Thu Dec 12 07:17:23 UTC 2024 I: starting to build shovill/trixie/amd64 on jenkins on '2024-12-12 07:17' Thu Dec 12 07:17:23 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_33/41412/console.log Thu Dec 12 07:17:23 UTC 2024 I: Downloading source for trixie/shovill=1.1.0-9 --2024-12-12 07:17:24-- http://deb.debian.org/debian/pool/main/s/shovill/shovill_1.1.0-9.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2065 (2.0K) [text/prs.lines.tag] Saving to: ‘shovill_1.1.0-9.dsc’ 0K .. 100% 296M=0s 2024-12-12 07:17:24 (296 MB/s) - ‘shovill_1.1.0-9.dsc’ saved [2065/2065] Thu Dec 12 07:17:24 UTC 2024 I: shovill_1.1.0-9.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: shovill Binary: shovill, shovill-examples Architecture: any all Version: 1.1.0-9 Maintainer: Debian Med Packaging Team Uploaders: Nilesh Patra Homepage: https://github.com/tseemann/shovill Standards-Version: 4.6.1 Vcs-Browser: https://salsa.debian.org/med-team/shovill Vcs-Git: https://salsa.debian.org/med-team/shovill.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13) Build-Depends-Arch: spades, skesa, megahit Package-List: shovill deb science optional arch=any shovill-examples deb science optional arch=all Checksums-Sha1: ff674f771dd46d766ee38d7d019b019160412d52 6252102 shovill_1.1.0.orig.tar.gz 010a7ff3692f58ee3d2b17a1261f3c2ed3cf949e 5768 shovill_1.1.0-9.debian.tar.xz Checksums-Sha256: b7323e6586238821202cf9644963e584e7397a5cee23e564d00b07fcb344ecd2 6252102 shovill_1.1.0.orig.tar.gz 4dcde0147b7ebabb22b827280fdbaad6a05bfaa3621012119280b28ccd8374c0 5768 shovill_1.1.0-9.debian.tar.xz Files: 1e988851741ece73311ff1fddb412172 6252102 shovill_1.1.0.orig.tar.gz f2ed89093cc36918d0b0c1eca690f42f 5768 shovill_1.1.0-9.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmOChCgRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtEXhQ/+JX/XXakT5MVdkY6x6esXCZp8wfhJVNy9 GXQuCru4pHdoZzEPEHEX23ELnHO+Q3z8D1pQ7MR5Y3Vw5gE4L58+jkA0P03TWv1Z oVJLHrX7X+XzxQ7I5ifwqnDUQVSQLqlwsmwOY0GoX+kUfKQgA624bzY9FMTztulD iv6Tv2I30M1fv7v0GxSZpEaf9Ipejrq8A+/jhpWNik4Cx+NcE+vJSbaH+/RWaJaZ /7EFqwdiI4+wtMOFf7RrUD2SeGmmV8DozLL+NZxAFoFO02FMHughBadXY4AVWTtV KmNupoPPCZ/uAUAIaGkjoEgS7VY1pOnD7sY8WxEOJDhwIK9K0E7QyrlF2ARAyHmZ wzACPQ9oHetbvDHwSkYDx8SNyAImKkQwv9WMwsYrdb6IjRM7+nwyeBllzMgWs/Dq JyimY5Jh6duTSGskuftmdCbZFerKGgMIoejpSC7T63Tol3gUbE1kbEzoMcoPwzDJ 3SD0X9T50sZrl1xMgbOh3gn5ZG7Khv47e38zuEf7iMUgWIl+gCceNTevex4daMWg xOieY3WNEDqXYmX6WbrVqjDCVmlohWvMhSSDsSURxr7vh2kwCCPxIb0DXW6NwC99 ZaPWqonkZIqi+qskmK/BtkplbwQv1gqzpdwpqP02QKXkzTolwOFkUE2fEf/JHcIq 6mfRYwFKLlE= =OzsJ -----END PGP SIGNATURE----- Thu Dec 12 07:17:24 UTC 2024 I: Checking whether the package is not for us Thu Dec 12 07:17:24 UTC 2024 I: Starting 1st build on remote node infom01-amd64.debian.net. Thu Dec 12 07:17:24 UTC 2024 I: Preparing to do remote build '1' on infom01-amd64.debian.net. Thu Dec 12 07:19:15 UTC 2024 I: Deleting $TMPDIR on infom01-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Wed Dec 11 19:17:25 -12 2024 I: pbuilder-time-stamp: 1733987845 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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 [shovill_1.1.0-9.dsc] I: copying [./shovill_1.1.0.orig.tar.gz] I: copying [./shovill_1.1.0-9.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Nov 26 21:24:56 2022 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./shovill_1.1.0-9.dsc: no acceptable signature found dpkg-source: info: extracting shovill in shovill-1.1.0 dpkg-source: info: unpacking shovill_1.1.0.orig.tar.gz dpkg-source: info: unpacking shovill_1.1.0-9.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying fix-shebang.patch dpkg-source: info: applying adapter_commandline_arg.patch dpkg-source: info: applying fix-executable-names.