loading DDBJ data into EMBOSS

Joerg Schaber Joerg.Schaber at uv.es
Tue Oct 8 15:58:11 UTC 2002


i have problems creating an EMBOSS database from a DDBJ flatfile (e.g. 
ftp://ftp.genome.ad.jp/pub/kegg/genomes/genes/Buchnera.ent) using 
'dbiflat -idformat gb'. I get a warning for all entries in the flatfile
'Warning: Duplicate ID skipped: '<null>' All hits will point to first ID 
found´ and I can not retrieve any sequence. I think dbiflat only 
recognizes the first entry.
When I download the corresponding fasta flatfile I have no problems 
creating an EMBOSS database using 'dbifasta'. However, I would like to 
use the original DDBJ flatfile because it includes more information.
Any idea what's the problem?



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