Thu Apr 13 20:07:51 UTC 2023 I: starting to build dnaclust/bookworm/arm64 on jenkins on '2023-04-13 20:07'
Thu Apr 13 20:07:51 UTC 2023 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_15/14864/console.log
Thu Apr 13 20:07:51 UTC 2023 I: Downloading source for bookworm/dnaclust=3-7
--2023-04-13 20:07:52-- http://cdn-fastly.deb.debian.org/debian/pool/main/d/dnaclust/dnaclust_3-7.dsc
Connecting to 78.137.99.97:3128... connected.
Proxy request sent, awaiting response... 200 OK
Length: 1977 (1.9K) [text/prs.lines.tag]
Saving to: ‘dnaclust_3-7.dsc’
0K . 100% 160M=0s
2023-04-13 20:07:52 (160 MB/s) - ‘dnaclust_3-7.dsc’ saved [1977/1977]
Thu Apr 13 20:07:52 UTC 2023 I: dnaclust_3-7.dsc
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 3.0 (quilt)
Source: dnaclust
Binary: dnaclust
Architecture: any
Version: 3-7
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Homepage: http://dnaclust.sourceforge.net/
Standards-Version: 4.4.0
Vcs-Browser: https://salsa.debian.org/med-team/dnaclust
Vcs-Git: https://salsa.debian.org/med-team/dnaclust.git
Testsuite: autopkgtest
Build-Depends: debhelper-compat (= 12), libboost-dev, libboost-program-options-dev, rename
Package-List:
dnaclust deb science optional arch=any
Checksums-Sha1:
6d61297157dd954b35122b15d43cc78b5d1a749e 23485 dnaclust_3.orig.tar.gz
883ed45d787563dce965d96f20ac0b110d82de59 36972 dnaclust_3-7.debian.tar.xz
Checksums-Sha256:
f7fccc3b0507229a03f227af7e104bf218e9976c453c3a8ef9c4a3c2db83fc74 23485 dnaclust_3.orig.tar.gz
e18171ee25c15cad70174292b01fdef7763f239c1026e728a848c2653e641c6f 36972 dnaclust_3-7.debian.tar.xz
Files:
68e8c69bc10c75b94aea684222f847a9 23485 dnaclust_3.orig.tar.gz
65d934be94276ff7bd5c3fb8a038691e 36972 dnaclust_3-7.debian.tar.xz
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Thu Apr 13 20:07:52 UTC 2023 I: Checking whether the package is not for us
Thu Apr 13 20:07:52 UTC 2023 I: Starting 1st build on remote node codethink12-arm64.debian.net.
Thu Apr 13 20:07:52 UTC 2023 I: Preparing to do remote build '1' on codethink12-arm64.debian.net.
Thu Apr 13 20:09:54 UTC 2023 I: Deleting $TMPDIR on codethink12-arm64.debian.net.
I: pbuilder: network access will be disabled during build
I: Current time: Thu Apr 13 08:07:56 -12 2023
I: pbuilder-time-stamp: 1681416476
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/bookworm-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 [dnaclust_3-7.dsc]
I: copying [./dnaclust_3.orig.tar.gz]
I: copying [./dnaclust_3-7.debian.tar.xz]
I: Extracting source
gpgv: Signature made Thu Aug 8 21:22:11 2019 -12
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tillea@rki.de"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./dnaclust_3-7.dsc: no acceptable signature found
dpkg-source: info: extracting dnaclust in dnaclust-3
dpkg-source: info: unpacking dnaclust_3.orig.tar.gz
dpkg-source: info: unpacking dnaclust_3-7.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying fix_shel_path.patch
dpkg-source: info: applying do_not_staically_linking.patch
dpkg-source: info: applying resolve_name_space_conflict_fastasort.patch
dpkg-source: info: applying build_with_gcc6.patch
I: using fakeroot in build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/15898/tmp/hooks/D02_print_environment starting
I: set
BUILDDIR='/build'
BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
BUILDUSERNAME='pbuilder1'
BUILD_ARCH='arm64'
DEBIAN_FRONTEND='noninteractive'
DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=8'
DISTRIBUTION='bookworm'
HOME='/var/lib/jenkins'
HOST_ARCH='arm64'
IFS='
'
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='15898'
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.OvmOUDcI/pbuilderrc_4GoS --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.OvmOUDcI/b1 --logfile b1/build.log dnaclust_3-7.dsc'
SUDO_GID='117'
SUDO_UID='110'
SUDO_USER='jenkins'
TERM='unknown'
TZ='/usr/share/zoneinfo/Etc/GMT+12'
USER='root'
USERNAME='root'
_='/usr/bin/systemd-run'
http_proxy='http://192.168.101.16:3128'
I: uname -a
Linux codethink12-arm64 4.15.0-208-generic #220-Ubuntu SMP Mon Mar 20 14:28:12 UTC 2023 aarch64 GNU/Linux
I: ls -l /bin
lrwxrwxrwx 1 root root 7 Apr 11 22:25 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/15898/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 (= 12), libboost-dev, libboost-program-options-dev, rename
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19616 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 (= 12); however:
Package debhelper-compat is not installed.
