[Bioperl-l] bioperl-live: audit of FIXME/???/TODO/etc and undef/die

Chris Fields cjfields at uiuc.edu
Wed Sep 20 21:16:13 UTC 2006

If we need to, we can upload a Komodo Bioperl template.  I have a  
very old one that I passed on to Mauricio.  We could clean it up and  
add it to the core distribution or elsewhere if needed.


On Sep 20, 2006, at 3:58 PM, Sendu Bala wrote:

> Mauricio Herrera Cuadra wrote:
>> Chris Fields wrote:
>>> Dave,
>>> There is a small bit about what to have in POD in biodesign.pod,  
>>> which
>>> is no longer in the core.  I think most of it can be found in the  
>>> wiki under
>>> 'Advanced BioPerl'.
>>> http://www.bioperl.org/wiki/Advanced_BioPerl
>>> There is a link to the older version of it:
>>> http://bioperl.org/Core/Latest/biodesign.html
>> Supposedly, this is all what people may need to get started by  
>> using a
>> consistent design.
> There's also the Bioperl-independent need simply to write valid  
> POD, and
> preferably POD that can be understood by all/many parsers. I used
> maintenance/pod.pl earlier today which shows you all the POD problems.
> The remaining warnings are 'ok'.
>>> There is also an Emacs template, which I haven't toyed around  
>>> with.  I
>>> use ActiveState Komodo, which runs on Mac OS X and WinXP.  Yes, I am
>>> pathetic...
>> Komodo is a great IDE (I use it daily)
> Agree, and likewise.
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Christopher Fields
Postdoctoral Researcher
Lab of Dr. Robert Switzer
Dept of Biochemistry
University of Illinois Urbana-Champaign

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