private void initSelectionModel() {
this.selectionModel =
new NucleotideSelectionModel(
rnaSequence3D
.getNucleotides()
.toArray(new Nucleotide[rnaSequence3D.getNucleotides().size()]));
}
/** initialize secondary structure view items */
private void initSecondaryView() {
// clear the secondary structure pane on initialization
pane2D.getChildren().clear();
if (view2DController.getGraph2d() != null) {
pane2D.widthProperty().removeListener(view2DController.getWidthChangeListener());
pane2D.heightProperty().removeListener(view2DController.getHeightChangeListener());
}
view2DController.initGraph2d(
rnaSequence3D.extractString(),
rnaSequence3D.getNucleotides().size(),
rnaSequence3D.computeWCBonds(),
(int) pane2D.getWidth(),
(int) pane2D.getHeight());
listenOnPane2dResize();
view2DController.setScaleBinding(pane2D.widthProperty(), pane2D.heightProperty());
view2DController.getGraph2d().setSelectionModel(selectionModel);
pane2D.getChildren().add(view2DController.getGraph2d());
}