Fri May 31 02:04:42 UTC 2024 I: starting to build pinfish/unstable/amd64 on jenkins on '2024-05-31 02:04' Fri May 31 02:04:42 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_11/20983/console.log Fri May 31 02:04:42 UTC 2024 I: Downloading source for unstable/pinfish=0.1.0+ds-4 --2024-05-31 02:04:42-- http://deb.debian.org/debian/pool/main/p/pinfish/pinfish_0.1.0%2bds-4.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2529 (2.5K) [text/prs.lines.tag] Saving to: ‘pinfish_0.1.0+ds-4.dsc’ 0K .. 100% 270M=0s 2024-05-31 02:04:42 (270 MB/s) - ‘pinfish_0.1.0+ds-4.dsc’ saved [2529/2529] Fri May 31 02:04:42 UTC 2024 I: pinfish_0.1.0+ds-4.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: pinfish Binary: pinfish, pinfish-examples Architecture: any all Version: 0.1.0+ds-4 Maintainer: Debian Med Packaging Team Uploaders: Nilesh Patra Homepage: https://github.com/nanoporetech/pinfish Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/pinfish Vcs-Git: https://salsa.debian.org/med-team/pinfish.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), dh-golang, golang-any, golang-github-biogo-biogo-dev, golang-github-biogo-hts-dev, golang-github-google-uuid-dev, samtools Package-List: pinfish deb science optional arch=any pinfish-examples deb science optional arch=all Checksums-Sha1: 72cd9579ffc7d2edd6ad5429c3e934fbe3302746 68559048 pinfish_0.1.0+ds.orig-debian-tests-data.tar.xz f60646b7255e280e7c3c5487f29707c8de208970 5054956 pinfish_0.1.0+ds.orig.tar.xz bbecc63cd114aa32541947d5c24458adc07b30fb 6600 pinfish_0.1.0+ds-4.debian.tar.xz Checksums-Sha256: 40957e398ab9bebdc89fe69dbef1c816da544e69a6aeed9c04371430f61f53bb 68559048 pinfish_0.1.0+ds.orig-debian-tests-data.tar.xz c8213acc3f88d9e1294b9f9014a28b8fd410ebe0aab4793c7bb7263e7e465e4d 5054956 pinfish_0.1.0+ds.orig.tar.xz 244fe376c04deed5bbf98824576c5cfc7d2b819e1a7a595bf90207573681312d 6600 pinfish_0.1.0+ds-4.debian.tar.xz Files: f76133bed3fba383e81cc39b73cccdb1 68559048 pinfish_0.1.0+ds.orig-debian-tests-data.tar.xz 70d87d84ead55e6112f068425ba60c56 5054956 pinfish_0.1.0+ds.orig.tar.xz 001d865b95bc9df10f0a0b25e5bda457 6600 pinfish_0.1.0+ds-4.debian.tar.xz Go-Import-Path: github.com/nanoporetech/pinfish -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmWg8XkRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHtyQ//bm6KvCO0/OxjjN4EE1tiUEJRQgj4p8TL WAI4JLFdz35OP8eopj4ABpao7I9ZCguAIwqXSRVkBw9XvwyUeK230J/+OlX9C674 ViHVFEjxzH0y2rEiKn2T8P4A/esuU5GE8p8hP2okqVwc4+T/hbYEqV5N6KfEopYs nI+WC/3cqTWSKxe/0UnmpNUqUe2FCdRQrj05ZfR6nIvtUghlZNKWIh7Jouk5heKp I5hXk3Vlm0pL+LvqaMjyWfLB8DUGp1l7kunqGKp0fp0pEm4Rvl93Spzrfdi7FRJv OCYV4a0VtTiWH+b3Ic7487dDy0Ibp+4f+kviCTp/lc5DlSNoXFzWzkYBvFZT1j5y gN2X0wV3kN0WHTJ5FEtvhBLCRS0T1Mjzdr5gmg/nrKnbUdEpQmSAuv7Z5i+Tlfqn 60POIAp5MPbuorpxNWI1y6v1nR/8wdVIIMHZTHeedHv8hDaY2EY62G7Cw3t0sJH8 lh6xgC+WpclzvAyCUwxL3hB8XXlAMp6OJ/QCsy2c7ozdMR0IK7aB/L4XX6MMaQHh 4gO6SBzUC50PAUkwHx3/UioBf8yq6O3wgwfNB7z4uqBKLo4P1ZFl7rvKAXsoOwo5 2cjKfoT0S5YZqtZsJcfhiop5j4wFkQbsRCjfih9jbjT5nO+xRnXeoWq/kC+Pc/4O LxWkiVagcFc= =HpBN -----END PGP SIGNATURE----- Fri May 31 02:04:42 UTC 2024 I: Checking whether the package is not for us Fri May 31 02:04:42 UTC 2024 I: Starting 1st build on remote node ionos1-amd64.debian.net. Fri May 31 02:04:42 UTC 2024 I: Preparing to do remote build '1' on ionos1-amd64.debian.net. Fri May 31 02:09:38 UTC 2024 I: Deleting $TMPDIR on ionos1-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu May 30 14:04:50 -12 2024 I: pbuilder-time-stamp: 1717121090 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 [pinfish_0.1.0+ds-4.dsc] I: copying [./pinfish_0.1.0+ds.orig-debian-tests-data.tar.xz] I: copying [./pinfish_0.1.0+ds.orig.tar.xz] I: copying [./pinfish_0.1.0+ds-4.debian.tar.xz] I: Extracting source gpgv: Signature made Fri Jan 12 07:59:53 2024 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 ./pinfish_0.1.0+ds-4.dsc: no acceptable signature found dpkg-source: info: extracting pinfish in pinfish-0.1.0+ds dpkg-source: info: unpacking pinfish_0.1.0+ds.orig.tar.xz dpkg-source: info: unpacking pinfish_0.1.0+ds.orig-debian-tests-data.tar.xz dpkg-source: info: unpacking pinfish_0.1.0+ds-4.