[Qa-jenkins-scm] Build failed in Jenkins: reproducible_builder_i386_5 #31616
jenkins at jenkins.debian.net
jenkins at jenkins.debian.net
Thu Feb 16 07:17:29 UTC 2017
https://jenkins.debian.net/job/reproducible_builder_i386_5/31616/------------------------------------------
[...truncated 208.15 KB...]
(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 ... 18655 files and directories currently installed.)
@@ -766,7 +781,9 @@
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/1st/r-cran-genabel-1.8-0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b --buildinfo-id=i386 -rfakeroot
+I: user script /srv/workspace/pbuilder/56018/tmp/hooks/A01_modfiy_src_dir starting
+I: user script /srv/workspace/pbuilder/56018/tmp/hooks/A01_modfiy_src_dir finished
+I: Running cd /build/2nd/r-cran-genabel-1.8-0/ && 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=i386 -rfakeroot
dpkg-buildpackage: warning: --buildinfo-id is deprecated, it is without effect
dpkg-buildpackage: info: source package r-cran-genabel
dpkg-buildpackage: info: source version 1.8-0-1
@@ -795,12 +812,12 @@
echo "R:Depends=r-base-core (>= 3.3.2-1), r-api-3" >> debian/r-cran-genabel.substvars
if test -f /usr/bin/xvfb-run; then \
xvfb-run -a \
- R CMD INSTALL -l /build/1st/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library --clean \
+ R CMD INSTALL -l /build/2nd/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library --clean \
. \
"--built-timestamp=\"Thu, 07 Aug 2014 17:30:04 +0200\"" \
; \
else \
- R CMD INSTALL -l /build/1st/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library \
+ R CMD INSTALL -l /build/2nd/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library \
--clean . \
"--built-timestamp=\"Thu, 07 Aug 2014 17:30:04 +0200\"" \
; \
@@ -808,7 +825,7 @@
* installing *source* package 'GenABEL' ...
** package 'GenABEL' successfully unpacked and MD5 sums checked
** libs
-make[1]: Entering directory '/build/1st/r-cran-genabel-1.8-0/src'
+make[1]: Entering directory '/build/2nd/r-cran-genabel-1.8-0/src'
g++ -I/usr/share/R/include -DNDEBUG -DCOMPILE_WITH_R -fpic -g -O2 -fdebug-prefix-map=/build/r-base-PAdLwq/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c AbstractMatrix.cpp -o AbstractMatrix.o
g++ -I/usr/share/R/include -DNDEBUG -DCOMPILE_WITH_R -fpic -g -O2 -fdebug-prefix-map=/build/r-base-PAdLwq/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c AbstractMatrix_R.cpp -o AbstractMatrix_R.o
g++ -I/usr/share/R/include -DNDEBUG -DCOMPILE_WITH_R -fpic -g -O2 -fdebug-prefix-map=/build/r-base-PAdLwq/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c CastUtils.cpp -o CastUtils.o
@@ -847,10 +864,10 @@
g++ -I/usr/share/R/include -DNDEBUG -DCOMPILE_WITH_R -fpic -g -O2 -fdebug-prefix-map=/build/r-base-PAdLwq/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lm_gwaa.cpp -o lm_gwaa.o
g++ -I/usr/share/R/include -DNDEBUG -DCOMPILE_WITH_R -fpic -g -O2 -fdebug-prefix-map=/build/r-base-PAdLwq/r-base-3.3.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c merge.snp.data.cpp -o merge.snp.data.o
