DataflowTarget.pm

Go to the documentation of this file.

=pod
 
=head1 NAME
 
    Bio::EnsEMBL::Hive::DataflowTarget
 
=head1 LICENSE
 
    Copyright [1999-2015] Wellcome Trust Sanger Institute and the EMBL-European Bioinformatics Institute
    Copyright [2016-2024] EMBL-European Bioinformatics Institute
 
    Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License.
    You may obtain a copy of the License at
 
         http://www.apache.org/licenses/LICENSE-2.0
 
    Unless required by applicable law or agreed to in writing, software distributed under the License
    is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
    See the License for the specific language governing permissions and limitations under the License.
 
=head1 CONTACT
 
    Please subscribe to the Hive mailing list:  http://listserver.ebi.ac.uk/mailman/listinfo/ehive-users  to discuss Hive-related questions or to be notified of our updates
 
=cut
 
 
package Bio::EnsEMBL::Hive::DataflowTarget;
 
use strict;
use warnings;
 
use Bio::EnsEMBL::Hive::Utils ('stringify', 'throw');
use Bio::EnsEMBL::Hive::TheApiary;
 
use base ( 'Bio::EnsEMBL::Hive::Storable' );
 
 
sub unikey {    # override the default from Cacheable parent
    return [ 'source_dataflow_rule', 'on_condition', 'input_id_template', 'to_analysis_url' ];
} 
 
 
=head1 AUTOLOADED
 
    source_dataflow_rule_id / source_dataflow_rule
 
=cut
 
 
=head2 on_condition
 
    Function: getter/setter method for the on_condition of the dataflow target
 
=cut
 
sub on_condition {
    my $self = shift @_;
 
    if(@_) {
        $self->{'_on_condition'} = shift @_;
    }
    return $self->{'_on_condition'};
}
 
 
=head2 input_id_template
 
    Function: getter/setter method for the input_id_template of the dataflow target
 
=cut
 
sub input_id_template {
    my $self = shift @_;
 
    if(@_) {
        my $input_id_template = shift @_;
        $self->{'_input_id_template'} = (ref($input_id_template) ? stringify($input_id_template) : $input_id_template),
    }
    return $self->{'_input_id_template'};
}
 
 
=head2 extend_param_stack
 
    Function: getter/setter method. The boolean value defines whether the newly created jobs will inherit both the parameters and the accu of the prev_job.
 
=cut
 
sub extend_param_stack {
    my $self = shift @_;
 
    if(@_) {
        $self->{'_extend_param_stack'} = shift @_;
    }
    return $self->{'_extend_param_stack'};
}
 
 
=head2 to_analysis_url
 
    Arg[1]  : (optional) string $url
    Usage   : $self->to_analysis_url($url);
    Function: Get/set method for the 'to' analysis objects URL for this rule
    Returns : string
  
=cut
 
sub to_analysis_url {
    my $self = shift @_;
 
    if(@_) {
        $self->{'_to_analysis_url'} = shift @_;
        if( $self->{'_to_analysis'} ) {
            $self->{'_to_analysis'} = undef;
        }
    } elsif( !$self->{'_to_analysis_url'} and my $target_object=$self->{'_to_analysis'} ) {
 
        my $ref_pipeline = $self->from_analysis && $self->from_analysis->hive_pipeline;
        $self->{'_to_analysis_url'} = $target_object->relative_url( $ref_pipeline );        # the URL may be shorter if hive_pipeline is the same for source and target
    }
 
    return $self->{'_to_analysis_url'};
}
 
 
=head2 to_analysis
 
    Usage   : $self->to_analysis($analysis);
    Function: Get/set method for the goal analysis object of this rule.
    Returns : Bio::EnsEMBL::Hive::Analysis or Bio::EnsEMBL::Hive::Accumulator or Bio::EnsEMBL::Hive::NakedTable
    Args    : Bio::EnsEMBL::Hive::Analysis or Bio::EnsEMBL::Hive::Accumulator or Bio::EnsEMBL::Hive::NakedTable
  
=cut
 
sub to_analysis {
    my ($self, $target_object) = @_;
 
    if( defined $target_object ) {
        unless ($target_object->can('url')) {
            throw( "to_analysis arg must support 'url' method, '$target_object' does not know how to do it");
        }
        $self->{'_to_analysis'} = $target_object;
    }
 
    if( !$self->{'_to_analysis'} and my $to_analysis_url = $self->to_analysis_url ) {   # lazy-load through TheApiary
 
        $self->{'_to_analysis'} = Bio::EnsEMBL::Hive::TheApiary->find_by_url( $to_analysis_url, $self->hive_pipeline );
    }
 
    return $self->{'_to_analysis'};
}
 
 
=head2 toString
 
    Args       : (none)
    Example    : print $df_rule->toString()."\n";
    Description: returns a stringified representation of the rule
    Returntype : string
 
=cut
 
sub toString {
    my $self    = shift @_;
    my $short   = shift @_;
 
    my $on_condition = $self->on_condition;
 
    return join('',
            $short ? () : ( 'DataflowTarget: ' ),
            defined($on_condition) ? 'WHEN '.$on_condition : 'DEFAULT ',
            '--> ',
            $self->to_analysis_url,
            ($self->input_id_template ? (' WITH TEMPLATE: '.$self->input_id_template) : ''),
    );
}
 
1;