arunanirudhan at yahoo.co.in
Tue Apr 29 07:26:22 UTC 2003
Thank you very much for your valuable suggestion. I
have one problem now.
seqret embl:L07770 is giving result from embl website.
But is there a way to search embl site via a command
This is giving an error message
Die seqret terminated: Bad value for option [sequence]
and no prompt.
--- Peter Rice <pmr at ebi.ac.uk> wrote: > Koen van der
> > I want to try out some EMBOSS programs that use
> database searching. From
> > the docs it's not clear to me if and how I can
> search an online
> > database. My diskspace is limited, so I can't
> download a complete
> > database to my HD.
> You can point the database definitions to a remote
> SRS server
> (srs.ebi.ac.uk usually) using access method SRSWWW
> For example:
> DB genbank [ type: N
> method: srswww format: genbank release: NCBI
> comment: "Genbank from NCBI"
> DB embl [ type: N
> method: srswww format: embl release: EBI
> comment: "EMBL from EBI"
> > Or maybe there is some small database available
> somwhere that I can use?
> Yes ... there are databases defined in
> emboss.default.template with
> names tembl, tsw, and so on. These are small subsets
> of EMBL, SwissProt,
> etc. that we use for testing. The general principle
> is that any sequence
> used in the program documentation should appear
> You can uncomment them, and set the value of
> emboss_tempdata to point to
> the share/EMBOSS/test directory where EMBOSS is
> installed (or the test
> directory in the source tree).
> Hope this helps,
> Peter Rice
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