pbuilder-satisfydepends-dummy depends on libboost-dev; however:
Package libboost-dev is not installed.
pbuilder-satisfydepends-dummy depends on libboost-program-options-dev; however:
Package libboost-program-options-dev is not installed.
pbuilder-satisfydepends-dummy depends on rename; however:
Package rename 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-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libboost-dev{a} libboost-program-options-dev{a} libboost-program-options1.74-dev{a} libboost-program-options1.74.0{a} libboost1.74-dev{a} libdebhelper-perl{a} libelf1{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} rename{a} sensible-utils{a}
The following packages are RECOMMENDED but will NOT be installed:
curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget
0 packages upgraded, 36 newly installed, 0 to remove and 0 not upgraded.
Need to get 28.5 MB of archives. After unpacking 222 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian bookworm/main arm64 sensible-utils all 0.0.17+nmu1 [19.0 kB]
Get: 2 http://deb.debian.org/debian bookworm/main arm64 libmagic-mgc arm64 1:5.44-3 [305 kB]
Get: 3 http://deb.debian.org/debian bookworm/main arm64 libmagic1 arm64 1:5.44-3 [98.5 kB]
Get: 4 http://deb.debian.org/debian bookworm/main arm64 file arm64 1:5.44-3 [42.5 kB]
Get: 5 http://deb.debian.org/debian bookworm/main arm64 gettext-base arm64 0.21-12 [159 kB]
Get: 6 http://deb.debian.org/debian bookworm/main arm64 libuchardet0 arm64 0.0.7-1 [67.9 kB]
Get: 7 http://deb.debian.org/debian bookworm/main arm64 groff-base arm64 1.22.4-10 [861 kB]
Get: 8 http://deb.debian.org/debian bookworm/main arm64 bsdextrautils arm64 2.38.1-5+b1 [86.9 kB]
Get: 9 http://deb.debian.org/debian bookworm/main arm64 libpipeline1 arm64 1.5.7-1 [36.4 kB]
Get: 10 http://deb.debian.org/debian bookworm/main arm64 man-db arm64 2.11.2-2 [1369 kB]
Get: 11 http://deb.debian.org/debian bookworm/main arm64 m4 arm64 1.4.19-3 [276 kB]
Get: 12 http://deb.debian.org/debian bookworm/main arm64 autoconf all 2.71-3 [332 kB]
Get: 13 http://deb.debian.org/debian bookworm/main arm64 autotools-dev all 20220109.1 [51.6 kB]
Get: 14 http://deb.debian.org/debian bookworm/main arm64 automake all 1:1.16.5-1.3 [823 kB]
Get: 15 http://deb.debian.org/debian bookworm/main arm64 autopoint all 0.21-12 [495 kB]
Get: 16 http://deb.debian.org/debian bookworm/main arm64 libdebhelper-perl all 13.11.4 [81.2 kB]
Get: 17 http://deb.debian.org/debian bookworm/main arm64 libtool all 2.4.7-5 [517 kB]
Get: 18 http://deb.debian.org/debian bookworm/main arm64 dh-autoreconf all 20 [17.1 kB]
Get: 19 http://deb.debian.org/debian bookworm/main arm64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 20 http://deb.debian.org/debian bookworm/main arm64 libsub-override-perl all 0.09-4 [9304 B]
Get: 21 http://deb.debian.org/debian bookworm/main arm64 libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB]
Get: 22 http://deb.debian.org/debian bookworm/main arm64 dh-strip-nondeterminism all 1.13.1-1 [8620 B]
Get: 23 http://deb.debian.org/debian bookworm/main arm64 libelf1 arm64 0.188-2.1 [173 kB]
Get: 24 http://deb.debian.org/debian bookworm/main arm64 dwz arm64 0.15-1 [101 kB]
Get: 25 http://deb.debian.org/debian bookworm/main arm64 libicu72 arm64 72.1-3 [9204 kB]
Get: 26 http://deb.debian.org/debian bookworm/main arm64 libxml2 arm64 2.9.14+dfsg-1.1+b3 [619 kB]
Get: 27 http://deb.debian.org/debian bookworm/main arm64 gettext arm64 0.21-12 [1248 kB]
Get: 28 http://deb.debian.org/debian bookworm/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 29 http://deb.debian.org/debian bookworm/main arm64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 30 http://deb.debian.org/debian bookworm/main arm64 debhelper all 13.11.4 [942 kB]