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying remove-gonum-stat-usage.patch dpkg-source: info: applying do-not-overflow-int.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3971505/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=20 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='50a7b5027476452c873513ae086c22f3' 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='3971505' 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.6JoLRuud/pbuilderrc_Usjv --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.6JoLRuud/b1 --logfile b1/build.log pinfish_0.1.0+ds-4.dsc' SUDO_GID='110' SUDO_UID='105' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://46.16.76.132:3128' I: uname -a Linux ionos1-amd64 6.1.0-21-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.90-1 (2024-05-03) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 May 27 07:42 /bin -> usr/bin I: user script /srv/workspace/pbuilder/3971505/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), dh-golang, golang-any, golang-github-biogo-biogo-dev, golang-github-biogo-hts-dev, golang-github-google-uuid-dev, samtools dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19716 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-golang; however: Package dh-golang is not installed. pbuilder-satisfydepends-dummy depends on golang-any; however: Package golang-any is not installed. pbuilder-satisfydepends-dummy depends on golang-github-biogo-biogo-dev; however: Package golang-github-biogo-biogo-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-biogo-hts-dev; however: Package golang-github-biogo-hts-dev is not installed. pbuilder-satisfydepends-dummy depends on golang-github-google-uuid-dev; however: Package golang-github-google-uuid-dev is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools 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-golang{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} golang-1.22-go{a} golang-1.22-src{a} golang-any{a} golang-github-biogo-biogo-dev{a} golang-github-biogo-hts-dev{a} golang-github-creack-pty-dev{a} golang-github-google-uuid-dev{a} golang-github-kr-pretty-dev{a} golang-github-kr-text-dev{a} golang-github-rogpeppe-go-internal-dev{a} golang-github-ulikunitz-xz-dev{a} golang-github-yuin-goldmark-dev{a} golang-go{a} golang-golang-x-crypto-dev{a} golang-golang-x-mod-dev{a} golang-golang-x-net-dev{a} golang-golang-x-sync-dev{a} golang-golang-x-sys-dev{a} golang-golang-x-term-dev{a} golang-golang-x-text-dev{a} golang-golang-x-tools-dev{a} golang-gopkg-check.v1-dev{a} golang-src{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbrotli1{a} libcom-err2{a} libcurl3t64-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgssapi-krb5-2{a} libhts3t64{a} libhtscodecs2{a} libicu72{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-2.5-0{a} libmagic-mgc{a} libmagic1t64{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libpsl5t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libssh2-1t64{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} samtools{a} sensible-utils{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 lynx pkg-config pkgconf publicsuffix wget 0 packages upgraded, 73 newly installed, 0 to remove