=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
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.
=cut
=head1 CONTACT
Please email comments or questions to the public Ensembl
Questions may also be sent to the Ensembl help desk at
=cut
=head1 NAME
Bio::EnsEMBL::Mapper::IndelPair
=head1 SYNOPSIS
=head1 DESCRIPTION
Two regions mapped between different coordinate systems are each
represented by a Bio::EnsEMBL::Mapper::Unit and joined together as a
Bio::EnsEMBL::Mapper::Pair, when one of the regions is an indel.
=head1 METHODS
=cut
$Bio::EnsEMBL::Mapper::IndelPair::VERSION = '112.0_53'; # TRIAL
$Bio::EnsEMBL::Mapper::IndelPair::VERSION = '112.053';
use vars qw(@ISA);
use strict;
@ISA = qw(Bio::EnsEMBL::Mapper::Pair);
sub new {
my ($proto, @args) = @_;
my $class = ref($proto) || $proto;
my $self = $class->SUPER::new(@args); # create the Pair object
$self->{'indel'} = 1; # and add the Indel flag
return $self;
}
1;