[Bioperl-pipeline] Re: altering the genomic_sequence_annotation.xml
file
Shawn Hoon
shawnh at fugu-sg.org
Wed Mar 12 09:12:15 EST 2003
Hi Andy,
<db> refers to the logic name of your database like swissprot or nr etc
<db_file> is the actually path used to locate your database
/data/swiss.fa
and is the one actually used by the blast analysis.
shawn
On Tuesday, March 11, 2003, at 01:31 AM, Andy Nunberg wrote:
> Hi,
> I am setting up the bioperl-pipeline here at Orion. Unfortunately I
> dont
> have any experience with XML, but i understand the very very basics
> (tags etc).
>
> I want to alter the genomic_sequence_annotation.xml file since I have
> set
> up an Ensembl db with two test contigs in it(not the ones in your
> example).
> I noticed in the blast section there is the <db> tag and the <db_file>
> tag
> what is the difference between the two?
>
> In the example i have downloaded the <db> tag changes for each
> different
> blast, but the <db_file> stays the same.
>
>
> *******************************************************************
> Andy Nunberg, Ph.D
> Computational Biologist
> Orion Genomics, LLC
> (314) 615-6989
> http://www.oriongenomics.com
>
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