[Computational-biology] blastpgp error on UniProt

Lifeguard via comp-bio%40net.bio.net (by lifeguard At tauex.tau.ac.il)
Mon Nov 20 04:24:09 EST 2006


Hello,
While running blastpgp on a newly downloaded UniProt database we get the
following error:

$ /usr/users/gcg/linuxbin/gcgbin/pub/gcg_blastpgp -i pdb1a9x.seq -d
/blastdb/Proteins.new/uniprot -o test.out
[gcg_blastpgp] WARNING: Could not find index files for database
/blastdb/Proteins.new/trembl.101
[gcg_blastpgp] WARNING: Could not find index files for database
/blastdb/Proteins.new/trembl.102
...
[gcg_blastpgp] WARNING:  [000.000]  Could not find index files for database
/blastdb/Proteins.new/trembl.101
[gcg_blastpgp] WARNING:  [000.000]  Could not find index files for database
/blastdb/Proteins.new/trembl.102
...
[gcg_blastpgp] ERROR: ncbiapi [000.000]  SeqPortNew: lcl|20956 stop(379) >=
len(117)
[gcg_blastpgp] ERROR: ncbiapi [000.000]  SeqPortNew: lcl|20956 stop(120) >=
len(117)
...
Running the same comand with swissprot works ok:
$ /usr/users/gcg/linuxbin/gcgbin/pub/gcg_blastpgp -i pdb1a9x.seq -d
/blastdb/Proteins.new/swissprot -o test.out

How can this problem be resolved?
Thanks.
-- 
View this message in context: http://www.nabble.com/blastpgp-error-on-UniProt-tf2667820.html#a7439392
Sent from the Bio.net - Comp-bio mailing list archive at Nabble.com.



More information about the Comp-bio mailing list