package Ace::Graphics::Fk;
use strict;
*stop = \&end;
*primary_tag = \&name;
*exons = \&segments;
# usage:
# Ace::Graphics::Fk->new(
# -start => 1,
# -end => 100,
# -name => 'fred feature',
# -info => $additional_stuff_to_store,
# -strand => +1);
#
# Alternatively, use -segments => [ [start,stop],[start,stop]...]
# to create a multisegmented feature.
sub new {
my $class= shift;
my %arg = @_;
my $self = bless {},$class;
$arg{-strand} ||= 0;
$self->{strand} = $arg{-strand} >= 0 ? +1 : -1;
$self->{name} = $arg{-name};
$self->{info} = $arg{-info};
if (my $s = $arg{-segments}) {
my @segments;
for my $seg (@$s) {
if (ref($seg) eq 'ARRAY') {
push @segments,$class->new(-start=>$seg->[0],
-stop=>$seg->[1],
-strand=>$self->{strand});
} else {
push @segments,$seg;
}
}
$self->{segments} = [ sort {$a->start <=> $b->start } @segments ];
} else {
$self->{start} = $arg{-start};
$self->{end} = $arg{-end} || $arg{-stop};
}
$self;
}
sub segments {
my $self = shift;
my $s = $self->{segments} or return;
@$s;
}
sub strand { shift->{strand} }
sub name { shift->{name} }
sub start {
my $self = shift;
if (my @segments = $self->segments) {
return $segments[0]->start;
}
return $self->{start};
}
sub end {
my $self = shift;
if (my @segments = $self->segments) {
return $segments[-1]->end;
}
return $self->{end};
}
sub length {
my $self = shift;
return $self->end - $self->start + 1;
}
sub introns {
my $self = shift;
return;
}
sub source_tag { 'dummy' }
sub target { }
sub info {
my $self = shift;
return $self->{info} || $self->name;
}
1;
__END__
=head1 NAME
Ace::Graphics::Fk - A dummy feature object used for generating panel key tracks
=head1 SYNOPSIS
None. Used internally by Ace::Graphics::Panel.
=head1 DESCRIPTION
None. Used internally by Ace::Graphics::Panel.
=head1 SEE ALSO
L<Ace::Sequence>,L<Ace::Sequence::Feature>,
L<Ace::Graphics::Track>,L<Ace::Graphics::Glyph>,
L<GD>
=head1 AUTHOR
Lincoln Stein <lstein@cshl.org>.
Copyright (c) 2001 Cold Spring Harbor Laboratory
This library is free software; you can redistribute it and/or modify
it under the same terms as Perl itself. See DISCLAIMER.txt for
disclaimers of warranty.
=cut