Mon Feb 3 08:26:08 UTC 2025 I: starting to build virulencefinder/unstable/arm64 on jenkins on '2025-02-03 08:26'
Mon Feb 3 08:26:08 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_6/77718/console.log
Mon Feb 3 08:26:08 UTC 2025 I: Downloading source for unstable/virulencefinder=2.0.5-2
--2025-02-03 08:26:09-- http://deb.debian.org/debian/pool/main/v/virulencefinder/virulencefinder_2.0.5-2.dsc
Connecting to 46.16.76.132:3128... connected.
Proxy request sent, awaiting response... 200 OK
Length: 2395 (2.3K) [text/prs.lines.tag]
Saving to: ‘virulencefinder_2.0.5-2.dsc’
0K .. 100% 366M=0s
2025-02-03 08:26:09 (366 MB/s) - ‘virulencefinder_2.0.5-2.dsc’ saved [2395/2395]
Mon Feb 3 08:26:09 UTC 2025 I: virulencefinder_2.0.5-2.dsc
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 3.0 (quilt)
Source: virulencefinder
Binary: virulencefinder, virulencefinder-examples
Architecture: all
Version: 2.0.5-2
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>, Étienne Mollier <emollier@debian.org>
Homepage: https://bitbucket.org/genomicepidemiology/virulencefinder
Standards-Version: 4.7.0
Vcs-Browser: https://salsa.debian.org/med-team/virulencefinder
Vcs-Git: https://salsa.debian.org/med-team/virulencefinder.git
Testsuite: autopkgtest
Build-Depends: debhelper-compat (= 13), dh-sequence-python3, python3, python3-tabulate, python3-cgecore, ncbi-blast+ <!nocheck>
Package-List:
virulencefinder deb science optional arch=all
virulencefinder-examples deb science optional arch=all
Checksums-Sha1:
bc65078a3362b49d9d8cc60845fffbd38fdd5a38 263880 virulencefinder_2.0.5.orig.tar.xz
ec013f4e8d77e59079693eaeb9bda3422604a4be 6144 virulencefinder_2.0.5-2.debian.tar.xz
Checksums-Sha256:
2936d46e9db0d239294463919b34ae8f57acf0784e82f136010a8654cf00529f 263880 virulencefinder_2.0.5.orig.tar.xz
64ab0a80d01bafaf831070f7678169880be6e405d08128880f2dd29974c7fbbd 6144 virulencefinder_2.0.5-2.debian.tar.xz
Files:
641ff0055d0c9b7ad332254e16608999 263880 virulencefinder_2.0.5.orig.tar.xz
ca07e5311107f325f2f688ecae36697a 6144 virulencefinder_2.0.5-2.debian.tar.xz
Dgit: a3ba065aa7c12b2931475a4c33078c400d9f85ca debian archive/debian/2.0.5-2 https://git.dgit.debian.org/virulencefinder
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Mon Feb 3 08:26:09 UTC 2025 I: Checking whether the package is not for us
Mon Feb 3 08:26:09 UTC 2025 I: Starting 1st build on remote node codethink03-arm64.debian.net.
Mon Feb 3 08:26:09 UTC 2025 I: Preparing to do remote build '1' on codethink03-arm64.debian.net.
Mon Feb 3 08:28:32 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net.
I: pbuilder: network access will be disabled during build
I: Current time: Sun Mar 8 02:49:11 -12 2026
I: pbuilder-time-stamp: 1772981351
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz]
I: copying local configuration
W: --override-config is not set; not updating apt.conf Read the manpage for details.
