[Bioperl-l] method naming

Mauricio Herrera Cuadra arareko at campus.iztacala.unam.mx
Wed Jun 13 22:03:34 UTC 2007

By the time of the 1.5.2 release, I jumped onto the idea of creating a 
BioPerl template for Komodo. Chris F handed me one he had already made 
but in the end I didn't had enough spare time to get into it. If someone 
wants to give it a try please let ChrisF/me know.


Steve Chervitz wrote:
> On 6/13/07, Hilmar Lapp <hlapp at gmx.net> wrote:
>> We set a convention a while back on how to name these. It is
>> implemented in the bioperl.lisp file (too bad no one is using emacs
>> any more these days - it's a great editor),
> As a staunch xemacs-ophile I couldn't let that one slip by. Maybe we
> could improve the visibility of bioperl.lisp. In truth, I had
> forgotten about it, though lit turns out I was loading an old version
> of it. (Btw, using the latest version of bioperl.lisp with xemacs
> 21.4.17, I don't get a bioperl menu item, though I can access bioperl
> functions via M-x. Suggestions?)
> I see bioperl.lisp is mentioned twice parenthetically in the advanced
> bioperl wiki page. Perhaps a separate 'Editor/IDE support' item here
> would help. While we're at it, maybe we could add a bioperl.vi file to
> the distribution (if you can do such things with vi/vim).
> On 6/13/07, Chris Fields <cjfields at uiuc.edu> wrote:
>> We probably need to post this somewhere on the wiki for future
>> reference; maybe in Advanced BioPerl?  I'll add this in shortly.
> Another idea: Add a method naming check to the set of audits we
> perform on CVS committed code. It could check for agreement with our
> conventions and warn if nothing was found (may not be a problem
> though).
> Steve
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arareko at campus.iztacala.unam.mx
Laboratorio de Genética
Unidad de Morfofisiología y Función
Facultad de Estudios Superiores Iztacala, UNAM

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