Raw content of Bio::Graphics::Glyph::redgreen_box
<![CDATA[package Bio::Graphics::Glyph::redgreen_box;
#$Id: redgreen_box.pm,v 1.4.2.1 2003/07/05 00:32:04 lstein Exp $
use strict;
use Bio::Graphics::Glyph::generic;
use vars '@ISA';
@ISA = 'Bio::Graphics::Glyph::generic';
sub bgcolor {
my $self = shift;
$self->{force_bgcolor};
}
sub fgcolor {
my $self = shift;
return $self->option('border') ? $self->SUPER::fgcolor : $self->{force_bgcolor};
}
sub draw {
my $self = shift;
my $val = $self->feature->score;
# we're going to force all our parts to share the same colors
# since the
my @parts = $self->parts;
@parts = $self if !@parts && $self->level == 0;
my @rgb = map {int($_)} HSVtoRGB(120*(1-$val),1,255);
my $color = $self->panel->translate_color(@rgb);
$_->{force_bgcolor} = $color foreach @parts;
$self->SUPER::draw(@_);
}
sub HSVtoRGB ($$$) {
my ($h,$s,$v)=@_;
my ($r,$g,$b,$i,$f,$p,$q,$t);
if( $s == 0 ) {
## achromatic (grey)
return ($v,$v,$v);
}
$h /= 60; ## sector 0 to 5
$i = int($h);
$f = $h - $i; ## factorial part of h
$p = $v * ( 1 - $s );
$q = $v * ( 1 - $s * $f );
$t = $v * ( 1 - $s * ( 1 - $f ) );
if($i<1) {
$r = $v;
$g = $t;
$b = $p;
} elsif($i<2){
$r = $q;
$g = $v;
$b = $p;
} elsif($i<3){
$r = $p;
$g = $v;
$b = $t;
} elsif($i<4){
$r = $p;
$g = $q;
$b = $v;
} elsif($i<5){
$r = $t;
$g = $p;
$b = $v;
} else {
$r = $v;
$g = $p;
$b = $q;
}
return ($r,$g,$b);
}
sub mMin {
my $n=10000000000000;
map { $n=($n>$_) ? $_ : $n } @_;
return($n);
}
sub mMax {
my $n=0;
map { $n=($n<$_) ? $_ : $n } @_;
return($n);
}
1;
=head1 NAME
Bio::Graphics::Glyph::redgreen_box - The "redgreen_box" glyph
=head1 SYNOPSIS
See L<Bio::Graphics::Panel> and L<Bio::Graphics::Glyph>.
=head1 DESCRIPTION
This glyph is similar to the graded_segments glyph except that it
generates a green-E<gt>red gradient suitable for use with microarray data.
A feature score of 0 is full green; a feature score of 1.0 is full
red; intermediate scores are shades of yellow.
=head2 OPTIONS
The following options are standard among all Glyphs. See
L<Bio::Graphics::Glyph> for a full explanation.
Option Description Default
------ ----------- -------
-fgcolor Foreground color black
-outlinecolor Synonym for -fgcolor
-bgcolor Background color turquoise
-fillcolor Synonym for -bgcolor
-linewidth Line width 1
-height Height of glyph 10
-font Glyph font gdSmallFont
-connector Connector type 0 (false)
-connector_color
Connector color black
-label Whether to draw a label 0 (false)
-description Whether to draw a description 0 (false)
The following glyph-specific option is recognized:
-border Draw a fgcolor border around 0 (false)
the box
=head1 BUGS
Please report them.
=head1 SEE ALSO
L<Bio::Graphics::Panel>,
L<Bio::Graphics::Glyph>,
L<Bio::Graphics::Glyph::arrow>,
L<Bio::Graphics::Glyph::cds>,
L<Bio::Graphics::Glyph::crossbox>,
L<Bio::Graphics::Glyph::diamond>,
L<Bio::Graphics::Glyph::dna>,
L<Bio::Graphics::Glyph::dot>,
L<Bio::Graphics::Glyph::ellipse>,
L<Bio::Graphics::Glyph::extending_arrow>,
L<Bio::Graphics::Glyph::generic>,
L<Bio::Graphics::Glyph::graded_segments>,
L<Bio::Graphics::Glyph::heterogeneous_segments>,
L<Bio::Graphics::Glyph::line>,
L<Bio::Graphics::Glyph::pinsertion>,
L<Bio::Graphics::Glyph::primers>,
L<Bio::Graphics::Glyph::rndrect>,
L<Bio::Graphics::Glyph::segments>,
L<Bio::Graphics::Glyph::ruler_arrow>,
L<Bio::Graphics::Glyph::toomany>,
L<Bio::Graphics::Glyph::transcript>,
L<Bio::Graphics::Glyph::transcript2>,
L<Bio::Graphics::Glyph::translation>,
L<Bio::Graphics::Glyph::triangle>,
L<Bio::DB::GFF>,
L<Bio::SeqI>,
L<Bio::SeqFeatureI>,
L<Bio::Das>,
L<GD>
=head1 AUTHOR
Lincoln Stein E<lt>lstein@cshl.orgE<gt>
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
]]>