Get: 31 http://deb.debian.org/debian bookworm/main arm64 libboost1.74-dev arm64 1.74.0+ds1-20 [9510 kB]
Get: 32 http://deb.debian.org/debian bookworm/main arm64 libboost-dev arm64 1.74.0.3 [4548 B]
Get: 33 http://deb.debian.org/debian bookworm/main arm64 libboost-program-options1.74.0 arm64 1.74.0+ds1-20 [317 kB]
Get: 34 http://deb.debian.org/debian bookworm/main arm64 libboost-program-options1.74-dev arm64 1.74.0+ds1-20 [354 kB]
Get: 35 http://deb.debian.org/debian bookworm/main arm64 libboost-program-options-dev arm64 1.74.0.3 [4340 B]
Get: 36 http://deb.debian.org/debian bookworm/main arm64 rename all 2.01-1 [21.0 kB]
Fetched 28.5 MB in 1s (42.8 MB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package sensible-utils.
(Reading database ...
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(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 19616 files and directories currently installed.)
Preparing to unpack .../00-sensible-utils_0.0.17+nmu1_all.deb ...
Unpacking sensible-utils (0.0.17+nmu1) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../01-libmagic-mgc_1%3a5.44-3_arm64.deb ...
Unpacking libmagic-mgc (1:5.44-3) ...
Selecting previously unselected package libmagic1:arm64.
Preparing to unpack .../02-libmagic1_1%3a5.44-3_arm64.deb ...
Unpacking libmagic1:arm64 (1:5.44-3) ...
Selecting previously unselected package file.
Preparing to unpack .../03-file_1%3a5.44-3_arm64.deb ...
Unpacking file (1:5.44-3) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../04-gettext-base_0.21-12_arm64.deb ...
Unpacking gettext-base (0.21-12) ...
Selecting previously unselected package libuchardet0:arm64.
Preparing to unpack .../05-libuchardet0_0.0.7-1_arm64.deb ...
Unpacking libuchardet0:arm64 (0.0.7-1) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../06-groff-base_1.22.4-10_arm64.deb ...
Unpacking groff-base (1.22.4-10) ...
Selecting previously unselected package bsdextrautils.
Preparing to unpack .../07-bsdextrautils_2.38.1-5+b1_arm64.deb ...
Unpacking bsdextrautils (2.38.1-5+b1) ...
Selecting previously unselected package libpipeline1:arm64.
Preparing to unpack .../08-libpipeline1_1.5.7-1_arm64.deb ...
Unpacking libpipeline1:arm64 (1.5.7-1) ...
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Preparing to unpack .../09-man-db_2.11.2-2_arm64.deb ...
Unpacking man-db (2.11.2-2) ...
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Preparing to unpack .../10-m4_1.4.19-3_arm64.deb ...
Unpacking m4 (1.4.19-3) ...
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Preparing to unpack .../11-autoconf_2.71-3_all.deb ...
Unpacking autoconf (2.71-3) ...
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Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ...
Unpacking autotools-dev (20220109.1) ...
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Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ...
Unpacking automake (1:1.16.5-1.3) ...
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Preparing to unpack .../14-autopoint_0.21-12_all.deb ...
Unpacking autopoint (0.21-12) ...
Selecting previously unselected package libdebhelper-perl.
Preparing to unpack .../15-libdebhelper-perl_13.11.4_all.deb ...
Unpacking libdebhelper-perl (13.11.4) ...
Selecting previously unselected package libtool.
Preparing to unpack .../16-libtool_2.4.7-5_all.deb ...
Unpacking libtool (2.4.7-5) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../17-dh-autoreconf_20_all.deb ...
Unpacking dh-autoreconf (20) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ...
Unpacking libarchive-zip-perl (1.68-1) ...