g++ -shared -L/usr/lib/R/lib -Wl,-z,relro -o GenABEL.so AbstractMatrix.o AbstractMatrix_R.o CastUtils.o Chip.o FileVector.o FilteredMatrix.o FilteredMatrix_R.o Logger.o RealHandlerWrapper.o ReusableFileHandle.o Transposer.o chinv2.o cholesky2.o chsolve2.o convert.snp.affymetrix.o convert_snp_illumina.o convert_snp_merlin.o convert_snp_merlin_wslash.o convert_snp_tped.o convert_util.o coxfit2.o dautil.o dmatrix.o dometa.o export_plink.o fexact.o frutil.o gtps_container.o gwaa.o gwaa_cpp.o gwaa_data.o gwaautil.o interactions_rare_recesive_alleles.o iterator.o iterator_functions.o lm_gwaa.o merge.snp.data.o -L/usr/lib/R/lib -lR
-make[1]: Leaving directory '/build/1st/r-cran-genabel-1.8-0/src'
-make[1]: Entering directory '/build/1st/r-cran-genabel-1.8-0/src'
-make[1]: Leaving directory '/build/1st/r-cran-genabel-1.8-0/src'
-installing to /build/1st/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library/GenABEL/libs
+make[1]: Leaving directory '/build/2nd/r-cran-genabel-1.8-0/src'
+make[1]: Entering directory '/build/2nd/r-cran-genabel-1.8-0/src'
+make[1]: Leaving directory '/build/2nd/r-cran-genabel-1.8-0/src'
+installing to /build/2nd/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library/GenABEL/libs
** R
** demo
** inst
@@ -860,14 +877,14 @@
** building package indices
** testing if installed package can be loaded
* DONE (GenABEL)
-rm -vf /build/1st/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library/R.css \
- /build/1st/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library/GenABEL/COPYING \
- /build/1st/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library/GenABEL/LICENSE.txt \
- /build/1st/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library/GenABEL/LICENSE
+rm -vf /build/2nd/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library/R.css \
+ /build/2nd/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library/GenABEL/COPYING \
+ /build/2nd/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library/GenABEL/LICENSE.txt \
+ /build/2nd/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/lib/R/site-library/GenABEL/LICENSE
if test -f debian/overrides; then \
- install -d /build/1st/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/share/lintian/overrides ; \
+ install -d /build/2nd/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/share/lintian/overrides ; \
install -m 0644 debian/overrides \
- /build/1st/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/share/lintian/overrides/r-cran-genabel; \
+ /build/2nd/r-cran-genabel-1.8-0/debian/r-cran-genabel/usr/share/lintian/overrides/r-cran-genabel; \
fi
Adding cdbs dependencies to debian/r-cran-genabel.substvars
dh_installdirs -pr-cran-genabel \
@@ -915,12 +932,14 @@
dpkg-source --after-build r-cran-genabel-1.8-0
dpkg-buildpackage: info: binary-only upload (no source included)
I: copying local configuration
+I: user script /srv/workspace/pbuilder/56018/tmp/hooks/B01_cleanup starting
+I: user script /srv/workspace/pbuilder/56018/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/3775 and its subdirectories
-I: Current time: Wed Feb 15 19:14:50 -12 2017
-I: pbuilder-time-stamp: 1487229290
+I: removing directory /srv/workspace/pbuilder/56018 and its subdirectories
+I: Current time: Thu Mar 22 03:39:35 +14 2018
+I: pbuilder-time-stamp: 1521639575
Compressing the 2nd log...
/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/r-cran-genabel_1.8-0-1.diff: 71.2% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/i386/r-cran-genabel_1.8-0-1.diff.gz
b2/build.log: 82.7%
+ echo 'Compressing the 1st log...'
Compressing the 1st log...
