[Qa-jenkins-scm] Build failed in Jenkins: reproducible_builder_arm64_27 #4496
jenkins at jenkins.debian.net
jenkins at jenkins.debian.net
Thu Feb 16 09:01:30 UTC 2017
https://jenkins.debian.net/job/reproducible_builder_arm64_27/4496/------------------------------------------
[...truncated 7.20 MB...]
-rw-r--r-- 1 jenkins jenkins 13968 Feb 16 09:01 genometools_1.5.9+ds-4_arm64.buildinfo.asc
-rw-r--r-- 1 jenkins jenkins 3378 Feb 16 09:01 genometools_1.5.9+ds-4_arm64.changes
-rw-r--r-- 1 jenkins jenkins 1600144 Feb 16 09:01 genometools_1.5.9+ds-4_arm64.deb
-rw-r--r-- 1 jenkins jenkins 78372 Feb 16 09:01 libgenometools0-dev_1.5.9+ds-4_arm64.deb
-rw-r--r-- 1 jenkins jenkins 1469826 Feb 16 09:01 libgenometools0_1.5.9+ds-4_arm64.deb
-rw-r--r-- 1 jenkins jenkins 32736 Feb 16 09:01 python-genometools_1.5.9+ds-4_all.deb
Thu Feb 16 09:01:27 UTC 2017 I: Deleting $TMPDIR on codethink-sled15-arm64.debian.net.
Thu Feb 16 09:01:28 UTC 2017 I: genometools_1.5.9+ds-4_arm64.changes:
Format: 1.8
Date: Fri, 06 Jan 2017 10:13:08 +0100
Source: genometools
Binary: genometools genometools-common libgenometools0 libgenometools0-dev genometools-doc genometools-dbg python-genometools
Architecture: all arm64
Version: 1.5.9+ds-4
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Changed-By: Sascha Steinbiss <satta at debian.org>
Description:
genometools - versatile genome analysis toolkit
genometools-common - shared data files for GenomeTools
genometools-dbg - versatile genome analysis toolkit, with debug symbols
genometools-doc - documentation for GenomeTools
libgenometools0 - versatile genome analysis library
libgenometools0-dev - development files for GenomeTools
python-genometools - Python bindings for genometools
Closes: 850341
Changes:
genometools (1.5.9+ds-4) unstable; urgency=medium
.
* Switch asciidoc dependency to asciidoc-base.
Closes: #850341
* Fix minor spelling issues in help output.
Checksums-Sha1:
7fcf7bf34068cf6bf2bf163d8f5e0801218448ee 170644 genometools-common_1.5.9+ds-4_all.deb
5353f9c38761e1c9a9d35cb664756df57b5a308b 4553668 genometools-dbg_1.5.9+ds-4_arm64.deb
968b39e3257f8a44cb3bb81b1197bec5e5b3589a 2998016 genometools-doc_1.5.9+ds-4_all.deb
f3bfbe73d1c4df0ab2be20926228f6e420801ddb 13102 genometools_1.5.9+ds-4_arm64.buildinfo
7ad0e4b091a078600dfdeff5df4191bbc63a0551 1600144 genometools_1.5.9+ds-4_arm64.deb
2b9902b00584510631b3e916be47ea0db27837ec 78372 libgenometools0-dev_1.5.9+ds-4_arm64.deb
8c1d60b59b921fe9e14bab60dba7a5d3ddc58d79 1469826 libgenometools0_1.5.9+ds-4_arm64.deb
