[Bioperl-l] [ANNOUNCEMENT] BioPerl 1.6 release agenda
hlapp at gmx.net
Thu Nov 27 12:20:47 EST 2008
Looks like a great structure!
(Sorry I can't help much at this time, so I'm resigning myself to
cheering from the sidelines :)
On Nov 27, 2008, at 12:05 PM, Dave Messina wrote:
> Chris et al,
> A few quick notes on the SeqIO test reorg I just committed:
> - each SeqIO driver now has its own .t file.
> - six modules have all tests skipped (except for use_ok) because
> there isn't
> a sample input file against which to test. Those are:
> - where possible, I renamed the sample file in data/ to be
> (e.g. test.fasta, test.embl). There were several already named this
> way, and
> future refactoring will benefit from the consistency.
> - a few of the modules throw off some warnings (which don't cause
> any test
> An example is Bio::Location::Fuzzy, called by Bio::SeqIO::genbank,
> complaining about not finding valid fuzzy encodings.
> The modules throwing warnings are:
> SeqIO::genbank (really Location::Fuzzy)
> I don't think it's serious.
> - I opted to organize all of the .t in a subdirectory, SeqIO. So it's
> Chris, I know you've been doing SearchIO_blast.t.
> I propose this alternative, hierarchical structure so that the t/
> would be more manageable, but I will happily rename the SeqIO test
> files to
> conform to your standard if you prefer.
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: Hilmar Lapp -:- Durham, NC -:- hlapp at gmx dot net :
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