[Bioperl-l] Circular dependency?

Chris Fields cjfields at uiuc.edu
Mon Sep 25 10:46:08 EDT 2006


I never saw it cause issues when installing under Mac OS X or Windows (using
nmake, not PPM).  I know that Bio::ASN1::EntrezGene is one of the modules
tested for when 'perl Makefile.PL' is run, but I'm not sure it is required.


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


> -----Original Message-----
> From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-
> bounces at lists.open-bio.org] On Behalf Of Nathan Haigh
> Sent: Monday, September 25, 2006 9:36 AM
> To: Bioperl-l at lists.open-bio.org
> Subject: [Bioperl-l] Circular dependency?
> 
> I've just come across this circular dependency:
> 
> Bioperl optionally requires Bio::ASN1::EntrezGene
> and Bio::ASN1::EntrezGene::Indexer requires Bio::Index::AbstractSeq
> 
> I don't know much about circular dependencies so thought I'd post it to
> the list, could this be a problem at all?
> 
> I'm generating PPD files, so this would cause a circular dependency.
> Therefore, I excluded Bio::Index::AbstractSeq as a dependency for the
> Bio::ASN1::EntrezGene PPD.
> 
> Cheers,
> Nathan
> 
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