9fbe517d126de5ede808278c58b655cc48004314 32736 python-genometools_1.5.9+ds-4_all.deb
Checksums-Sha256:
a24f8617f061a1a6125479bd16193cfb5514d40e847fe5a4943485d409f239b5 170644 genometools-common_1.5.9+ds-4_all.deb
3bd8a238c02f0ffbcec91da1eab449e337116aa26980da1387a1e81636a84f6b 4553668 genometools-dbg_1.5.9+ds-4_arm64.deb
072a870f50b4debf6c2687adc36f4c59f35cfe5bb2c7269148ca2b6c01289538 2998016 genometools-doc_1.5.9+ds-4_all.deb
645d87fcf532545f59c8171aebbb63b6e0988938701be9e756ecc341ce23d012 13102 genometools_1.5.9+ds-4_arm64.buildinfo
71ac13d4271cc4ceb4f53be0d68d07b60bcb42ca80a43a3d26ebae880f6de7ae 1600144 genometools_1.5.9+ds-4_arm64.deb
186d9e272cd4f5b8be4c8d8c015b6dee3e20a95a3a5099eac727d2944c6eac1d 78372 libgenometools0-dev_1.5.9+ds-4_arm64.deb
63814a059baed15e8c0785e3f3139247aba700927b950ccb0897571d3761edd3 1469826 libgenometools0_1.5.9+ds-4_arm64.deb
bcc3fe9d9cffa9f4449146997783819dc8db5889401f5e23500237955a63289e 32736 python-genometools_1.5.9+ds-4_all.deb
Files:
4faec8fb0ae151a352448df58671c76e 170644 science optional genometools-common_1.5.9+ds-4_all.deb
c7f78a61e3c246df56a2b151e99df8f6 4553668 debug extra genometools-dbg_1.5.9+ds-4_arm64.deb
e424d538529f4847559dc804d2b7e3bc 2998016 doc optional genometools-doc_1.5.9+ds-4_all.deb
35e98c5c3656606ec750a854f8a14d2c 13102 science optional genometools_1.5.9+ds-4_arm64.buildinfo
aaf1fc0f2136cf5cf7adaa640e815ccc 1600144 science optional genometools_1.5.9+ds-4_arm64.deb
90e41cc6e24da8fab8813ff393aaa97e 78372 libdevel optional libgenometools0-dev_1.5.9+ds-4_arm64.deb
8335aa9b46f7372076cd310b4628a47f 1469826 libs optional libgenometools0_1.5.9+ds-4_arm64.deb
3e7d1ef18cdabae340a0a7a07da0a2de 32736 python optional python-genometools_1.5.9+ds-4_all.deb
removed ‘/var/lib/jenkins/userContent/reproducible/debian/rbuild/testing/arm64/genometools_1.5.9+ds-4.rbuild.log.gz’
removed ‘/var/lib/jenkins/userContent/reproducible/debian/logs/testing/arm64/genometools_1.5.9+ds-4.build1.log.gz’
removed ‘/var/lib/jenkins/userContent/reproducible/debian/logs/testing/arm64/genometools_1.5.9+ds-4.build2.log.gz’
removed ‘/var/lib/jenkins/userContent/reproducible/debian/buildinfo/testing/arm64/genometools_1.5.9+ds-4_arm64.buildinfo’
removed ‘/var/lib/jenkins/userContent/reproducible/debian/logdiffs/testing/arm64/genometools_1.5.9+ds-4.diff.gz’
Diff of the two buildlogs:
--
--- b1/build.log 2017-02-16 08:34:30.062435595 +0000
+++ b2/build.log 2017-02-16 09:01:26.576950757 +0000
@@ -1,7 +1,11 @@
I: using fakeroot in build.
+OK: 611 ok, 2 rc
+611 packages current.
