[Bioperl-l] perl 5.10 released

[Chris Fields]

Just updated from CVS and reran tests, Spidey.t is failing now.  This  
may be from a recent commit:

http://lists.open-bio.org/pipermail/bioperl-guts-l/2007-December/026854.html

I'm updating the following page on the wiki for tracking.  There are a  
few more we should look into at some point:

http://www.bioperl.org/w/index.php?title=Bioperl_and_Perl_5.10

chris

On Dec 19, 2007, at 11:49 AM, Dave Messina wrote:

>>
>> XML::Parser used to be shipped with a number of perl distros even
>> though it isn't core.  We should add a require to these.
>
>
> Agreed.
>
>
>> - RNA_SearchIO fails a few tests.
>>
>> These are very likely from recent commits I made re:GenericHSP and  
>> use
>> of bits(), raw_score(), etc. (the fails look like missing/switched
>> vals with these method tests).  I'll fix these post-svn migration,  
>> but
>> I don't think these are related to 5.10.
>
>
> Agreed -- I doubt this is 5.10-specific.
>
>
>> - Bio::Ontology::SimpleGOEngine::GraphAdaptor throws an exception
>>> because Graph::Directed isn't installed.
>>
>> Odd, that should be caught out before tests are run.  Needs to be
>> fixed, but one would think this would fail as well under 5.8.
>
>
> Yep, and in a minute here I'll test it under 5.8.
>
>
>
>
>>> - Spidey fails one test.
>>
>> Passes for me.  Is it dependency-related?
>
>
> I don't think so, but I guess we'll see once I finish installing the
> dependencies. Here's what I got:
>
> t/Spidey........................ok 1/26 Can't call method  
> "sub_SeqFeature"
> on an undefined value at t/Spidey.t line 24, <GEN1> line 170.
> # Looks like you planned 26 tests but only ran 3.
> # Looks like your test died just after 3.
> t/Spidey........................dubious
>
>        Test returned status 255 (wstat 65280, 0xff00)
> DIED. FAILED tests 4-26
>        Failed 23/26 tests, 11.54% okay
>
>
> Dave
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/bioperl-l

Christopher Fields
Postdoctoral Researcher
Lab of Dr. Robert Switzer
Dept of Biochemistry
University of Illinois Urbana-Champaign