From: Jim Procter <jprocter@issues.jalview.org>
Date: Thu, 27 Apr 2017 15:39:12 +0000 (+0100)
Subject: JAL-1933 showOccupancy applet parameter and SHOW_OCCUPANCY .jalview_properties setting
X-Git-Tag: Release_2_10_2~3^2~123^2~4
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=a4bb4cddf02f84557fe8cb041e114957d45e60cc;p=jalview.git

JAL-1933 showOccupancy applet parameter and SHOW_OCCUPANCY .jalview_properties setting
---

diff --git a/src/jalview/appletgui/AlignViewport.java b/src/jalview/appletgui/AlignViewport.java
index 065c503..e50cc09 100644
--- a/src/jalview/appletgui/AlignViewport.java
+++ b/src/jalview/appletgui/AlignViewport.java
@@ -149,6 +149,9 @@ public class AlignViewport extends AlignmentViewport implements
       showConsensus = applet.getDefaultParameter("showConsensus",
               showConsensus);
 
+      showOccupancy = applet.getDefaultParameter("showOccupancy",
+              showOccupancy);
+
       setShowUnconserved(applet.getDefaultParameter("showUnconserved",
               getShowUnconserved()));
 
diff --git a/src/jalview/gui/AlignViewport.java b/src/jalview/gui/AlignViewport.java
index 602e3a1..992ec54 100644
--- a/src/jalview/gui/AlignViewport.java
+++ b/src/jalview/gui/AlignViewport.java
@@ -279,6 +279,8 @@ public class AlignViewport extends AlignmentViewport implements
               false);
       showGroupConsensus = Cache.getDefault("SHOW_GROUP_CONSENSUS", false);
       showConsensus = Cache.getDefault("SHOW_IDENTITY", true);
+
+      showOccupancy = Cache.getDefault("SHOW_OCCUPANCY", true);
     }
     initAutoAnnotation();
     String colourProperty = alignment.isNucleotide() ? Preferences.DEFAULT_COLOUR_NUC