+2 packages removed but not purged: linux-image-4.4.0-57-generic, linux-image-4.4.0-59-generic
+|obs_loc=0;1;5;0 outdated=0;1;5;0 current=611;;;0 obs_ign=0;;;0 rm_unprg=2;;;0 hold=0;;;0 prg_conf=0;1;;0 security_outdated=0;;1;0
I: pbuilder: network access will be disabled during build
-I: Current time: Wed Feb 15 20:07:01 -12 2017
-I: pbuilder-time-stamp: 1487232421
+I: Current time: Thu Mar 22 04:57:47 +14 2018
+I: pbuilder-time-stamp: 1521644267
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/testing-reproducible-base.tgz]
I: copying local configuration
@@ -18,7 +22,7 @@
I: Extracting source
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/var/lib/jenkins/.gnupg/trustedkeys.kbx': General error
-gpgv: Signature made Thu Jan 5 21:56:10 2017 -12
+gpgv: Signature made Fri Jan 6 23:56:10 2017 +14
gpgv: using RSA key 5B34BA5AAB5507E903426E85E8D37AE2F09F4872
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./genometools_1.5.9+ds-4.dsc
@@ -37,6 +41,18 @@
dpkg-source: info: applying ignore-m32-m64.patch
dpkg-source: info: applying spelling.patch
I: Installing the build-deps
+I: user script /srv/workspace/pbuilder/12930/tmp/hooks/D01_modify_environment starting
+disorder-fs debug: Running on codethink-sled15-arm64.
+I: Changing host+domainname to test build reproducibility
+I: Adding a custom variable just for the fun of it...
+I: Changing /bin/sh to bash
+Removing 'diversion of /bin/sh to /bin/sh.distrib by dash'
+Adding 'diversion of /bin/sh to /bin/sh.distrib by bash'
+Removing 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by dash'
+Adding 'diversion of /usr/share/man/man1/sh.1.gz to /usr/share/man/man1/sh.distrib.1.gz by bash'
+I: Setting pbuilder2's login shell to /bin/bash
+I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other
+I: user script /srv/workspace/pbuilder/12930/tmp/hooks/D01_modify_environment finished
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
@@ -395,7 +411,7 @@
Get: 267 http://ftp.uk.debian.org/debian testing/main arm64 xsltproc arm64 1.1.29-2 [120 kB]
Get: 268 http://ftp.uk.debian.org/debian testing/main arm64 libfaketime arm64 0.9.6-7 [23.7 kB]
Get: 269 http://ftp.uk.debian.org/debian testing/main arm64 faketime arm64 0.9.6-7 [13.5 kB]
-Fetched 457 MB in 54s (8423 kB/s)
+Fetched 457 MB in 60s (7527 kB/s)
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package groff-base.
(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 ... 18494 files and directories currently installed.)
@@ -1562,7 +1578,9 @@
fakeroot is already the newest version (1.21-3.1).
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
I: Building the package
-I: Running cd /build/genometools-1.5.9+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b --buildinfo-id=arm64 -rfakeroot
+I: user script /srv/workspace/pbuilder/12930/tmp/hooks/A01_modfiy_src_dir starting
+I: user script /srv/workspace/pbuilder/12930/tmp/hooks/A01_modfiy_src_dir finished
+I: Running cd /build/genometools-1.5.9+ds/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b --buildinfo-id=arm64 -rfakeroot
dpkg-buildpackage: warning: --buildinfo-id is deprecated, it is without effect
dpkg-buildpackage: info: source package genometools
dpkg-buildpackage: info: source version 1.5.9+ds-4
@@ -10133,7 +10151,7 @@
debian/rules override_dh_auto_test
make[1]: Entering directory '/build/genometools-1.5.9+ds'
bin/gt -test
-seed=320773913
+seed=440782389
Lua serializer module...ok
MD5 seqid module...ok
PBS finder module...ok
@@ -10222,7 +10240,7 @@
uint64hashtable...ok
xdrop...ok
cd testsuite; ./testsuite.rb -keywords 'gt_sketch and not gt_python and not gt_ruby'
-seed=1032258598
+seed=1496664812
1376: gt sketch short test : ok
1377: gt sketch short test (stdin) : ok
1378: gt sketch short test (unknown output format) : ok
@@ -10290,7 +10308,7 @@
