[BioRuby] Failure: test_output_fasta(Bio::FuncTestSequenceOutputEMBL)

[Pjotr Prins]

I also tried BioRuby on Travis-ci. It fails on all platforms:

  http://travis-ci.org/#!/pjotrp/bioruby

mostly due to libxml. Peter, if you no one picks it up, I may have a
go on one of my 64-bit machines.

Pj.

On Mon, Apr 16, 2012 at 12:17:05PM +0100, Peter Cock wrote:
> On Mon, Feb 27, 2012 at 12:41 PM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
> > On Fri, Nov 25, 2011 at 2:32 PM, Peter Cock <p.j.a.cock at googlemail.com> wrote:
> >> Hello all,
> >>
> >> There seems to have been a new test failure or regression in Linux 64 Ruby 1.9,
> >>
> >> Revision 48bd150a6180d59879872bd85dd95c7ddf1a19c0 passed,
> >> http://testing.open-bio.org/bioruby/builders/Linux%2064%20-%20Ruby%201.9/builds/22/steps/test/logs/stdio
> >> commit 48bd150a6180d59879872bd85dd95c7ddf1a19c0
> >> Author: Naohisa Goto <ng at bioruby.org>
> >> Date:   Tue Nov 22 17:32:23 2011 +0900
> >> Test bug fix: fixed incomplete Windows platform detection.
> >> https://github.com/bioruby/bioruby/commit/48bd150a6180d59879872bd85dd95c7ddf1a19c0
> >>
> >> Revision 688779e71a27e861fb01e07f816384561b8cfe45 failed,
> >> http://testing.open-bio.org/bioruby/builders/Linux%2064%20-%20Ruby%201.9/builds/23/steps/test/logs/stdio
> >> commit 688779e71a27e861fb01e07f816384561b8cfe45
> >> Author: Naohisa Goto <ng at bioruby.org>
> >> Date:   Thu Nov 24 11:49:30 2011 +0900
> >> Rakefile: new tasks: test-all to run all tests, etc.
> >> https://github.com/bioruby/bioruby/commit/688779e71a27e861fb01e07f816384561b8cfe45
> >>
> >>  1) Failure:
> >> test_output_fasta(Bio::FuncTestSequenceOutputEMBL)
> >> [/home/buildslave/BuildBot_BioRuby/lin1964/build/test/functional/bio/sequence/test_output_embl.rb:47]:
> >> Exception raised:
> >> <#<ArgumentError: wrong number of arguments (1 for 0)>>.
> >>
> >> I hope that helps and that someone can reproduce the failure locally.
> >> If need be I can try to bisect the failure here.
> >
> > This issue doesn't happen on two other Ruby 1.9.3 machines
> > (under Windows XP 32 bit, and a 32 bit Linux Machine).
> >
> > Can anyone else reproduce this, or might it be a problem
> > specific to my 64 bit Linux machine?
> >
> > Peter
> 
> This is still continuing to fail on the nightly tests. If no one else
> can reproduce it, do you have any suggestions for how I can
> help you identify the problem?
> 
> Regards,
> 
> Peter
> 
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