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

[Peili Zhang]

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