[Bioperl-l] module for unflattening GenBank/EMBL/DDBJ records

[Chris Mungall]

Yes, it is committed

Bio::SeqFeature::Tools::Unflattener

cheers
Chris

On Tue, 15 Jul 2003, Peili Zhang wrote:

> Hi Chris,
>
> have you commited your unflattener to bioperl? what namespace do you decide to
> use?
>
> thanks,
> Peili
>
> >Date: Wed, 18 Jun 2003 09:37:22 -0700 (PDT)
> >From: Chris Mungall <cjm at fruitfly.org>
> >X-X-Sender: <cjm at sos.lbl.gov>
> >To: Ewan Birney <birney at ebi.ac.uk>
> >Cc: <bioperl-l at bioperl.org>, David Emmert <emmert at morgan.harvard.edu>, Peili
> Zhang <peili at morgan.harvard.edu>
> >Subject: Re: [Bioperl-l] module for unflattening GenBank/EMBL/DDBJ records
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> >
> >On Wed, 18 Jun 2003, Ewan Birney wrote:
> >
> >>
> >>
> >> On Tue, 17 Jun 2003, Chris Mungall wrote:
> >>
> >> >
> >> > I have a module (and corresponding .t test) ready to commit to bioperl.
> >> > I'm including the pod docs below.
> >> >
> >> > It is called Bio::Tools::GenBankCollector - is this the correct namespace?
> >> > good name?
> >>
> >> Bio::Tools::GenBankFeatureCollector ???
> >
> >now's the time for a name change if required
> >
> >the idea is that it 'collects' features together, into groups then
> >hierarchies.
> >
> >perhaps 'GenBank' should be removed form the name; though i think the
> >primary use will be GenBank/EMBL/DDBJ sourced data
> >
> >Bio::Tools::Unflattener
> >Bio::Tools::HierarchyBuilder
> >Bio::Tools::NestedFeatureBuilder
> >
> >?
> >
> >> >
> >> > Should I commit this? Main trunk or branch?
> >> >
> >>
> >> Main trunk.
> >
> >ok
> >
> >> > What is an acceptable size for a t/data file? Is ~400kb fine? Presumably I
> >> > should do a "cvs add -kb" (it is a genbank record).
> >> >
> >>
> >> Fine.
> >
> >ok
>
>