[Debian-med-packaging] Bug#880347: bug squashing target: Probably bowtie 1.2.1.1 issue (Was: Bug#880347: bioperl-run: FTBFS: Test failures)

[Alex Mestiashvili]

> ...
> #   Failed test 'bowtie success'
> #   at t/Bowtie.t line 188.
> #                   '# reads processed: 2000
> # # reads with at least one reported alignment: 2000 (100.00%)
> # # reads that failed to align: 0 (0.00%)
> # Reported 1000 paired-end alignments to 1 output stream(s)
> # '
> #     doesn't match '(?^:reads processed: 1000)'
> 
> #   Failed test 'bowtie success'
> #   at t/Bowtie.t line 195.
> #                   '# reads processed: 2000
> # # reads with at least one reported alignment: 2000 (100.00%)
> # # reads that failed to align: 0 (0.00%)
> # Reported 1000 paired-end alignments to 1 output stream(s)
> # '
> #     doesn't match '(?^:reads processed: 1000)'
> # Looks like you failed 2 tests of 61.
> t/Bowtie.t .....................
> ...
> 
> 
> I suspect that some change between bowtie 1.2.0 and bowtie 1.2.1.1 is
> responsible for the issue in bioperl-run.  I wonder whether tracking
> down this issue sounds interesting for somebody who knows (and uses)
> bowtie a bit.
> 
> Kind regards
> 
>        Andreas.
> 


Hi Andreas,

That's a trivial one, s/reads processed: 1000/reads processed: 2000/
I'll take care.

Best regards,
Alex