I: mounting /proc filesystem
I: mounting /sys filesystem
I: creating /{dev,run}/shm
I: mounting /dev/pts filesystem
I: redirecting /dev/ptmx to /dev/pts/ptmx
I: policy-rc.d already exists
I: Copying source file
I: copying [virulencefinder_2.0.5-2.dsc]
I: copying [./virulencefinder_2.0.5.orig.tar.xz]
I: copying [./virulencefinder_2.0.5-2.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./virulencefinder_2.0.5-2.dsc: unsupported subcommand
dpkg-source: info: extracting virulencefinder in virulencefinder-2.0.5
dpkg-source: info: unpacking virulencefinder_2.0.5.orig.tar.xz
dpkg-source: info: unpacking virulencefinder_2.0.5-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying reproducible_build.patch
dpkg-source: info: applying python3.12.patch
dpkg-source: info: applying adjust-reference-data.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/3014937/tmp/hooks/D02_print_environment starting
I: set
BUILDDIR='/build/reproducible-path'
BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
BUILDUSERNAME='pbuilder1'
BUILD_ARCH='arm64'
DEBIAN_FRONTEND='noninteractive'
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 '
DISTRIBUTION='unstable'
HOME='/root'
HOST_ARCH='arm64'
IFS='
'
INVOCATION_ID='6b403e1c8b9847c49b816846890a7ad2'
LANG='C'
LANGUAGE='en_US:en'
LC_ALL='C'
MAIL='/var/mail/root'
OPTIND='1'
PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
PBCURRENTCOMMANDLINEOPERATION='build'
PBUILDER_OPERATION='build'
PBUILDER_PKGDATADIR='/usr/share/pbuilder'
PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
PBUILDER_SYSCONFDIR='/etc'
PPID='3014937'
PS1='# '
PS2='> '
PS4='+ '
PWD='/'
SHELL='/bin/bash'
SHLVL='2'
SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.4DIVD344/pbuilderrc_64jl --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.4DIVD344/b1 --logfile b1/build.log virulencefinder_2.0.5-2.dsc'
SUDO_GID='109'
SUDO_UID='104'
SUDO_USER='jenkins'
TERM='unknown'
TZ='/usr/share/zoneinfo/Etc/GMT+12'
USER='root'
_='/usr/bin/systemd-run'
http_proxy='http://192.168.101.4:3128'
I: uname -a
Linux codethink03-arm64 6.1.0-30-cloud-arm64 #1 SMP Debian 6.1.124-1 (2025-01-12) aarch64 GNU/Linux
I: ls -l /bin
lrwxrwxrwx 1 root root 7 Nov 22 2024 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/3014937/tmp/hooks/D02_print_environment finished
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: arm64
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder
This package was created automatically by pbuilder to satisfy the
build-dependencies of the package being currently built.
Depends: debhelper-compat (= 13), dh-sequence-python3, python3, python3-tabulate, python3-cgecore, ncbi-blast+
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19920 files and directories currently installed.)
Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ...
Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ...
dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested:
pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however:
Package debhelper-compat is not installed.
pbuilder-satisfydepends-dummy depends on dh-sequence-python3; however:
Package dh-sequence-python3 is not installed.
pbuilder-satisfydepends-dummy depends on python3; however:
Package python3 is not installed.
pbuilder-satisfydepends-dummy depends on python3-tabulate; however:
Package python3-tabulate is not installed.
pbuilder-satisfydepends-dummy depends on python3-cgecore; however:
Package python3-cgecore is not installed.
pbuilder-satisfydepends-dummy depends on ncbi-blast+; however:
Package ncbi-blast+ is not installed.
Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ...
Reading package lists...
Building dependency tree...
Reading state information...
Initializing package states...
Writing extended state information...
Building tag database...
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0)
The following NEW packages will be installed:
autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-python{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-urw-base35{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas3{a} libbrotli1{a} libcairo2{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfontenc1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libharfbuzz0b{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} liblapack3{a} liblcms2-2{a} liblerc4{a} liblmdb0{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libnghttp2-14{a} libopenjp2-7{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libraqm0{a} libreadline8t64{a} libsharpyuv0{a} libtiff6{a} libtool{a} libuchardet0{a} libunistring5{a} libuv1t64{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxml2{a} libxrender1{a} m4{a} man-db{a} media-types{a} ncbi-blast+{a} ncbi-data{a} netbase{a} po-debconf{a} python3{a} python3-autocommand{a} python3-biopython{a} python3-cairo{a} python3-cgecore{a} python3-chardet{a} python3-freetype{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-numpy{a} python3-numpy-dev{a} python3-pil{a} python3-pkg-resources{a} python3-reportlab{a} python3-rlpycairo{a} python3-setuptools{a} python3-tabulate{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} tzdata{a} w3c-sgml-lib{a} x11-common{a} xfonts-encodings{a} xfonts-utils{a} xml-core{a}
The following packages are RECOMMENDED but will NOT be installed:
ca-certificates curl fonts-dejavu-extra libarchive-cpio-perl libglib2.0-data libltdl-dev libmail-sendmail-perl lynx python-biopython-doc python3-olefile shared-mime-info wget xdg-user-dirs
0 packages upgraded, 121 newly installed, 0 to remove and 0 not upgraded.
