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

[Lincoln Stein]

Actually I refer to "aggregators" and "disaggregators".  How about "fluffer" 
and "flattener"?

Lincoln


On Wednesday 18 June 2003 12:45 pm, Jason Stajich wrote:
> I personally prefer a little grouping here as Bio::Tools is
> already way too much of a grabbag in its current disorganized
> state.
>
> Lincoln uses 'aggregator' as his descriptor for this type of thing - is it
> appropriate here?
>
>
> Although it definitely becomes a mouthful something like
> Bio::Tools::FeatureAggregator::Unflattener
>
> I guess that aggregator only implies one direction of collecting things...
> hmmm
>
>
> -j
>
> On Wed, 18 Jun 2003, Chris Mungall wrote:
> > 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
> >
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l at portal.open-bio.org
> > http://portal.open-bio.org/mailman/listinfo/bioperl-l

-- 
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Lincoln D. Stein                           Cold Spring Harbor Laboratory
lstein at cshl.org			                  Cold Spring Harbor, NY
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