[Bioperl-l] some tests fail on Mac OS X

[Jason Stajich]

On Sun, 14 Dec 2003, Koen van der Drift wrote:

>
> On Dec 14, 2003, at 11:57 AM, Jason Stajich wrote:
>
> > I think when you run perl Makefile.PL you want to give it
> > perl Makefile.PL PREFIX=/sw/src/root-bioperl-pm/sw
> >
> > See how LWP or other pkgs which have associated scripts in them
> > install I
> > guess.
> >
>
> LWP is not a fink package, but I found another one that uses
> INSTALLSCRIPT which is passed to make install.
>
I think it is libwwww-pm actually.

> Now it works :)
>
> I am also wondering how many external modules I should add to the
> dependencies. I understand that missing modules will only result in
> less functionality for bioperl. One thing I did not put in sofar are
> database related modules. Is that something that most users won't miss?
> Are there other modules that you (or other bioperl developers) think
> are really needed?

definitely io-string, libwwww-pm.  gd-pm would be nice as well.
xml-parser-pm libxml-pm also are good I think.

Beauty of fink is it should be pretty easy for these dependancies to be
pulled in.

acedb is pretty minor and not used much so I wouldn't worry about that.

>
>
> thanks again,
>
>
> - Koen.
>

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