and 0 not upgraded. Need to get 75.9 MB of archives. After unpacking 387 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main amd64 sensible-utils all 0.0.22 [22.4 kB] Get: 2 http://deb.debian.org/debian unstable/main amd64 libmagic-mgc amd64 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main amd64 libmagic1t64 amd64 1:5.45-3 [105 kB] Get: 4 http://deb.debian.org/debian unstable/main amd64 file amd64 1:5.45-3 [42.9 kB] Get: 5 http://deb.debian.org/debian unstable/main amd64 gettext-base amd64 0.21-14+b1 [161 kB] Get: 6 http://deb.debian.org/debian unstable/main amd64 libuchardet0 amd64 0.0.8-1+b1 [68.8 kB] Get: 7 http://deb.debian.org/debian unstable/main amd64 groff-base amd64 1.23.0-4 [1180 kB] Get: 8 http://deb.debian.org/debian unstable/main amd64 bsdextrautils amd64 2.40.1-4 [95.7 kB] Get: 9 http://deb.debian.org/debian unstable/main amd64 libpipeline1 amd64 1.5.7-2 [38.0 kB] Get: 10 http://deb.debian.org/debian unstable/main amd64 man-db amd64 2.12.1-1 [1411 kB] Get: 11 http://deb.debian.org/debian unstable/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 12 http://deb.debian.org/debian unstable/main amd64 autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian unstable/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main amd64 autopoint all 0.21-14 [496 kB] Get: 16 http://deb.debian.org/debian unstable/main amd64 libdebhelper-perl all 13.15.3 [88.0 kB] Get: 17 http://deb.debian.org/debian unstable/main amd64 libtool all 2.4.7-7 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main amd64 libelf1t64 amd64 0.191-1+b1 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 24 http://deb.debian.org/debian unstable/main amd64 libicu72 amd64 72.1-4+b1 [9395 kB] Get: 25 http://deb.debian.org/debian unstable/main amd64 libxml2 amd64 2.12.7+dfsg-2 [670 kB] Get: 26 http://deb.debian.org/debian unstable/main amd64 gettext amd64 0.21-14+b1 [1301 kB] Get: 27 http://deb.debian.org/debian unstable/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main amd64 debhelper all 13.15.3 [901 kB] Get: 30 http://deb.debian.org/debian unstable/main amd64 dh-golang all 1.62 [24.7 kB] Get: 31 http://deb.debian.org/debian unstable/main amd64 golang-1.22-src all 1.22.3-1 [18.8 MB] Get: 32 http://deb.debian.org/debian unstable/main amd64 golang-1.22-go amd64 1.22.3-1 [24.7 MB] Get: 33 http://deb.debian.org/debian unstable/main amd64 golang-src all 2:1.22~3 [5020 B] Get: 34 http://deb.debian.org/debian unstable/main amd64 golang-go amd64 2:1.22~3 [44.2 kB] Get: 35 http://deb.debian.org/debian unstable/main amd64 golang-any amd64 2:1.22~3 [5104 B] Get: 36 http://deb.debian.org/debian unstable/main amd64 golang-github-ulikunitz-xz-dev all 0.5.6-2 [352 kB] Get: 37 http://deb.debian.org/debian unstable/main amd64 golang-github-biogo-hts-dev all 1.4.4+dfsg1-1 [319 kB] Get: 38 http://deb.debian.org/debian unstable/main amd64 golang-github-creack-pty-dev all 1.1.21-1 [13.0 kB] Get: 39 http://deb.debian.org/debian unstable/main amd64 golang-github-kr-text-dev all 0.2.0-2 [10.2 kB] Get: 40 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-mod-dev all 0.17.0-1 [103 kB] Get: 41 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-sys-dev all 0.20.0-1 [430 kB] Get: 42 http://deb.debian.org/debian unstable/main amd64 golang-github-yuin-goldmark-dev all 1.7.1-1 [113 kB] Get: 43 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-term-dev all 0.20.0-1 [14.8 kB] Get: 44 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-text-dev all 0.15.0-1 [4006 kB] Get: 45 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-crypto-dev all 1:0.23.0-1 [1689 kB] Get: 46 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-net-dev