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/4009078/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='4d994d682703466ab5579e0bd63c2b92' 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='4009078' 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.fg790AZA/pbuilderrc_nLXa --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.fg790AZA/b1 --logfile b1/build.log shovill_1.1.0-9.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' I: uname -a Linux infom01-amd64 6.1.0-28-cloud-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.119-1 (2024-11-22) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/4009078/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: amd64 Maintainer: Debian Pbuilder Team 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), spades, skesa, megahit dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19965 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 spades; however: Package spades is not installed. pbuilder-satisfydepends-dummy depends on skesa; however: Package skesa is not installed. pbuilder-satisfydepends-dummy depends on megahit; however: Package megahit 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} bamtools{a} bsdextrautils{a} bwa{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbamtools2.5.2{a} libboost-program-options1.83.0{a} libboost-timer1.83.0{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libjsoncpp26{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libmbedcrypto16{a} libmbedtls21{a} libmbedx509-7{a} libncbi-vdb3{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngs-c++3{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libnlopt0{a} libnsl2{a} libpipeline1{a} libproc2-0{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libssw0{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libuchardet0{a} libxml2{a} libyaml-0-2{a} m4{a} man-db{a} media-types{a} megahit{a} ncbi-vdb-data{a} netbase{a} po-debconf{a} procps{a} python3{a} python3-all{a} python3-autocommand{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-joblib{a} python3-minimal{a} python3-more-itertools{a} python3-packaging{a} python3-pkg-resources{a} python3-typeguard{a} python3-typing-extensions{a} python3-yaml{a} python3.12{a} python3.12-minimal{a} readline-common{a} samtools{a} sensible-utils{a} skesa{a} spades{a} tzdata{a} The following packages are RECOMMENDED but will NOT be installed: ca-certificates curl krb5-locales libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules linux-sysctl-defaults lynx psmisc publicsuffix python3-numpy python3-psutil python3-pytest python3-simplejson wget 0 packages upgraded, 100 newly installed, 0 to remove and 0 not upgraded. Need to get 46.1 MB of archives. After unpacking 182 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libpython3.12-minimal amd64 3.12.8-1 [815 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 python3.12-minimal amd64 3.12.8-1 [2163 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.12.6-1 [26.7 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 media-types all 10.1.0 [26.9 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024b-4 [256 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2~rc1-2 [23.8 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 12 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 libpython3.12-stdlib amd64 3.12.8-1 [1970 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 python3.12 amd64 3.12.8-1 [677 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.12.6-1 [9692 B] Get: 22 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.12.6-1 [27.8 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get: 24 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-6 [1184 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.2-12 [92.0 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 34 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 libbamtools2.5.2 amd64 2.5.2+dfsg-6+b1 [161 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 bamtools amd64 2.5.2+dfsg-6+b1 [207 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 bwa amd64 0.7.18-1 [212 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-8 [517 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 50 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 52 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b1 [699 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.20 [915 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 libboost-program-options1.83.0 amd64 1.83.0-3.2+b2 [347 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 libboost-timer1.83.0 amd64 1.83.0-3.2+b2 [235 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b6 [302 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 63 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.6.0-2 [64.8 kB] Get: 66 http://deb.debian.org/debian trixie/main amd64 libngtcp2-16 amd64 1.9.1-1 [119 kB] Get: 67 http://deb.debian.org/debian trixie/main amd64 libngtcp2-crypto-gnutls8 amd64 1.9.1-1 [18.5 kB] Get: 68 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB] Get: 69 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB] Get: 70 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 libcurl3t64-gnutls amd64 8.11.0-1 [359 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 libhtscodecs2 amd64 1.6.1-1 [95.6 kB] Get: 74 http://deb.debian.org/debian trixie/main amd64 libhts3t64 amd64 1.20+ds-2 [455 kB] Get: 75 http://deb.debian.org/debian trixie/main amd64 libmbedcrypto16 amd64 3.6.2-3 [355 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 libmbedx509-7 amd64 3.6.2-3 [147 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 libmbedtls21 amd64 3.6.2-3 [234 kB] Get: 78 http://deb.debian.org/debian trixie/main amd64 ncbi-vdb-data all 3.0.9+dfsg-2 [74.0 kB] Get: 79 http://deb.debian.org/debian trixie/main amd64 libncbi-vdb3 amd64 3.0.9+dfsg-2 [1189 kB] Get: 80 http://deb.debian.org/debian trixie/main amd64 libncurses6 amd64 6.5-2+b1 [105 kB] Get: 81 http://deb.debian.org/debian trixie/main amd64 libngs-c++3 amd64 3.0.9+dfsg-7 [131 kB] Get: 82 http://deb.debian.org/debian trixie/main amd64 libnlopt0 amd64 2.7.1-6+b1 [178 kB] Get: 83 http://deb.debian.org/debian trixie/main amd64 libssw0 amd64 1.1-15+b1 [21.8 kB] Get: 84 http://deb.debian.org/debian trixie/main amd64 libyaml-0-2 amd64 0.2.5-1+b2 [52.7 kB] Get: 85 http://deb.debian.org/debian trixie/main amd64 python3-all amd64 3.12.6-1 [1040 B] Get: 86 http://deb.debian.org/debian trixie/main amd64 megahit amd64 1.2.9-5 [1163 kB] Get: 87 http://deb.debian.org/debian trixie/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB] Get: 88 http://deb.debian.org/debian trixie/main amd64 python3-more-itertools all 10.5.0-1 [63.8 kB] Get: 89 http://deb.debian.org/debian trixie/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB] Get: 90 http://deb.debian.org/debian trixie/main amd64 python3-typeguard all 4.4.1-1 [37.0 kB] Get: 91 http://deb.debian.org/debian trixie/main amd64 python3-inflect all 7.3.1-2 [32.4 kB] Get: 92 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.context all 6.0.0-1 [7984 B] Get: 93 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB] Get: 94 http://deb.debian.org/debian trixie/main amd64 python3-pkg-resources all 75.2.0-1 [213 kB] Get: 95 http://deb.debian.org/debian trixie/main amd64 python3-joblib all 1.3.2-5 [216 kB] Get: 96 http://deb.debian.org/debian trixie/main amd64 python3-packaging all 24.2-1 [55.3 kB] Get: 97 http://deb.debian.org/debian trixie/main amd64 python3-yaml amd64 6.0.2-1+b1 [178 kB] Get: 98 http://deb.debian.org/debian trixie/main amd64 samtools amd64 1.20-3 [653 kB] Get: 99 http://deb.debian.org/debian trixie/main amd64 skesa amd64 2.4.0-6+b2 [571 kB] Get: 100 http://deb.debian.org/debian trixie/main amd64 spades amd64 3.15.5+dfsg-7 [9020 kB] Fetched 46.1 MB in 2s (25.6 