import jalview.gui.AlignFrame;
import jalview.gui.AlignViewport;
-def af = Jalview.getAlignFrames();
-def al = af[0].viewport.alignment;
+def al = Jalview.getCurrentAlignFrame().viewport.alignment;
ParseProperties pp = new ParseProperties(al);
pp.getScoresFromDescription("Score", "ScanPS Raw Score", "([-0-9.+]+)", true);
def sqs = al.getSequenceAt(0);