X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fanalysis%2FSeqsetUtils.java;h=2b21e5eb589bf1f2cb94563834923f26102bfdcf;hb=3d0101179759ef157b088ea135423cd909512d9f;hp=b0ecfdec4d6659ad1c801871cc911c1955638f67;hpb=4b10dbcd48c997447eece2ded18b4b6393d10eec;p=jalview.git

diff --git a/src/jalview/analysis/SeqsetUtils.java b/src/jalview/analysis/SeqsetUtils.java
index b0ecfde..2b21e5e 100755
--- a/src/jalview/analysis/SeqsetUtils.java
+++ b/src/jalview/analysis/SeqsetUtils.java
@@ -63,14 +63,14 @@ public class SeqsetUtils
     {
       sqinfo.put("SeqFeatures", sfeat);
       sqinfo.put("PdbId",
-            (seq.getAllPDBEntries() != null) ? seq.getAllPDBEntries()
-                    : new Vector<PDBEntry>());
+              (seq.getAllPDBEntries() != null) ? seq.getAllPDBEntries()
+                      : new Vector<PDBEntry>());
     }
     else
     {
       sqinfo.put("datasetSequence",
-            (seq.getDatasetSequence() != null) ? seq.getDatasetSequence()
-                    : new Sequence("THISISAPLACEHOLDER", ""));
+              (seq.getDatasetSequence() != null) ? seq.getDatasetSequence()
+                      : new Sequence("THISISAPLACEHOLDER", ""));
     }
     return sqinfo;
   }
@@ -131,14 +131,13 @@ public class SeqsetUtils
     {
       sq.setDescription(description);
     }
-    if ((seqds != null)
-            && !(seqds.getName().equals("THISISAPLACEHOLDER") && seqds
-                    .getLength() == 0))
+    if ((seqds != null) && !(seqds.getName().equals("THISISAPLACEHOLDER")
+            && seqds.getLength() == 0))
     {
-      if (sfeatures!=null)
+      if (sfeatures != null)
       {
-        System.err
-                .println("Implementation error: setting dataset sequence for a sequence which has sequence features.\n\tDataset sequence features will not be visible.");
+        System.err.println(
+                "Implementation error: setting dataset sequence for a sequence which has sequence features.\n\tDataset sequence features will not be visible.");
       }
       sq.setDatasetSequence(seqds);
     }
@@ -261,8 +260,9 @@ public class SeqsetUtils
     if (unmatched.size() > 0 && !quiet)
     {
       System.err.println("Did not find matches for :");
-      for (Enumeration i = unmatched.elements(); i.hasMoreElements(); System.out
-              .println(((SequenceI) i.nextElement()).getName()))
+      for (Enumeration i = unmatched.elements(); i
+              .hasMoreElements(); System.out
+                      .println(((SequenceI) i.nextElement()).getName()))
       {
         ;
       }