X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FAppletJmol.java;h=345631016468cfd68c9462aedfaa53b1ea85ee57;hb=refs%2Fheads%2Fpatch%2FJAL-2694_maptoallchainsworkaround;hp=49219b936922964fd97d951f743b273fe12f43e4;hpb=6b88cfe942593f7ab1c5c90b99aa3a3e315c94bc;p=jalview.git

diff --git a/src/jalview/appletgui/AppletJmol.java b/src/jalview/appletgui/AppletJmol.java
index 49219b9..3456310 100644
--- a/src/jalview/appletgui/AppletJmol.java
+++ b/src/jalview/appletgui/AppletJmol.java
@@ -213,7 +213,9 @@ public class AppletJmol extends EmbmenuFrame implements
     {
       reader = StructureSelectionManager
               .getStructureSelectionManager(ap.av.applet)
-              .setMapping(seq, chains, pdbentry.getFile(), protocol);
+              .setMapping(seq,
+                      StructureSelectionManager.perChainList(chains),
+                      pdbentry.getFile(), protocol);
       // PROMPT USER HERE TO ADD TO NEW OR EXISTING VIEW?
       // FOR NOW, LETS JUST OPEN A NEW WINDOW
     }