all 1:0.25.0+dfsg-1 [895 kB] Get: 47 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-sync-dev all 0.7.0-1 [19.0 kB] Get: 48 http://deb.debian.org/debian unstable/main amd64 golang-golang-x-tools-dev all 1:0.20.0+ds-1 [1571 kB] Get: 49 http://deb.debian.org/debian unstable/main amd64 golang-github-rogpeppe-go-internal-dev all 1.12.0-3 [103 kB] Get: 50 http://deb.debian.org/debian unstable/main amd64 golang-github-kr-pretty-dev all 0.3.1-1 [11.9 kB] Get: 51 http://deb.debian.org/debian unstable/main amd64 golang-gopkg-check.v1-dev all 0.0+git20200902.038fdea-1 [32.1 kB] Get: 52 http://deb.debian.org/debian unstable/main amd64 golang-github-biogo-biogo-dev all 1.0.4-1 [189 kB] Get: 53 http://deb.debian.org/debian unstable/main amd64 golang-github-google-uuid-dev all 1.6.0-1 [20.6 kB] Get: 54 http://deb.debian.org/debian unstable/main amd64 libbrotli1 amd64 1.1.0-2+b3 [305 kB] Get: 55 http://deb.debian.org/debian unstable/main amd64 libcom-err2 amd64 1.47.1-1 [22.9 kB] Get: 56 http://deb.debian.org/debian unstable/main amd64 libkrb5support0 amd64 1.20.1-6+b1 [33.3 kB] Get: 57 http://deb.debian.org/debian unstable/main amd64 libk5crypto3 amd64 1.20.1-6+b1 [79.8 kB] Get: 58 http://deb.debian.org/debian unstable/main amd64 libkeyutils1 amd64 1.6.3-3 [8952 B] Get: 59 http://deb.debian.org/debian unstable/main amd64 libkrb5-3 amd64 1.20.1-6+b1 [333 kB] Get: 60 http://deb.debian.org/debian unstable/main amd64 libgssapi-krb5-2 amd64 1.20.1-6+b1 [135 kB] Get: 61 http://deb.debian.org/debian unstable/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-6 [19.5 kB] Get: 62 http://deb.debian.org/debian unstable/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-6 [56.9 kB] Get: 63 http://deb.debian.org/debian unstable/main amd64 libldap-2.5-0 amd64 2.5.17+dfsg-1 [186 kB] Get: 64 http://deb.debian.org/debian unstable/main amd64 libnghttp2-14 amd64 1.61.0-1+b1 [75.6 kB] Get: 65 http://deb.debian.org/debian unstable/main amd64 libpsl5t64 amd64 0.21.2-1.1 [56.8 kB] Get: 66 http://deb.debian.org/debian unstable/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b4 [58.5 kB] Get: 67 http://deb.debian.org/debian unstable/main amd64 libssh2-1t64 amd64 1.11.0-5 [215 kB] Get: 68 http://deb.debian.org/debian unstable/main amd64 libcurl3t64-gnutls amd64 8.8.0-1 [434 kB] Get: 69 http://deb.debian.org/debian unstable/main amd64 libdeflate0 amd64 1.20-1 [46.0 kB] Get: 70 http://deb.debian.org/debian unstable/main amd64 libhtscodecs2 amd64 1.6.0-1+b1 [93.0 kB] Get: 71 http://deb.debian.org/debian unstable/main amd64 libhts3t64 amd64 1.20+ds-1 [452 kB] Get: 72 http://deb.debian.org/debian unstable/main amd64 libncurses6 amd64 6.5-2 [104 kB] Get: 73 http://deb.debian.org/debian unstable/main amd64 samtools amd64 1.20-3 [653 kB] Fetched 75.9 MB in 2s (46.1 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (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 ... 19716 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.22_all.deb ... Unpacking sensible-utils (0.0.22) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_amd64.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-14+b1_amd64.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-4_amd64.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.1-4_amd64.deb ... Unpacking bsdextrautils (2.40.1-4) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.7-2_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.7-2) ... 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Setting up golang-github-biogo-biogo-dev (1.0.4-1) ... Setting up dh-golang (1.62) ... Processing triggers for libc-bin (2.38-11) ... 