individual query error/exception report and bugfix

[jalview.git] / src / MCview / AppletPDBViewer.java

diff --git a/src/MCview/AppletPDBViewer.java b/src/MCview/AppletPDBViewer.java
index b610122..2471f32 100755 (executable)
--- a/src/MCview/AppletPDBViewer.java
+++ b/src/MCview/AppletPDBViewer.java
@@ -33,6 +33,7 @@ public class AppletPDBViewer
 \r
   public AppletPDBViewer(PDBEntry pdbentry,\r
                          SequenceI[] seq,\r
+                         String [] chains,\r
                          AlignmentPanel ap,\r
                          String protocol)\r
   {\r
@@ -45,13 +46,11 @@ public class AppletPDBViewer
       ex.printStackTrace();\r
     }\r
 \r
-    pdbcanvas = new AppletPDBCanvas(pdbentry, seq, ap, protocol);\r
+    pdbcanvas = new AppletPDBCanvas(pdbentry, seq, chains, ap, protocol);\r
 \r
 \r
     add(pdbcanvas, BorderLayout.CENTER);\r
 \r
-    System.out.println(seq[0].getName()+" ASFA");\r
-\r
     StringBuffer title = new StringBuffer(seq[0].getName()\r
                                           + ":"\r
                                           + pdbcanvas.pdbentry.getFile());\r
@@ -89,9 +88,7 @@ public class AppletPDBViewer
     else if (evt.getSource() == seqButton)\r
     {\r
       pdbcanvas.bysequence = true;\r
-      pdbcanvas.colourBySequence(pdbcanvas.ap.getSequenceRenderer(),\r
-                                 pdbcanvas.ap.av.getShowSequenceFeatures() ?\r
-                                 pdbcanvas.ap.getFeatureRenderer() : null);\r
+      pdbcanvas.colourBySequence();\r
 \r
     }\r
     else if (evt.getSource() == zappo)\r