[Bioperl-l] PPM for bioperl-1.5?

Nathan Haigh n.haigh at sheffield.ac.uk
Fri Jul 22 04:14:34 EDT 2005

I created the ppd from the 1.5 release and then manually added as many
dependencies from bioperl as I could find to make things as simple and
complete as possible for those who wish to install via PPM. As a result it
should be a pretty self contained download for bioperl 1.5 but if you are
missing many of the dependencies it could take a while to download them all!

I have used that particular ppd to install bioperl 1.5 on a clean system and
as far as I remember it installs most thing if you have the repositories
added to PPM that are mentioned in the INSTALL.WIN file:

A point of interest when using PPM:
Try not to use PPM to do something like "upgrade <package>", inconsistencies
in PPM and peoples naming of ppd files can result in an old version of a
package being installed. Therefore always use: "search <package>" and
"install <number>" in order to obtain the correct version of a package.

Let me know if you have any problems.

-----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: 21 July 2005 20:11
To: bioperl-l at bioperl.org
Subject: Re: [Bioperl-l] PPM for bioperl-1.5?

Also, not to complicate things, but are Lincoln's bioperl-1.5 PPM (at 
http://www.gmod.org/ggb/ppm/) and Nathan's version (at 

essentially the same?  I noticed that Nathan's has a bunch of dependencies 
but Lincoln's doesn't.

At 01:28 PM 7/21/2005, Chris Fields wrote:
>I noticed the PPM for the latest developer bioperl (v 1.5) isn't found in 
>http://bioperl.org/DIST.  I saw that Nathan created one a while back; did 
>anyone transfer it over to the above directory?
>Chris Fields - Postdoctoral Researcher
>Lab of Dr. Robert Switzer
>University of Illinois at Urbana-Champaign
>Dept. of Biochemistry - 323 RAL
>600 S. Mathews Ave.
>Urbana, IL 61801
>Phone : (217) 333-7098
>Fax : (217) 244-5858
>Bioperl-l mailing list
>Bioperl-l at portal.open-bio.org


Chris Fields - Postdoctoral Researcher
Lab of Dr. Robert Switzer


University of Illinois at Urbana-Champaign
Dept. of Biochemistry - 323 RAL
600 S. Mathews Ave.
Urbana, IL 61801

Phone : (217) 333-7098
Fax : (217) 244-5858 

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