[Jalview-discuss] Find command
jprocter at compbio.dundee.ac.uk
Thu Jan 3 10:45:56 GMT 2013
Hello Mark. Hope you had a good Christmas - despite your problems with
Jalview's find dialog !
On 25/12/2012 18:45, Mark Saper wrote:
> I think in previous versions the Find command would also search sequence IDs and descriptions.
It actually only searches IDs. I've added a note on an existing
improvement request about searching descriptions
(http://issues.jalview.org/browse/JAL-347). This is the kind of feature
that could be worked on during the Jalview hackathon
> It doesn't in the latest 2.8. Could that be added back?
The find command functionality hasn't been changed in 2.8, but you may
have had an active selection, in which case, Jalview will only search
the currently selected range of sequence characters and IDs. Send me an
example file if you're experiencing this problem without an active
selection, and I'll see what I can do.
> You could have some options in Find for where to look. I have >200 sequences in my file and I want to find those correspoinding to one species.
Options are an excellent idea, and somewhat inevitable. In addition to
the description line, there are lots of other annotation and I'd like to
have better support for species labelling in particular - Jalview
doesn't do anything special with taxonomic terms (names or NCBI ids)
currently, and there's lots of room for improvement. I just did some
housekeeping on the issue tracker to collect some of the relevant
bugs/feature requests together (see here:
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