annotate variant_effect_predictor/Bio/Graphics/Glyph/toomany.pm @ 2:a5976b2dce6f

changing defualt values for ensembl database
author mahtabm
date Thu, 11 Apr 2013 17:15:42 +1000
parents 1f6dce3d34e0
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1 package Bio::Graphics::Glyph::toomany;
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2 # DAS-compatible package to use for drawing a box
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3
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4 use strict;
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5 use vars '@ISA';
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6 @ISA = 'Bio::Graphics::Glyph::generic';
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7 use Bio::Graphics::Glyph::generic;
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8
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9 # draw the thing onto a canvas
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10 # this definitely gets overridden
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11 sub draw {
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12 my $self = shift;
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13 my $gd = shift;
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14 my ($left,$top) = @_;
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15 my ($x1,$y1,$x2,$y2) = $self->calculate_boundaries($left,$top);
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16
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17 # $self->filled_oval($gd,$x1,$y1,$x2,$y2);
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18 for (my $m = 3;$m > 0;$m--){
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19 my $stack = $m * $self->height / 2;
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20 $self->unfilled_box($gd,$x1-$stack,$y1-$stack,$x2-$stack,$y2-$stack);
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21 }
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22
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23 # add a label if requested
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24 $self->draw_label($gd,$left,($top-($self->height*1.1))) if $self->option('label');
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25 }
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26
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27 sub label {
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28 return "too many to display";
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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::toomany - The "too many to show" 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 glyph is intended for features that are too dense to show
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46 properly. Mostly a placeholder, it currently shows a filled oval. If
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47 you choose a bump of 0, the ovals will overlap, to give a cloud
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48 effect.
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49
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50 =head2 OPTIONS
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51
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52 There are no glyph-specific options.
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53
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54 =head1 BUGS
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55
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56 Please report them.
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57
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58 =head1 SEE ALSO
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59
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60
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61 L<Bio::Graphics::Panel>,
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62 L<Bio::Graphics::Glyph>,
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63 L<Bio::Graphics::Glyph::arrow>,
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64 L<Bio::Graphics::Glyph::cds>,
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65 L<Bio::Graphics::Glyph::crossbox>,
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66 L<Bio::Graphics::Glyph::diamond>,
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67 L<Bio::Graphics::Glyph::dna>,
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68 L<Bio::Graphics::Glyph::dot>,
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69 L<Bio::Graphics::Glyph::ellipse>,
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70 L<Bio::Graphics::Glyph::extending_arrow>,
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71 L<Bio::Graphics::Glyph::generic>,
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72 L<Bio::Graphics::Glyph::graded_segments>,
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73 L<Bio::Graphics::Glyph::heterogeneous_segments>,
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74 L<Bio::Graphics::Glyph::line>,
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75 L<Bio::Graphics::Glyph::pinsertion>,
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76 L<Bio::Graphics::Glyph::primers>,
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77 L<Bio::Graphics::Glyph::rndrect>,
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78 L<Bio::Graphics::Glyph::segments>,
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79 L<Bio::Graphics::Glyph::ruler_arrow>,
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80 L<Bio::Graphics::Glyph::toomany>,
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81 L<Bio::Graphics::Glyph::transcript>,
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82 L<Bio::Graphics::Glyph::transcript2>,
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83 L<Bio::Graphics::Glyph::translation>,
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84 L<Bio::Graphics::Glyph::triangle>,
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85 L<Bio::DB::GFF>,
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86 L<Bio::SeqI>,
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87 L<Bio::SeqFeatureI>,
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88 L<Bio::Das>,
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89 L<GD>
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90
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91 =head1 AUTHOR
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92
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93 Allen Day E<lt>day@cshl.orgE<gt>.
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94
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95 Copyright (c) 2001 Cold Spring Harbor Laboratory
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96
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97 This library is free software; you can redistribute it and/or modify
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98 it under the same terms as Perl itself. See DISCLAIMER.txt for
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99 disclaimers of warranty.
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100
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101 =cut