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[Info-gcg] blastpgp error on UniProt

vadaner At gmail.com via info-gcg%40net.bio.net (by vadaner At gmail.com)
Mon Nov 20 04:27:43 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/<b>uniprot</b> -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/<b>swissprot</b> -o test.out

How can this problem be resolved?
Thanks.



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