public static final int CONTACT_MAP = 4;
+ /**
+ * property that when set to non-empty string disables display of column groups defined on the contact matrix
+ */
+ public static final String CONTACT_MAP_NOGROUPS = "CMNOGRPS";
+
public boolean belowAlignment = true;
public SequenceGroup groupRef = null;
}
return aa;
}
+
+ /**
+ * convenience method to check for the 'CONTACT_MAP_NOGROUPS' property for this alignment annotation row
+ * @return true if no CONTACT_MAP_NOGROUPS property is found, or it is set to ""
+ */
+ public boolean isShowGroupsForContactMatrix()
+ {
+ return getProperty(AlignmentAnnotation.CONTACT_MAP_NOGROUPS)==null || "".equals(getProperty(AlignmentAnnotation.CONTACT_MAP_NOGROUPS));
+ }
+ /**
+ * set the 'CONTACT_MAP_NOGROUPS' property for this alignment annotation row
+ * @see isShowGroupsForContactMatrix
+ */
+ public void setShowGroupsForContactMatrix(boolean showGroups)
+ {
+ setProperty(AlignmentAnnotation.CONTACT_MAP_NOGROUPS, showGroups ? "" : "nogroups");
+ }
+
}