[Biopython-dev] [Wg-phyloinformatics] GSoC Weekly Update: PhyloXML for Biopython
Peter
biopython at maubp.freeserve.co.uk
Mon Jun 22 11:29:50 UTC 2009
On Thu, Jun 18, 2009 at 12:17 AM, Eric Talevich <eric.talevich at gmail.com> wrote:
>
> Hi Brad,
>
> Here's a mid-week update and partial response to your questions.
>
> *SeqRecord transformation*
>
I was just having a very brief scan over the commits that my RSS
feed had - and noticed this bit:
+ # Unpack record.features
+ if record.features:
+ kwargs['domain_architecture'] = DomainArchitecture(
+ domains=[ProteinDomain({
+ 'from': feat.location.start + 1,
+ 'to': feat.location.end + 1,
+ 'confidence': feat.qualifiers.get('confidence')
+ }, value=feat.id)
+ for feat in record.features],
+ length=len(record.seq)
+ )
I can understand a +/- one to the start location (moving between
Python zero based counting and normal one based counts), but
why would the end location also change?
Peter
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