0 (= 2.39-8ubuntu2), libcurl3-gnutls (= 7.86.0-1), libdb5.3 (= 5.3.28+dfsg1-0.10), libdebconfclient0 (= 0.264ubuntu1), libdebhelper-perl (= 13.10.1ubuntu1), libdeflate0 (= 1.12-1), libdevmapper1.02.1 (= 2:1.02.185-1ubuntu1), libdpkg-perl (= 1.21.9ubuntu1), libdw1 (= 0.187-4), libelf1 (= 0.187-4), libexpat1 (= 2.4.8-2), libfdisk1 (= 2.38-4ubuntu1), libffi8 (= 3.4.2-4), libfile-stripnondeterminism-perl (= 1.13.0-1), libgcc-12-dev (= 12.2.0-9ubuntu1), libgcc-s1 (= 12.2.0-9ubuntu1), libgcrypt20 (= 1.10.1-2ubuntu1), libgdbm-compat4 (= 1.23-1), libgdbm6 (= 1.23-1), libgmp10 (= 2:6.2.1+dfsg1-1ubuntu2), libgnutls30 (= 3.7.7-2ubuntu2), libgomp1 (= 12.2.0-9ubuntu1), libgpg-error0 (= 1.46-1), libgprofng0 (= 2.39-8ubuntu2), libgssapi-krb5-2 (= 1.20-1), libhogweed6 (= 3.8.1-2), libhts3 (= 1.13+ds-2build2), libhtscodecs2 (= 1.2.2-1), libicu71 (= 71.1-3ubuntu1), libidn2-0 (= 2.3.3-1build1), libip4tc2 (= 1.8.7-1ubuntu6), libisl23 (= 0.25-1), libitm1 (= 12.2.0-9ubuntu1), libjellyfish-2.0-2 (= 2.3.0-14), libjson-c5 (= 0.16-1), libk5crypto3 (= 1.20-1), libkeyutils1 (= 1.6.3-1), libkmod2 (= 30+20220630-3ubuntu1), libkrb5-3 (= 1.20-1), libkrb5support0 (= 1.20-1), libldap-2.5-0 (= 2.5.13+dfsg-1ubuntu2), liblsan0 (= 12.2.0-9ubuntu1), liblz4-1 (= 1.9.3-2build2), liblzma5 (= 5.2.5-2.1), libmagic-mgc (= 1:5.41-4), libmagic1 (= 1:5.41-4), libmount1 (= 2.38-4ubuntu1), libmpc3 (= 1.2.1-2build1), libmpdec3 (= 2.5.1-2build2), libmpfr6 (= 4.1.0-3build3), libncursesw6 (= 6.3+20220423-2), libnettle8 (= 3.8.1-2), libnghttp2-14 (= 1.49.0-1), libnsl-dev (= 1.3.0-2build2), libnsl2 (= 1.3.0-2build2), libp11-kit0 (= 0.24.1-1ubuntu2), libpam-modules (= 1.5.2-2ubuntu1), libpam-modules-bin (= 1.5.2-2ubuntu1), libpam-runtime (= 1.5.2-2ubuntu1), libpam0g (= 1.5.2-2ubuntu1), libpcre2-8-0 (= 10.40-1ubuntu1), libpcre3 (= 2:8.39-14), libperl5.36 (= 5.36.0-4ubuntu2), libpipeline1 (= 1.5.6-2), libpsl5 (= 0.21.0-1.2build2), libpython3-stdlib (= 3.10.6-1ubuntu1), libpython3.10-minimal (= 3.10.8-1), libpython3.10-stdlib (= 3.10.8-1), libquadmath0 (= 12.2.0-9ubuntu1), libreadline8 (= 8.2-1), librtmp1 (= 2.4+20151223.gitfa8646d.1-2build4), libsasl2-2 (= 2.1.28+dfsg-6ubuntu2), libsasl2-modules-db (= 2.1.28+dfsg-6ubuntu2), libseccomp2 (= 2.5.4-1ubuntu2), libselinux1 (= 3.4-1build1), libsemanage-common (= 3.4-1build1), libsemanage2 (= 3.4-1build1), libsepol2 (= 3.4-2), libsmartcols1 (= 2.38-4ubuntu1), libsqlite3-0 (= 3.39.3-1), libssh-4 (= 0.9.6-2build1), libssl3 (= 3.0.5-2ubuntu1), libstdc++-12-dev (= 12.2.0-9ubuntu1), libstdc++6 (= 12.2.0-9ubuntu1), libsub-override-perl (= 0.09-3), libsystemd-shared (= 251.4-1ubuntu7), libsystemd0 (= 251.4-1ubuntu7), libtasn1-6 (= 4.18.0-4build1), libtinfo6 (= 6.3+20220423-2), libtirpc-common (= 1.3.3+ds-1), libtirpc-dev (= 1.3.3+ds-1), libtirpc3 (= 1.3.3+ds-1), libtool (= 2.4.7-4), libtsan2 (= 12.2.0-9ubuntu1), libubsan1 (= 12.2.0-9ubuntu1), libuchardet0 (= 0.0.7-1build2), libudev1 (= 251.4-1ubuntu7), libunistring2 (= 1.0-1), libuuid1 (= 2.38-4ubuntu1), libxml2 (= 2.9.14+dfsg-1build1), libzstd1 (= 1.5.2+dfsg-1), linux-libc-dev (= 5.19.0-23.24), login (= 1:4.11.1+dfsg1-2ubuntu1), lsb-base (= 11.2ubuntu1), lto-disabled-list (= 35), m4 (= 1.4.19-1), make (= 4.3-4.1build1), man-db (= 2.10.2-2), mawk (= 1.3.4.20200120-3.1), media-types (= 8.0.0), mount (= 2.38-4ubuntu1), ncurses-base (= 6.3+20220423-2), ncurses-bin (= 6.3+20220423-2), passwd (= 1:4.11.1+dfsg1-2ubuntu1), patch (= 2.7.6-7build2), perl (= 5.36.0-4ubuntu2), perl-base (= 5.36.0-4ubuntu2), perl-modules-5.36 (= 5.36.0-4ubuntu2), po-debconf (= 1.0.21+nmu1), python3 (= 3.10.6-1ubuntu1), python3-distutils (= 3.10.8-1), python3-lib2to3 (= 3.10.8-1), python3-minimal (= 3.10.6-1ubuntu1), python3.10 (= 3.10.8-1), python3.10-minimal (= 3.10.8-1), readline-common (= 8.2-1), rpcsvc-proto (= 1.4.2-0ubuntu6), sed (= 4.8-1ubuntu2), sensible-utils (= 0.0.17), systemd (= 251.4-1ubuntu7), sysvinit-utils (= 3.04-1ubuntu1), tar (= 1.34+dfsg-1build3), util-linux (= 2.38-4ubuntu1), util-linux-extra (= 2.38-4ubuntu1), xz-utils (= 5.2.5-2.1), zlib1g (= 1:1.2.11.dfsg-4.1ubuntu2) Environment: DEB_BUILD_OPTIONS="parallel=4" DEB_BUILD_PROFILES="noudeb" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1665381161" +------------------------------------------------------------------------------+ | Package contents | +------------------------------------------------------------------------------+ centrifuge_1.0.3-11_amd64.deb ----------------------------- new Debian package, version 2.0. size 461374 bytes: control archive=1761 bytes. 1249 bytes, 22 lines control 2253 bytes, 30 lines md5sums Package: centrifuge Version: 1.0.3-11 Architecture: amd64 Maintainer: Ubuntu Developers Original-Maintainer: Debian Med Packaging Team Installed-Size: 1207 Depends: libc6 (>= 2.34), libgcc-s1 (>= 3.3.1), libstdc++6 (>= 11), python3:any, python3, hisat2, jellyfish Section: science Priority: optional Homepage: https://ccb.jhu.edu/software/centrifuge/ Description: rapid and memory-efficient system for classification of DNA sequences Centrifuge is a very rapid and memory-efficient system for the classification of DNA sequences from microbial samples, with better sensitivity than and comparable accuracy to other leading systems. The system uses a novel indexing scheme based on the Burrows-Wheeler transform (BWT) and the Ferragina-Manzini (FM) index, optimized specifically for the metagenomic classification problem. Centrifuge requires a relatively small index (e.g., 4.3 GB for ~4,100 bacterial genomes) yet provides very fast classification speed, allowing it to process a typical DNA sequencing run within an hour. Together these advances enable timely and accurate analysis of large metagenomics data sets on conventional desktop computers. drwxr-xr-x root/root 0 2022-10-10 05:52 ./ drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/ drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/bin/ -rwxr-xr-x root/root 312 2022-10-10 05:52 ./usr/bin/centrifuge lrwxrwxrwx root/root 0 2022-10-10 05:52 ./usr/bin/centrifuge-build -> centrifuge lrwxrwxrwx root/root 0 2022-10-10 05:52 ./usr/bin/centrifuge-compress -> centrifuge lrwxrwxrwx root/root 0 2022-10-10 05:52 ./usr/bin/centrifuge-download -> centrifuge lrwxrwxrwx root/root 0 2022-10-10 05:52 ./usr/bin/centrifuge-inspect -> centrifuge drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/lib/ drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/lib/centrifuge/ -rwxr-xr-x root/root 19883 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge -rwxr-xr-x root/root 12126 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-BuildSharedSequence.pl -rwxr-xr-x root/root 407 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-RemoveEmptySequence.pl -rwxr-xr-x root/root 1007 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-RemoveN.pl -rwxr-xr-x root/root 2312 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-build -rwxr-xr-x root/root 387296 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-build-bin -rwxr-xr-x root/root 433584 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-class -rwxr-xr-x root/root 13305 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-compress.pl -rwxr-xr-x root/root 11670 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-download -rwxr-xr-x root/root 1868 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-inspect -rwxr-xr-x root/root 187376 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-inspect-bin -rwxr-xr-x root/root 5231 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-kreport -rwxr-xr-x root/root 3214 2022-10-10 05:52 ./usr/lib/centrifuge/centrifuge-sort-nt.pl drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/lib/centrifuge/share/ drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/lib/centrifuge/share/centrifuge/ drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/lib/centrifuge/share/centrifuge/indices/ -rw-r--r-- root/root 12887 2022-10-10 05:52 ./usr/lib/centrifuge/share/centrifuge/indices/Makefile drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/share/ drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/share/doc/ drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/share/doc/centrifuge/ -rw-r--r-- root/root 1025 2022-10-10 05:52 ./usr/share/doc/centrifuge/changelog.Debian.gz -rw-r--r-- root/root 1054 2022-10-10 05:52 ./usr/share/doc/centrifuge/copyright drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/share/doc/centrifuge/html/ -rw-r--r-- root/root 1234 2022-10-10 05:52 ./usr/share/doc/centrifuge/html/add.css -rw-r--r-- root/root 1158 2022-10-10 05:52 ./usr/share/doc/centrifuge/html/faq.shtml -rw-r--r-- root/root 423 2022-10-10 05:52 ./usr/share/doc/centrifuge/html/footer.inc.html -rw-r--r-- root/root 2388 2022-10-10 05:52 ./usr/share/doc/centrifuge/html/index.shtml.gz -rw-r--r-- root/root 84288 2022-10-10 05:52 ./usr/share/doc/centrifuge/html/manual.html -rw-r--r-- root/root 1068 2022-10-10 05:52 ./usr/share/doc/centrifuge/html/manual.shtml -rw-r--r-- root/root 1348 2022-10-10 05:52 ./usr/share/doc/centrifuge/html/sidebar.inc.shtml.gz -rw-r--r-- root/root 7942 2022-10-10 05:52 ./usr/share/doc/centrifuge/html/style.css drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/share/man/ drwxr-xr-x root/root 0 2022-10-10 05:52 ./usr/share/man/man1/ -rw-r--r-- root/root 1204 2022-10-10 05:52 ./usr/share/man/man1/centrifuge-build.1.gz -rw-r--r-- root/root 379 2022-10-10 05:52 ./usr/share/man/man1/centrifuge-compress.1.gz -rw-r--r-- root/root 854 2022-10-10 05:52 ./usr/share/man/man1/centrifuge-download.1.gz -rw-r--r-- root/root 920 2022-10-10 05:52 ./usr/share/man/man1/centrifuge-inspect.1.gz -rw-r--r-- root/root 1931 2022-10-10 05:52 ./usr/share/man/man1/centrifuge.1.gz +------------------------------------------------------------------------------+ | Post Build | +------------------------------------------------------------------------------+ +------------------------------------------------------------------------------+ | Cleanup | +------------------------------------------------------------------------------+ Purging /<> Not removing build depends: as requested +------------------------------------------------------------------------------+ | Summary | +------------------------------------------------------------------------------+ Build Architecture: amd64 Build Type: binary Build-Space: 28680 Build-Time: 44 Distribution: lunar-proposed Host Architecture: amd64 Install-Time: 7 Job: centrifuge_1.0.3-11.dsc Machine Architecture: amd64 Package: centrifuge Package-Time: 51 Source-Version: 1.0.3-11 Space: 28680 Status: successful Version: 1.0.3-11 -------------------------------------------------------------------------------- Finished at 2022-11-06T02:14:08Z Build needed 00:00:51, 28680k disk space Adding user buildd to group lxd RUN: /usr/share/launchpad-buildd/bin/in-target scan-for-processes --backend=chroot --series=lunar --arch=amd64 PACKAGEBUILD-24606708 Scanning for processes to kill in build PACKAGEBUILD-24606708