[Debian-med-packaging] Bug#915460: staden-io-lib FTBFS on armel: scramble: cram_codecs.c:1441: cram_huffman_encode_init: Assertion `hi->data.i > 0' failed.

[Andreas Tille]

Hi James,

I think I have applied all patches you mentioned which is quite an
enhancement for several architectures as the build log overview shows:

  https://buildd.debian.org/status/package.php?p=staden-io-lib&suite=sid

Unfortunately the release architectures armhf and mips have remaining
issues.  It would be great if these could be fixed as well.  May be its
the same issue as for the other failing architectures?

Kind regards

        Andreas.

On Fri, Dec 07, 2018 at 05:32:52PM +0000, James Bonfield wrote:
> On Fri, Dec 07, 2018 at 06:16:43PM +0100, Andreas Tille wrote:
> > Full build log of Debian package attached.
> 
> Thanks.
> 
> Can you try adding serial-tests to the AM_INIT_AUTOMAKE macro in
> configure.in?  Ie:
> 
> AM_INIT_AUTOMAKE([serial-tests])
> 
> > ../progs/scramble -t4 -H -r ./data/ce.fa test.out/ce#sorted.full.cram
> > No region:               1024176
> 
> I suspect this is because ce#sorted.sam is an autogenerated file and
> the parallel test harness ends up running two copies of
> generate_data.pl to create the test files, both appending to the same
> file.  The above test is checking that region queries return the
> correct number of records, but the file is larger than expected.
> 
> I already have this fixed in another commit, although sadly not a pure
> one containing only this change.
> 
> I'm drawing to a finish, or at least a suitable tagging point, on my
> updates elsewhere in io_lib.  So given the number of bugs fixed
> recently I may consider doing a new release which would simplify
> things at your end I'm sure.
> 
> If you wanted to test it, then trying the current head of the master
> branch would be useful.
> 
> James
> 
> -- 
> James Bonfield (jkb at sanger.ac.uk)
> The Sanger Institute, Hinxton, Cambs, CB10 1SA
> 
> 
> -- 
>  The Wellcome Sanger Institute is operated by Genome Research 
>  Limited, a charity registered in England with number 1021457 and a 
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> 

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