[Bioperl-l] Tracking database dates in BLAST

[Brian Osborne]

Andy,

> I was wondering if anyone has added a method that allows to capture the
> date a database is created in Bio::SearchIO::blast ?

No, I don't think so, see http://www.bioperl.org/HOWTOs/html/SearchIO.html
for a list of available methods. This HOWTO also discusses the event-based
parsing that Jason and Steve use in SearchIO, perhaps you could figure out
how to capture this string. Check out SearchIO/blast.pm, you will see how
the event-based approach ties in with the actual work done with the regular
expressions.

Brian O.



-----Original Message-----
From: bioperl-l-bounces at bioperl.org [mailto:bioperl-l-bounces at bioperl.org]On
Behalf Of Andy Nunberg
Sent: Wednesday, March 19, 2003 11:33 AM
To: Bioperl-l at bioperl.org
Subject: [Bioperl-l] Tracking database dates in BLAST

Hi,
I was wondering if anyone has added a method that allows to capture the
date a database is created in Bio::SearchIO::blast ?

I am interested in tracking this information.  I have looked at the
Bio::SearchIO::blast->next_result to see how the parsing is done, but I am
not clear on how to use the methods in it (eg. start_document, element
etc..) or if this is even necessary to use them to do what I want to
accomplish.

Andy
*******************************************************************
Andy Nunberg, Ph.D
Computational Biologist
Orion Genomics, LLC
(314) 615-6989
http://www.oriongenomics.com

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