+ gzip -9cvn b1/build.log
b1/build.log: 83.1%
+ chmod 644 /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/i386/r-cran-genabel_1.8-0-1.build1.log.gz
+ update_rbuildlog
+ chmod 644 /srv/reproducible-results/rbuild-debian-7ptQaN7V/tmp.rWw2mvmYXD
+ mv /srv/reproducible-results/rbuild-debian-7ptQaN7V/tmp.rWw2mvmYXD /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/i386/r-cran-genabel_1.8-0-1.rbuild.log
+ RBUILDLOG=/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/i386/r-cran-genabel_1.8-0-1.rbuild.log
+ '[' 0 -eq 1 ']'
+ '[' 0 -eq 0 ']'
+ filter_changes_files
+ sed -i -e '/^ [a-f0-9]\{32,64\} .*\.buildinfo$/d' b1/r-cran-genabel_1.8-0-1_i386.changes b2/r-cran-genabel_1.8-0-1_i386.changes
+ call_diffoscope_on_changes_files
++ mktemp --tmpdir=/srv/reproducible-results/rbuild-debian-7ptQaN7V
+ local TMPLOG=/srv/reproducible-results/rbuild-debian-7ptQaN7V/tmp.x6Fq8Oq12p
+ local TIMEOUT=120m
+ DBDSUITE=unstable
+ '[' unstable = experimental ']'
+ set -x
++ mktemp --tmpdir=/srv/reproducible-results/rbuild-debian-7ptQaN7V -d dbd-tmp-XXXXXXX
+ local TEMP=/srv/reproducible-results/rbuild-debian-7ptQaN7V/dbd-tmp-USNewqU
++ schroot --directory /srv/reproducible-results/rbuild-debian-7ptQaN7V -c source:jenkins-reproducible-unstable-diffoscope diffoscope -- --version
+ DIFFOSCOPE='diffoscope 77'
++ echo diffoscope 77
++ grep '^E: 15binfmt: update-binfmts: unable to open'
++ true
+ LOG_RESULT=
+ '[' '!' -z '' ']'
+ log_info 'diffoscope 77 will be used to compare the two builds:'
+ _log I: 'diffoscope 77 will be used to compare the two builds:'
+ local prefix=I:
+ shift 1
+ tee -a /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/i386/r-cran-genabel_1.8-0-1.rbuild.log
++ date -u
+ echo -e 'Thu Feb 16 07:16:41 UTC 2017 I: diffoscope 77 will be used to compare the two builds:'
Thu Feb 16 07:16:41 UTC 2017 I: diffoscope 77 will be used to compare the two builds:
+ set +e
+ set -x
+ timeout 120m nice schroot --directory /srv/reproducible-results/rbuild-debian-7ptQaN7V -c source:jenkins-reproducible-unstable-diffoscope -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian-7ptQaN7V/dbd-tmp-USNewqU ; diffoscope --html /srv/reproducible-results/rbuild-debian-7ptQaN7V/r-cran-genabel_1.8-0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian-7ptQaN7V/r-cran-genabel_1.8-0-1.diffoscope.txt --profile=- /srv/reproducible-results/rbuild-debian-7ptQaN7V/b1/r-cran-genabel_1.8-0-1_i386.changes /srv/reproducible-results/rbuild-debian-7ptQaN7V/b2/r-cran-genabel_1.8-0-1_i386.changes'
+ RESULT=1
++ grep '^E: 15binfmt: update-binfmts: unable to open' /srv/reproducible-results/rbuild-debian-7ptQaN7V/tmp.x6Fq8Oq12p
++ true
+ LOG_RESULT=
+ '[' '!' -z '' ']'
+ false
+ set +x
Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian-7ptQaN7V/r-cran-genabel_1.8-0-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian-7ptQaN7V/r-cran-genabel_1.8-0-1.diffoscope.txt --profile=- /srv/reproducible-results/rbuild-debian-7ptQaN7V/b1/r-cran-genabel_1.8-0-1_i386.changes /srv/reproducible-results/rbuild-debian-7ptQaN7V/b2/r-cran-genabel_1.8-0-1_i386.changes
==================================================================================================================================================================================================================================================================================================================================================================================================================================
close_archive (total time: 0.001s)
----------------------------------
0.000s 16 calls diffoscope.comparators.gzip.GzipContainer
0.000s 12 calls diffoscope.comparators.tar.TarContainer
0.000s 8 calls diffoscope.comparators.deb.DebContainer
0.000s 6 calls diffoscope.comparators.deb.DebTarContainer
0.000s 6 calls diffoscope.comparators.xz.XzContainer
command (total time: 43.070s)
