[Bioperl-l] G.U.I for bioperl on XP and possibly Vista

Smithies, Russell Russell.Smithies at agresearch.co.nz
Mon Mar 22 16:23:50 EDT 2010

I guess it depends on how complex you need your GUI.  If you only need a few a few menus, input  fields, buttons, and are getting text or images as output then I'd stick to a simple web interface. You could tart it up a bit with Dojo or YUI libraries so it didn't look like every other webpage.
If you need something more complex, you could give TK a go but I'm not sure how good it is and it will look a bit dated.
If you're going to write the GUI in Swing, try Inline::Java and Java::Swing - take a look here: http://www.perlmonks.org/?node_id=372197 
It may be easier to call Perl from Java so take a look at PLJava http://search.cpan.org/~gmpassos/PLJava-0.04/README.pod

I haven't tried a Java GUI for Perl yet - we tend to use web interfaces for scripts that are going to get used by the "public" (i.e. scientists, not developers). We've found Mobyle http://bioweb2.pasteur.fr/projects/mobyle/  to be a nice way to get something up fairly quickly and it keep a consistent look to all our scripts.

Hope this helps,

Russell Smithies 

Bioinformatics Applications Developer 
T +64 3 489 9085 
E  russell.smithies at agresearch.co.nz 

Invermay  Research Centre 
Puddle Alley, 
New Zealand 
T  +64 3 489 3809   
F  +64 3 489 9174  

> -----Original Message-----
> From: bioperl-l-bounces at lists.open-bio.org [mailto:bioperl-l-
> bounces at lists.open-bio.org] On Behalf Of Charles Embry
> Sent: Tuesday, 23 March 2010 8:49 a.m.
> To: bioperl-l at lists.open-bio.org
> Subject: [Bioperl-l] G.U.I for bioperl on XP and possibly Vista
> I want to create a Gui that will use current bioperl modules(along with
> some
> I am writing). It will be on a windows machine that runs XP and maybe a
> laptop with Vista.(this is a project i am working on in Graduate school
> for
> a professor). It will be id'ing promoter types in eukaryote organisms and
> also do multiple alignments.
> What recommendations do yo suggest to use t develop this? A java
> application? If so how hard is it to get Java to use perl and bioperl
> modules? Another language? Is there a tool to directly develop a GUI for
> bioperl modules that does no use another language?
> I will need to tag certain sequences with user specified colors and such.
> Thanks for the help
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