X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fext%2Fjmol%2FPDBFileWithJmolTest.java;h=900e47cf2e4bc66fa224061f1a3d64c76c910593;hb=7ab5d6b0ba5fec1ea4a4239e79c476d841622485;hp=2410e4f078e1e744b7de58cfa99ad7c7cacaf602;hpb=1889827c44c51f6353fe8619e5d44b421158af23;p=jalview.git

diff --git a/test/jalview/ext/jmol/PDBFileWithJmolTest.java b/test/jalview/ext/jmol/PDBFileWithJmolTest.java
index 2410e4f..900e47c 100644
--- a/test/jalview/ext/jmol/PDBFileWithJmolTest.java
+++ b/test/jalview/ext/jmol/PDBFileWithJmolTest.java
@@ -32,7 +32,7 @@ import org.junit.Test;
 
 /**
  * @author jimp
- *
+ * 
  */
 public class PDBFileWithJmolTest
 {
@@ -40,16 +40,26 @@ public class PDBFileWithJmolTest
   @Test
   public void test() throws Exception
   {
-    PDBFileWithJmol jtest=new PDBFileWithJmol("./examples/1GAQ.txt", jalview.io.AppletFormatAdapter.FILE);
-    Vector<SequenceI> seqs=jtest.getSeqs();
-    
-    assertTrue("No sequences extracted from testfile\n"+(jtest.hasWarningMessage() ? jtest.getWarningMessage(): "(No warnings raised)"), seqs!=null && seqs.size()>0);
-    for (SequenceI sq:seqs)
+    PDBFileWithJmol jtest = new PDBFileWithJmol("./examples/1GAQ.txt",
+            jalview.io.AppletFormatAdapter.FILE);
+    Vector<SequenceI> seqs = jtest.getSeqs();
+
+    assertTrue(
+            "No sequences extracted from testfile\n"
+                    + (jtest.hasWarningMessage() ? jtest.getWarningMessage()
+                            : "(No warnings raised)"),
+            seqs != null && seqs.size() > 0);
+    for (SequenceI sq : seqs)
     {
-      AlignmentI al = new Alignment(new SequenceI[] { sq});
+      AlignmentI al = new Alignment(new SequenceI[]
+      { sq });
       if (!al.isNucleotide())
       {
-        assertTrue("No secondary structure assigned for protein sequence.",sq.getAnnotation()!=null && sq.getAnnotation().length>=1 && sq.getAnnotation()[0].hasIcons);
+        assertTrue(
+                "No secondary structure assigned for protein sequence.",
+                sq.getAnnotation() != null
+                        && sq.getAnnotation().length >= 1
+                        && sq.getAnnotation()[0].hasIcons);
       }
     }
   }