-----------------------------
17.300s 55 calls objdump
17.290s 73 calls diff
3.203s 426 calls readelf
2.260s 2 calls objcopy
1.954s 6 calls xz
0.689s 40 calls xxd
0.232s 16 calls gzip
0.140s 12 calls cmp
0.002s 13 calls cmp (internal)
compare_files (cumulative) (total time: 129.727s)
-------------------------------------------------
25.631s 1 call abc.DotChangesFile
23.973s 2 calls abc.DebFile
23.153s 2 calls abc.XzFile
21.377s 2 calls abc.DebDataTarFile
19.079s 1 call abc.ElfFile
13.606s 5 calls diffoscope.comparators.elf.ElfCodeSection
1.021s 15 calls diffoscope.comparators.elf.ElfSection
0.782s 2 calls diffoscope.comparators.utils.libarchive.LibarchiveMember
0.636s 4 calls abc.GzipFile
0.233s 2 calls abc.TarFile
0.102s 2 calls diffoscope.comparators.utils.archive.ArchiveMember
0.046s 2 calls abc.Md5sumsFile
0.046s 1 call abc.TextFile
0.042s 1 call diffoscope.comparators.elf.MonkeyPatchedElfSection
0.000s 27 calls diffoscope.comparators.utils.libarchive.LibarchiveDirectory
container_extract (total time: 2.567s)
--------------------------------------
1.954s 6 calls diffoscope.comparators.xz.XzContainer
0.234s 16 calls diffoscope.comparators.gzip.GzipContainer
0.203s 22 calls diffoscope.comparators.deb.DebContainer
0.158s 14 calls diffoscope.comparators.deb.DebTarContainer
0.017s 16 calls diffoscope.comparators.tar.TarContainer
has_same_content_as (total time: 2.233s)
----------------------------------------
1.919s 6 calls diffoscope.comparators.utils.archive.ArchiveMember
0.291s 15 calls diffoscope.comparators.utils.libarchive.LibarchiveMember
0.020s 2 calls diffoscope.comparators.debian.DebControlMember
0.001s 1 call diffoscope.comparators.utils.libarchive.LibarchiveSymlink
0.001s 27 calls diffoscope.comparators.utils.libarchive.LibarchiveDirectory
0.000s 1 call abc.DotChangesFile
0.000s 15 calls diffoscope.comparators.elf.ElfSection
0.000s 5 calls diffoscope.comparators.elf.ElfCodeSection
0.000s 1 call diffoscope.comparators.elf.MonkeyPatchedElfSection
main (total time: 35.998s)
--------------------------
35.387s 2 calls outputs
0.611s 1 call cleanup
open_archive (total time: 0.001s)
---------------------------------
0.000s 16 calls diffoscope.comparators.gzip.GzipContainer
0.000s 12 calls diffoscope.comparators.tar.TarContainer
0.000s 8 calls diffoscope.comparators.deb.DebContainer
0.000s 6 calls diffoscope.comparators.xz.XzContainer
0.000s 6 calls diffoscope.comparators.deb.DebTarContainer
output (total time: 9.463s)
---------------------------
9.230s 1 call html
0.233s 1 call text
recognizes (total time: 0.089s)
-------------------------------
0.044s 10 calls diffoscope.comparators.binary.FilesystemFile
0.024s 592 calls diffoscope.comparators.utils.libarchive.LibarchiveMember
0.009s 334 calls diffoscope.comparators.utils.archive.ArchiveMember
0.007s 270 calls diffoscope.comparators.elf.ElfSection
0.002s 88 calls diffoscope.comparators.debian.DebControlMember
0.002s 90 calls diffoscope.comparators.elf.ElfCodeSection
0.001s 18 calls diffoscope.comparators.elf.MonkeyPatchedElfSection
0.000s 8 calls abc.DotChangesFile
Thu Feb 16 07:17:28 UTC 2017 E: r-cran-genabel failed to build reproducibly in unstable on i386.
gzip: /var/lib/jenkins/userContent/reproducible/debian/dbdtxt/unstable/i386/r-cran-genabel_1.8-0-1.diffoscope.txt.gz: No space left on device
Starting cleanup.
/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/i386/r-cran-genabel_1.8-0-1.rbuild.log: 80.9% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/i386/r-cran-genabel_1.8-0-1.rbuild.log.gz
INFO: Starting at 2017-02-16 07:17:29.125772
INFO: Finished at 2017-02-16 07:17:29.609628, took: 0:00:00.483872
All cleanup done.
Thu 16 Feb 07:17:29 UTC 2017 - /srv/jenkins/bin/reproducible_build.sh stopped running as /tmp/jenkins-script-wue0Hau2, which will now be removed.
Build step 'Execute shell' marked build as failure
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