[Bioperl-l] bioperl 1.2.1 install

[Charles Hauser]

I dropped my old version of bioperl and went to update to 1.2.1.

Makefile.PL  and make are not finding modules which are installed:

$ locate GD.pm
/usr/lib/perl5/site_perl/5.6.1/i386-linux/GD.pm

true for XML::Writer and others as well.


Ideas?

Chuck




$ perl Makefile.PL
Generated sub tests. go make show_tests to see available subtests
Do you want to run the BioDBGFF tests (requires a mysql database) y/n [n] 


External Module SOAP::Lite, SOAP protocol,
 is not installed on this computer.
  The Bio::DB::XEMBLService in Bioperl needs it for XEMBL Services (also Bibliographic queries in Biblio::) 

External Module Ace, Aceperl,
 is not installed on this computer.
  The Bio::DB::Ace in Bioperl needs it for access of ACeDB database

External Module GD, Graphical Drawing Toolkit,
 is not installed on this computer.
  The Bio::Graphics in Bioperl needs it for Rendering Sequences and Features

External Module XML::Writer, Parsing + writing of XML documents,
 is not installed on this computer.
  The Bio::SeqIO::game,Bio::Variation::* in Bioperl needs it for Bio::Variation code, GAME parser

External Module Graph::Directed, Generic Graph data stucture and algorithms,
 is not installed on this computer.
  The Bio::Ontology::SimpleOntologyEngine in Bioperl needs it for Ontology Engine implementation for the GO parser


Information:

   There are some external packages and perl modules, listed above, which 
   bioperl uses. This only effects the functionality which is listed above:
   the rest of bioperl will work fine, which includes nearly all of the
   core packages.

   The installation of these external packages is very simple. You
   can read more about bioperl external dependencies at

   http://bioperl.org/Core/external.shtml

   Enjoy the rest of bioperl, which you can use after going 'make install'

Writing Makefile for Bio