Sun Jan 7 08:32:34 UTC 2024 I: starting to build pinfish/bullseye/arm64 on jenkins on '2024-01-07 08:32'
Sun Jan 7 08:32:34 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_22/18529/console.log
Sun Jan 7 08:32:34 UTC 2024 I: Downloading source for bullseye/pinfish=0.1.0+ds-2
--2024-01-07 08:32:34-- http://cdn-fastly.deb.debian.org/debian/pool/main/p/pinfish/pinfish_0.1.0%2bds-2.dsc
Connecting to 78.137.99.97:3128... connected.
Proxy request sent, awaiting response... 200 OK
Length: 2535 (2.5K) [text/prs.lines.tag]
Saving to: ‘pinfish_0.1.0+ds-2.dsc’
0K .. 100% 233M=0s
2024-01-07 08:32:34 (233 MB/s) - ‘pinfish_0.1.0+ds-2.dsc’ saved [2535/2535]
Sun Jan 7 08:32:34 UTC 2024 I: pinfish_0.1.0+ds-2.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-2
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Nilesh Patra <npatra974@gmail.com>
Homepage: https://github.com/nanoporetech/pinfish
Standards-Version: 4.5.0
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
2b1e113c874686aee6af230f43b8a9bad3f9e41c 6484 pinfish_0.1.0+ds-2.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
2f51b7af7ce10ad7418aa3ae177caf69b67636427f1b5c689b5f480bb8268168 6484 pinfish_0.1.0+ds-2.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
bc12a46d1a912f1c74c3de8fd5671644 6484 pinfish_0.1.0+ds-2.debian.tar.xz
Go-Import-Path: github.com/nanoporetech/pinfish
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Sun Jan 7 08:32:34 UTC 2024 I: Checking whether the package is not for us
Sun Jan 7 08:32:34 UTC 2024 I: Starting 1st build on remote node codethink04-arm64.debian.net.
Sun Jan 7 08:32:34 UTC 2024 I: Preparing to do remote build '1' on codethink04-arm64.debian.net.
Sun Jan 7 08:34:14 UTC 2024 I: Deleting $TMPDIR on codethink04-arm64.debian.net.
I: pbuilder: network access will be disabled during build
I: Current time: Sat Jan 6 20:32:38 -12 2024
I: pbuilder-time-stamp: 1704616358
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/bullseye-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-2.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-2.debian.tar.xz]
I: Extracting source
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig._ccuiZHg/trustedkeys.kbx': General error
gpgv: Signature made Tue Nov 10 09:27:35 2020
gpgv: using RSA key 3E99A526F5DCC0CBBF1CEEA600BAE74B343369F1
gpgv: issuer "npatra974@gmail.com"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./pinfish_0.1.0+ds-2.dsc
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-2.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying remove-gonum-stat-usage.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/3323672/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,-fixfilepath parallel=12 '
DISTRIBUTION='bullseye'
HOME='/root'
HOST_ARCH='arm64'
IFS='
'
INVOCATION_ID='a428492f8b6d4e3089e84563ea1fcaea'
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='3323672'
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.eCYrd1m5/pbuilderrc_lQfe --distribution bullseye --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.eCYrd1m5/b1 --logfile b1/build.log pinfish_0.1.0+ds-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://192.168.101.104:3128'
I: uname -a
Linux codethink04-arm64 6.1.0-17-cloud-arm64 #1 SMP Debian 6.1.69-1 (2023-12-30) aarch64 GNU/Linux
I: ls -l /bin
total 5252
-rwxr-xr-x 1 root root 1282512 Mar 27 2022 bash
-rwxr-xr-x 3 root root 34808 Jul 20 2020 bunzip2
-rwxr-xr-x 3 root root 34808 Jul 20 2020 bzcat
lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff
-rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff
lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep
-rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe
lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep
-rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep
-rwxr-xr-x 3 root root 34808 Jul 20 2020 bzip2
-rwxr-xr-x 1 root root 14264 Jul 20 2020 bzip2recover
lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore
-rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore
-rwxr-xr-x 1 root root 39832 Sep 22 2020 cat
-rwxr-xr-x 1 root root 64512 Sep 22 2020 chgrp
-rwxr-xr-x 1 root root 60368 Sep 22 2020 chmod
-rwxr-xr-x 1 root root 64528 Sep 22 2020 chown
-rwxr-xr-x 1 root root 138896 Sep 22 2020 cp
-rwxr-xr-x 1 root root 129544 Dec 10 2020 dash
-rwxr-xr-x 1 root root 101384 Sep 22 2020 date
-rwxr-xr-x 1 root root 80984 Sep 22 2020 dd
-rwxr-xr-x 1 root root 89824 Sep 22 2020 df
-rwxr-xr-x 1 root root 143088 Sep 22 2020 dir
-rwxr-xr-x 1 root root 76152 Jan 20 2022 dmesg
lrwxrwxrwx 1 root root 8 Nov 7 2019 dnsdomainname -> hostname
lrwxrwxrwx 1 root root 8 Nov 7 2019 domainname -> hostname
-rwxr-xr-x 1 root root 35632 Sep 22 2020 echo
-rwxr-xr-x 1 root root 28 Jan 25 2023 egrep
-rwxr-xr-x 1 root root 31512 Sep 22 2020 false
-rwxr-xr-x 1 root root 28 Jan 25 2023 fgrep
-rwxr-xr-x 1 root root 64856 Jan 20 2022 findmnt
-rwsr-xr-x 1 root root 34824 Feb 26 2021 fusermount
-rwxr-xr-x 1 root root 182496 Jan 25 2023 grep
-rwxr-xr-x 2 root root 2346 Apr 10 2022 gunzip
-rwxr-xr-x 1 root root 6447 Apr 10 2022 gzexe
-rwxr-xr-x 1 root root 93744 Apr 10 2022 gzip
-rwxr-xr-x 1 root root 18440 Nov 7 2019 hostname
-rwxr-xr-x 1 root root 68720 Sep 22 2020 ln
-rwxr-xr-x 1 root root 52720 Feb 7 2020 login
-rwxr-xr-x 1 root root 143088 Sep 22 2020 ls
-rwxr-xr-x 1 root root 157864 Jan 20 2022 lsblk
-rwxr-xr-x 1 root root 85200 Sep 22 2020 mkdir
-rwxr-xr-x 1 root root 68744 Sep 22 2020 mknod
-rwxr-xr-x 1 root root 43976 Sep 22 2020 mktemp
-rwxr-xr-x 1 root root 51368 Jan 20 2022 more
-rwsr-xr-x 1 root root 51360 Jan 20 2022 mount
-rwxr-xr-x 1 root root 14496 Jan 20 2022 mountpoint
-rwxr-xr-x 1 root root 134808 Sep 22 2020 mv
lrwxrwxrwx 1 root root 8 Nov 7 2019 nisdomainname -> hostname
lrwxrwxrwx 1 root root 14 Dec 16 2021 pidof -> /sbin/killall5
-rwxr-xr-x 1 root root 35720 Sep 22 2020 pwd
lrwxrwxrwx 1 root root 4 Mar 27 2022 rbash -> bash
-rwxr-xr-x 1 root root 43872 Sep 22 2020 readlink
-rwxr-xr-x 1 root root 68592 Sep 22 2020 rm
-rwxr-xr-x 1 root root 43880 Sep 22 2020 rmdir
-rwxr-xr-x 1 root root 19208 Sep 27 2020 run-parts
-rwxr-xr-x 1 root root 114016 Dec 22 2018 sed
lrwxrwxrwx 1 root root 4 Dec 7 09:23 sh -> dash
-rwxr-xr-x 1 root root 35656 Sep 22 2020 sleep
-rwxr-xr-x 1 root root 72640 Sep 22 2020 stty
-rwsr-xr-x 1 root root 67776 Jan 20 2022 su
-rwxr-xr-x 1 root root 35672 Sep 22 2020 sync
-rwxr-xr-x 1 root root 535768 Feb 17 2021 tar
-rwxr-xr-x 1 root root 10568 Sep 27 2020 tempfile
-rwxr-xr-x 1 root root 89120 Sep 22 2020 touch
-rwxr-xr-x 1 root root 31512 Sep 22 2020 true
-rwxr-xr-x 1 root root 14264 Feb 26 2021 ulockmgr_server
-rwsr-xr-x 1 root root 30880 Jan 20 2022 umount
-rwxr-xr-x 1 root root 35640 Sep 22 2020 uname
-rwxr-xr-x 2 root root 2346 Apr 10 2022 uncompress
-rwxr-xr-x 1 root root 143088 Sep 22 2020 vdir
-rwxr-xr-x 1 root root 59584 Jan 20 2022 wdctl
lrwxrwxrwx 1 root root 8 Nov 7 2019 ypdomainname -> hostname
-rwxr-xr-x 1 root root 1984 Apr 10 2022 zcat
-rwxr-xr-x 1 root root 1678 Apr 10 2022 zcmp
-rwxr-xr-x 1 root root 5898 Apr 10 2022 zdiff
