diff variant_effect_predictor/Bio/Graphics/Glyph/group.pm @ 0:21066c0abaf5 draft

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/variant_effect_predictor/Bio/Graphics/Glyph/group.pm	Fri Aug 03 10:04:48 2012 -0400
@@ -0,0 +1,80 @@
+package Bio::Graphics::Glyph::group;
+
+use strict;
+use vars '@ISA';
+use Bio::Graphics::Glyph::segmented_keyglyph;
+@ISA = 'Bio::Graphics::Glyph::segmented_keyglyph';
+
+# group sets connector to 'dashed'
+sub connector {
+  my $self = shift;
+  my $super = $self->SUPER::connector(@_);
+  return $super if $self->all_callbacks;
+  return 'dashed' unless defined($super) && ($super eq 'none' or !$super);
+}
+
+# we don't label group (yet)
+sub label { 0 }
+
+sub new {
+  my $self = shift->SUPER::new(@_);
+  # reset our parts to level zero
+  foreach (@{$self->{parts}}) {
+    $_->{level} = 0;
+  }
+  $self;
+}
+
+# don't allow simple bumping in groups -- it looks terrible...
+sub bump {
+  my $bump = shift->SUPER::bump(@_);
+  return unless defined $bump;
+  return 1  if $bump >  1;
+  return -1 if $bump < -1;
+  return $bump;
+}
+
+1;
+
+__END__
+
+=head1 NAME
+
+Bio::Graphics::Glyph::group - The "group" glyph
+
+=head1 SYNOPSIS
+
+  See L<Bio::Graphics::Panel> and L<Bio::Graphics::Glyph>.
+
+=head1 DESCRIPTION
+
+This glyph is used internally by Bio::Graphics::Panel for laying out
+groups of glyphs that move in concert.  It should not be used
+explicitly.
+
+=head1 BUGS
+
+Please report them.
+
+=head1 SEE ALSO
+
+L<Ace::Sequence>, L<Ace::Sequence::Feature>, L<Bio::Graphics::Panel>,
+L<Bio::Graphics::Track>, L<Bio::Graphics::Glyph::anchored_arrow>,
+L<Bio::Graphics::Glyph::arrow>,
+L<Bio::Graphics::Glyph::box>,
+L<Bio::Graphics::Glyph::primers>,
+L<Bio::Graphics::Glyph::segments>,
+L<Bio::Graphics::Glyph::toomany>,
+L<Bio::Graphics::Glyph::transcript>,
+
+=head1 AUTHOR
+
+Lincoln Stein E<lt>[e-mail]<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