[Bioperl-l] Whither Bio::FeatureIO?

[Fields, Christopher J]

It’s been moved to a separate github distribution, namely Bio-FeatureIO, but it was also being largely rewritten as the original implementation was never completed.  We can probably set up a branch with the relevant version of the code that should work with the script.

Scott, is this the recommended way of loading Chado data in still?  Do we need a working version of Bio::FeatureIO on CPAN so it’s available?  For some reason I thought users started going with Bio::Chado::Schema...

chris

On Jul 17, 2014, at 12:23 PM, George Hartzell <hartzell at alerce.com> wrote:

> I'm following instructions on the GMOD site to install the Chado schema and related tools.
> 
> I used cpanm to install BioPerl, which gives me the current version.
> 
> Various Chado-related tools, e.g. load/bin/gmod_bulk_load_gff3, require Bio::FeatureIO, which is no longer in the BioPerl distribution.
> 
> I've found a GitHub repo for it, but I can't find any sign of it on CPAN.
> 
> Has it ever been released?
> 
> Thanks.
> 
> g.
> 
> Sent from a device that makes me type with two fingers.
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