fix for drawing a read when its mate is not in the view

git-svn-id: svn+ssh://svn.internal.sanger.ac.uk/repos/svn/pathsoft/artemis/trunk@11863 ee4ac58c-ac51-4696-9907-e4b3aa274f04

uk/ac/sanger/artemis/components/alignment/JamView.java

@@ -670,7 +670,7 @@ public class JamView extends JPanel
     int thisEnd   = thisStart + samRecord.getReadString().length();
     
     if(drawLine &&
-        (samRecord.getMateAlignmentStart()-samRecord.getAlignmentEnd())*pixPerBase > 2.f)
+        Math.abs(samRecord.getMateAlignmentStart()-samRecord.getAlignmentEnd())*pixPerBase > 2.f)
     {
       g2.setStroke(originalStroke);
       g2.setColor(Color.LIGHT_GRAY);