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SENDU / bioperl-run-1.5.2_005-RC / Bio / Installer / TCoffee.pm 

            

              
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# BioPerl module for Bio::Installer::TCoffee
#
# Cared for by Albert Vilella
#
# Copyright Albert Vilella
#
# You may distribute this module under the same terms as perl itself
# POD documentation - main docs before the code
=head1 NAME
Bio::Installer::TCoffee - DESCRIPTION of Object
=head1 SYNOPSIS
Give standard usage here
=head1 DESCRIPTION
Describe the object here
=head1 FEEDBACK
=head2 Mailing Lists
User feedback is an integral part of the evolution of this and other
Bioperl modules. Send your comments and suggestions preferably to
the Bioperl mailing list.  Your participation is much appreciated.
  bioperl-l@bioperl.org                  - General discussion
  http://bioperl.org/wiki/Mailing_lists  - About the mailing lists
=head2 Reporting Bugs
Report bugs to the Bioperl bug tracking system to help us keep track
of the bugs and their resolution. Bug reports can be submitted via
the web:
  http://bugzilla.open-bio.org/
=head1 AUTHOR - Albert Vilella
Email avilella-AT-gmail-DOT-com
Describe contact details here
=head1 CONTRIBUTORS
Additional contributors names and emails here
=head1 APPENDIX
The rest of the documentation details each of the object methods.
Internal methods are usually preceded with a _
=cut
# Let the code begin...
package Bio::Installer::TCoffee;
use vars qw(@ISA %DEFAULTS);
use strict;
# Object preamble - inherits from Bio::Root::Root
use Bio::Root::Root;
use Bio::Installer::Generic;
@ISA = qw(Bio::Installer::Generic );
BEGIN {
    %DEFAULTS = ( 'ORIGIN_DOWNLOAD_DIR' => 'http://igs-server.cnrs-mrs.fr/~cnotred/Packages',
                  'BIN_FOLDER' => 'bin',
                  'DESTINATION_DOWNLOAD_DIR' => '/tmp',
                  'DESTINATION_INSTALL_DIR' => "$ENV{'HOME'}",
                  'PACKAGE_NAME' => 'T-COFFEE_distribution_Version_4.45.tar.gz',
                  'DIRECTORY_NAME' => 'T-COFFEE_distribution_Version_4.45',
                  'ENV_NAME' => 'TCOFFEEDIR',
                );
}
=head2 get_default 
 Title   : get_default 
 Usage   :
 Function:
 Example :
 Returns : 
 Args    :
=cut
sub get_default {
    my $self = shift;
    my $param = shift;
    return $DEFAULTS{$param};
}
=head2 install
 Title   : install
 Usage   : $installer->install();
 Function:
 Example :
 Returns : 
 Args    :
=cut
sub install{
   my ($self,@args) = @_;
   my $dir;
   $self->_decompress;
   $self->_execute_tcoffee_install_script;
   $dir = $self->destination_install_dir;
   $self->_remember_env;
}
=head2 _execute_tcoffee_install_script
 Title   : _execute_tcoffee_install_script
 Usage   :
 Function:
 Example :
 Returns : 
 Args    :
=cut
sub _execute_tcoffee_install_script{
   my ($self,@args) = @_;
   my $call;
   my $destination = $self->destination_install_dir;
   $destination =~ s|/$||;
   $destination .= "/" . $self->directory_name;
   chdir $destination or die "Cant cd to $destination $!\n";
   print "\n\nCompiling now... (this might take a while)\n\n";
   $call = "sh install";
   system("$call") == 0 or die "Error when trying to run install script $?\n";
}
1;