[Bioperl-l] RE: [Gmod-gbrowse] Some minor bugs/observations

[Marc Logghe]

sorry folks,
chose the wrong list ;-)

> -----Original Message-----
> From: Marc Logghe [mailto:Marc.Logghe at devgen.com]
> Sent: Monday, March 24, 2003 10:09 PM
> To: 'korineu at sfu.ca'
> Cc: Bioperl (E-mail)
> Subject: [Bioperl-l] RE: [Gmod-gbrowse] Some minor bugs/observations
> 
> 
> Hi Korine,
> I'd like to address at least one issue
> 
> > 
> > 1) The "Dump Sequence" plug-in doesn't work for EMBL and 
> > BSML(XML) formats.
> The EMBL output is broke because a primary_seq method is 
> missing. My most
> recent BatchDumper.pm revision contains the following stab:
>     # this one is necessary to make EMBL output work
>     local *Bio::DB::GFF::Segment::primary_seq = sub {
>         my $self = shift;
>     };
> I did not check BSML output, however. Be sure to have the 
> necessary non
> Bioperl modules to enable that (XML::Parser)
> 
> > 2) Entering a sequence range in reverse order gives wonky results.
> > 3) Entering out-of-range sequence numbers doesn't give an 
> > error message (it
> > would be nice if it did)
> > 4) The track labels for remote annotations don't show up if 
> > they're not in
> > the current display range (it would be nice if they did)
> > 5) Navigation using browser buttons can get a little 
> > frustrating. Is there
> > any way to put some navigation buttons on the mainpage?
> > 
> > 
> _______________________________________________
> Bioperl-l mailing list
> Bioperl-l at bioperl.org
> http://bioperl.org/mailman/listinfo/bioperl-l
>