Merge branch 'develop' of https://source.jalview.org/git/jalview.git into develop

[jalview.git] / test / MCview / PDBfileTest.java

diff --git a/test/MCview/PDBfileTest.java b/test/MCview/PDBfileTest.java
index a4fd286..05680af 100644 (file)
--- a/test/MCview/PDBfileTest.java
+++ b/test/MCview/PDBfileTest.java
@@ -20,7 +20,7 @@ import org.testng.annotations.Test;
 
 public class PDBfileTest
 {
-  @Test
+  @Test(groups ={ "Functional" })
   public void testIsRna()
   {
     SequenceI seq = new Sequence("Seq1", "CGAU");
@@ -42,7 +42,7 @@ public class PDBfileTest
    * 
    * @throws IOException
    */
-  @Test
+  @Test(groups ={ "Functional" })
   public void testParse() throws IOException
   {
     /*
@@ -104,7 +104,7 @@ public class PDBfileTest
    * 
    * @throws IOException
    */
-  @Test
+  @Test(groups ={ "Functional" })
   public void testParse_withAnnotations_noSS() throws IOException
   {
     PDBfile pf = new PDBfile(true, false, false, "examples/3W5V.pdb",
@@ -162,7 +162,7 @@ public class PDBfileTest
    * 
    * @throws IOException
    */
-  @Test
+  @Test(groups ={ "Functional" })
   public void testParse_withJmol_noAnnotations() throws IOException
   {
     PDBfile pf = new PDBfile(false, true, false, "examples/3W5V.pdb",
@@ -191,7 +191,7 @@ public class PDBfileTest
    * 
    * @throws IOException
    */
-  @Test
+  @Test(groups ={ "Functional" })
   public void testParse_withJmolAddAlignmentAnnotations()
           throws IOException
   {
@@ -248,7 +248,8 @@ public class PDBfileTest
    * @throws IOException
    */
 
-  @Test(enabled = false)
+  @Test(groups =
+  { "Functional" }, enabled = false)
   public void testParse_withAnnotate3D() throws IOException
   {
     // TODO requires a mock for Annotate3D processing
@@ -265,7 +266,7 @@ public class PDBfileTest
   private AlignmentAnnotation[] getAlignmentAnnotations(PDBfile pf)
   {
     AlignmentI al = new Alignment(pf.getSeqsAsArray());
-    pf.addAnnotations((Alignment) al);
+    pf.addAnnotations(al);
     return al.getAlignmentAnnotation();
   }
   }