[Debian-med-packaging] kissplice test fails on several architectures

[David Parsons]

Hi Andreas,

I remember the kissplice team decided to stop maintaining for non 64bit 
architectures. So I suppose this is it.
I will ask them what they think but I guess they will choose to simply 
restrain the package to 64bit archs. Would that be OK in debian-med 
standards ?

Thanks for the input,
David


On 16/09/2014 16:51, Andreas Tille wrote:
> Hi David,
>
> according to the build status page of kissplice[1] the tests are failing
> on non 64bit architectures.  Using the log of i386 as example it looks
> like
>
> ...
>     dh_auto_test -a
> make[1]: Entering directory '/«PKGBUILDDIR»/obj-i586-linux-gnu'
> Running tests...
> /usr/bin/ctest --force-new-ctest-process -j1
> Test project /«PKGBUILDDIR»/obj-i586-linux-gnu
>      Start 1: KisspliceBasicTest
> 1/8 Test #1: KisspliceBasicTest ...............   Passed    0.11 sec
>      Start 2: KisspliceDBGTest
> 2/8 Test #2: KisspliceDBGTest .................***Failed  Required regular expression not found.Regex=[test SUCCESSFUL
> ] 30.98 sec
> /«PKGBUILDDIR»/obj-i586-linux-gnu/bin/kissplice -k 25 -M 1000 -r /«PKGBUILDDIR»/tests/integration_tests/data/HBM75brain_100000.fasta -r /«PKGBUILDDIR»/tests/integration_tests/data/HBM75liver_100000.fasta -o /«PKGBUILDDIR»/tests/integration_tests/results
> Integration test error :  Problem with /«PKGBUILDDIR»/obj-i586-linux-gnu/lib/kissplice/ks_kissreadsSNPS
>
>
>      Start 3: KisspliceTwoSequencesTest
> 3/8 Test #3: KisspliceTwoSequencesTest ........***Failed  Required regular expression not found.Regex=[test SUCCESSFUL
> ] 21.68 sec
> /«PKGBUILDDIR»/obj-i586-linux-gnu/bin/kissplice -s -k 25 -M 1000 -r /«PKGBUILDDIR»/tests/integration_tests/data/HBM75brain_100000.fasta -r /«PKGBUILDDIR»/tests/integration_tests/data/HBM75liver_100000.fasta -C 0
> Integration test error :  Problem with /«PKGBUILDDIR»/obj-i586-linux-gnu/lib/kissplice/ks_kissreadsSNPS
>
>
>      Start 4: KisspliceGraphAndSequenceTest
> 4/8 Test #4: KisspliceGraphAndSequenceTest ....***Failed  Required regular expression not found.Regex=[test SUCCESSFUL
> ] 10.03 sec
> /«PKGBUILDDIR»/obj-i586-linux-gnu/bin/kissplice -s -k 25 -M 1000 -g /«PKGBUILDDIR»/tests/integration_tests/data/graph_HBM75brain_100000_HBM75liver_100000_k25 -r /«PKGBUILDDIR»/tests/integration_tests/data/HBM75brain_100000.fasta -C 0
> Integration test error :  Problem with /«PKGBUILDDIR»/obj-i586-linux-gnu/lib/kissplice/ks_kissreadsSNPS
>
>
>      Start 5: KisspliceGraphTest
> 5/8 Test #5: KisspliceGraphTest ...............   Passed   10.04 sec
>      Start 6: ksBubbleEnumerationTest
> 6/8 Test #6: ksBubbleEnumerationTest ..........   Passed    0.04 sec
>      Start 7: ksRunModulesTest
> 7/8 Test #7: ksRunModulesTest .................   Passed    0.05 sec
>      Start 8: ksErrorRemovalTest
> 8/8 Test #8: ksErrorRemovalTest ...............   Passed    0.13 sec
>
> 63% tests passed, 3 tests failed out of 8
>
> Total Test time (real) =  73.08 sec
>
> The following tests FAILED:
> 	  2 - KisspliceDBGTest (Failed)
> 	  3 - KisspliceTwoSequencesTest (Failed)
> 	  4 - KisspliceGraphAndSequenceTest (Failed)
> Errors while running CTest
> make[1]: *** [test] Error 8
> ...
>
>
> Do you see any chance to fix this?
>
> Kind regards
>
>         Andreas.
>
>
> [1] https://buildd.debian.org/status/package.php?p=kissplice
>


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