On Tue, Sep 15, 2020 at 10:09:10AM +0200, olivier sallou wrote: > On Sun, 2020-09-13 at 21:37 +0200, Pierre Gruet wrote: > > > > - the test > > htsjdk.samtools.SAMSequenceDictionaryTest.testMergeDictionaries[7] > > outputs an error, but it's OK because it is expected to raise an > > Exception; > > > > - the test > > htsjdk.samtools.CRAMReferencelessTest.testReadCRAMWithEmbeddedReferen > > ce > > outputs several messages like > > > > Ignoring SAM validation error: ERROR::INVALID_ALIGNMENT_START:Read > > this test and the other one shows "Ignoring SAM validation error" so I > guess it is ok....
But the exit code is "fail" anyway. What exactly is your suggestion to do? Kind regards Andreas. -- http://fam-tille.de