getz in SRS5

Peter Rice pmr at sanger.ac.uk
Fri Jun 6 07:19:21 EST 1997


John Peden <johnp at molbiol.ox.ac.uk> writes:
> My problem with srs5 is because the syntax of getz has radically
> changed; there are 100's of scripts that will break when we migrate.
> 
> Has anyone started to or considered writing a wrapper for getz to
> convert srs4 syntax to srs5?
> 
> Is there a general interest in such a wrapper?
> 
> One more question : how do you retrieve the annotation part of an entry
> using SRS5 getz?

All on my wish list too.

At the Sanger Centre I suspect we will have to keep SRS4 running for
some of our scripts for a while, though there are so many nice ways to
reformat the output in SRS 5 that it should be possible to move many
of them without too much effort.

certainly the old "-t" and "-d" would be very welcome.
So too would the return of the entryname report.

Changing "-f def" to "-f des" is another difference that hits our scripts.
There are plenty more.

But overall, SRS 5 is *so* much nicer. Especially for cross-referencing
queries and for customising the database parsing.

-- 
----------------------------------------------------------------------
Peter Rice                | Informatics Division, The Sanger Centre,
E-mail: pmr at sanger.ac.uk  | Wellcome Trust Genome Campus,
Tel: (44) 1223 494967     | Hinxton, Cambridge, CB10 1SA, England
Fax: (44) 1223 494919     | URL: http://www.sanger.ac.uk/Users/pmr/




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