JAL-1807 explicit imports (jalview.ext.*)

[jalview.git] / src / jalview / ext / varna / VarnaCommands.java

diff --git a/src/jalview/ext/varna/VarnaCommands.java b/src/jalview/ext/varna/VarnaCommands.java
index a41e10e..2bdc087 100644 (file)
--- a/src/jalview/ext/varna/VarnaCommands.java
+++ b/src/jalview/ext/varna/VarnaCommands.java
@@ -26,6 +26,7 @@ import jalview.datamodel.AlignmentI;
 import jalview.datamodel.SequenceI;
 import jalview.structure.StructureMapping;
 import jalview.structure.StructureSelectionManager;
+import jalview.util.Comparison;
 
 import java.awt.Color;
 import java.util.ArrayList;
@@ -58,7 +59,9 @@ public class VarnaCommands
       StructureMapping[] mapping = ssm.getMapping(files[pdbfnum]);
 
       if (mapping == null || mapping.length < 1)
+      {
         continue;
+      }
 
       int lastPos = -1;
       for (int s = 0; s < sequence[pdbfnum].length; s++)
@@ -72,21 +75,25 @@ public class VarnaCommands
             for (int r = 0; r < asp.getLength(); r++)
             {
               // no mapping to gaps in sequence
-              if (jalview.util.Comparison.isGap(asp.getCharAt(r)))
+              if (Comparison.isGap(asp.getCharAt(r)))
               {
                 continue;
               }
               int pos = mapping[m].getPDBResNum(asp.findPosition(r));
 
               if (pos < 1 || pos == lastPos)
+              {
                 continue;
+              }
 
               lastPos = pos;
 
               Color col = sr.getResidueBoxColour(sequence[pdbfnum][s], r);
 
               if (fr != null)
+              {
                 col = fr.findFeatureColour(col, sequence[pdbfnum][s], r);
+              }
               String newSelcom = (mapping[m].getChain() != " " ? ":"
                       + mapping[m].getChain() : "")
                       + "/"