-rwxr-xr-x 1 root root 29 Apr 10 2022 zegrep
-rwxr-xr-x 1 root root 29 Apr 10 2022 zfgrep
-rwxr-xr-x 1 root root 2081 Apr 10 2022 zforce
-rwxr-xr-x 1 root root 8049 Apr 10 2022 zgrep
-rwxr-xr-x 1 root root 2206 Apr 10 2022 zless
-rwxr-xr-x 1 root root 1842 Apr 10 2022 zmore
-rwxr-xr-x 1 root root 4577 Apr 10 2022 znew
I: user script /srv/workspace/pbuilder/3323672/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-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 ... 17734 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-1.15-go{a} golang-1.15-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-ulikunitz-xz-dev{a} golang-go{a} golang-gopkg-check.v1-dev{a} golang-src{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libbrotli1{a} libcurl3-gnutls{a} libdebhelper-perl{a} libdeflate0{a} libelf1{a} libfile-stripnondeterminism-perl{a} libhts3{a} libicu67{a} libldap-2.4-2{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libpsl5{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libssh2-1{a} libsub-override-perl{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 libarchive-cpio-perl libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx pkg-config pkgconf publicsuffix wget
0 packages upgraded, 58 newly installed, 0 to remove and 0 not upgraded.
Need to get 78.1 MB of archives. After unpacking 433 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian bullseye/main arm64 bsdextrautils arm64 2.36.1-8+deb11u1 [142 kB]
Get: 2 http://deb.debian.org/debian bullseye/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB]
Get: 3 http://deb.debian.org/debian bullseye/main arm64 groff-base arm64 1.22.4-6 [883 kB]
Get: 4 http://deb.debian.org/debian bullseye/main arm64 libpipeline1 arm64 1.5.3-1 [33.0 kB]
Get: 5 http://deb.debian.org/debian bullseye/main arm64 man-db arm64 2.9.4-2 [1336 kB]
Get: 6 http://deb.debian.org/debian bullseye/main arm64 sensible-utils all 0.0.14 [14.8 kB]
Get: 7 http://deb.debian.org/debian bullseye/main arm64 libmagic-mgc arm64 1:5.39-3+deb11u1 [273 kB]
Get: 8 http://deb.debian.org/debian bullseye/main arm64 libmagic1 arm64 1:5.39-3+deb11u1 [123 kB]
Get: 9 http://deb.debian.org/debian bullseye/main arm64 file arm64 1:5.39-3+deb11u1 [69.2 kB]
Get: 10 http://deb.debian.org/debian bullseye/main arm64 gettext-base arm64 0.21-4 [173 kB]
Get: 11 http://deb.debian.org/debian bullseye/main arm64 libsigsegv2 arm64 2.13-1 [34.7 kB]
Get: 12 http://deb.debian.org/debian bullseye/main arm64 m4 arm64 1.4.18-5 [199 kB]
Get: 13 http://deb.debian.org/debian bullseye/main arm64 autoconf all 2.69-14 [313 kB]
Get: 14 http://deb.debian.org/debian bullseye/main arm64 autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get: 15 http://deb.debian.org/debian bullseye/main arm64 automake all 1:1.16.3-2 [814 kB]
Get: 16 http://deb.debian.org/debian bullseye/main arm64 autopoint all 0.21-4 [510 kB]
Get: 17 http://deb.debian.org/debian bullseye/main arm64 libdebhelper-perl all 13.3.4 [189 kB]
Get: 18 http://deb.debian.org/debian bullseye/main arm64 libtool all 2.4.6-15 [513 kB]
Get: 19 http://deb.debian.org/debian bullseye/main arm64 dh-autoreconf all 20 [17.1 kB]
Get: 20 http://deb.debian.org/debian bullseye/main arm64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 21 http://deb.debian.org/debian bullseye/main arm64 libsub-override-perl all 0.09-2 [10.2 kB]
Get: 22 http://deb.debian.org/debian bullseye/main arm64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB]
Get: 23 http://deb.debian.org/debian bullseye/main arm64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB]
