annotate variant_effect_predictor/Bio/Graphics/Glyph/ex.pm @ 1:d6778b5d8382 draft default tip

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author willmclaren
date Fri, 03 Aug 2012 10:05:43 -0400
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1 package Bio::Graphics::Glyph::ex;
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2
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3 use strict;
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4 use base 'Bio::Graphics::Glyph::generic';
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5
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6 # override draw_component to draw a crossed box rather than empty
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7 sub draw_component {
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8 my $self = shift;
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9 my $gd = shift;
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10 my $fg = $self->fgcolor;
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11 my ($left,$top) = @_;
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12 my($x1,$y1,$x2,$y2) = $self->bounds(@_);
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13
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14 #if widthless
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15 if($self->option('point')){
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16 my $arm = int($self->height/2);
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17 my $minx = $x2 > $x1 ? $x1 : $x2;
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18 my $centerx = abs($x2 - $x1) + $minx;
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19 my $miny = $y2 > $y1 ? $y1 : $y2;
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20 my $centery = abs($y2 - $y1) + $miny;
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21 $gd->line($centerx-$arm, $centery-$arm, $centerx+$arm, $centery+$arm, $fg);
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22 $gd->line($centerx-$arm, $centery+$arm, $centerx+$arm, $centery-$arm, $fg);
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23 return;
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24 } else {
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25 $gd->line($x1,$y1,$x2,$y2,$fg);
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26 $gd->line($x1,$y2,$x2,$y1,$fg);
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27 }
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28 }
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29
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30
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31 1;
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32
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33 __END__
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34
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35 =head1 NAME
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36
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37 Bio::Graphics::Glyph::crossbox - The "crossbox" glyph
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38
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39 =head1 SYNOPSIS
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40
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41 See L<Bio::Graphics::Panel> and L<Bio::Graphics::Glyph>.
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42
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43 =head1 DESCRIPTION
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44
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45 This is a box with an 'X' inside glyph.
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46
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47 =head2 OPTIONS
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48
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49
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50 The following options are standard among all Glyphs. See
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51 L<Bio::Graphics::Glyph> for a full explanation.
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52
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53 Option Description Default
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54 ------ ----------- -------
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55
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56 -fgcolor Foreground color black
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57
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58 -outlinecolor Synonym for -fgcolor
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59
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60 -bgcolor Background color turquoise
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61
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62 -fillcolor Synonym for -bgcolor
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63
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64 -linewidth Line width 1
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65
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66 -height Height of glyph 10
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67
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68 -font Glyph font gdSmallFont
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69
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70 -connector Connector type 0 (false)
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71
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72 -connector_color
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73 Connector color black
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74
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75 -label Whether to draw a label 0 (false)
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76
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77 -description Whether to draw a description 0 (false)
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78
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79 =head1 BUGS
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80
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81 Please report them.
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82
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83 =head1 SEE ALSO
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84
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85 L<Bio::Graphics::Panel>,
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86 L<Bio::Graphics::Glyph>,
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87 L<Bio::Graphics::Glyph::arrow>,
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88 L<Bio::Graphics::Glyph::cds>,
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89 L<Bio::Graphics::Glyph::crossbox>,
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90 L<Bio::Graphics::Glyph::diamond>,
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91 L<Bio::Graphics::Glyph::dna>,
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92 L<Bio::Graphics::Glyph::dot>,
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93 L<Bio::Graphics::Glyph::ellipse>,
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94 L<Bio::Graphics::Glyph::extending_arrow>,
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95 L<Bio::Graphics::Glyph::generic>,
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96 L<Bio::Graphics::Glyph::graded_segments>,
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97 L<Bio::Graphics::Glyph::heterogeneous_segments>,
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98 L<Bio::Graphics::Glyph::line>,
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99 L<Bio::Graphics::Glyph::pinsertion>,
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100 L<Bio::Graphics::Glyph::primers>,
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101 L<Bio::Graphics::Glyph::rndrect>,
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102 L<Bio::Graphics::Glyph::segments>,
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103 L<Bio::Graphics::Glyph::ruler_arrow>,
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104 L<Bio::Graphics::Glyph::toomany>,
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105 L<Bio::Graphics::Glyph::transcript>,
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106 L<Bio::Graphics::Glyph::transcript2>,
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107 L<Bio::Graphics::Glyph::translation>,
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108 L<Bio::Graphics::Glyph::triangle>,
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109 L<Bio::DB::GFF>,
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110 L<Bio::SeqI>,
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111 L<Bio::SeqFeatureI>,
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112 L<Bio::Das>,
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113 L<GD>
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114
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115 =head1 AUTHOR
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116
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117 Allen Day E<lt>day@cshl.orgE<gt>.
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118
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119 Copyright (c) 2001 Cold Spring Harbor Laboratory
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120
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121 This library is free software; you can redistribute it and/or modify
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122 it under the same terms as Perl itself. See DISCLAIMER.txt for
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123 disclaimers of warranty.
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124
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125 =cut