return zoom_level;
}
-void GlSeqBrowser::setColorMapper(boost::shared_ptr<AnnotationColors> cm)
+void GlSeqBrowser::setColorMapper(AnnotationColorsRef cm)
{
color_mapper = cm;
}
-const AnnotationColors& GlSeqBrowser::colorMapper()
+const AnnotationColorsRef GlSeqBrowser::colorMapper()
{
- return *color_mapper;
+ return color_mapper;
}
void GlSeqBrowser::clear()
void GlSeqBrowser::push_sequence(const Sequence& s)
{
- GlSequence gs(s, color_mapper);
+ GlSequenceRef gs(new GlSequence(s, color_mapper));
push_sequence(gs);
}
-void GlSeqBrowser::push_sequence(boost::shared_ptr<Sequence> s)
+void GlSeqBrowser::push_sequence(SequenceRef s)
{
- boost::shared_ptr<GlSequence> gs(new GlSequence(*s, color_mapper));
+ GlSequenceRef gs(new GlSequence(*s, color_mapper));
push_sequence(gs);
}
void GlSeqBrowser::push_sequence(GlSequence gs)
{
- boost::shared_ptr<GlSequence> new_gs(new GlSequence(gs));
+ GlSequenceRef new_gs(new GlSequence(gs));
push_sequence(new_gs);
}
-void GlSeqBrowser::push_sequence(boost::shared_ptr<GlSequence> gs)
+void GlSeqBrowser::push_sequence(GlSequenceRef gs)
{
+ GlSequenceRef new_gs(new GlSequence(gs));
+ // mark where the sequence is
+ new_gs->add_annotations_for_defined_sequence(draw_track);
+
clear_links();
- track_container.push_back(gs);
+ track_container.push_back(new_gs);
update_layout();
if (track_container.size() > 1)
path_segments.push_back(pair_segment_map());
}
-const std::vector<boost::shared_ptr<GlSequence> >& GlSeqBrowser::sequences() const
+const std::vector<GlSequenceRef >& GlSeqBrowser::sequences() const
{
return track_container;
}