JAL-2189 format tests

[jalview.git] / test / jalview / ext / jmol / JmolVsJalviewPDBParserEndToEndTest.java

diff --git a/test/jalview/ext/jmol/JmolVsJalviewPDBParserEndToEndTest.java b/test/jalview/ext/jmol/JmolVsJalviewPDBParserEndToEndTest.java
index 8a89830..b6aa375 100644 (file)
--- a/test/jalview/ext/jmol/JmolVsJalviewPDBParserEndToEndTest.java
+++ b/test/jalview/ext/jmol/JmolVsJalviewPDBParserEndToEndTest.java
@@ -53,8 +53,7 @@ public class JmolVsJalviewPDBParserEndToEndTest
       {
         mctest = new PDBfile(false, false, false, testFile,
                 AppletFormatAdapter.FILE);
-        jtest = new JmolParser(false, false, false, testFile,
-                jalview.io.AppletFormatAdapter.FILE);
+        jtest = new JmolParser(testFile, AppletFormatAdapter.FILE);
       } catch (IOException e)
       {
         System.err.println("Exception thrown while parsing : " + pdbStr);
@@ -66,15 +65,15 @@ public class JmolVsJalviewPDBParserEndToEndTest
       {
         try
         {
-        String testSeq = mcseqs.remove(0).getSequenceAsString();
+          String testSeq = mcseqs.remove(0).getSequenceAsString();
           if (!sq.getSequenceAsString().equals(testSeq))
-        {
-          ++totalFail;
+          {
+            ++totalFail;
             System.err.println("Test Failed for " + pdbStr + ". Diff:");
-          System.err.println(sq.getSequenceAsString());
-          System.err.println(testSeq);
-          failedFiles.add(pdbStr);
-        }
+            System.err.println(sq.getSequenceAsString());
+            System.err.println(testSeq);
+            failedFiles.add(pdbStr);
+          }
           ++totalSeqScanned;
         } catch (Exception e)
         {