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/pinfish-0.1.0+ds/ && 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 > ../pinfish_0.1.0+ds-4_source.changes dpkg-buildpackage: info: source package pinfish dpkg-buildpackage: info: source version 0.1.0+ds-4 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 --builddirectory=_build --buildsystem=golang --with=golang debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/pinfish-0.1.0+ds' dh_auto_clean find . -name "*.bam" -delete make[1]: Leaving directory '/build/reproducible-path/pinfish-0.1.0+ds' dh_autoreconf_clean -O--builddirectory=_build -O--buildsystem=golang dh_clean -O--builddirectory=_build -O--buildsystem=golang debian/rules binary dh binary --builddirectory=_build --buildsystem=golang --with=golang dh_update_autotools_config -O--builddirectory=_build -O--buildsystem=golang dh_autoreconf -O--builddirectory=_build -O--buildsystem=golang dh_auto_configure -O--builddirectory=_build -O--buildsystem=golang dh_auto_build -O--builddirectory=_build -O--buildsystem=golang cd _build && go install -trimpath -v -p 20 github.com/nanoporetech/pinfish/cluster_gff github.com/nanoporetech/pinfish/collapse_partials github.com/nanoporetech/pinfish/polish_clusters github.com/nanoporetech/pinfish/spliced_bam2gff internal/coverage/rtcov internal/goarch internal/godebugs runtime/internal/syscall internal/cpu internal/race internal/unsafeheader crypto/internal/alias crypto/internal/boring/sig unicode/utf8 crypto/subtle cmp runtime/internal/atomic internal/goos sync/atomic encoding internal/nettrace internal/itoa math/bits unicode unicode/utf16 internal/goexperiment internal/abi internal/chacha8rand runtime/internal/math log/internal runtime/internal/sys slices internal/bytealg math runtime internal/reflectlite sync internal/testlog internal/bisect internal/singleflight runtime/cgo errors internal/godebug sort internal/safefilepath internal/oserror io math/rand vendor/golang.org/x/net/dns/dnsmessage path strconv internal/intern syscall container/heap bytes strings hash text/tabwriter crypto/internal/randutil hash/crc32 reflect net/netip crypto bufio github.com/biogo/biogo/feat github.com/biogo/biogo/feat/gene github.com/biogo/biogo/io/featio internal/syscall/unix internal/syscall/execenv time internal/fmtsort encoding/binary context internal/poll io/fs crypto/md5 crypto/cipher encoding/base64 os crypto/internal/boring crypto/sha1 io/ioutil fmt path/filepath net os/exec flag github.com/biogo/biogo/alphabet encoding/csv encoding/hex database/sql/driver log net/url encoding/json compress/flate math/big compress/gzip github.com/biogo/biogo/seq github.com/biogo/hts/bgzf runtime/pprof github.com/biogo/biogo/feat/genome github.com/biogo/biogo/io/seqio github.com/biogo/biogo/seq/linear github.com/biogo/biogo/io/seqio/fasta github.com/biogo/biogo/io/seqio/fastq github.com/biogo/biogo/io/featio/gff github.com/biogo/hts/bgzf/index github.com/biogo/hts/internal crypto/rand github.com/biogo/hts/sam github.com/biogo/hts/bam github.com/nanoporetech/pinfish/polish_clusters github.com/nanoporetech/pinfish/spliced_bam2gff github.com/google/uuid github.com/nanoporetech/pinfish/cluster_gff github.com/nanoporetech/pinfish/collapse_partials debian/rules override_dh_auto_test make[1]: Entering directory '/build/reproducible-path/pinfish-0.1.0+ds' dh_auto_test cd _build && go test -vet=off -v -p 20 github.com/nanoporetech/pinfish/cluster_gff github.com/nanoporetech/pinfish/collapse_partials github.com/nanoporetech/pinfish/polish_clusters github.com/nanoporetech/pinfish/spliced_bam2gff ? github.com/nanoporetech/pinfish/cluster_gff [no test files] ? github.com/nanoporetech/pinfish/collapse_partials [no test