JAL-2438 FeatureColourFinder refactored from FeatureRenderer, fr not

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

diff --git a/src/MCview/PDBCanvas.java b/src/MCview/PDBCanvas.java
index 7b4e0f0..ae58758 100644 (file)
--- a/src/MCview/PDBCanvas.java
+++ b/src/MCview/PDBCanvas.java
@@ -28,6 +28,7 @@ import jalview.gui.FeatureRenderer;
 import jalview.gui.SequenceRenderer;
 import jalview.io.DataSourceType;
 import jalview.io.StructureFile;
+import jalview.renderer.seqfeatures.FeatureColourFinder;
 import jalview.structure.AtomSpec;
 import jalview.structure.StructureListener;
 import jalview.structure.StructureMapping;
@@ -189,8 +190,10 @@ public class PDBCanvas extends JPanel implements MouseListener,
     for (int i = 0; i < pdb.getChains().size(); i++)
     {
 
-      mappingDetails.append("\n\nPDB Sequence is :\nSequence = "
-              + pdb.getChains().elementAt(i).sequence.getSequenceAsString());
+      mappingDetails
+              .append("\n\nPDB Sequence is :\nSequence = "
+                      + pdb.getChains().elementAt(i).sequence
+                              .getSequenceAsString());
       mappingDetails.append("\nNo of residues = "
               + pdb.getChains().elementAt(i).residues.size() + "\n\n");
 
@@ -544,6 +547,7 @@ public class PDBCanvas extends JPanel implements MouseListener,
       showFeatures = true;
     }
 
+    FeatureColourFinder finder = new FeatureColourFinder(fr);
     PDBChain chain;
     if (bysequence && pdb != null)
     {
@@ -574,7 +578,7 @@ public class PDBCanvas extends JPanel implements MouseListener,
                   tmp.startCol = sr.getResidueBoxColour(sequence[s], pos);
                   if (showFeatures)
                   {
-                    tmp.startCol = fr.findFeatureColour(tmp.startCol,
+                    tmp.startCol = finder.findFeatureColour(tmp.startCol,
                             sequence[s], pos);
                   }
                 }
@@ -585,7 +589,7 @@ public class PDBCanvas extends JPanel implements MouseListener,
                   tmp.endCol = sr.getResidueBoxColour(sequence[s], pos);
                   if (showFeatures)
                   {
-                    tmp.endCol = fr.findFeatureColour(tmp.endCol,
+                    tmp.endCol = finder.findFeatureColour(tmp.endCol,
                             sequence[s], pos);
                   }
                 }