[Bioperl-l] Bio::Assembly::IO::bowtie circular dependency?

Robert Buels rmb32 at cornell.edu
Tue Feb 9 15:27:31 EST 2010

Bio::Assembly::IO::bowtie uses Bio::Tools::Run::Samtools, which is part 
of bioperl-run.  Doesn't that introduce a circular dependency between 
bioperl-live and bioperl-run?

Perhaps it should be split out into its own CPAN distribution that 
depends on both bioperl-run and bioperl-live?  Or maybe some way can be 
found for it to not use Bio::Tools::Run::Samtools?


Robert Buels
Bioinformatics Analyst, Sol Genomics Network
Boyce Thompson Institute for Plant Research
Tower Rd
Ithaca, NY  14853
Tel: 503-889-8539
rmb32 at cornell.edu

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