installing scripts (was:Re: [Bioperl-l] GFF scripts)

[Brian Osborne]

Koen and Jason,

My apologies, I haven't been following your discussion closely. The scripts
in scripts/ in bioperl-live all have the PLS suffix. This trunk also has
script installation running, and a simplified approach to POD. Since Koen
has said, reasonably, that he only wants to package a formal release perhaps
the wisest thing for him to do is to wait for 1.3. IMO.

Brian O.

-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org]On Behalf Of Jason Stajich
Sent: Monday, August 11, 2003 9:32 AM
To: Koen van der Drift
Cc: Bioperl-l at portal.open-bio.org
Subject: Re: installing scripts (was:Re: [Bioperl-l] GFF scripts)

On Sun, 10 Aug 2003, Koen van der Drift wrote:

>
> On Sunday, August 10, 2003, at 07:50  PM, Jason Stajich wrote:
> >
>
> > what verions of File::Path is on your system?  Perhaps the problem is
> > the
> > tests were run on systems with newer File::Path which previously
> > exported
> > rmtree.
>
> I recently install 5.8.0. The Makefile.PL I got from the trunk also has
> the additional line to include rmtree, so I am not sure if the version
> of File::Path is an issue.
>

well good that you caught it - more appropriate to explictly list the
exported function names as you've done so the Makfile.PL should be
updated with that for sure.

> >> Careful examination of the code reveals that only the scripts that
> >> have
> >> an .PLS extension will be installed, which are exactly the 4 scripts
> >> that get installed. All other scripts already have the .pl extension,
> >> and thus will not be installed. So I modified the script as follows:
> >>
> >
> > The intention is to ONLY install scripts which end in .PLS.  This whole
> > process also fixes the perl path in the header of the script as well.
>
> I see - I didn't realize that. The perl path fix btw is not effected by
> my change.
>
> >
> > The problem is that this install code was ported from the CVS HEAD to
> > the
> > branch and I don't think all the underlying scripts were renamed.
> >
> > I think that all of these problems go away when you work off the main
> > trunk.
>
> I am trying to make a package for fink to install bioperl on Mac OS X,
> so I rather not use the cvs trunk, but only 'real releases'. Thsi to
> make sure that everyone who wants to use fink to install bioperl uses
> the same code.
>

understand - this is more appropriate - you're welcome to have those
patches be for the 1.2.2 release but keeping them in the fink pkg.  If we
do another release on the 1.2 branch (1.2.3) we can try and get this
right.  Glad you're doing this.


> thanks for the info,
>
>
> - Koen.
>
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>

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