JAL-1551 formatting

diff --git a/src/mc_view/PDBChain.java b/src/mc_view/PDBChain.java
index 7e220bb..172ed07 100755 (executable)
--- a/src/mc_view/PDBChain.java
+++ b/src/mc_view/PDBChain.java
@@ -188,6 +188,7 @@ public class PDBChain
 
   /**
    * like makeExactMapping but using a sequence mapping object
+   * 
    * @param sqmpping
    * @param seq
    */
@@ -198,13 +199,13 @@ public class PDBChain
       atom.alignmentMapping = -1;
     }
     // and now map sqmapping to the atom set.
-    int[] range = sqmpping.locateRange(seq.getStart(),seq.getEnd());
-    int r=0,from,to;
-    while (r<range.length)
+    int[] range = sqmpping.locateRange(seq.getStart(), seq.getEnd());
+    int r = 0, from, to;
+    while (r < range.length)
     {
-      from=range[r++];
-      to=range[r++];
-      for (int pdbpos=from;pdbpos<=to;pdbpos++)
+      from = range[r++];
+      to = range[r++];
+      for (int pdbpos = from; pdbpos <= to; pdbpos++)
       {
         if (pdbpos >= residues.size())
         {
@@ -216,7 +217,7 @@ public class PDBChain
           atom.alignmentMapping = sqmpping.getPosition(pdbpos);
         }
       }
-    }    
+    }
   }
 
   /**
@@ -752,8 +753,8 @@ public class PDBChain
         // Useful for debugging mappings - adds annotation for mapped position
         float min = -1, max = 0;
         Annotation[] an = new Annotation[sq.getEnd() - sq.getStart() + 1];
-        for (int i = sq.getStart(), j = sq
-                .getEnd(), k = 0; i <= j; i++, k++)
+        for (int i = sq.getStart(), j = sq.getEnd(),
+                k = 0; i <= j; i++, k++)
         {
           int prn = mapping.getPDBResNum(k + 1);