Selecting previously unselected package libsub-override-perl.
Preparing to unpack .../19-libsub-override-perl_0.09-4_all.deb ...
Unpacking libsub-override-perl (0.09-4) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../20-libfile-stripnondeterminism-perl_1.13.1-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.13.1-1) ...
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Unpacking dh-strip-nondeterminism (1.13.1-1) ...
Selecting previously unselected package libelf1:arm64.
Preparing to unpack .../22-libelf1_0.188-2.1_arm64.deb ...
Unpacking libelf1:arm64 (0.188-2.1) ...
Selecting previously unselected package dwz.
Preparing to unpack .../23-dwz_0.15-1_arm64.deb ...
Unpacking dwz (0.15-1) ...
Selecting previously unselected package libicu72:arm64.
Preparing to unpack .../24-libicu72_72.1-3_arm64.deb ...
Unpacking libicu72:arm64 (72.1-3) ...
Selecting previously unselected package libxml2:arm64.
Preparing to unpack .../25-libxml2_2.9.14+dfsg-1.1+b3_arm64.deb ...
Unpacking libxml2:arm64 (2.9.14+dfsg-1.1+b3) ...
Selecting previously unselected package gettext.
Preparing to unpack .../26-gettext_0.21-12_arm64.deb ...
Unpacking gettext (0.21-12) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../27-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 .../28-po-debconf_1.0.21+nmu1_all.deb ...
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Unpacking debhelper (13.11.4) ...
Selecting previously unselected package libboost1.74-dev:arm64.
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Unpacking libboost-dev:arm64 (1.74.0.3) ...
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Unpacking libboost-program-options1.74.0:arm64 (1.74.0+ds1-20) ...
Selecting previously unselected package libboost-program-options1.74-dev:arm64.
Preparing to unpack .../33-libboost-program-options1.74-dev_1.74.0+ds1-20_arm64.deb ...
Unpacking libboost-program-options1.74-dev:arm64 (1.74.0+ds1-20) ...
Selecting previously unselected package libboost-program-options-dev:arm64.
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Unpacking libboost-program-options-dev:arm64 (1.74.0.3) ...
Selecting previously unselected package rename.
Preparing to unpack .../35-rename_2.01-1_all.deb ...
Unpacking rename (2.01-1) ...
Setting up libpipeline1:arm64 (1.5.7-1) ...
Setting up libboost1.74-dev:arm64 (1.74.0+ds1-20) ...
Setting up libicu72:arm64 (72.1-3) ...
Setting up bsdextrautils (2.38.1-5+b1) ...
Setting up libmagic-mgc (1:5.44-3) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libboost-program-options1.74.0:arm64 (1.74.0+ds1-20) ...
Setting up libdebhelper-perl (13.11.4) ...
Setting up libmagic1:arm64 (1:5.44-3) ...
Setting up gettext-base (0.21-12) ...
Setting up m4 (1.4.19-3) ...
Setting up rename (2.01-1) ...
update-alternatives: using /usr/bin/file-rename to provide /usr/bin/rename (rename) in auto mode
Setting up file (1:5.44-3) ...
Setting up libboost-program-options1.74-dev:arm64 (1.74.0+ds1-20) ...
Setting up autotools-dev (20220109.1) ...
Setting up libboost-program-options-dev:arm64 (1.74.0.3) ...
Setting up autopoint (0.21-12) ...
Setting up autoconf (2.71-3) ...
Setting up sensible-utils (0.0.17+nmu1) ...
Setting up libuchardet0:arm64 (0.0.7-1) ...
Setting up libsub-override-perl (0.09-4) ...
Setting up libboost-dev:arm64 (1.74.0.3) ...
Setting up libelf1:arm64 (0.188-2.1) ...
Setting up libxml2:arm64 (2.9.14+dfsg-1.1+b3) ...
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 (1.13.1-1) ...
Setting up gettext (0.21-12) ...
Setting up libtool (2.4.7-5) ...
Setting up intltool-debian (0.35.0+20060710.6) ...
Setting up dh-autoreconf (20) ...
Setting up dh-strip-nondeterminism (1.13.1-1) ...
Setting up dwz (0.15-1) ...
Setting up groff-base (1.22.4-10) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up man-db (2.11.2-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up debhelper (13.11.4) ...
Processing triggers for libc-bin (2.36-8) ...
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
Reading package lists...
Building dependency tree...
Reading state information...
fakeroot is already the newest version (1.31-1.2).
