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

[Naohisa GOTO]

Hi Peter,

This may be caused by the order of reading files by using
"require" and "autoload", and may be affected by the file
order in the directory entry of the file system.

I think to avoid cyclic require may solve the problem,
and I'll try something later.

Thanks,

Naohisa Goto
ngoto at gen-info.osaka-u.ac.jp / ng at bioruby.org

On Mon, 16 Apr 2012 12:17:05 +0100
Peter Cock <p.j.a.cock at googlemail.com> 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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