[Bioperl-l] bioperl-db working (for the moment) on Win32

[Chris Fields]

Should I get a PPM for the CVS version of bioperl-db ready, or should we
just go with 'nmake', 'nmake test', 'nmake install'?  If I can get a PPM
build to the same repository as the bioperl PPM (http://bioperl.org/DIST/),
it will probably cut down on questions from new users.  I'm using a PPM
build for both bioperl-live and bioperl-db at the moment, which can be
easily modified for the repository.

Also, what version of bioperl should be used with bioperl-db (I'm adding it
as a dependency)?   Will bioperl-1.4 do, or do we need 1.5.1 (available at
the GMOD repository, http://www.gmod.org/ggb/ppm/)? 

Christopher Fields
Postdoctoral Researcher - Switzer Lab
Dept. of Biochemistry
University of Illinois Urbana-Champaign 

> -----Original Message-----
> From: bioperl-l-bounces at portal.open-bio.org [mailto:bioperl-l-
> bounces at portal.open-bio.org] On Behalf Of Hilmar Lapp
> Sent: Wednesday, January 18, 2006 1:07 AM
> To: Barry Moore
> Cc: Chris Fields; bioperl-l at portal.open-bio.org
> Subject: Re: [Bioperl-l] bioperl-db working (for the moment) on Win32
> 
> Same here, thanks. We'll include your write-up in CVS. -hilmar
> 
> On Jan 17, 2006, at 6:02 PM, Barry Moore wrote:
> 
> > This is very helpful Chris.  Thank you.
> >
> > Barry
> >
> >> -----Original Message-----
> >> From: bioperl-l-bounces at portal.open-bio.org [mailto:bioperl-l-
> >> bounces at portal.open-bio.org] On Behalf Of Chris Fields
> >> Sent: Tuesday, January 17, 2006 6:45 PM
> >> To: bioperl-l at portal.open-bio.org
> >> Subject: [Bioperl-l] bioperl-db working (for the moment) on Win32
> >>
> >> Hilmar,
> >>
> >> Just wanted to drop a line saying bioperl-db seems to be up and
> >> running on Windows (at least for the moment!). All tests pass using
> >> ActivePerl and cygwin-perl.  I am trying to sort out the issue with
> >> throw in Bio::Root::Root (specifically, why it doesn't work without
> >> the added comma; I'm trying the modifications to Root.pm on Mac OS X
> >> now) and am trying to also figure out why bioperl and bioperl-db give
> >> tons of warnings using ActivePerl (most just state that x subroutine
> >> was redefined in y.pm line z, so aren't serious).  This is an
> >> ActivePerl or nmake issue and not a bioperl problem as there are no
> >> warnings using 'make test' in cygwin.  I am in the midst of writing
> >> up the steps for installing bioperl and bioperl-db using MySQL as the
> >> relational DB with either ActivePerl or cygwin; I really don't have
> >> much experience with postgreSQL, oracle, MsSQL (B. Wang's added
> >> modules), etc., but I can't see any reason why they wouldn't work.
> >>
> >> Christopher Fields
> >> Postdoctoral Researcher
> >> Lab of Dr. Robert Switzer
> >> Dept of Biochemistry
> >> University of Illinois Urbana-Champaign
> >>
> >>
> >>
> >> _______________________________________________
> >> Bioperl-l mailing list
> >> Bioperl-l at portal.open-bio.org
> >> http://portal.open-bio.org/mailman/listinfo/bioperl-l
> >
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> --
> -------------------------------------------------------------
> Hilmar Lapp                            email: lapp at gnf.org
> GNF, San Diego, Ca. 92121              phone: +1-858-812-1757
> -------------------------------------------------------------
> 
> 
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