Merge branch 'bug/JAL-2791exportFilteredFeature' into merge/JAL-2791

[jalview.git] / src / jalview / gui / VamsasApplication.java

diff --git a/src/jalview/gui/VamsasApplication.java b/src/jalview/gui/VamsasApplication.java
index ac72e93..c094b1c 100644 (file)
--- a/src/jalview/gui/VamsasApplication.java
+++ b/src/jalview/gui/VamsasApplication.java
@@ -484,8 +484,8 @@ public class VamsasApplication implements SelectionSource, VamsasSource
               errorsDuringUpdate = true;
               Cache.log.error("Exception synchronizing " + af.getTitle()
                       + " "
-                      + (af.getViewport().viewName == null ? ""
-                              : " view " + af.getViewport().viewName)
+                      + (af.getViewport().getViewName() == null ? ""
+                              : " view " + af.getViewport().getViewName())
                       + " to document.", e);
               stored = false;
             }
@@ -1076,7 +1076,7 @@ public class VamsasApplication implements SelectionSource, VamsasSource
                   {
                     Iterator<int[]> intervals = hidden
                             .getVisContigsIterator(seqsel.getStartRes(),
-                                    seqsel.getEndRes() + 1);
+                                    seqsel.getEndRes() + 1, false);
                     while (intervals.hasNext())
                     {
                       int[] region = intervals.next();