files] ? github.com/nanoporetech/pinfish/polish_clusters [no test files] ? github.com/nanoporetech/pinfish/spliced_bam2gff [no test files] cat debian-tests-data/sirv_e0_sorted.sam| samtools view -Sb - > polish_clusters/test_data/sirv_e0_sorted.bam cat debian-tests-data/sirv_errors_gmap.sam| samtools view -Sb - > spliced_bam2gff/test_data/sirv_errors_gmap.bam cat debian-tests-data/sirv_no_errors_gmap.sam| samtools view -Sb - > spliced_bam2gff/test_data/sirv_no_errors_gmap.bam cat debian-tests-data/sirv_simulated.sam| samtools view -Sb - > spliced_bam2gff/test_data/sirv_simulated.bam make[1]: Leaving directory '/build/reproducible-path/pinfish-0.1.0+ds' create-stamp debian/debhelper-build-stamp dh_testroot -O--builddirectory=_build -O--buildsystem=golang dh_prep -O--builddirectory=_build -O--buildsystem=golang debian/rules override_dh_auto_install make[1]: Entering directory '/build/reproducible-path/pinfish-0.1.0+ds' dh_auto_install -- --no-source cd _build && mkdir -p /build/reproducible-path/pinfish-0.1.0\+ds/debian/tmp/usr cd _build && cp -r bin /build/reproducible-path/pinfish-0.1.0\+ds/debian/tmp/usr make[1]: Leaving directory '/build/reproducible-path/pinfish-0.1.0+ds' dh_install -O--builddirectory=_build -O--buildsystem=golang dh_installdocs -O--builddirectory=_build -O--buildsystem=golang dh_installchangelogs -O--builddirectory=_build -O--buildsystem=golang dh_installman -O--builddirectory=_build -O--buildsystem=golang dh_installsystemduser -O--builddirectory=_build -O--buildsystem=golang dh_perl -O--builddirectory=_build -O--buildsystem=golang dh_link -O--builddirectory=_build -O--buildsystem=golang dh_strip_nondeterminism -O--builddirectory=_build -O--buildsystem=golang dh_compress -O--builddirectory=_build -O--buildsystem=golang dh_fixperms -O--builddirectory=_build -O--buildsystem=golang dh_missing -O--builddirectory=_build -O--buildsystem=golang dh_strip -a -O--builddirectory=_build -O--buildsystem=golang dh_strip: warning: Could not find the BuildID in debian/pinfish/usr/bin/polish_clusters dh_strip: warning: Could not find the BuildID in debian/pinfish/usr/bin/spliced_bam2gff dh_makeshlibs -a -O--builddirectory=_build -O--buildsystem=golang dh_shlibdeps -a -O--builddirectory=_build -O--buildsystem=golang dh_installdeb -O--builddirectory=_build -O--buildsystem=golang dh_golang -O--builddirectory=_build -O--buildsystem=golang dh_gencontrol -O--builddirectory=_build -O--buildsystem=golang dpkg-gencontrol: warning: Depends field of package pinfish-examples: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package pinfish: substitution variable ${misc:Static-Built-Using} unused, but is defined dpkg-gencontrol: warning: package pinfish: substitution variable ${misc:Static-Built-Using} unused, but is defined dh_md5sums -O--builddirectory=_build -O--buildsystem=golang dh_builddeb -O--builddirectory=_build -O--buildsystem=golang dpkg-deb: building package 'pinfish' in '../pinfish_0.1.0+ds-4_amd64.deb'. dpkg-deb: building package 'pinfish-dbgsym' in '../pinfish-dbgsym_0.1.0+ds-4_amd64.deb'. dpkg-deb: building package 'pinfish-examples' in '../pinfish-examples_0.1.0+ds-4_all.deb'. dpkg-genbuildinfo --build=binary -O../pinfish_0.1.0+ds-4_amd64.buildinfo dpkg-genchanges --build=binary -O../pinfish_0.1.0+ds-4_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/3971505 and its subdirectories I: Current time: Thu May 30 14:09:35 -12 2024 I: pbuilder-time-stamp: 1717121375 Fri May 31 02:09:40 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos15-amd64.debian.net. Fri May 31 02:09:40 UTC 2024 I: Preparing to do remote build '2' on ionos15-amd64.debian.net. Fri May 31 02:13:34 UTC 2024 I: Deleting $TMPDIR