[Bioperl-l] bioperl 1.2.1 install

[Hilmar Lapp]

The way availability of a module is detected is not by a ls or find on 
the module name, but by attempting to load it. It seems loading GD.pm 
fails on your machine for whatever reason.

What do you see if you say

	$ perl -e 'require GD;'

on your machine?

	-hilmar

On Friday, April 4, 2003, at 11:30  AM, Charles Hauser wrote:

> 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
>
>
>
>
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> Bioperl-l at bioperl.org
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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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