Get: 24 http://deb.debian.org/debian bullseye/main arm64 libelf1 arm64 0.183-1 [164 kB]
Get: 25 http://deb.debian.org/debian bullseye/main arm64 dwz arm64 0.13+20210201-1 [155 kB]
Get: 26 http://deb.debian.org/debian bullseye/main arm64 libicu67 arm64 67.1-7 [8467 kB]
Get: 27 http://deb.debian.org/debian bullseye/main arm64 libxml2 arm64 2.9.10+dfsg-6.7+deb11u4 [629 kB]
Get: 28 http://deb.debian.org/debian bullseye/main arm64 gettext arm64 0.21-4 [1261 kB]
Get: 29 http://deb.debian.org/debian bullseye/main arm64 intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get: 30 http://deb.debian.org/debian bullseye/main arm64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 31 http://deb.debian.org/debian bullseye/main arm64 debhelper all 13.3.4 [1049 kB]
Get: 32 http://deb.debian.org/debian bullseye/main arm64 dh-golang all 1.51 [24.6 kB]
Get: 33 http://deb.debian.org/debian bullseye/main arm64 golang-1.15-src arm64 1.15.15-1~deb11u4 [13.9 MB]
Get: 34 http://deb.debian.org/debian bullseye/main arm64 golang-1.15-go arm64 1.15.15-1~deb11u4 [43.0 MB]
Get: 35 http://deb.debian.org/debian bullseye/main arm64 golang-src arm64 2:1.15~1 [4856 B]
Get: 36 http://deb.debian.org/debian bullseye/main arm64 golang-go arm64 2:1.15~1 [23.9 kB]
Get: 37 http://deb.debian.org/debian bullseye/main arm64 golang-any arm64 2:1.15~1 [4976 B]
Get: 38 http://deb.debian.org/debian bullseye/main arm64 golang-github-ulikunitz-xz-dev all 0.5.6-2 [352 kB]
Get: 39 http://deb.debian.org/debian bullseye/main arm64 golang-github-biogo-hts-dev all 1.1.0+dfsg1-2 [292 kB]
Get: 40 http://deb.debian.org/debian bullseye/main arm64 golang-github-creack-pty-dev all 1.1.11-1 [8380 B]
Get: 41 http://deb.debian.org/debian bullseye/main arm64 golang-github-kr-text-dev all 0.2.0-1 [11.1 kB]
Get: 42 http://deb.debian.org/debian bullseye/main arm64 golang-github-kr-pretty-dev all 0.2.1+git20200831.59b4212-1 [14.6 kB]
Get: 43 http://deb.debian.org/debian bullseye/main arm64 golang-gopkg-check.v1-dev all 0.0+git20200902.038fdea-1 [32.1 kB]
Get: 44 http://deb.debian.org/debian bullseye/main arm64 golang-github-biogo-biogo-dev all 1.0.3-1 [190 kB]
Get: 45 http://deb.debian.org/debian bullseye/main arm64 golang-github-google-uuid-dev all 1.2.0-1 [15.0 kB]
Get: 46 http://deb.debian.org/debian bullseye/main arm64 libbrotli1 arm64 1.0.9-2+b2 [267 kB]
Get: 47 http://deb.debian.org/debian bullseye/main arm64 libsasl2-modules-db arm64 2.1.27+dfsg-2.1+deb11u1 [69.4 kB]
Get: 48 http://deb.debian.org/debian bullseye/main arm64 libsasl2-2 arm64 2.1.27+dfsg-2.1+deb11u1 [105 kB]
Get: 49 http://deb.debian.org/debian bullseye/main arm64 libldap-2.4-2 arm64 2.4.57+dfsg-3+deb11u1 [222 kB]
Get: 50 http://deb.debian.org/debian bullseye/main arm64 libnghttp2-14 arm64 1.43.0-1 [73.8 kB]
Get: 51 http://deb.debian.org/debian bullseye/main arm64 libpsl5 arm64 0.21.0-1.2 [57.1 kB]
Get: 52 http://deb.debian.org/debian bullseye/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-2+b2 [59.4 kB]
Get: 53 http://deb.debian.org/debian bullseye/main arm64 libssh2-1 arm64 1.9.0-2 [150 kB]
Get: 54 http://deb.debian.org/debian bullseye/main arm64 libcurl3-gnutls arm64 7.74.0-1.3+deb11u9 [323 kB]
Get: 55 http://deb.debian.org/debian bullseye/main arm64 libdeflate0 arm64 1.7-1 [47.7 kB]
Get: 56 http://deb.debian.org/debian bullseye/main arm64 libhts3 arm64 1.11-4 [346 kB]
Get: 57 http://deb.debian.org/debian bullseye/main arm64 libncurses6 arm64 6.2+20201114-2+deb11u2 [93.1 kB]
