DnaPepAlignFeature.pm

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=head1 LICENSE
 
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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
 
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=cut
 
 
=head1 CONTACT
 
  Please email comments or questions to the public Ensembl
  developers list at <http://lists.ensembl.org/mailman/listinfo/dev>.
 
  Questions may also be sent to the Ensembl help desk at
  <http://www.ensembl.org/Help/Contact>.
 
=cut
 
=head1 NAME
 
Bio::EnsEMBL::DnaPepAlignFeature - Ensembl specific dna-pep pairwise
alignment feature
 
=head1 SYNOPSIS
 
  See BaseAlignFeature
 
=cut 
 
 
package Bio::EnsEMBL::DnaPepAlignFeature;
 
use strict;
 
use Bio::EnsEMBL::BaseAlignFeature;
use Scalar::Util qw(weaken isweak);
 
use vars qw(@ISA);
 
@ISA = qw( Bio::EnsEMBL::BaseAlignFeature );
 
use constant SEQUENCE_ONTOLOGY => {
  acc  => 'SO:0000349',
  term => 'protein_match',
};
 
=head2 _hit_unit
 
  Arg [1]    : none
  Description: PRIVATE implementation of abstract superclass method.  Returns
               1 as the 'unit' used for the hit sequence. 
  Returntype : int
  Exceptions : none
  Caller     : Bio::EnsEMBL::BaseAlignFeature
  Status     : Stable
 
 
=cut
 
sub _hit_unit {
  return 1;
}
 
 
=head2 _query_unit
 
  Arg [1]    : none
  Description: PRIVATE implementation of abstract superclass method.  Returns
               3 as the 'unit' used for the query sequence. 
  Returntype : int
  Exceptions : none
  Caller     : Bio::EnsEMBL::BaseAlignFeature
  Status     : Stable
 
 
=cut
 
sub _query_unit {
  return 3;
}
 
 
1;