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libpython3.12-minimal:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19965 files and directories currently installed.) Preparing to unpack .../libpython3.12-minimal_3.12.8-1_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.8-1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../libexpat1_2.6.4-1_amd64.deb ... Unpacking libexpat1:amd64 (2.6.4-1) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../python3.12-minimal_3.12.8-1_amd64.deb ... Unpacking python3.12-minimal (3.12.8-1) ... Setting up libpython3.12-minimal:amd64 (3.12.8-1) ... Setting up libexpat1:amd64 (2.6.4-1) ... Setting up python3.12-minimal (3.12.8-1) ... Selecting previously unselected package python3-minimal. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20285 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_amd64.deb ... Unpacking python3-minimal (3.12.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-4_all.deb ... Unpacking tzdata (2024b-4) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../05-libcom-err2_1.47.2~rc1-2_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.2~rc1-2) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../14-libreadline8t64_8.2-5_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.8-1_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.8-1) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.8-1_amd64.deb ... Unpacking python3.12 (3.12.8-1) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.6-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.6-1) ... Setting up python3-minimal (3.12.6-1) ... Selecting previously unselected package python3. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 21348 files and directories currently installed.) Preparing to unpack .../00-python3_3.12.6-1_amd64.deb ... Unpacking python3 (3.12.6-1) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../01-libproc2-0_2%3a4.0.4-6_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../02-procps_2%3a4.0.4-6_amd64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../03-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../04-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../05-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../06-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../07-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../08-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../09-groff-base_1.23.0-6_amd64.deb ... Unpacking groff-base (1.23.0-6) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../10-bsdextrautils_2.40.2-12_amd64.deb ... Unpacking bsdextrautils (2.40.2-12) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../11-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../12-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../13-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../14-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../15-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../16-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../17-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libbamtools2.5.2:amd64. Preparing to unpack .../18-libbamtools2.5.2_2.5.2+dfsg-6+b1_amd64.deb ... Unpacking libbamtools2.5.2:amd64 (2.5.2+dfsg-6+b1) ... Selecting previously unselected package libjsoncpp26:amd64. Preparing to unpack .../19-libjsoncpp26_1.9.6-3_amd64.deb ... Unpacking libjsoncpp26:amd64 (1.9.6-3) ... Selecting previously unselected package bamtools. Preparing to unpack .../20-bamtools_2.5.2+dfsg-6+b1_amd64.deb ... Unpacking bamtools (2.5.2+dfsg-6+b1) ... Selecting previously unselected package bwa. Preparing to unpack .../21-bwa_0.7.18-1_amd64.deb ... Unpacking bwa (0.7.18-1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../22-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../23-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../24-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../25-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../26-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../27-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../28-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../29-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../30-libicu72_72.1-5+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-5+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../31-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../32-gettext_0.22.5-2_amd64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../33-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../34-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../35-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package libboost-program-options1.83.0:amd64. Preparing to unpack .../36-libboost-program-options1.83.0_1.83.0-3.2+b2_amd64.deb ... Unpacking libboost-program-options1.83.0:amd64 (1.83.0-3.2+b2) ... Selecting previously unselected package libboost-timer1.83.0:amd64. Preparing to unpack .../37-libboost-timer1.83.0_1.83.0-3.2+b2_amd64.deb ... Unpacking libboost-timer1.83.0:amd64 (1.83.0-3.2+b2) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../38-libbrotli1_1.1.0-2+b6_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b6) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../39-libsasl2-modules-db_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../40-libsasl2-2_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../41-libldap-2.5-0_2.5.18+dfsg-3+b1_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../42-libnghttp2-14_1.64.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.64.0-1) ... Selecting previously unselected package libnghttp3-9:amd64. Preparing to unpack .../43-libnghttp3-9_1.6.0-2_amd64.deb ... Unpacking libnghttp3-9:amd64 (1.6.0-2) ... Selecting previously unselected package libngtcp2-16:amd64. Preparing to unpack .../44-libngtcp2-16_1.9.1-1_amd64.deb ... Unpacking libngtcp2-16:amd64 (1.9.1-1) ... Selecting previously unselected package libngtcp2-crypto-gnutls8:amd64. Preparing to unpack .../45-libngtcp2-crypto-gnutls8_1.9.1-1_amd64.deb ... Unpacking libngtcp2-crypto-gnutls8:amd64 (1.9.1-1) ... Selecting previously unselected package libpsl5t64:amd64. Preparing to unpack .../46-libpsl5t64_0.21.2-1.1+b1_amd64.deb ... Unpacking libpsl5t64:amd64 (0.21.2-1.1+b1) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../47-librtmp1_2.4+20151223.gitfa8646d.1-2+b5_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Selecting previously unselected package libssh2-1t64:amd64. Preparing to unpack .../48-libssh2-1t64_1.11.1-1_amd64.deb ... Unpacking libssh2-1t64:amd64 (1.11.1-1) ... Selecting previously unselected package libcurl3t64-gnutls:amd64. Preparing to unpack .../49-libcurl3t64-gnutls_8.11.0-1_amd64.deb ... Unpacking libcurl3t64-gnutls:amd64 (8.11.0-1) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../50-libdeflate0_1.22-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.22-1) ... Selecting previously unselected package libhtscodecs2:amd64. Preparing to unpack .../51-libhtscodecs2_1.6.1-1_amd64.deb ... Unpacking libhtscodecs2:amd64 (1.6.1-1) ... Selecting previously unselected package libhts3t64:amd64. Preparing to unpack .../52-libhts3t64_1.20+ds-2_amd64.deb ... Unpacking libhts3t64:amd64 (1.20+ds-2) ... Selecting previously unselected package libmbedcrypto16:amd64. Preparing to unpack .../53-libmbedcrypto16_3.6.2-3_amd64.deb ... Unpacking libmbedcrypto16:amd64 (3.6.2-3) ... Selecting previously unselected package libmbedx509-7:amd64. Preparing to unpack .../54-libmbedx509-7_3.6.2-3_amd64.deb ... Unpacking libmbedx509-7:amd64 (3.6.2-3) ... Selecting previously unselected package libmbedtls21:amd64. Preparing to unpack .../55-libmbedtls21_3.6.2-3_amd64.deb ... Unpacking libmbedtls21:amd64 (3.6.2-3) ... Selecting previously unselected package