Get: 58 http://deb.debian.org/debian bullseye/main arm64 samtools arm64 1.11-1 [526 kB]
Fetched 78.1 MB in 0s (161 MB/s)
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-> 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-2_source.changes
dpkg-buildpackage: info: source package pinfish
dpkg-buildpackage: info: source version 0.1.0+ds-2
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Nilesh Patra <npatra974@gmail.com>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture arm64
debian/rules clean
dh clean --builddirectory=_build --buildsystem=golang --with=golang
dh_auto_clean -O--builddirectory=_build -O--buildsystem=golang
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 12 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/race
runtime/internal/sys
internal/unsafeheader
internal/cpu
math/bits
unicode/utf8
sync/atomic
unicode
crypto/subtle
runtime/internal/atomic
internal/nettrace
crypto/internal/subtle
runtime/internal/math
internal/bytealg
math
runtime/cgo
internal/testlog
runtime
internal/reflectlite
sync
internal/singleflight
math/rand
errors
sort
io
internal/oserror
vendor/golang.org/x/net/dns/dnsmessage
strconv
syscall
container/heap
hash
bytes
strings
text/tabwriter
hash/crc32
reflect
crypto
github.com/biogo/biogo/feat
bufio
github.com/biogo/biogo/feat/gene
github.com/biogo/biogo/io/featio
internal/syscall/unix
time
internal/syscall/execenv
context
internal/poll
internal/fmtsort
encoding/binary
os
crypto/md5
crypto/sha1
crypto/cipher
fmt
path/filepath
net
crypto/aes
io/ioutil
os/exec
flag
github.com/biogo/biogo/alphabet
log
database/sql/driver
encoding/csv
encoding/hex
net/url
compress/flate
math/big
github.com/biogo/biogo/seq
compress/gzip
github.com/biogo/biogo/feat/genome
github.com/biogo/biogo/seq/linear
github.com/biogo/biogo/io/seqio
github.com/biogo/hts/bgzf
runtime/pprof
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/spliced_bam2gff
github.com/nanoporetech/pinfish/polish_clusters
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 12 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_dwz -a -O--builddirectory=_build -O--buildsystem=golang
dwz: debian/pinfish/usr/bin/cluster_gff: .debug_info section not present
dwz: debian/pinfish/usr/bin/collapse_partials: .debug_info section not present
dwz: debian/pinfish/usr/bin/polish_clusters: .debug_info section not present
dwz: debian/pinfish/usr/bin/spliced_bam2gff: .debug_info section not present
dwz: Too few files for multifile optimization
dh_dwz: warning: No dwz multifile created, but not explicitly requested either so ignoring it.
dh_dwz: warning: Common issues include no debug information at all (missing -g) and
dh_dwz: warning: compressed debug information (#931891).
dh_strip -a -O--builddirectory=_build -O--buildsystem=golang
dh_strip: warning: Could not find the BuildID in debian/pinfish/usr/bin/collapse_partials
dh_strip: warning: Could not find the BuildID in debian/pinfish/usr/bin/cluster_gff
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: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-2_arm64.deb'.
dpkg-deb: building package 'pinfish-examples' in '../pinfish-examples_0.1.0+ds-2_all.deb'.
dpkg-genbuildinfo --build=binary
dpkg-genchanges --build=binary >../pinfish_0.1.0+ds-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/3323672 and its subdirectories
I: Current time: Sat Jan 6 20:34:10 -12 2024
I: pbuilder-time-stamp: 1704616450
Sun Jan 7 08:34:15 UTC 2024 I: 1st build successful. Starting 2nd build on remote node codethink02-arm64.debian.net.
