[Bioperl-l] Bio::Species bug, was Species.t tests failing with bioperl-live

Chris Fields cjfields at illinois.edu
Tue Sep 23 21:23:25 EDT 2008


I'm reposting this in case it was lost (or forgotten).  I'll file it  
as a bug if it's not addressed fairly soonish, but I would consider  
this a serious blocker for a 1.6 release.  Any help would be   
appreciated.

The last commit to Bio::Species, which was an effort to fix a memory  
leak, has unfortunately broken Species.t tests.  The relevant commit  
used weaken(); my guess is something is being garbage collected way  
too early.  Any ideas?

chris

Begin forwarded message:

> From: Chris Fields <cjfields at illinois.edu>
> Date: September 18, 2008 7:15:03 AM CDT
> To: Chris Fields <cjfields at illinois.edu>
> Cc: BioPerl List <bioperl-l at lists.open-bio.org>
> Subject: Re: [Bioperl-l] Species.t tests failing with bioperl-live
>
>
> On Sep 18, 2008, at 7:07 AM, Chris Fields wrote:
>
>> I'm getting a couple of failed tests with
>
>
> Um, that was supposed to be:
>
> I'm getting a couple of failed tests with Species.t; I think these  
> are due to the last commit to Bio::Species:
>
> http://code.open-bio.org/svnweb/index.cgi/bioperl/revision/?rev=14793
>
> Tests pass after commenting out that line.
>
> chris
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