Hi Shruti,
On Wed, Jul 21, 2021 at 01:32:35PM +0530, Shruti Sridhar wrote:
>
> I am working on writing autopkgtests for logol [1] and the test passes in
> my chroot but fails the pipeline
Hmmm, this
+ JAVA_OPTS=' -Xms512m -Xmx4096m'
+ java -Xms512m -Xmx1024m -Dlogol.install=/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src -Dlogol.conf=/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/prolog/logol.properties -Dlog4j.configuration=file:///tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/log4j.properties -classpath /tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/biojava.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/bytecode:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/mail.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/activation.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/xalan.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/xercesImpl.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/xml-apis.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/serializer.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/commons-configuration.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/LogolExec.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/commons-cli.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/commons-collections.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/commons-lang.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/commons-logging.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/log4j-1.2.jar:/tmp/autopkgtest-lxc.kjfgq_8m/downtmp/build.yfB/src/lib/antlr.jar org.irisa.genouest.logol.Logol -g 1799.logol -s 1799.fasta -dna
Error: Could not find or load main class org.irisa.genouest.logol.Logol
Caused by: java.lang.ClassNotFoundException: org.irisa.genouest.logol.Logol
autopkgtest [06:49:18]: test run-unit-test: -----------------------]
Main jar seems not found in classpath.
The classnotfound error relates to main program jar file. Though it appears in logolexec.jar file which is in your classpath, so should be fine....
As tmp dirs are used here, wonder if jar file found where expected...
looks tricky. Olivier, do you have some idea?
> along with blhc and reprotest.
>
> I tried fixing blhc like we did earlier with the Makefile patch but I don’t
> know where to begin in this kind of package.
I at least added hardeing options to d/rules. Now it would be needed to
investigate the build system, where those default variables are ignored
(since my change did not really helped). If you ask me: Excluding the
blhc test from CI (as well as reprotest) is the most straigthforward way
to get CI sensibly working for us. Sometimes we simply live with some
non-optimal situation.
> Could you point me in the right direction on how I can go about fixing
> this?
If you really want to I would recommend follow the lintian warnings
about the executables that are lacking the options and check where these
are built inside the source tree. This should bring you close to the
point in the build system where a patch is needed. But as I tried to
express: Having an autopkgtest (which should be brought into a working
state - seems you spotted some issue) is great. blhc is in my eyes
optional and reprotest nice to have but sometimes you need some experts
help here. If its easy we should try to fix it but it seems to be
non-trivial here.
Kind regards
Andreas.
> [1] https://salsa.debian.org/med-team/logol
> ᐧ
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