ncbi-vdb-data. Preparing to unpack .../56-ncbi-vdb-data_3.0.9+dfsg-2_all.deb ... Unpacking ncbi-vdb-data (3.0.9+dfsg-2) ... Selecting previously unselected package libncbi-vdb3:amd64. Preparing to unpack .../57-libncbi-vdb3_3.0.9+dfsg-2_amd64.deb ... Unpacking libncbi-vdb3:amd64 (3.0.9+dfsg-2) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../58-libncurses6_6.5-2+b1_amd64.deb ... Unpacking libncurses6:amd64 (6.5-2+b1) ... Selecting previously unselected package libngs-c++3:amd64. Preparing to unpack .../59-libngs-c++3_3.0.9+dfsg-7_amd64.deb ... Unpacking libngs-c++3:amd64 (3.0.9+dfsg-7) ... Selecting previously unselected package libnlopt0:amd64. Preparing to unpack .../60-libnlopt0_2.7.1-6+b1_amd64.deb ... Unpacking libnlopt0:amd64 (2.7.1-6+b1) ... Selecting previously unselected package libssw0:amd64. Preparing to unpack .../61-libssw0_1.1-15+b1_amd64.deb ... Unpacking libssw0:amd64 (1.1-15+b1) ... Selecting previously unselected package libyaml-0-2:amd64. Preparing to unpack .../62-libyaml-0-2_0.2.5-1+b2_amd64.deb ... Unpacking libyaml-0-2:amd64 (0.2.5-1+b2) ... Selecting previously unselected package python3-all. Preparing to unpack .../63-python3-all_3.12.6-1_amd64.deb ... Unpacking python3-all (3.12.6-1) ... Selecting previously unselected package megahit. Preparing to unpack .../64-megahit_1.2.9-5_amd64.deb ... Unpacking megahit (1.2.9-5) ... Selecting previously unselected package python3-autocommand. Preparing to unpack .../65-python3-autocommand_2.2.2-3_all.deb ... Unpacking python3-autocommand (2.2.2-3) ... Selecting previously unselected package python3-more-itertools. Preparing to unpack .../66-python3-more-itertools_10.5.0-1_all.deb ... Unpacking python3-more-itertools (10.5.0-1) ... Selecting previously unselected package python3-typing-extensions. Preparing to unpack .../67-python3-typing-extensions_4.12.2-2_all.deb ... Unpacking python3-typing-extensions (4.12.2-2) ... Selecting previously unselected package python3-typeguard. Preparing to unpack .../68-python3-typeguard_4.4.1-1_all.deb ... Unpacking python3-typeguard (4.4.1-1) ... Selecting previously unselected package python3-inflect. Preparing to unpack .../69-python3-inflect_7.3.1-2_all.deb ... Unpacking python3-inflect (7.3.1-2) ... Selecting previously unselected package python3-jaraco.context. Preparing to unpack .../70-python3-jaraco.context_6.0.0-1_all.deb ... Unpacking python3-jaraco.context (6.0.0-1) ... Selecting previously unselected package python3-jaraco.functools. Preparing to unpack .../71-python3-jaraco.functools_4.1.0-1_all.deb ... Unpacking python3-jaraco.functools (4.1.0-1) ... Selecting previously unselected package python3-pkg-resources. Preparing to unpack .../72-python3-pkg-resources_75.2.0-1_all.deb ... Unpacking python3-pkg-resources (75.2.0-1) ... Selecting previously unselected package python3-joblib. Preparing to unpack .../73-python3-joblib_1.3.2-5_all.deb ... Unpacking python3-joblib (1.3.2-5) ... Selecting previously unselected package python3-packaging. Preparing to unpack .../74-python3-packaging_24.2-1_all.deb ... Unpacking python3-packaging (24.2-1) ... Selecting previously unselected package python3-yaml. Preparing to unpack .../75-python3-yaml_6.0.2-1+b1_amd64.deb ... Unpacking python3-yaml (6.0.2-1+b1) ... Selecting previously unselected package samtools. Preparing to unpack .../76-samtools_1.20-3_amd64.deb ... Unpacking samtools (1.20-3) ... Selecting previously unselected package skesa. Preparing to unpack .../77-skesa_2.4.0-6+b2_amd64.deb ... Unpacking skesa (2.4.0-6+b2) ... Selecting previously unselected package spades. Preparing to unpack .../78-spades_3.15.5+dfsg-7_amd64.deb ... Unpacking spades (3.15.5+dfsg-7) ... Setting up libhtscodecs2:amd64 (1.6.1-1) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up libboost-program-options1.83.0:amd64 (1.83.0-3.2+b2) ... Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up bsdextrautils (2.40.2-12) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libboost-timer1.83.0:amd64 (1.83.0-3.2+b2) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libyaml-0-2:amd64 (0.2.5-1+b2) ... Setting up bwa (0.7.18-1) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libdebhelper-perl (13.20) ... Setting up libbrotli1:amd64 (1.1.0-2+b6) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up libpsl5t64:amd64 (0.21.2-1.1+b1) ... Setting up libnghttp2-14:amd64 (1.64.0-1) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libnlopt0:amd64 (2.7.1-6+b1) ... Setting up libcom-err2:amd64 (1.47.2~rc1-2) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-4) ... Current default time zone: 'Etc/UTC' Local time is now: Thu Dec 12 07:18:48 UTC 2024. Universal Time is now: Thu Dec 12 07:18:48 UTC 2024. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up autotools-dev (20220109.1) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b5) ... Setting up libjsoncpp26:amd64 (1.9.6-3) ... Setting up libncurses6:amd64 (6.5-2+b1) ... Setting up libproc2-0:amd64 (2:4.0.4-6) ... Setting up autopoint (0.22.5-2) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libbamtools2.5.2:amd64 (2.5.2+dfsg-6+b1) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up autoconf (2.72-3) ... Setting up libnghttp3-9:amd64 (1.6.0-2) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libngs-c++3:amd64 (3.0.9+dfsg-7) ... Setting up bamtools (2.5.2+dfsg-6+b1) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up procps (2:4.0.4-6) ... Setting up ncbi-vdb-data (3.0.9+dfsg-2) ... Setting up netbase (6.4) ... Setting up libngtcp2-16:amd64 (1.9.1-1) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libmbedcrypto16:amd64 (3.6.2-3) ... Setting up libssh2-1t64:amd64 (1.11.1-1) ... Setting up libssw0:amd64 (1.1-15+b1) ... Setting up readline-common (8.2-5) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up libngtcp2-crypto-gnutls8:amd64 (1.9.1-1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up libmbedx509-7:amd64 (3.6.2-3) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libmbedtls21:amd64 (3.6.2-3) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-6) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libncbi-vdb3:amd64 (3.0.9+dfsg-2) ... Setting up libcurl3t64-gnutls:amd64 (8.11.0-1) ... Setting up skesa (2.4.0-6+b2) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up libnsl2:amd64 (1.3.0-3+b3) ... Setting up libhts3t64:amd64 (1.20+ds-2) ... Setting up libpython3.12-stdlib:amd64 (3.12.8-1) ... Setting up python3.12 (3.12.8-1) ... Setting up debhelper (13.20) ... Setting up samtools (1.20-3) ... Setting up libpython3-stdlib:amd64 (3.12.6-1) ... Setting up python3 (3.12.6-1) ... /usr/share/spades/spades_pipeline/support.py:531: SyntaxWarning: invalid escape sequence '\d' return [atoi(c) for c in re.split("(\d+)", text)] Setting up python3-autocommand (2.2.2-3) ... Setting up python3-packaging (24.2-1) ... Setting up python3-typing-extensions (4.12.2-2) ... Setting up python3-more-itertools (10.5.0-1) ... Setting up python3-jaraco.functools (4.1.0-1) ... Setting up python3-jaraco.context (6.0.0-1) ... Setting up python3-typeguard (4.4.1-1) ... Setting up python3-all (3.12.6-1) ... Setting up python3-yaml (6.0.2-1+b1) ... Setting up python3-inflect (7.3.1-2) ... Setting up megahit (1.2.9-5) ... Setting up python3-pkg-resources (75.2.0-1) ... Setting up python3-joblib (1.3.2-5) ... Setting up spades (3.15.5+dfsg-7) ... Processing triggers for libc-bin (2.40-4) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/shovill-1.1.0/ && 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 > ../shovill_1.1.0-9_source.changes dpkg-buildpackage: info: source package shovill dpkg-buildpackage: info: source version 1.1.0-9 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean