*/
package jalview.workers;
-import jalview.api.AlignCalcManagerI;
+import jalview.api.AlignCalcManagerI2;
import jalview.api.AlignCalcWorkerI;
import jalview.api.AlignViewportI;
import jalview.api.AlignmentViewPanel;
import jalview.datamodel.AlignmentAnnotation;
import jalview.datamodel.AlignmentI;
+import jalview.datamodel.Annotation;
import java.util.List;
*/
protected AlignViewportI alignViewport;
- protected AlignCalcManagerI calcMan;
+ protected AlignCalcManagerI2 calcMan;
protected AlignmentViewPanel ap;
{
if (calcMan != null)
{
- calcMan.workerComplete(this);
+ calcMan.cancelWorker(this);
+ calcMan.removeWorker(this);
}
alignViewport = null;
calcMan = null;
ourAnnots.clear();
}
}
+
// TODO: allow GUI to query workers associated with annotation to add items to
// annotation label panel popup menu
+ @Override
+ public boolean isDeletable()
+ {
+ return false;
+ }
+
+ /**
+ * Calculate min and max values of annotations and set as graphMin, graphMax
+ * on the AlignmentAnnotation. This is needed because otherwise, well, bad
+ * things happen.
+ *
+ * @param ann
+ * @param anns
+ */
+ protected void setGraphMinMax(AlignmentAnnotation ann, Annotation[] anns)
+ {
+ // TODO feels like this belongs inside AlignmentAnnotation!
+ float max = Float.MIN_VALUE;
+ float min = Float.MAX_VALUE;
+ boolean set = false;
+ for (Annotation a : anns)
+ {
+ if (a != null)
+ {
+ set = true;
+ float val = a.value;
+ max = Math.max(max, val);
+ min = Math.min(min, val);
+ }
+ }
+ if (set)
+ {
+ ann.graphMin = min;
+ ann.graphMax = max;
+ }
+ }
+
+ public AlignViewportI getAlignViewport()
+ {
+ return alignViewport;
+ }
}