on ionos15-amd64.debian.net. Fri May 31 02:13:35 UTC 2024 I: pinfish_0.1.0+ds-4_amd64.changes: Format: 1.8 Date: Fri, 12 Jan 2024 07:23:48 +0100 Source: pinfish Binary: pinfish pinfish-dbgsym pinfish-examples Architecture: amd64 all Version: 0.1.0+ds-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: pinfish - Collection of tools to annotate genomes using long read transcrip pinfish-examples - Examples and test data for pinfish Closes: 1048260 Changes: pinfish (0.1.0+ds-4) unstable; urgency=medium . * Team upload. * Cleanup bam files from dh_auto_test Closes: #1048260 * Standards-Version: 4.6.2 (routine-update) * Remove trailing whitespace in debian/copyright (routine-update) * Remove trailing whitespace in debian/rules (routine-update) * No tab in license text (routine-update) Add missing ${misc:Built-Using} to Built-Using on pinfish. Apply multi-arch hints. . + pinfish-examples: Add Multi-Arch: foreign. Checksums-Sha1: deb3ef479d43e580d89c29d6848c2d196c16d02a 1606456 pinfish-dbgsym_0.1.0+ds-4_amd64.deb b3222551c292975b7ee83d9a513748b9b2cd838a 179449480 pinfish-examples_0.1.0+ds-4_all.deb 6dcf4ea9dd03babdac9f9ab4b7d8d84cb70d689b 7030 pinfish_0.1.0+ds-4_amd64.buildinfo 285f9c3946704fe8bd7656ff2e0e535fdb962360 1336156 pinfish_0.1.0+ds-4_amd64.deb Checksums-Sha256: 84d01f9238a73a3eaf8485d4f382cbd3966de4402aedca57910720a01d5093ee 1606456 pinfish-dbgsym_0.1.0+ds-4_amd64.deb f6250d75dabdc4071f1c06163c0a956e85def33f9ad154bd196cbb77d8f83177 179449480 pinfish-examples_0.1.0+ds-4_all.deb be3355cb916e75f81996e7460934d27daee8767bb1ded8434698c294828ffbd8 7030 pinfish_0.1.0+ds-4_amd64.buildinfo ed24833924dfc340c038a7343391339c28074c05bda04ddda2f3bf1f81abbd56 1336156 pinfish_0.1.0+ds-4_amd64.deb Files: 067cbab115a1a5f851138f8c291e86c4 1606456 debug optional pinfish-dbgsym_0.1.0+ds-4_amd64.deb 07064495c9668defd961a11653825115 179449480 science optional pinfish-examples_0.1.0+ds-4_all.deb f2bd9b532bbd4b0a2ea561e65c540711 7030 science optional pinfish_0.1.0+ds-4_amd64.buildinfo e5a21879074835c5b9d126ee61cc61ea 1336156 science optional pinfish_0.1.0+ds-4_amd64.deb Fri May 31 02:13:36 UTC 2024 I: diffoscope 268 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_11-20983.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.6JoLRuud/pinfish_0.1.0+ds-4.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.6JoLRuud/pinfish_0.1.0+ds-4.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.6JoLRuud/pinfish_0.1.0+ds-4.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.6JoLRuud/b1/pinfish_0.1.0+ds-4_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.6JoLRuud/b2/pinfish_0.1.0+ds-4_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: 2.325s) 2.325s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 1.929s) 1.929s 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: 2.681s CPU time consumed: 2.674s Fri May 31 02:13:39 UTC 2024 I: diffoscope 268 found no differences in the changes files, and a .buildinfo file also exists. Fri May 31 02:13:39 UTC 2024 I: pinfish from unstable built successfully and reproducibly on amd64. Fri May 31 02:13:40 UTC 2024 I: Submitting .buildinfo files to external archives: Fri May 31 02:13:40 UTC 2024 I: Submitting 8.0K b1/pinfish_0.1.0+ds-4_amd64.buildinfo.asc Fri May 31 02:13:41 UTC 2024 I: Submitting 8.0K b2/pinfish_0.1.0+ds-4_amd64.buildinfo.asc Fri May 31 02:13:42 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Fri May 31 02:13:42 UTC 2024 I: Done submitting .buildinfo files. Fri May 31 02:13:42 UTC 2024 I: Removing signed pinfish_0.1.0+ds-4_amd64.buildinfo.asc files: removed './b1/pinfish_0.1.0+ds-4_amd64.buildinfo.asc' removed './b2/pinfish_0.1.0+ds-4_amd64.buildinfo.asc'