[Bioperl-l] Bioperl Installation

[Steven McGowan]

ok...
after choosing to install all scripts, i receive:
Creating new 'Build' script for 'BioPerl' version '1.006000'Warning: PREREQ_PM mentions Test::Harness more than once, last mention wins at /System/Library/Perl/5.8.8/CPAN.pm line 4689, <GEN5> line 1.Warning: PREREQ_PM mentions CPAN more than once, last mention wins at /System/Library/Perl/5.8.8/CPAN.pm line 4689, <GEN5> line 1.---- Unsatisfied dependencies detected during [C/CJ/CJFIELDS/BioPerl-1.6.0.tar.gz] -----    Test::Harness    Data::Stag    CPAN
Shall I follow them and prepend them to the queueof modules we are processing right now? [yes] y

-------------TEST HARNESS-------------
Running install for module Test::Harness

CPAN.pm: Going to build A/AN/ANDYA/Test-Harness-3.17.tar.gz
Checking if your kit is complete...Looks goodWriting Makefile for Test::Harness    -- NOT OKRunning make test  Can't test without successful makeRunning make install  make had returned bad status, install seems impossible
---------DATA::STAG----------
Running install for module Data::StagRunning make for C/CM/CMUNGALL/Data-Stag-0.11.tar.gz
CPAN.pm: Going to build C/CM/CMUNGALL/Data-Stag-0.11.tar.gz

External Module XML::LibXSLT, XSLT, is not installed on this computer.  Data::Stag::XSLTHandler in Data::Stag needs it for XSLT Transformations
External Module XML::Parser::PerlSAX, SAX Handler, is not installed on this computer.  Data::Stag::XMLParser in Data::Stag needs it for parsing XML
External Module GD, Graphical Drawing Toolkit, is not installed on this computer.  stag-drawtree.pl in Data::Stag needs it for drawing trees
External Module Graph::Directed, Generic Graph data stucture and algorithms, is not installed on this computer.  Data::Stag::GraphHandler in Data::Stag needs it for transforming stag trees to graphs
External Module Tk, Tk, is not installed on this computer.  stag-view.pl in Data::Stag needs it for tree viewer
There are some external packages and perl modules, listed above, which    stag uses. This only effects the functionality which is listed above:   the rest of stag will work fine, which includes nearly all of the   core functionality.
   Enjoy the rest of stag, which you can use after going 'make install'
Checking if your kit is complete...Looks goodWriting Makefile for Data    -- NOT OKRunning make test  Can't test without successful makeRunning make install  make had returned bad status, install seems impossible
-------------CPAN--------------
CPAN.pm: Going to build A/AN/ANDK/CPAN-1.9402.tar.gz
Checking if your kit is complete...Looks goodWarning: prerequisite File::HomeDir 0.69 not found.Warning: prerequisite Test::Harness 2.62 not found. We have 2.56.Writing Makefile for CPAN---- Unsatisfied dependencies detected during [A/AN/ANDK/CPAN-1.9402.tar.gz] -----    Test::Harness    File::HomeDirShall I follow them and prepend them to the queueof modules we are processing right now? [yes] yRunning make test  Delayed until after prerequisitesRunning make install  Delayed until after prerequisitesRunning install for module Test::HarnessRunning make for A/AN/ANDYA/Test-Harness-3.17.tar.gz  Is already unwrapped into directory /Users/stevey_mac2k2/.cpan/build/Test-Harness-3.17  Has already been processed within this sessionRunning make test  Can't test without successful makeRunning make install  make had returned bad status, install seems impossible

-------Further On------->
CPAN.pm: Going to build A/AD/ADAMK/File-HomeDir-0.86.tar.gz
Checking if your kit is complete...Looks goodWriting Makefile for File::HomeDir    -- NOT OKRunning make test  Can't test without successful makeRunning make install  make had returned bad status, install seems impossibleRunning make for A/AN/ANDK/CPAN-1.9402.tar.gz  Is already unwrapped into directory /Users/stevey_mac2k2/.cpan/build/CPAN-1.9402
  CPAN.pm: Going to build A/AN/ANDK/CPAN-1.9402.tar.gz
    -- NOT OKRunning make test  Can't test without successful makeRunning make install  make had returned bad status, install seems impossibleRunning make for C/CJ/CJFIELDS/BioPerl-1.6.0.tar.gz  Is already unwrapped into directory /Users/stevey_mac2k2/.cpan/build/BioPerl-1.6.0
  CPAN.pm: Going to build C/CJ/CJFIELDS/BioPerl-1.6.0.tar.gz
    -- NOT OKRunning make test  Can't test without successful makeRunning make install  make had returned bad status, install seems impossible


From: David.Messina at sbc.su.se
Date: Mon, 6 Jul 2009 23:16:00 +0200
Subject: Re: [Bioperl-l] Bioperl Installation
To: stevey_mac2k2 at hotmail.com
CC: bioperl-l at lists.open-bio.org

I'm just hanging on the question at the moment.. not sure whether to install all [a] or [n]one. I'm probably going to go with [a]ll


Yes, you'll probably want all the scripts.
 
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