*/
AlignFrame newFrame = new AlignFrame(xrefsAlignment,
AlignFrame.DEFAULT_WIDTH, AlignFrame.DEFAULT_HEIGHT);
- if (Cache.getDefault("HIDE_INTRONS", true))
+ if (Cache.getDefault(Preferences.HIDE_INTRONS, true))
{
newFrame.hideFeatureColumns(SequenceOntologyI.EXON, false);
}
return;
}
- Set<String> ensemblDivisions = EnsemblInfo.getDivisions();
+ Set<String> ensemblDivisions = new EnsemblInfo().getDivisions();
/*
* first look for direct dbrefs from sequence to Ensembl
* register any new mappings for sequence mouseover etc
* (will not duplicate any previously registered mappings)
*/
- Desktop.getInstance().getStructureSelectionManager()
+ Desktop.getStructureSelectionManager()
.registerMappings(dataset.getCodonFrames());
if (copyAlignment.getHeight() <= 0)