dh_clean debian/rules binary dh binary dh_update_autotools_config dh_autoreconf create-stamp debian/debhelper-build-stamp dh_prep dh_install dh_installdocs dh_installchangelogs dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'shovill-examples' in '../shovill-examples_1.1.0-9_all.deb'. dpkg-deb: building package 'shovill' in '../shovill_1.1.0-9_amd64.deb'. dpkg-genbuildinfo --build=binary -O../shovill_1.1.0-9_amd64.buildinfo dpkg-genchanges --build=binary -O../shovill_1.1.0-9_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) 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/4009078 and its subdirectories I: Current time: Wed Dec 11 19:19:14 -12 2024 I: pbuilder-time-stamp: 1733987954 Thu Dec 12 07:19:16 UTC 2024 I: 1st build successful. Starting 2nd build on remote node infom02-amd64.debian.net. Thu Dec 12 07:19:16 UTC 2024 I: Preparing to do remote build '2' on infom02-amd64.debian.net. Thu Dec 12 07:20:11 UTC 2024 I: Deleting $TMPDIR on infom02-amd64.debian.net. Thu Dec 12 07:20:12 UTC 2024 I: shovill_1.1.0-9_amd64.changes: Format: 1.8 Date: Sat, 26 Nov 2022 22:22:22 +0100 Source: shovill Binary: shovill shovill-examples Architecture: all amd64 Version: 1.1.0-9 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: shovill - Assemble bacterial isolate genomes from Illumina paired-end reads shovill-examples - Test Data for shovill Changes: shovill (1.1.0-9) unstable; urgency=medium . * Team upload. * Fix watch file * Standards-Version: 4.6.1 (routine-update) Checksums-Sha1: a169b661add3a4c122b9c4b39d41b41c10cda4e2 6220876 shovill-examples_1.1.0-9_all.deb 4423a53f815094019e8126d7ffded686f30fae43 7476 shovill_1.1.0-9_amd64.buildinfo 04d098f952dfdcf3a4702b11da7a04f468bda2d8 13488 shovill_1.1.0-9_amd64.deb Checksums-Sha256: 7ad6cb9855b730dffac2966b4ecff40d885bd158733f0df72e40bef6a25e03ad 6220876 shovill-examples_1.1.0-9_all.deb 8fbe1d8da7af650ea0cd5f30447c7916fe2cb6bf0299d6b28e712146e91180e1 7476 shovill_1.1.0-9_amd64.buildinfo f648c19fe514a541e6ca6495f3d99269fa504888757f8a07f2a6536133fea77c 13488 shovill_1.1.0-9_amd64.deb Files: e89340be766f7fea447e9be4c6e06b79 6220876 science optional shovill-examples_1.1.0-9_all.deb bd319d8214d77b5c2ead0f90ea318eb9 7476 science optional shovill_1.1.0-9_amd64.buildinfo 17ed6cadd0b6dd8fc411afb3b24ee02c 13488 science optional shovill_1.1.0-9_amd64.deb Thu Dec 12 07:20:13 UTC 2024 I: diffoscope 284 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_33-41412.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.fg790AZA/shovill_1.1.0-9.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.fg790AZA/shovill_1.1.0-9.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.fg790AZA/shovill_1.1.0-9.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.fg790AZA/b1/shovill_1.1.0-9_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.fg790AZA/b2/shovill_1.1.0-9_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.429s) 0.429s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.092s) 0.092s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 744ms CPU time consumed: 743ms Thu Dec 12 07:20:14 UTC 2024 I: diffoscope 284 found no differences in the changes files, and a .buildinfo file also exists. Thu Dec 12 07:20:14 UTC 2024 I: shovill from trixie built successfully and reproducibly on amd64. Thu Dec 12 07:20:16 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Dec 12 07:20:16 UTC 2024 I: Submitting 12K b1/shovill_1.1.0-9_amd64.buildinfo.asc Thu Dec 12 07:20:17 UTC 2024 I: Submitting 12K b2/shovill_1.1.0-9_amd64.buildinfo.asc Thu Dec 12 07:20:18 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Dec 12 07:20:18 UTC 2024 I: Done submitting .buildinfo files. Thu Dec 12 07:20:18 UTC 2024 I: Removing signed shovill_1.1.0-9_amd64.buildinfo.asc files: removed './b1/shovill_1.1.0-9_amd64.buildinfo.asc' removed './b2/shovill_1.1.0-9_amd64.buildinfo.asc'