[Bioperl-l] Problems with installing bioperl using PPM3

[omid at rogers.com]

Thanks for the reply Chris.. I installed perl 5.6.1 Build 635 and when using PPM3 I encountered a new set of problems.


it seems that bioperl-1.4 does not work for for PPM3 on build 633 but I was able to install an ealier version of bioperl "Bioinformatics Toolkit".

with build 635 it seems that ppm3 itself has problems installing some modules. some bioperl dependencies were able to be installed while others that worked with build 633 were not.


Also, I encountered a problem installing "IO-String"
with both versions. This module is one of the listed dependencies for bioperl.

What I had to do in that case was download the IO-String module from CPAN in a temp directory and run nmake etc on it. Not sure if this is the proper way of doing things??

Thanks
Omid





> 
> From: Chris Fields <cjfields at uiuc.edu>
> Date: 2004/04/07 Wed PM 05:22:55 EDT
> To: <omid at rogers.com>,  <bioperl-l at bioperl.org>
> Subject: Re: [Bioperl-l] Problems with installing bioperl using PPM3
> 
> Everything works when using ActiveState Perl 5.8.3 Build 809, which comes 
> with PPM3 as the default package manager.  It may be due to the earlier PPM 
> version.  I checked the ActiveState web site documentation for ActivePerl 
> 5.6.1 build 635 (the newest version of the 5.6.1 branch) and there is a bug 
> fix listed for PPM3.
> 
> The following link describes a problem very like yours and is from the PPM 
> bug database (http://bugs.activestate.com/show_bug.cgi?id=19749&submit=Go) 
> and is likely the bug that is fixed in 5.6.1 build 635, so you might want 
> to upgrade to that version or to the newest 5.8.3 release for the fix.
> 
> Chris
> 
> At 02:08 PM 4/7/2004, omid at rogers.com wrote:
> >Hello all,
> >
> >I have ActiveState perl 5.6.1 BUILD 633 installed on a local machine 
> >running windows 2000 and I do the following:
> >
> >I type "ppm3" at the command prompt
> >then type "search bioperl" (the repository is set to 
> >http://www.bioperl.org/DIST/).
> >
> >a listing is displayed with numbers and when I attemp to issue the command 
> >"describe 20" or describe "package name" I get an error saying:
> >
> >Can't call method "name" without a package or object reference at 
> >E:\Perl\bin/ppm3-bin line 4265, <$__ANONIO__> line 9.
> >
> >I don't know what it means. I searched the bioperl site and looked at 
> >various installation documents but nothing seems to address this type of 
> >problem.
> >
> >Any help you are able to provide is greatly appreciated.
> >Thanks
> >Omid
> >
> >
> >
> >
> >1
> >
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> 
> __________________________________
> 
> Chris Fields - Postdoctoral Researcher
> Lab of Dr. Robert Switzer
> 
> Address:
> 
> 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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