Re: Fwd: [Debian-med-packaging] htsjdk is marked for autoremoval from testing

2017-10-31 Thread Andreas Tille
On Tue, Oct 31, 2017 at 03:04:35PM +0100, Olivier Sallou wrote: > htsjdk and other dependent packages are marked for removal. > > > The patch I uploaded recently (in git repo) fixed the testng issue, but > I did not tested the package itself and I had to disable tests to get > package done. > >

Re: RFS: simpleitk/1.0.1-1 [ITP]

2017-10-31 Thread Andreas Tille
Could someone please sponcor Ghislain's packages since I can't currently? On Tue, Oct 31, 2017 at 07:04:25PM +, Ghislain Vaillant wrote: > Hi all, > > Could someone from the team sponsor the initial upload for simpleitk [1]. > Perhaps Gert (cc'd), since he is also involved with packaging ITK?

Re: [Debian-med-packaging] Bug#880258: picard-tools: FTBFS: CollectRrbsMetricsTest.java:29: error: package org.testng does not exist

2017-10-31 Thread Andreas Tille
On Tue, Oct 31, 2017 at 06:03:41PM +0100, Olivier Sallou wrote: > htsjdk and picard-tools test issues are gradle related. > After some deeper tests and discussions with debian-java team, it > appears the errors faced in testing (after the patches I proposed on > testng) are related to the gradle ve

RFS: simpleitk/1.0.1-1 [ITP]

2017-10-31 Thread Ghislain Vaillant
Hi all, Could someone from the team sponsor the initial upload for simpleitk [1]. Perhaps Gert (cc'd), since he is also involved with packaging ITK? [1] https://anonscm.debian.org/cgit/debian-med/simpleitk.git Cheers, Ghis

Re: [Debian-med-packaging] Bug#880258: picard-tools: FTBFS: CollectRrbsMetricsTest.java:29: error: package org.testng does not exist

2017-10-31 Thread Olivier Sallou
htsjdk and picard-tools test issues are gradle related. After some deeper tests and discussions with debian-java team, it appears the errors faced in testing (after the patches I proposed on testng) are related to the gradle version on debian. Someone in java team should upgrade to an upper release

Re: [Debian-med-packaging] Bug#880258: Bug#880258: picard-tools: FTBFS: CollectRrbsMetricsTest.java:29: error: package org.testng does not exist

2017-10-31 Thread Olivier Sallou
On 10/31/2017 03:05 PM, Olivier Sallou wrote: > testng maven definition needs to be modified in build.graddle to match > testng debian pom. > > Following patch fix the compilation for tests: > > --- a/build.gradle > +++ b/build.gradle > @@ -32,7 +32,7 @@ > compile 'com.github.samtools:htsjdk

Re: [Debian-med-packaging] Bug#880258: picard-tools: FTBFS: CollectRrbsMetricsTest.java:29: error: package org.testng does not exist

2017-10-31 Thread Olivier Sallou
testng maven definition needs to be modified in build.graddle to match testng debian pom. Following patch fix the compilation for tests: --- a/build.gradle +++ b/build.gradle @@ -32,7 +32,7 @@ compile 'com.github.samtools:htsjdk:' + htsjdkVersion //tools dependency for doclet requires s

Fwd: [Debian-med-packaging] htsjdk is marked for autoremoval from testing

2017-10-31 Thread Olivier Sallou
htsjdk and other dependent packages are marked for removal. The patch I uploaded recently (in git repo) fixed the testng issue, but I did not tested the package itself and I had to disable tests to get package done. The patch indeed fix compilation issues, but introduce gradle testing issues. T

RFS: dcm2niix/1.0.20171017-1

2017-10-31 Thread Ghislain Vaillant
Hi everyone, Could someone from the team sponsor the latest update to dcm2niix [1]. [1] https://anonscm.debian.org/cgit/debian-med/dcm2niix.git Cheers, Ghis