Need to get 77.2 MB of archives. After unpacking 320 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main arm64 libpython3.13-minimal arm64 3.13.1-3+b1 [852 kB]
Get: 2 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.6.4-1 [90.7 kB]
Get: 3 http://deb.debian.org/debian unstable/main arm64 python3.13-minimal arm64 3.13.1-3+b1 [1987 kB]
Get: 4 http://deb.debian.org/debian unstable/main arm64 python3-minimal arm64 3.13.1-2 [27.0 kB]
Get: 5 http://deb.debian.org/debian unstable/main arm64 media-types all 10.1.0 [26.9 kB]
Get: 6 http://deb.debian.org/debian unstable/main arm64 netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025a-1 [259 kB]
Get: 8 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.4.6-1 [20.9 kB]
Get: 9 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.2-6 [69.4 kB]
Get: 10 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.2-6 [159 kB]
Get: 11 http://deb.debian.org/debian unstable/main arm64 libpython3.13-stdlib arm64 3.13.1-3+b1 [1913 kB]
Get: 12 http://deb.debian.org/debian unstable/main arm64 python3.13 arm64 3.13.1-3+b1 [740 kB]
Get: 13 http://deb.debian.org/debian unstable/main arm64 libpython3-stdlib arm64 3.13.1-2 [9952 B]
Get: 14 http://deb.debian.org/debian unstable/main arm64 python3 arm64 3.13.1-2 [28.0 kB]
Get: 15 http://deb.debian.org/debian unstable/main arm64 sgml-base all 1.31 [15.4 kB]
Get: 16 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB]
Get: 17 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB]
Get: 18 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB]
Get: 19 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3+b1 [43.4 kB]
Get: 20 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-1 [241 kB]
Get: 21 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB]
Get: 22 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-7 [1129 kB]
Get: 23 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.4-2 [91.5 kB]
Get: 24 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB]
Get: 25 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB]
Get: 26 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-5 [284 kB]
Get: 27 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB]
Get: 28 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB]
Get: 29 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.17-3 [862 kB]
Get: 30 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-1 [770 kB]
Get: 31 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 32 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-3 [539 kB]
Get: 33 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB]
Get: 34 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 35 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.1-1 [19.6 kB]
Get: 36 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.1-1 [8584 B]
Get: 37 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB]
Get: 38 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB]
Get: 39 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-1 [449 kB]
Get: 40 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-6 [9239 kB]
Get: 41 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB]
Get: 42 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-1 [1610 kB]
Get: 43 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 44 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 45 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.24.1 [920 kB]
Get: 46 http://deb.debian.org/debian unstable/main arm64 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 47 http://deb.debian.org/debian unstable/main arm64 python3-more-itertools all 10.6.0-1 [65.3 kB]
Get: 48 http://deb.debian.org/debian unstable/main arm64 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 49 http://deb.debian.org/debian unstable/main arm64 python3-typeguard all 4.4.1-1 [37.0 kB]
Get: 50 http://deb.debian.org/debian unstable/main arm64 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 51 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.context all 6.0.0-1 [7984 B]
Get: 52 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 53 http://deb.debian.org/debian unstable/main arm64 python3-pkg-resources all 75.6.0-1 [222 kB]
Get: 54 http://deb.debian.org/debian unstable/main arm64 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 55 http://deb.debian.org/debian unstable/main arm64 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 56 http://deb.debian.org/debian unstable/main arm64 python3-setuptools all 75.6.0-1 [720 kB]
