[Bioperl-l] HMMER - Parse hmmpfam output using bioperl - help!!

Sendu Bala bix at sendu.me.uk
Thu May 8 09:43:28 EDT 2008


K. Shameer wrote:
> Hi Sendu,
> 
> Thanks for your quick reply. This is really useful.
> 
> Separately, One quick question, I dont have hmmer_pull.pm. I am using an
> older version of Bioperl. Is there any provision to  to download and
> install individual bioperl modules separately ?

Generally you can grab individual modules from svn, eg:
http://code.open-bio.org/svnweb/index.cgi/bioperl/view/bioperl-live/trunk/Bio/SearchIO/hmmer_pull.pm
(click the 'checkout' link).

However in this particular case it's really complicated, with that 
module needing lots of other new modules to work.

Use the normal hmmer.pm module; if you don't have any problems with it 
stick with it. Otherwise I'd recommend upgrading your entire Bioperl to 
1.5.2 or svn.


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