[Bioperl-l] PPM files for bioperl, bioperl-db
cjfields at uiuc.edu
Thu Jan 5 18:08:20 EST 2006
I guess what I mean is: when generating the PPD file (using 'nmake ppd'
after archiving the blib directory), several dependencies are listed in the
PPD file which come from the makefile. A number of those probably should be
kept, such as DB_File, but a few are 'red herrings,' in that HTML::Parser is
included in the ActivePerl Core. I believe the dependencies listed are for
those who use CPAN directly; I don't think PPM can distinguish modules with
one name (HTML::Entities) packaged together with others (HTML::Parser).
What I'll do is remove those that are obviously not needed (IO::Scalar,
HTML::Entitites), go through the rest, then proceed from there.
Postdoctoral Researcher - Switzer Lab
Dept. of Biochemistry
University of Illinois Urbana-Champaign
From: Brian Osborne [mailto:osborne1 at optonline.net]
Sent: Thursday, January 05, 2006 4:02 PM
To: Chris Fields; bioperl-l
Subject: Re: [Bioperl-l] PPM files for bioperl, bioperl-db
In my opinion you should include anything that's listed in the INSTALL file
in your PPD file, I _think_ this is what previous PPD creators did. I may
not have addressed your question...
On 1/5/06 3:57 PM, "Chris Fields" <cjfields at uiuc.edu> wrote:
> My bad. I checked through CPAN and the Activestate website for those last
> two. HTML::Entities is included with HTML::Parser, which is part of the
> Activestate Perl core. IO::Scalar is included with IO::Stringy, which is
> available. If I set up the PPD file, should I remove all the dependencies
> since not all of them are needed, or leave the ones that matter (DB_File,
> etc) in?
> Christopher Fields
> Postdoctoral Researcher - Switzer Lab
> Dept. of Biochemistry
> University of Illinois Urbana-Champaign
> -----Original Message-----
> From: Brian Osborne [mailto:osborne1 at optonline.net]
> Sent: Thursday, January 05, 2006 2:50 PM
> To: Chris Fields; bioperl-l
> Subject: Re: [Bioperl-l] PPM files for bioperl, bioperl-db
> It looks like IO::Scalar is no longer used, it _was_ used by
> Bio::Tools::Blast. HTML::Entities is used by Bio::SearchIO::blastxml.
> Brian O.
> On 1/5/06 3:27 PM, "Chris Fields" <cjfields at uiuc.edu> wrote:
>> I have been toying around with creating PPM archives (Perl 5.8) for
>> Activestate Perl on WinXP and managed to get PPMs for bioperl-live and
>> bioperl-db installed through PPM3. I haven't tested them out yet, but
>> trying to gauge the interest in maybe making them available for use with
>> somewhat regular updates (weekly or monthly).
>> Also, the dependencies listed for bioperl included the following:
>> All but HTML=Entities and IO-Scalar are available for Win32. Anyone know
>> what the missing modules are used for?
>> Christopher Fields
>> Postdoctoral Researcher - Switzer Lab
>> Dept. of Biochemistry
>> University of Illinois Urbana-Champaign
>> Bioperl-l mailing list
>> Bioperl-l at portal.open-bio.org
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