X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fio%2FAnnotatedPDBFileInputTest.java;h=feba9cb9d5c0f2b11d29bf1e68f0ab15a5e0ad60;hb=ab22918ab8fc67d30dad1fb1ae0f37e51f49df95;hp=6a61d2ce85194cddc1640a59af1e21b3149c936e;hpb=b8f13fd9ac44853d6510eac85edb60b117dc4620;p=jalview.git

diff --git a/test/jalview/io/AnnotatedPDBFileInputTest.java b/test/jalview/io/AnnotatedPDBFileInputTest.java
index 6a61d2c..feba9cb 100644
--- a/test/jalview/io/AnnotatedPDBFileInputTest.java
+++ b/test/jalview/io/AnnotatedPDBFileInputTest.java
@@ -1,17 +1,10 @@
 package jalview.io;
 
-import static org.junit.Assert.assertEquals;
-import static org.junit.Assert.assertNotEquals;
-import static org.junit.Assert.assertNotNull;
-import static org.junit.Assert.assertTrue;
-
-import java.io.File;
-
-import org.junit.AfterClass;
-import org.junit.Before;
-import org.junit.BeforeClass;
-import org.junit.Test;
+import static org.testng.AssertJUnit.assertEquals;
+import static org.testng.AssertJUnit.assertNotNull;
+import static org.testng.AssertJUnit.assertTrue;
 
+import jalview.bin.Cache;
 import jalview.datamodel.AlignmentAnnotation;
 import jalview.datamodel.AlignmentI;
 import jalview.datamodel.PDBEntry;
@@ -22,6 +15,14 @@ import jalview.gui.Desktop;
 import jalview.structure.StructureMapping;
 import jalview.structure.StructureSelectionManager;
 
+import java.io.File;
+
+import org.junit.Assert;
+import org.testng.annotations.AfterClass;
+import org.testng.annotations.BeforeClass;
+import org.testng.annotations.BeforeMethod;
+import org.testng.annotations.Test;
+
 public class AnnotatedPDBFileInputTest
 {
 
@@ -31,9 +32,13 @@ public class AnnotatedPDBFileInputTest
 
   String pdbId;
 
-  @Before
+  @BeforeMethod
   public void setup() throws Exception
   {
+    Cache.applicationProperties.setProperty("STRUCT_FROM_PDB",
+            Boolean.TRUE.toString());
+    Cache.applicationProperties.setProperty("ADD_SS_ANN",
+            Boolean.TRUE.toString());
     FileLoader loader = new FileLoader(false);
     AlignFrame af = loader.LoadFileWaitTillLoaded(pdbStr,
             FormatAdapter.FILE);
@@ -42,7 +47,7 @@ public class AnnotatedPDBFileInputTest
             .get(0).getId();
   }
 
-  @Test
+  @Test(groups ={ "Functional" })
   public void checkNoDuplicates()
   {
     // not strictly a requirement, but strange things may happen if multiple
@@ -55,14 +60,14 @@ public class AnnotatedPDBFileInputTest
     {
       for (int q = p + 1; q < avec.length; q++)
       {
-        assertNotEquals(
+        Assert.assertNotEquals(
                 "Found a duplicate annotation row " + avec[p].label,
                 avec[p], avec[q]);
       }
     }
   }
 
-  @Test
+  @Test(groups ={ "Functional" })
   public void checkPDBannotationSource()
   {
 
@@ -80,7 +85,7 @@ public class AnnotatedPDBFileInputTest
   /**
    * Check sequence features have been added
    */
-  @Test
+  @Test(groups ={ "Functional" })
   public void checkPDBSequenceFeatures()
   {
     StructureSelectionManager ssm = StructureSelectionManager
@@ -119,7 +124,7 @@ public class AnnotatedPDBFileInputTest
     assertEquals("TYR:314 1gaqC", sf[295].getDescription());
   }
 
-  @Test
+  @Test(groups ={ "Functional" })
   public void checkAnnotationWiring()
   {
     assertTrue(al.getAlignmentAnnotation() != null);
@@ -168,7 +173,7 @@ public class AnnotatedPDBFileInputTest
 
   }
 
-  @Test
+  @Test(groups ={ "Functional" })
   public void testJalviewProjectRelocationAnnotation() throws Exception
   {