X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws%2Frest%2FRestClient.java;fp=src%2Fjalview%2Fws%2Frest%2FRestClient.java;h=27f5271097e0645777f97d8aa24e6ce9a4d21936;hb=e54e2eee927260cd650ffe17b1422b29b8b2f122;hp=7fbae89834f41f06f2fec6a129ff0a6a82f58c0a;hpb=7f56aef9e977c7e67499deae903c5d34f697d2ae;p=jalview.git

diff --git a/src/jalview/ws/rest/RestClient.java b/src/jalview/ws/rest/RestClient.java
index 7fbae89..27f5271 100644
--- a/src/jalview/ws/rest/RestClient.java
+++ b/src/jalview/ws/rest/RestClient.java
@@ -259,7 +259,8 @@ public class RestClient extends WSClient implements WSClientI,
         {
           // intersect groups with selected region
           _input = new AlignmentView(av.getAlignment(),
-                  av.getColumnSelection(), av.getSelectionGroup(),
+ av.getAlignment()
+                  .getHiddenColumns(), av.getSelectionGroup(),
                   av.hasHiddenColumns(), true, true);
           viewTitle = MessageManager.formatMessage(
                   "label.select_visible_region_of",
@@ -272,7 +273,8 @@ public class RestClient extends WSClient implements WSClientI,
         {
           // use selected region to partition alignment
           _input = new AlignmentView(av.getAlignment(),
-                  av.getColumnSelection(), av.getSelectionGroup(),
+ av.getAlignment()
+                  .getHiddenColumns(), av.getSelectionGroup(),
                   av.hasHiddenColumns(), false, true);
         }
         viewTitle = MessageManager.formatMessage(
@@ -286,7 +288,8 @@ public class RestClient extends WSClient implements WSClientI,
       {
         // just take selected region intersection
         _input = new AlignmentView(av.getAlignment(),
-                av.getColumnSelection(), av.getSelectionGroup(),
+ av.getAlignment()
+                .getHiddenColumns(), av.getSelectionGroup(),
                 av.hasHiddenColumns(), true, true);
         viewTitle = MessageManager.formatMessage(
                 "label.select_visible_region_of",
@@ -300,7 +303,8 @@ public class RestClient extends WSClient implements WSClientI,
     {
       // standard alignment view without selection present
       _input = new AlignmentView(av.getAlignment(),
-              av.getColumnSelection(), null, av.hasHiddenColumns(), false,
+ av.getAlignment()
+              .getHiddenColumns(), null, av.hasHiddenColumns(), false,
               true);
       viewTitle = ""
               + (av.hasHiddenColumns() ? (new StringBuffer(" ")