Raw content of Bio::EnsEMBL::Analysis::RunnableDB::ProteinAnnotation::Gene3d
<![CDATA[# Author: Gary Williams (gw3@sanger.ac.uk)
# Copyright (c) Marc Sohrmann, 2001
# You may distribute this code under the same terms as perl itself
#
# You may distribute this module under the same terms as perl itself
#
# POD documentation - main docs before the code
=pod
=head1 NAME
Bio::EnsEMBL::Analysis::RunnableDB::ProteinAnnotation::Gene3d
=head1 SYNOPSIS
my $seg = Bio::EnsEMBL::Analysis::RunnableDB::ProteinAnnotation::Gene3d->new ( -db => $db,
-input_id => $input_id,
-analysis => $analysis,
);
$seg->fetch_input; # gets sequence from DB
$seg->run;
$seg->output;
$seg->write_output; # writes features to to DB
=head1 DESCRIPTION
This object wraps Bio::EnsEMBL::Analysis::Runnable::ProteinAnnotation::Gene3d
to add functionality to read and write to databases.
A Bio::EnsEMBL::Analysis::DBSQL::DBAdaptor is required for database access (db).
The query sequence is provided through the input_id.
The appropriate Bio::EnsEMBL::Analysis object
must be passed for extraction of parameters.
=head1 CONTACT
Gary Williams
=head1 APPENDIX
The rest of the documentation details each of the object methods.
Internal methods are usually preceded with a _.
=cut
package Bio::EnsEMBL::Analysis::RunnableDB::ProteinAnnotation::Gene3d;
use strict;
use vars qw(@ISA);
use Bio::EnsEMBL::Analysis::RunnableDB::ProteinAnnotation;
use Bio::EnsEMBL::Analysis::Runnable::ProteinAnnotation::Gene3d;
@ISA = qw(Bio::EnsEMBL::Analysis::RunnableDB::ProteinAnnotation);
# runnable method
sub fetch_input {
my ($self,@args)=@_;
$self->SUPER::fetch_input(@args);
my $run = Bio::EnsEMBL::Analysis::Runnable::ProteinAnnotation::Gene3d->new(-query => $self->query,-analysis => $self->analysis);
$self->runnable($run);
}
1;
]]>