Get: 57 http://deb.debian.org/debian unstable/main arm64 dh-python all 6.20250108 [113 kB]
Get: 58 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 59 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-core all 2.37-8 [840 kB]
Get: 60 http://deb.debian.org/debian unstable/main arm64 libfontenc1 arm64 1:1.1.8-1+b2 [22.5 kB]
Get: 61 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b6 [297 kB]
Get: 62 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.46-4 [276 kB]
Get: 63 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB]
Get: 64 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+24 [217 kB]
Get: 65 http://deb.debian.org/debian unstable/main arm64 xfonts-encodings all 1:1.0.4-2.2 [577 kB]
Get: 66 http://deb.debian.org/debian unstable/main arm64 xfonts-utils arm64 1:7.7+7 [89.3 kB]
Get: 67 http://deb.debian.org/debian unstable/main arm64 fonts-urw-base35 all 20200910-8 [10.8 MB]
Get: 68 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-2 [317 kB]
Get: 69 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.1-2 [104 kB]
Get: 70 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-2 [386 kB]
Get: 71 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.44.0-3 [168 kB]
Get: 72 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB]
Get: 73 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB]
Get: 74 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB]
Get: 75 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.10-2 [337 kB]
Get: 76 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.10-2 [789 kB]
Get: 77 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB]
Get: 78 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB]
Get: 79 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB]
Get: 80 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.10-1.1+b4 [27.2 kB]
Get: 81 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.2-2 [483 kB]
Get: 82 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-1+b1 [42.5 kB]
Get: 83 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-1 [26.5 kB]
Get: 84 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 14.2.0-16 [361 kB]
Get: 85 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.82.4-2 [1413 kB]
Get: 86 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-2+b1 [70.4 kB]
Get: 87 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 10.2.0-1 [443 kB]
Get: 88 http://deb.debian.org/debian unstable/main arm64 libimagequant0 arm64 2.18.0-1+b2 [34.6 kB]
Get: 89 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB]
Get: 90 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-3+b1 [173 kB]
Get: 91 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.1-2 [1819 kB]
Get: 92 http://deb.debian.org/debian unstable/main arm64 liblcms2-2 arm64 2.16-2 [151 kB]
Get: 93 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB]
Get: 94 http://deb.debian.org/debian unstable/main arm64 liblmdb0 arm64 0.9.31-1+b2 [43.5 kB]
Get: 95 http://deb.debian.org/debian unstable/main arm64 libmbedcrypto16 arm64 3.6.2-3 [341 kB]
Get: 96 http://deb.debian.org/debian unstable/main arm64 libmbedx509-7 arm64 3.6.2-3 [146 kB]
Get: 97 http://deb.debian.org/debian unstable/main arm64 libmbedtls21 arm64 3.6.2-3 [222 kB]
Get: 98 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1 [71.3 kB]
Get: 99 http://deb.debian.org/debian unstable/main arm64 libopenjp2-7 arm64 2.5.3-1 [189 kB]
Get: 100 http://deb.debian.org/debian unstable/main arm64 libraqm0 arm64 0.10.2-1 [13.6 kB]
Get: 101 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB]
Get: 102 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB]
Get: 103 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.5.1+git230720-5 [309 kB]
Get: 104 http://deb.debian.org/debian unstable/main arm64 libuv1t64 arm64 1.48.0-7 [143 kB]
Get: 105 http://deb.debian.org/debian unstable/main arm64 libwebpdemux2 arm64 1.5.0-0.1 [113 kB]
Get: 106 http://deb.debian.org/debian unstable/main arm64 libwebpmux3 arm64 1.5.0-0.1 [125 kB]
Get: 107 http://deb.debian.org/debian unstable/main arm64 ncbi-data all 6.1.20170106+dfsg2-5 [3537 kB]
Get: 108 http://deb.debian.org/debian unstable/main arm64 ncbi-blast+ arm64 2.16.0+ds-6+b1 [13.8 MB]
Get: 109 http://deb.debian.org/debian unstable/main arm64 python3-numpy-dev arm64 1:2.2.2+ds-2 [135 kB]
Get: 110 http://deb.debian.org/debian unstable/main arm64 python3-numpy arm64 1:2.2.2+ds-2 [4129 kB]