Sun Jan 7 08:34:15 UTC 2024 I: Preparing to do remote build '2' on codethink02-arm64.debian.net.
Sun Jan 7 08:35:57 UTC 2024 I: Deleting $TMPDIR on codethink02-arm64.debian.net.
Sun Jan 7 08:35:58 UTC 2024 I: pinfish_0.1.0+ds-2_arm64.changes:
Format: 1.8
Date: Tue, 10 Nov 2020 14:51:27 +0530
Source: pinfish
Binary: pinfish pinfish-examples
Architecture: all arm64
Version: 0.1.0+ds-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Nilesh Patra <npatra974@gmail.com>
Description:
pinfish - Collection of tools to annotate genomes using long read transcrip
pinfish-examples - Examples and test data for pinfish
Changes:
pinfish (0.1.0+ds-2) unstable; urgency=medium
.
* Limit testing to amd64 and arm64 for now
* Source-only-upload for testing migration
Checksums-Sha1:
9e5fbcf3a0f3cd42b8b85a7d4793f4c9315b6c12 179336464 pinfish-examples_0.1.0+ds-2_all.deb
990340442c3e7ae209974e16e6e1ecca588190e5 6447 pinfish_0.1.0+ds-2_arm64.buildinfo
3e49a3b313662e9fe2dd55d847532f377b35dbbd 1204632 pinfish_0.1.0+ds-2_arm64.deb
Checksums-Sha256:
c6bbd9b3a491682b89c372bb633aec5e9dbcdb32c71d6601bbc858bc88dd39da 179336464 pinfish-examples_0.1.0+ds-2_all.deb
9eac073fc051eb888f6b33a94a027ce48f0e07e1c4132e79d84d422ec1ee3b6d 6447 pinfish_0.1.0+ds-2_arm64.buildinfo
974a5a12a197a2d049280149d8c004b4f1cceb0fc25ebf5253ae8dc6de2ff569 1204632 pinfish_0.1.0+ds-2_arm64.deb
Files:
51b8c589a8459f38ac078f7b30ad2415 179336464 science optional pinfish-examples_0.1.0+ds-2_all.deb
8ff55edaeef1ced96ff77526bdb12366 6447 science optional pinfish_0.1.0+ds-2_arm64.buildinfo
93a39d97debeb7c694e341e0e5b22e2f 1204632 science optional pinfish_0.1.0+ds-2_arm64.deb
Sun Jan 7 08:35:59 UTC 2024 I: diffoscope 240 will be used to compare the two builds:
# Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.eCYrd1m5/pinfish_0.1.0+ds-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.eCYrd1m5/pinfish_0.1.0+ds-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.eCYrd1m5/pinfish_0.1.0+ds-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.eCYrd1m5/b1/pinfish_0.1.0+ds-2_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.eCYrd1m5/b2/pinfish_0.1.0+ds-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 abc.DotChangesFile
## main (total time: 2.507s)
2.507s 2 calls outputs
0.000s 1 call cleanup
## recognizes (total time: 2.133s)
2.133s 12 calls diffoscope.comparators.binary.FilesystemFile
0.000s 10 calls abc.DotChangesFile
## specialize (total time: 0.000s)
0.000s 1 call specialize
Sun Jan 7 08:36:02 UTC 2024 I: diffoscope 240 found no differences in the changes files, and a .buildinfo file also exists.
Sun Jan 7 08:36:02 UTC 2024 I: pinfish from bullseye built successfully and reproducibly on arm64.
Sun Jan 7 08:36:03 UTC 2024 I: Submitting .buildinfo files to external archives:
Sun Jan 7 08:36:03 UTC 2024 I: Submitting 8.0K b1/pinfish_0.1.0+ds-2_arm64.buildinfo.asc
Sun Jan 7 08:36:05 UTC 2024 I: Submitting 8.0K b2/pinfish_0.1.0+ds-2_arm64.buildinfo.asc
Sun Jan 7 08:36:06 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit.
Sun Jan 7 08:36:06 UTC 2024 I: Done submitting .buildinfo files.
Sun Jan 7 08:36:06 UTC 2024 I: Removing signed pinfish_0.1.0+ds-2_arm64.buildinfo.asc files:
removed './b1/pinfish_0.1.0+ds-2_arm64.buildinfo.asc'
removed './b2/pinfish_0.1.0+ds-2_arm64.buildinfo.asc'