-e 's!@CXX@!g++!' -e 's!@CXXFLAGS@!-g -O2 -fdebug-prefix-map=/build/genometools-1.5.9+ds=. -fstack-protector-strong -Wformat -Werror=format-security!' \
-e 's!@LDFLAGS@!-L/build/genometools-1.5.9+ds/debian/tmp/usr/lib -Wl,-z,relro -Wl,-z,now -L/usr/local/lib!' \
-e 's!@LIBS@! -lm -lbz2 -lz -lexpat -llua5.1 -llua5.1-lpeg -llua5.1 -llua5.1-md5 -llua5.1 -llua5.1-filesystem -llua5.1 -llua5.1-des56 -llua5.1 -lbam -ltre -Wl,-z,relro -lm -lpthread -ldl -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lcairo -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lcairo -lsqlite3!' -e "s!@VERSION@!`cat VERSION`!" \
- -e 's!@BUILDSTAMP@!"2017-02-15 20:28:37"!' \
+ -e 's!@BUILDSTAMP@!"2018-03-22 05:19:03"!' \
-e 's!@SYSTEM@!Linux!' <src/genometools-config.in \
>/build/genometools-1.5.9+ds/debian/tmp/usr/bin/genometools-config
chmod 755 /build/genometools-1.5.9+ds/debian/tmp/usr/bin/genometools-config
@@ -10558,41 +10576,43 @@
dh_makeshlibs
dh_shlibdeps
dpkg-shlibdeps: warning: tried to merge the same object (ld-linux-aarch64.so.1) twice in a symfile
-dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/genometools/usr/bin/gt was not linked against libdl.so.2 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/genometools/usr/bin/gt was not linked against libglib-2.0.so.0 (it uses none of the library's symbols)
+dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/genometools/usr/bin/gt was not linked against libdl.so.2 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: tried to merge the same object (ld-linux-aarch64.so.1) twice in a symfile
-dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libgenometools0/usr/lib/libgenometools.so.0 was not linked against liblua5.1-lpeg.so.2 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libgenometools0/usr/lib/libgenometools.so.0 was not linked against liblua5.1-filesystem.so.0 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libgenometools0/usr/lib/libgenometools.so.0 was not linked against libglib-2.0.so.0 (it uses none of the library's symbols)
+dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libgenometools0/usr/lib/libgenometools.so.0 was not linked against liblua5.1-lpeg.so.2 (it uses none of the library's symbols)
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libgenometools0/usr/lib/libgenometools.so.0 was not linked against liblua5.1-des56.so.0 (it uses none of the library's symbols)
dh_installdeb
dh_gencontrol
dpkg-gencontrol: warning: Depends field of package libgenometools0-dev: unknown substitution variable ${shlibs:Depends}
dpkg-gencontrol: warning: Depends field of package genometools-dbg: unknown substitution variable ${shlibs:Depends}
dpkg-gencontrol: warning: Depends field of package python-genometools: unknown substitution variable ${shlibs:Depends}
-dpkg-gencontrol: warning: package python-genometools: unused substitution variable ${python:Provides}
dpkg-gencontrol: warning: package python-genometools: unused substitution variable ${python:Versions}
+dpkg-gencontrol: warning: package python-genometools: unused substitution variable ${python:Provides}
dh_md5sums
dh_builddeb
dpkg-deb: building package 'genometools-doc' in '../genometools-doc_1.5.9+ds-4_all.deb'.
+dpkg-deb: building package 'genometools-common' in '../genometools-common_1.5.9+ds-4_all.deb'.
dpkg-deb: building package 'genometools' in '../genometools_1.5.9+ds-4_arm64.deb'.
dpkg-deb: building package 'libgenometools0' in '../libgenometools0_1.5.9+ds-4_arm64.deb'.
-dpkg-deb: building package 'genometools-dbg' in '../genometools-dbg_1.5.9+ds-4_arm64.deb'.
dpkg-deb: building package 'libgenometools0-dev' in '../libgenometools0-dev_1.5.9+ds-4_arm64.deb'.
+dpkg-deb: building package 'genometools-dbg' in '../genometools-dbg_1.5.9+ds-4_arm64.deb'.
dpkg-deb: building package 'python-genometools' in '../python-genometools_1.5.9+ds-4_all.deb'.
