[Bioperl-guts-l] [Bug 2074] bioperl-ext: make test fails using io_lib v. 1.9 or higher

bugzilla-daemon at portal.open-bio.org bugzilla-daemon at portal.open-bio.org
Thu Jul 12 11:31:11 EDT 2007


http://bugzilla.open-bio.org/show_bug.cgi?id=2074





------- Comment #7 from cjfields at uiuc.edu  2007-07-12 11:31 EST -------
(In reply to comment #6)
> I've been playing around with the Bio::SeqIO::staden::read code, and there are
> a couple of other issues with it. I've recently upgraded my curl libraries,
> which for some reason, seems to be messing inline compilation of the io_lib
> code. (compiling the raw c code by itself doesn't add in any curl symbols,
> doing it via inline::C does). Several of the other problems mentioned in here
> seem to be also related to inline::C rather than the io_lib or the actuall code
> in the .pm file.
> 
> Based on this i propose that the staden::read package gets rewriten as a plain
> old h2xs style module, rather than a inline::C module. If people think that
> this would be a good idea, i'd be happy to do the work. This would also give an
> oppertunity to update the tests for bioperl-ext, to meet the standards now
> being used for the other components of bioperl, which i also don't mind taking
> a look at. This would also give an opertunity to fold in the enhancements i've
> already made (see bug 2329), asuming others are happy for that. 

That would be great!  Feel free to hack away; bioperl-ext needs some work, so
it's an open field.  

You can add code to this report as an attachment.  If you plan on continuing
maintenance of the ext XS modules we can discuss a dev account down the road
once initial changes are checked in.


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