[Debian-med-packaging] perl path issue with MEME package?

[Andreas Tille]

Hi Faheem,

I hope Charles will be able to help quickly here because he is a Perl
hacker.  In any way I can confirm your observation.

A further issue I just fixed is that meme contained a convinience copy
of readseq which resulted in a conflict when trying to install in
parallel to the readseq Debian package.  This is solved with my last
change.

Kind regards

       Andreas.

On Wed, Jan 16, 2013 at 01:23:43AM +0530, Faheem Mitha wrote:
> 
> I'm seeing the following problem
> 
> $ iupac2meme
> Can't locate MotifUtils.pm in @INC (@INC contains:
> /usr/lib/perl/5.10.1 /usr/lib/perl /etc/perl
> /usr/local/lib/perl/5.10.1 /usr/local/share/perl/5.10.1
> /usr/lib/perl5 /usr/share/perl5 /usr/lib/perl/5.10
> /usr/share/perl/5.10 /usr/local/lib/site_perl .) at
> /usr/bin/iupac2meme line 16.
> BEGIN failed--compilation aborted at /usr/bin/iupac2meme line 16.
> 
> $ dlocate MotifUtils.pm
> meme: /usr/share/perl5/Meme/MotifUtils.pm
> 
> I'm not a perl user, but I'm guessing that /usr/share/perl5/Meme/ is
> not in the path, and that is causing problems. I don't know where
> the installation would have put it, but does this and similar perl
> scripts need to be patched to tell it where to look, or what?
> 
>                                                          Regards, Faheem
> 
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