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
I: Building the package
I: Running cd /build/dnaclust-3/ && 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 > ../dnaclust_3-7_source.changes
dpkg-buildpackage: info: source package dnaclust
dpkg-buildpackage: info: source version 3-7
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Saira Hussain <saira.h0213@zoho.com>
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture arm64
fakeroot debian/rules clean
dh clean
dh_auto_clean
make -j8 clean
make[1]: Entering directory '/build/dnaclust-3'
rm -f dnaclust.o dnaclust fasta.o fastaselect.o fastaselect fastasort fastasort.o
make[1]: Leaving directory '/build/dnaclust-3'
dh_clean
debian/rules build
dh build
dh_update_autotools_config
dh_autoreconf
dh_auto_configure
dh_auto_build
make -j8 "INSTALL=install --strip-program=true"
make[1]: Entering directory '/build/dnaclust-3'
g++ -c -g -O2 -ffile-prefix-map=/build/dnaclust-3=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c++98 -O2 dnaclust.cpp
g++ -c -g -O2 -ffile-prefix-map=/build/dnaclust-3=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c++98 -O2 fasta.cpp
g++ -c -g -O2 -ffile-prefix-map=/build/dnaclust-3=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c++98 -O2 fastaselect.cpp
g++ -c -g -O2 -ffile-prefix-map=/build/dnaclust-3=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c++98 -O2 fastasort.cpp -o fastasort.o
dnaclust.cpp: In function 'void makeCluster()':
dnaclust.cpp:1337:12: warning: variable 'num_threads_to_use' set but not used [-Wunused-but-set-variable]
1337 | size_t num_threads_to_use = num_threads;
| ^~~~~~~~~~~~~~~~~~
dnaclust.cpp:1443:11: warning: variable 'num_threads_to_use' set but not used [-Wunused-but-set-variable]
1443 | int num_threads_to_use = num_threads;
| ^~~~~~~~~~~~~~~~~~
dnaclust.cpp: In function 'int main(int, char**)':
dnaclust.cpp:1945:11: warning: variable 'num_threads_to_use' set but not used [-Wunused-but-set-variable]
1945 | int num_threads_to_use = num_threads;
| ^~~~~~~~~~~~~~~~~~
dnaclust.cpp:2135:14: warning: variable 'num_threads_to_use' set but not used [-Wunused-but-set-variable]
2135 | size_t num_threads_to_use = num_threads;
| ^~~~~~~~~~~~~~~~~~
g++ -g -O2 -ffile-prefix-map=/build/dnaclust-3=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c++98 -O2 -Wl,-z,relro -Wl,-z,now fastasort.o fasta.o -lboost_program_options -o fastasort
g++ -g -O2 -ffile-prefix-map=/build/dnaclust-3=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c++98 -O2 -Wl,-z,relro -Wl,-z,now fastaselect.o fasta.o -lboost_program_options -o fastaselect
g++ -g -O2 -ffile-prefix-map=/build/dnaclust-3=. -fstack-protector-strong -Wformat -Werror=format-security -Wall -pedantic -std=c++98 -O2 -Wl,-z,relro -Wl,-z,now dnaclust.o fasta.o -lboost_program_options -o dnaclust -lpthread
make[1]: Leaving directory '/build/dnaclust-3'
dh_auto_test
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary
dh binary
dh_testroot
dh_prep
dh_auto_install --destdir=debian/dnaclust/
debian/rules override_dh_install
make[1]: Entering directory '/build/dnaclust-3'
dh_install
prename 's/\.sh//' /build/dnaclust-3/debian/dnaclust/usr/bin/*
make[1]: Leaving directory '/build/dnaclust-3'
dh_installdocs
dh_installchangelogs
dh_installman
dh_perl
dh_link
dh_strip_nondeterminism
dh_compress
dh_fixperms
dh_missing
dh_dwz
dh_strip
dh_makeshlibs
dh_shlibdeps
dh_installdeb
dh_gencontrol
dh_md5sums
dh_builddeb
dpkg-deb: building package 'dnaclust-dbgsym' in '../dnaclust-dbgsym_3-7_arm64.deb'.
dpkg-deb: building package 'dnaclust' in '../dnaclust_3-7_arm64.deb'.
dpkg-genbuildinfo --build=binary -O../dnaclust_3-7_arm64.buildinfo
dpkg-genchanges --build=binary -O../dnaclust_3-7_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/15898 and its subdirectories
I: Current time: Thu Apr 13 08:09:53 -12 2023
I: pbuilder-time-stamp: 1681416593
Thu Apr 13 20:09:55 UTC 2023 I: 1st build successful. Starting 2nd build on remote node codethink13-arm64.debian.net.
