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Summary

Bio::Installer::Muscle - DESCRIPTION of Object

Package variables

Included modules

Inherit

Bio::Installer::Generic

Synopsis

Give standard usage here

Description

Describe the object here

Methods

Methods description

 Title   : get_default 
 Usage   :
 Function:
 Example :
 Returns : 
 Args    :

 Title   : install
 Usage   : $installer->install();
 Function:
 Example :
 Returns : 
 Args    :

 Title   : _execute_Muscle_install_script
 Usage   :
 Function:
 Example :
 Returns : 
 Args    :

Methods code

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.tar.gz',
                  'DIRECTORY_NAME' => 'T-COFFEE_distribution_Version_1.37',
                  'ENV_NAME' => 'MUSCLEDIR',
                );

}

sub get_default {

    my $self = shift;
    my $param = shift;
    return $DEFAULTS{$param};

}

sub install {

   my ($self,@args) = @_;
   my $dir;
   $self->_decompress;
   $self->_execute_Muscle_install_script;
   $dir = $self->destination_install_dir;
   $self->_remember_env;

}

sub _execute_Muscle_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;

}

General documentation

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/MailList.shtml  - About the mailing lists

Please direct usage questions or support issues to the mailing list:
bioperl-l@bioperl.org
rather than to the module maintainer directly. Many experienced and
reponsive experts will be able look at the problem and quickly
address it. Please include a thorough description of the problem
with code and data examples if at all possible.

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://redmine.open-bio.org/projects/bioperl/

Email avilella-AT-gmail-DOT-com
Describe contact details here

Additional contributors names and emails here

The rest of the documentation details each of the object methods.
Internal methods are usually preceded with a _