[EMBOSS] dbiflat problem on TRU64
Vito Flavio Licciulli
flavio.licciulli at ba.itb.cnr.it
Fri Feb 6 11:15:08 UTC 2004
I have a problem with dat database entries indexing with dbiflat. Sometimes
the found entries are different from searched entries .
When I run for example:
$>seqret embl:u18650
Reads and writes (returns) sequences
Output sequence [rg9401257.fasta]:
$>more rg9401257.fasta
RG9401257 AJ401257.1 Rotavirus G9 partial VP7 gene for outer capside glycoprote
in, strain G9P[8], isolate 414/98
attatggaattaaatttaccgatcactggctccatggatacagcatatgcaaattcatca....
The search entry (u18650) comes from ROD division while the entry found
comes from VRL division.
This is the embl definition in emboss.defaults:
DB embl [ type: N method: emblcd
format: embl dir: $emboss_db_embl indexdir:
$emboss_db_embl/INDEX
exclude: *.dat file: *.dat comment: "EMBL sequences"]
I found the same problem in SWISSPROT too.
We have a Compaq TRU64Unix 5.1a, is something related to the dbiflat for
this OS (sort problem,....) ? or what else?
Regards
Flavio Licciulli
Vito Flavio Licciulli e-mail:
flavio.licciulli at ba.itb.cnr.it
System & Database Administrator
Italian EMBnet Node
C.N.R. - ITB Sez.di BARI Phone (39) 080-5482100/30
Via Amendola 168/5 BARI ITALY Fax (39) 080-5482607
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