Thu Apr 13 20:09:55 UTC 2023 I: Preparing to do remote build '2' on codethink13-arm64.debian.net.
Thu Apr 13 20:11:41 UTC 2023 I: Deleting $TMPDIR on codethink13-arm64.debian.net.
Thu Apr 13 20:11:42 UTC 2023 I: dnaclust_3-7_arm64.changes:
Format: 1.8
Date: Thu, 08 Aug 2019 13:08:28 +0100
Source: dnaclust
Binary: dnaclust dnaclust-dbgsym
Architecture: arm64
Version: 3-7
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Saira Hussain <saira.h0213@zoho.com>
Description:
dnaclust - tool for clustering millions of short DNA sequences
Changes:
dnaclust (3-7) unstable; urgency=medium
.
* Team upload.
.
[ Saira Hussain ]
* Add autopkgtests
.
[ Andreas Tille ]
* debhelper-compat 12
* Standards-Version: 4.4.0
* Secure URI in copyright format
* Remove trailing whitespace in debian/changelog
* Remove trailing whitespace in debian/control
* Use secure URI in debian/watch.
Checksums-Sha1:
2f94e6c9a1684cb758fff8092cb424cfdb661fbb 1160912 dnaclust-dbgsym_3-7_arm64.deb
a23d40682373789eff846483036d5dd1cba5e91f 5333 dnaclust_3-7_arm64.buildinfo
df0f966a79ea81fb7f7aa4d8572565702d19a58a 102216 dnaclust_3-7_arm64.deb
Checksums-Sha256:
7ee3a7fc849466021789fe377660391ff8cd58676a7c3738727e6a6a896fb597 1160912 dnaclust-dbgsym_3-7_arm64.deb
e8f0ee7021b1163f498839090101a401de6da594607f3d57936600edac71dc1c 5333 dnaclust_3-7_arm64.buildinfo
915ab5115c064043b3bf95ba2d400b16df01f2f441e5de439da28043175a82ff 102216 dnaclust_3-7_arm64.deb
Files:
7f6e36494d660fc7cd80d9876b63572e 1160912 debug optional dnaclust-dbgsym_3-7_arm64.deb
652abff672973bba2780b76e2cef7b16 5333 science optional dnaclust_3-7_arm64.buildinfo
0f0b62c73afa6c4648fd3d44978af912 102216 science optional dnaclust_3-7_arm64.deb
Thu Apr 13 20:11:43 UTC 2023 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.OvmOUDcI/dnaclust_3-7.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.OvmOUDcI/dnaclust_3-7.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.OvmOUDcI/dnaclust_3-7.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.OvmOUDcI/b1/dnaclust_3-7_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.OvmOUDcI/b2/dnaclust_3-7_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: 0.383s)
0.383s 2 calls outputs
0.000s 1 call cleanup
## recognizes (total time: 0.035s)
0.035s 12 calls diffoscope.comparators.binary.FilesystemFile
0.000s 10 calls abc.DotChangesFile
## specialize (total time: 0.000s)
0.000s 1 call specialize
Thu Apr 13 20:11:44 UTC 2023 I: diffoscope 240 found no differences in the changes files, and a .buildinfo file also exists.
Thu Apr 13 20:11:44 UTC 2023 I: dnaclust from bookworm built successfully and reproducibly on arm64.
Thu Apr 13 20:11:46 UTC 2023 I: Submitting .buildinfo files to external archives:
Thu Apr 13 20:11:46 UTC 2023 I: Submitting 8.0K b1/dnaclust_3-7_arm64.buildinfo.asc
Thu Apr 13 20:11:47 UTC 2023 I: Submitting 8.0K b2/dnaclust_3-7_arm64.buildinfo.asc
Thu Apr 13 20:11:49 UTC 2023 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit.
Thu Apr 13 20:11:49 UTC 2023 I: Done submitting .buildinfo files.
Thu Apr 13 20:11:49 UTC 2023 I: Removing signed dnaclust_3-7_arm64.buildinfo.asc files:
removed './b1/dnaclust_3-7_arm64.buildinfo.asc'
removed './b2/dnaclust_3-7_arm64.buildinfo.asc'