[BioSQL-l] load_ncbi_taxonomy.pl

[Marc Logghe]

Hi Gurb,
It is a pretty old script that can be found in the biosql-schema
repository.
http://cvs.bioperl.org/cgi-bin/viewcvs/viewcvs.cgi/biosql-schema/scripts
/?cvsroot=bioperl

Good luck !
Cheers,
ML



Marc Logghe, PhD
Expert Scientist Bioinformatics
deVGen NV
Technologiepark 30
B - 9052 Ghent-Zwijnaarde
Tel. +32 9 324 24 83 
Fax. +32 9 324 24 25 
Web: www.devgen.com

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> -----Original Message-----
> From: biosql-l-bounces at lists.open-bio.org 
> [mailto:biosql-l-bounces at lists.open-bio.org] On Behalf Of 
> Gerben Menschaert
> Sent: Monday, April 24, 2006 4:53 PM
> To: biosql-l at lists.open-bio.org
> Subject: [BioSQL-l] load_ncbi_taxonomy.pl
> 
> Hello,
> 
> In the bioperl-db INSTALL file I saw that it's necessary to 
> preload the ncbi
> taxonomy:
> 
> ####################################################
> LOAD THE NCBI TAXONOMY
> You should pre-load the NCBI taxonomy database using the 
> scripts/load_ncbi_taxonomy.pl script in the BioSQL package.
> Otherwise you will see errors from mis-parsed organisms when 
> you attempt to load sequences.
> ####################################################
> 
> I cannot find this load_ncbi_taxonomy.pl script. Is this 
> (parsing the organism info correctly) taken care of in the 
> load_seqdatabase.pl script now?
> 
> Regs,
> Gerben Menschaert
> 
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