-dpkg-deb: building package 'genometools-common' in '../genometools-common_1.5.9+ds-4_all.deb'.
dpkg-genbuildinfo --build=binary
dpkg-genchanges --build=binary >../genometools_1.5.9+ds-4_arm64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
dpkg-source --after-build genometools-1.5.9+ds
dpkg-buildpackage: info: binary-only upload (no source included)
I: copying local configuration
+I: user script /srv/workspace/pbuilder/12930/tmp/hooks/B01_cleanup starting
+I: user script /srv/workspace/pbuilder/12930/tmp/hooks/B01_cleanup finished
I: unmounting /dev/shm 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/2866 and its subdirectories
-I: Current time: Wed Feb 15 20:34:19 -12 2017
-I: pbuilder-time-stamp: 1487234059
+I: removing directory /srv/workspace/pbuilder/12930 and its subdirectories
+I: Current time: Thu Mar 22 05:24:24 +14 2018
+I: pbuilder-time-stamp: 1521645864
Compressing the 2nd log...
/var/lib/jenkins/userContent/reproducible/debian/logdiffs/testing/arm64/genometools_1.5.9+ds-4.diff: 70.4% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/testing/arm64/genometools_1.5.9+ds-4.diff.gz
b2/build.log: 96.0%
+ echo 'Compressing the 1st log...'
Compressing the 1st log...
+ gzip -9cvn b1/build.log
b1/build.log: 96.1%
+ chmod 644 /var/lib/jenkins/userContent/reproducible/debian/logs/testing/arm64/genometools_1.5.9+ds-4.build1.log.gz
+ update_rbuildlog
+ chmod 644 /srv/reproducible-results/rbuild-debian-GXHdY3he/tmp.FLTWSjB7ll
+ mv /srv/reproducible-results/rbuild-debian-GXHdY3he/tmp.FLTWSjB7ll /var/lib/jenkins/userContent/reproducible/debian/rbuild/testing/arm64/genometools_1.5.9+ds-4.rbuild.log
mv: error writing ‘/var/lib/jenkins/userContent/reproducible/debian/rbuild/testing/arm64/genometools_1.5.9+ds-4.rbuild.log’: No space left on device
mv: failed to extend ‘/var/lib/jenkins/userContent/reproducible/debian/rbuild/testing/arm64/genometools_1.5.9+ds-4.rbuild.log’: No space left on device
+ cleanup_all
+ echo 'Starting cleanup.'
Starting cleanup.
+ '[' 0 = 1 ']'
+ '[' '!' -z '' ']'
+ '[' '!' -f /srv/reproducible-results/rbuild-debian-GXHdY3he/tmp.FLTWSjB7ll ']'
+ gzip -9fvn /srv/reproducible-results/rbuild-debian-GXHdY3he/tmp.FLTWSjB7ll
/srv/reproducible-results/rbuild-debian-GXHdY3he/tmp.FLTWSjB7ll: 95.9% -- replaced with /srv/reproducible-results/rbuild-debian-GXHdY3he/tmp.FLTWSjB7ll.gz
+ '[' master = master ']'
+ gen_package_html genometools
+ cd /srv/jenkins/bin
+ python3 -c 'import reproducible_html_packages as rep
pkg = rep.Package('\''genometools'\'', no_notes=True)
rep.gen_packages_html([pkg], no_clean=True)'
INFO: Starting at 2017-02-16 09:01:29.821105
CRITICAL: buildinfo not detected at /var/lib/jenkins/userContent/reproducible/debian/buildinfo/testing/arm64/genometools_1.5.9+ds-4_arm64.buildinfo
INFO: Finished at 2017-02-16 09:01:30.193870, took: 0:00:00.372781
+ cd -
+ cd
+ rm -r /srv/reproducible-results/rbuild-debian-GXHdY3he
+ echo 'All cleanup done.'
All cleanup done.
Thu 16 Feb 09:01:30 UTC 2017 - /srv/jenkins/bin/reproducible_build.sh stopped running as /tmp/jenkins-script-zLIy5Mgq, which will now be removed.
Build step 'Execute shell' marked build as failure
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