Raw content of Bio::EnsEMBL::Analysis::Config::General
<![CDATA[# Ensembl module for Bio::EnsEMBL::Analysis::Config::General
#
# Copyright (c) 2004 Ensembl
#
=head1 NAME
Bio::EnsEMBL::Analysis::Config::General
=head1 SYNOPSIS
use Bio::EnsEMBL::Analysis::Config::General;
use Bio::EnsEMBL::Analysis::Config::General qw();
=head1 DESCRIPTION
General analysis configuration.
It imports and sets a number of standard global variables into the
calling package. Without arguments all the standard variables are set,
and with a list, only those variables whose names are provided are set.
The module will die if a variable which doesn\'t appear in its
C<%Config> hash is asked to be set.
The variables can also be references to arrays or hashes.
Edit C<%Config> to add or alter variables.
All the variables are in capitals, so that they resemble environment
variables.
=head1 CONTACT
B<ensembl-dev@ebi.ac.uk>
=cut
package Bio::EnsEMBL::Analysis::Config::General;
use strict;
use vars qw(%Config);
%Config = (
# binaries, libraries and data files
BIN_DIR => '/usr/local/ensembl/bin',
###### Modify DATA_DIR before running the pipeline test!!! #####
DATA_DIR => '/your/cvs/checkout/dir/ensembl-pipeline/test_system/homo_sapiens/data',
LIB_DIR => '/usr/local/ensembl/lib',
# Path where the parser and parameter files for FirstEF program are allocated
PARAMETERS_DIR => '/vol/software/linux-i386/farm/lib/firstef/parameters/',
PARSE_SCRIPT => '/vol/software/linux-i386/farm/lib/firstef/FirstEF_parser.pl',
# The default directory the Runnable runs its analysis in
ANALYSIS_WORK_DIR => '/tmp',
ANALYSIS_REPEAT_MASKING => ['RepeatMask'],
CORE_VERBOSITY => 'WARNING',
LOGGER_VERBOSITY => 'OFF',
#the two versbosity values control when commands like warning or logger_info
#print to screen. The current settings give you most of what you want but
#look at Bio::EnsEMBL::Utils::Exception and
#Bio::EnsEMBL::Analysis::Tools::Logger for more info
);
sub import {
my ($callpack) = caller(0); # Name of the calling package
my $pack = shift; # Need to move package off @_
# Get list of variables supplied, or else all
my @vars = @_ ? @_ : keys(%Config);
return unless @vars;
# Predeclare global variables in calling package
eval "package $callpack; use vars qw("
. join(' ', map { '$'.$_ } @vars) . ")";
die $@ if $@;
foreach (@vars) {
if (defined $Config{ $_ }) {
no strict 'refs';
# Exporter does a similar job to the following
# statement, but for function names, not
# scalar variables:
*{"${callpack}::$_"} = \$Config{ $_ };
} else {
die "Error: Config: $_ not known\n";
}
}
}
1;
]]>