From: gmungoc <g.m.carstairs@dundee.ac.uk>
Date: Thu, 10 Aug 2017 11:29:52 +0000 (+0100)
Subject: JAL-2660 used saved value of ignoreGapsInConsensus when loading
X-Git-Tag: Release_2_10_3b1~132^2~5
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=ac556c533791c50fd03029357eedce928991213b;p=jalview.git

JAL-2660 used saved value of ignoreGapsInConsensus when loading
(/copying) viewport
---

diff --git a/src/jalview/gui/Jalview2XML.java b/src/jalview/gui/Jalview2XML.java
index d472ef8..ffbe6a1 100644
--- a/src/jalview/gui/Jalview2XML.java
+++ b/src/jalview/gui/Jalview2XML.java
@@ -4489,8 +4489,8 @@ public class Jalview2XML
     }
 
     af.viewport.setGlobalColourScheme(cs);
-    af.viewport.getResidueShading().setThreshold(
-            view.getPidThreshold(), true);
+    af.viewport.getResidueShading().setThreshold(view.getPidThreshold(),
+            view.getIgnoreGapsinConsensus());
     af.viewport.getResidueShading().setConsensus(
             af.viewport.getSequenceConsensusHash());
     af.viewport.setColourAppliesToAllGroups(false);