Your message dated Wed, 23 Nov 2016 21:37:33 +0100
with message-id <20161123203733.go10...@an3as.eu>
and subject line Closing since this bug was possibly caused by broken
Build-Depends
has caused the Debian Bug report #843712,
regarding biojava4-live: FTBFS (failing tests)
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
843712: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=843712
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: src:biojava4-live
Version: 4.1.0+dfsg-3
Severity: serious
Dear maintainer:
I tried to build this package in stretch with "dpkg-buildpackage -A"
(which is what the "Arch: all" autobuilder would do to build it)
but it failed:
--------------------------------------------------------------------------------
[...]
debian/rules build-indep
dh build-indep --with javahelper
dh_testdir -i
dh_update_autotools_config -i
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<BUILDDIR>>/biojava4-live-4.1.0+dfsg'
dh_auto_configure
sed -e 's/BJLIB/biojava4-forester/g' debian/build.xml >
biojava-forester/build.xml
sed -e 's/BJLIB/biojava4-aa-prop/g' debian/build.xml > biojava-aa-prop/build.xml
sed -e 's/BJLIB/biojava4-core/g' debian/build.xml > biojava-core/build.xml
sed -e 's/BJLIB/biojava4-alignment/g' debian/build.xml >
biojava-alignment/build.xml
sed -e 's/BJLIB/biojava4-genome/g' debian/build.xml > biojava-genome/build.xml
sed -e 's/BJLIB/biojava4-modfinder/g' debian/build.xml >
biojava-modfinder/build.xml
[... snipped ...]
[junit] Testcase: testProteinSequenceFactoring[0] took 0 sec
[junit] Testcase: testFeatures[0] took 0 sec
[junit] Testcase: testProteinSequenceFactoring[1] took 0 sec
[junit] Testcase: testFeatures[1] took 0 sec
[junit] Testcase: testProteinSequenceFactoring[2] took 0 sec
[junit] Testcase: testFeatures[2] took 0 sec
[junit] Testcase: testProteinSequenceFactoring[3] took 0 sec
[junit] Testcase: testFeatures[3] took 0 sec
[junit] Testcase: testProteinSequenceFactoring[4] took 0 sec
[junit] Testcase: testFeatures[4] took 0 sec
[junit] Testcase: testProteinSequenceFactoring[5] took 0 sec
[junit] Testcase: testFeatures[5] took 0 sec
[junit] Testcase: testProteinSequenceFactoring[6] took 0 sec
[junit] Testcase: testFeatures[6] took 0 sec
[junit] Testcase: testProteinSequenceFactoring[7] took 0 sec
[junit] Testcase: testFeatures[7] took 0 sec
[junit] Running
org.biojava.nbio.core.sequence.loader.SimpleGenbankProxySequenceReaderTest
[junit] Testsuite:
org.biojava.nbio.core.sequence.loader.SimpleGenbankProxySequenceReaderTest
[junit] Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed:
0.592 sec
[junit] Tests run: 1, Failures: 0, Errors: 1, Skipped: 0, Time elapsed:
0.592 sec
[junit] ------------- Standard Error -----------------
[junit] SLF4J: Failed to load class "org.slf4j.impl.StaticLoggerBinder".
[junit] SLF4J: Defaulting to no-operation (NOP) logger implementation
[junit] SLF4J: See http://www.slf4j.org/codes.html#StaticLoggerBinder for
further details.
[junit] ------------- ---------------- ---------------
[junit]
[junit] Testcase: testWrongSequence took 0.554 sec
[junit] Caused an ERROR
[junit] Unexpected exception, expected<java.io.IOException> but
was<org.biojava.nbio.core.exceptions.ParserException>
[junit] java.lang.Exception: Unexpected exception,
expected<java.io.IOException> but
was<org.biojava.nbio.core.exceptions.ParserException>
[junit] Caused by: org.biojava.nbio.core.exceptions.ParserException:
Section key was null
[junit] at
org.biojava.nbio.core.sequence.io.GenbankSequenceParser.parse(GenbankSequenceParser.java:143)
[junit] at
org.biojava.nbio.core.sequence.io.GenbankSequenceParser.getSequence(GenbankSequenceParser.java:368)
[junit] at
org.biojava.nbio.core.sequence.loader.GenbankProxySequenceReader.<init>(GenbankProxySequenceReader.java:86)
[junit] at
org.biojava.nbio.core.sequence.loader.SimpleGenbankProxySequenceReaderTest.testWrongSequence(SimpleGenbankProxySequenceReaderTest.java:53)
[junit]
BUILD FAILED
/<<BUILDDIR>>/biojava4-live-4.1.0+dfsg/biojava-core/build.xml:101: Test
org.biojava.nbio.core.sequence.loader.SimpleGenbankProxySequenceReaderTest
failed
Total time: 13 seconds
debian/rules:57: recipe for target 'override_dh_auto_test' failed
make[1]: *** [override_dh_auto_test] Error 1
make[1]: Leaving directory '/<<BUILDDIR>>/biojava4-live-4.1.0+dfsg'
debian/rules:10: recipe for target 'build-indep' failed
make: *** [build-indep] Error 2
dpkg-buildpackage: error: debian/rules build-indep gave error exit status 2
--------------------------------------------------------------------------------
For a full build log please see:
https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/biojava4-live.html
Note: Even if this package is Arch:all, please consider uploading in
source-only form, so that we get official build logs available here:
https://buildd.debian.org/status/package.php?p=biojava4-live
Thanks.
--- End Message ---
--- Begin Message ---
Hi,
I'm not able to reproduce this bug and it seems probably that the
failure was caused by broken Build-Depends. Feel free to reopen if
it turns out that my assumption is wrong.
Kind regards
Andreas.
--
http://fam-tille.de
--- End Message ---