Get: 111 http://deb.debian.org/debian unstable/main arm64 python3-chardet all 5.2.0+dfsg-2 [108 kB]
Get: 112 http://deb.debian.org/debian unstable/main arm64 python3-pil arm64 11.1.0-4 [515 kB]
Get: 113 http://deb.debian.org/debian unstable/main arm64 python3-cairo arm64 1.26.1-2+b1 [130 kB]
Get: 114 http://deb.debian.org/debian unstable/main arm64 python3-freetype all 2.5.1-1 [89.3 kB]
Get: 115 http://deb.debian.org/debian unstable/main arm64 python3-rlpycairo all 0.3.0-3 [9904 B]
Get: 116 http://deb.debian.org/debian unstable/main arm64 python3-reportlab all 4.2.5-1 [1117 kB]
Get: 117 http://deb.debian.org/debian unstable/main arm64 xml-core all 0.19 [20.1 kB]
Get: 118 http://deb.debian.org/debian unstable/main arm64 w3c-sgml-lib all 1.3-3 [273 kB]
Get: 119 http://deb.debian.org/debian unstable/main arm64 python3-biopython arm64 1.85+dfsg-1 [1663 kB]
Get: 120 http://deb.debian.org/debian unstable/main arm64 python3-cgecore all 1.5.6+ds-2 [28.8 kB]
Get: 121 http://deb.debian.org/debian unstable/main arm64 python3-tabulate all 0.9.0-1 [45.9 kB]
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I: Building the package
I: Running cd /build/reproducible-path/virulencefinder-2.0.5/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../virulencefinder_2.0.5-2_source.changes
dpkg-buildpackage: info: source package virulencefinder
dpkg-buildpackage: info: source version 2.0.5-2
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Étienne Mollier <emollier@debian.org>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture arm64
debian/rules clean
dh clean --buildsystem=pybuild
dh_auto_clean -O--buildsystem=pybuild
I: pybuild base:311: rm -rf test/Hit_in_genome_seq.fsa test/Virulence_genes.fsa test/data.json test/tmp test/results_tab.tsv test/results.txt
dh_autoreconf_clean -O--buildsystem=pybuild
dh_clean -O--buildsystem=pybuild
debian/rules binary
dh binary --buildsystem=pybuild
dh_update_autotools_config -O--buildsystem=pybuild
dh_autoreconf -O--buildsystem=pybuild
dh_auto_configure -O--buildsystem=pybuild
W: pybuild base:341: missing command (plugin=custom, method=configure, interpreter=python3.13, version=3.13)
dh_auto_build -O--buildsystem=pybuild
W: pybuild base:341: missing command (plugin=custom, method=build, interpreter=python3.13, version=3.13)
debian/rules override_dh_auto_test
make[1]: Entering directory '/build/reproducible-path/virulencefinder-2.0.5'
./virulencefinder.py -i test/test.fsa -o test/ -p test/database/ -mp blastn -x -q ; \
file=test/results_tab.tsv ; \
DIFF=$(diff "$file" test/test_results.tsv) ; \
if [ "$DIFF" = "" ] && [ -s "$file" ] ; then \
echo "TEST SUCCEEDED" ; \
else \
echo "TEST FAILED"; \
fi
TEST SUCCEEDED
make[1]: Leaving directory '/build/reproducible-path/virulencefinder-2.0.5'
create-stamp debian/debhelper-build-stamp
dh_testroot -O--buildsystem=pybuild
dh_prep -O--buildsystem=pybuild
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W: pybuild base:341: missing command (plugin=custom, method=install, interpreter=python3.13, version=3.13)
dh_install -O--buildsystem=pybuild
dh_installdocs -O--buildsystem=pybuild
dh_installchangelogs -O--buildsystem=pybuild
debian/rules override_dh_installman
make[1]: Entering directory '/build/reproducible-path/virulencefinder-2.0.5'
dh_installman --language=C
make[1]: Leaving directory '/build/reproducible-path/virulencefinder-2.0.5'
dh_python3 -O--buildsystem=pybuild
I: dh_python3 tools:113: replacing shebang in debian/virulencefinder/usr/share/virulencefinder/virulencefinder.py
dh_installsystemduser -O--buildsystem=pybuild
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dh_builddeb -O--buildsystem=pybuild
dpkg-deb: building package 'virulencefinder-examples' in '../virulencefinder-examples_2.0.5-2_all.deb'.
dpkg-deb: building package 'virulencefinder' in '../virulencefinder_2.0.5-2_all.deb'.
dpkg-genbuildinfo --build=binary -O../virulencefinder_2.0.5-2_arm64.buildinfo
dpkg-genchanges --build=binary -O../virulencefinder_2.0.5-2_arm64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
I: unmounting dev/ptmx filesystem
I: unmounting dev/pts filesystem
I: unmounting dev/shm filesystem
I: unmounting proc filesystem
I: unmounting sys filesystem
I: cleaning the build env
I: removing directory /srv/workspace/pbuilder/3014937 and its subdirectories
I: Current time: Sun Mar 8 02:51:31 -12 2026
I: pbuilder-time-stamp: 1772981491
Mon Feb 3 08:28:33 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink04-arm64.debian.net.
