[Bioperl-l] minor modification in Clustalw.pm

[Jason Stajich]

Can you get your hands on a windows machine and test this as well?
I think I modified the find_exe method (or whatever it is called) to do a
smarter job about finding things, but it is possible that only landed in
T-Coffee.  Any chance you guys want to factor out the code pertinent
to running a program into a shared module in Bio::Tools::Run::Base?

I'm going to branch likely this weekend so that we can let people keep
playing on the trunk but really lock down the code for 1.0 now.

-j
On Fri, 8 Mar 2002, Elia Stupka wrote:

> Hey folks (mainly Jason),
>
> I just modified Clustalw.pm, it required an ENV variable to be set for
> where clustal lived, which is not really necessary in a standard unix
> environment where clustalw already works on the command line... the
> strange thing is that if it was left unset the Bio::Root::IO->catfile
> function was putting a forward slash instead of leaving nothing behind the
> directory...
>
> ...hmmm... I think my commit is a hack, rather than a fix, must have
> something to do with Root::IO, right? Let me have a look...
>
> Elia, thinking aloud...
>
>
>

-- 
Jason Stajich
Duke University
jason@cgt.mc.duke.edu