[EMBOSS] seqret: warnings with refseq format
pmr at ebi.ac.uk
Tue Oct 7 10:44:56 UTC 2008
Oliver Wafzig wrote:
> Using the following command to convert a 'RefSeq' protein file to fasta,
> I get a lot of warnings about "bad Genbank LOCUS line".
> seqret -nofeature -sequence rsnc.0312.2008.gpff -nofirstonly
> -outseq fasta::stdout
> I tested it with version 5.0.0 and the current stable 6.0.1 emboss
> Is that a known issue?
Thanks for pointing it out. It is some time since I looked at refseq and
nobody has reported this one.
We define refseq as using GenBank format. We need to make a separate
Refseq parser (copy the GenBank one and fix the messages). Not hard to do.
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