DBIBLAST error when creating blast database
Marcus Claesson
marcus at chah.ucc.ie
Mon Dec 2 15:45:53 UTC 2002
> Your wildcard filename fails to find any files.
> If you still had the ecoli.aa fasta file (the one formatdb was used on)
> this would work - the wildcard filename check finds that file and then
> tries the formatdb index extensions.
>
> You should specify ecoli.aa.* (in quotes if on the command line because of
> the '*')
>
Tried it, but it will still not fully work.
Looks like this now:
[marcus at nsfm39 db]$ ls -l ecoli.aa.*
-rw------- 1 marcus marcus 1774183 Dec 2 14:15 ecoli.aa.fasta
-rw-rw-r-- 1 marcus marcus 563415 Nov 11 17:08 ecoli.aa.phr
-rw-rw-r-- 1 marcus marcus 34376 Nov 11 17:08 ecoli.aa.pin
-rw-rw-r-- 1 marcus marcus 34312 Nov 11 17:08 ecoli.aa.pnd
-rw-rw-r-- 1 marcus marcus 180 Nov 11 17:08 ecoli.aa.pni
-rw-rw-r-- 1 marcus marcus 354726 Nov 11 17:08 ecoli.aa.psd
-rw-rw-r-- 1 marcus marcus 8287 Nov 11 17:08 ecoli.aa.psi
-rw-rw-r-- 1 marcus marcus 1363280 Nov 11 17:08 ecoli.aa.psq
[marcus at nsfm39 db]$ dbiblast
Index a BLAST database
Database name: ecoli.aa
Database directory [.]:
Wildcard database filename [ecoli.aa]: ecoli.aa.*
Release number [0.0]:
Index date [00/00/00]:
N : nucleic
P : protein
? : unknown
Sequence type [unknown]: P
1 : wublast and setdb/pressdb
2 : formatdb
0 : unknown
Blast index version [unknown]:2
Warning: Duplicate ID skipped: '0?0???7(AE000312)' All hits will point to
first ID found
Warning: Duplicate ID skipped: '0?0???7(AE000312)' All hits will point to
first ID found
Warning: Duplicate ID skipped: '0?0???7(AE000312)' All hits will point to
first ID found
Warning: Duplicate ID skipped: '0?0???7(AE000312)' All hits will point to
first ID found
Warning: Duplicate ID skipped: '0?0???7(AE000314)' All hits will point to
first ID found
..
..
..
and so on...
Am I almost there?
Regards
Marcus
More information about the EMBOSS
mailing list