[Debian-med-packaging] kissplice test fails on several architectures
Andreas Tille
andreas at an3as.eu
Fri Oct 10 07:48:57 UTC 2014
Hi David,
sorry to ping again. To make things clear: Either we are very quick
with editing the control file according to the architecture where it
builds or Debian will ship in its next stable release with an older
version. There is not much time left until freeze. It is fine if you
would express: "I have no time - please can anybody else adapt the
debian/control file."
Kind regards
Andreas.
On Thu, Oct 02, 2014 at 11:10:15AM +0200, Andreas Tille wrote:
> Hi David,
>
> I forgot to CC you in my last ping. Please note that it is evident to
> react *right now* if you want to get the latest version into the next
> stable release.
>
> Kind regards
>
> Andreas.
>
> On Tue, Sep 30, 2014 at 04:10:07PM +0200, Andreas Tille wrote:
> > Hi David,
> >
> > any news about this?
> >
> > Kind regards
> >
> > Andreas.
> >
> > On Wed, Sep 17, 2014 at 03:21:43PM +0200, Andreas Tille wrote:
> > > Hi David,
> > >
> > > On Tue, Sep 16, 2014 at 05:07:21PM +0200, David Parsons wrote:
> > > > 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 ?
> > >
> > > Yes, for sure. It just needs to be expressed in debian/control
> > > accordingly. So please let us know to be sure and than upload a
> > > proper package.
> > >
> > > > Thanks for the input,
> > >
> > > You are welcome
> > >
> > > Andreas.
> > >
> > > >
> > > > 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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