Mon Feb 3 08:28:33 UTC 2025 I: Preparing to do remote build '2' on codethink04-arm64.debian.net.
Mon Feb 3 08:30:26 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net.
Mon Feb 3 08:30:26 UTC 2025 I: virulencefinder_2.0.5-2_arm64.changes:
Format: 1.8
Date: Wed, 22 May 2024 13:00:29 +0200
Source: virulencefinder
Binary: virulencefinder virulencefinder-examples
Architecture: all
Version: 2.0.5-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Étienne Mollier <emollier@debian.org>
Description:
virulencefinder - identify virulence genes in total or partial sequenced isolates o
virulencefinder-examples - example data for virulencefinder
Closes: 1066004
Changes:
virulencefinder (2.0.5-2) unstable; urgency=medium
.
* d/control: remove stray dependency on python3-distutils. (Closes: #1066004)
* d/control: declare compliance to standards version 4.7.0.
Checksums-Sha1:
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c8cd86b9051f955dcdb7814dceb2d55c3a209009 13472 virulencefinder_2.0.5-2_all.deb
028aa447e9ea0995d26ffc5477e23b8a38ac56bc 7787 virulencefinder_2.0.5-2_arm64.buildinfo
Checksums-Sha256:
75f1c38a9e92e9436d19e2fa752f23b118bbe5ea78a5fe4995fa77a4fcc8f4a1 372584 virulencefinder-examples_2.0.5-2_all.deb
1a19f507fabec8b19b3e6678938e78da3358805f0ed0c28b6f6d36e7f29fe75e 13472 virulencefinder_2.0.5-2_all.deb
ad7238abd918c0246d7bc4786f02d14404ed90f8ec9052c48a5af7d7d5758802 7787 virulencefinder_2.0.5-2_arm64.buildinfo
Files:
97c3cd0e0a1433fcb5ca2b446200cc75 372584 science optional virulencefinder-examples_2.0.5-2_all.deb
0b48bd4d070c0e41227e2f44b79da7bd 13472 science optional virulencefinder_2.0.5-2_all.deb
b81aa33f9d2cdc40d03fcf52a9e812e3 7787 science optional virulencefinder_2.0.5-2_arm64.buildinfo
Mon Feb 3 08:30:28 UTC 2025 I: diffoscope 287 will be used to compare the two builds:
Running as unit: rb-diffoscope-arm64_6-77718.service
# Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.4DIVD344/virulencefinder_2.0.5-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.4DIVD344/virulencefinder_2.0.5-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.4DIVD344/virulencefinder_2.0.5-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.4DIVD344/b1/virulencefinder_2.0.5-2_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.4DIVD344/b2/virulencefinder_2.0.5-2_arm64.changes
## command (total time: 0.000s)
0.000s 1 call cmp (internal)
## has_same_content_as (total time: 0.000s)
0.000s 1 call diffoscope.comparators.binary.FilesystemFile
## main (total time: 0.004s)
0.004s 2 calls outputs
0.000s 1 call cleanup
Finished with result: success
Main processes terminated with: code=exited/status=0
Service runtime: 257ms
CPU time consumed: 259ms
Mon Feb 3 08:30:28 UTC 2025 I: diffoscope 287 found no differences in the changes files, and a .buildinfo file also exists.
Mon Feb 3 08:30:28 UTC 2025 I: virulencefinder from unstable built successfully and reproducibly on arm64.
Mon Feb 3 08:30:30 UTC 2025 I: Submitting .buildinfo files to external archives:
Mon Feb 3 08:30:30 UTC 2025 I: Submitting 12K b1/virulencefinder_2.0.5-2_arm64.buildinfo.asc
Mon Feb 3 08:30:30 UTC 2025 I: Submitting 12K b2/virulencefinder_2.0.5-2_arm64.buildinfo.asc
Mon Feb 3 08:30:31 UTC 2025 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit.
Mon Feb 3 08:30:31 UTC 2025 I: Done submitting .buildinfo files.
Mon Feb 3 08:30:31 UTC 2025 I: Removing signed virulencefinder_2.0.5-2_arm64.buildinfo.asc files:
removed './b1/virulencefinder_2.0.5-2_arm64.buildinfo.asc'
removed './b2/virulencefinder_2.0.5-2_arm64.buildinfo.asc'