JAL-3875 test case and patch to verify the query 3d beacons button is shown for prote...

[jalview.git] / test / jalview / gui / StructureChooserTest.java

diff --git a/test/jalview/gui/StructureChooserTest.java b/test/jalview/gui/StructureChooserTest.java
index 918b857..f183e5c 100644 (file)
--- a/test/jalview/gui/StructureChooserTest.java
+++ b/test/jalview/gui/StructureChooserTest.java
@@ -47,6 +47,7 @@ import jalview.gui.structurechooser.PDBStructureChooserQuerySource;
 import jalview.jbgui.FilterOption;
 import junit.extensions.PA;
 
+@Test(singleThreaded = true)
 public class StructureChooserTest
 {
 
@@ -57,7 +58,7 @@ public class StructureChooserTest
     JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
   }
 
-  Sequence seq,upSeq;
+  Sequence seq,upSeq,upSeq_nocanonical;
 
   @BeforeMethod(alwaysRun = true)
   public void setUp() throws Exception
@@ -110,9 +111,15 @@ public class StructureChooserTest
             + "GTGVHPIVVVQPDAWTEDNGFHAIGQMCEAPVVTREWVLDSVALYQCQELDTYLIPQIPHSHY\n"
             + "", 1,
 1863);
-    upSeq.createDatasetSequence();
     upSeq.setDescription("Breast cancer type 1 susceptibility protein");
+    upSeq_nocanonical = new Sequence(upSeq);
+    upSeq.createDatasetSequence();
     upSeq.addDBRef(new DBRefEntry("UNIPROT","0","P38398",null,true));
+    
+    upSeq_nocanonical.createDatasetSequence();
+    // not a canonical reference
+    upSeq_nocanonical.addDBRef(new DBRefEntry("UNIPROT","0","P38398",null,false));
+
   }
 
   @AfterMethod(alwaysRun = true)
@@ -120,6 +127,7 @@ public class StructureChooserTest
   {
     seq = null;
     upSeq=null;
+    upSeq_nocanonical=null;
   }
 
   @Test(groups = { "Functional" })
@@ -130,6 +138,7 @@ public class StructureChooserTest
 
     SequenceI[] selectedSeqs = new SequenceI[] { seq };
     StructureChooser sc = new StructureChooser(selectedSeqs, seq, null);
+    ThreadwaitFor(200, sc);
     
     // if structures are not discovered then don't
     // populate filter options
@@ -161,6 +170,20 @@ public class StructureChooserTest
 
   }
 
+  @Test(groups = { "Functional" })
+  public void displayTDBQueryTest() throws InterruptedException
+  {
+    TDBeaconsFTSRestClientTest.setMock();
+    PDBFTSRestClientTest.setMock();
+
+    SequenceI[] selectedSeqs = new SequenceI[] { upSeq_nocanonical };
+    StructureChooser sc = new StructureChooser(selectedSeqs, upSeq_nocanonical, null);
+    // mock so should be quick. Exceptions from mocked PDBFTS are expected too
+    ThreadwaitFor(500, sc);
+    
+    assertTrue(sc.isCanQueryTDB() && sc.isNotQueriedTDBYet());
+  }
+
   @Test(groups = { "Network" })
   public void fetchStructuresInfoTest()
   {
@@ -168,6 +191,9 @@ public class StructureChooserTest
     PDBFTSRestClient.unMock((FTSRestClient) PDBFTSRestClient.getInstance());
     SequenceI[] selectedSeqs = new SequenceI[] { seq };
     StructureChooser sc = new StructureChooser(selectedSeqs, seq, null);
+    // not mocked, wait for 2s 
+    ThreadwaitFor(2000, sc);
+    
     sc.fetchStructuresMetaData();
     Collection<FTSData> ss = (Collection<FTSData>) PA.getValue(sc,
             "discoveredStructuresSet");
@@ -182,6 +208,8 @@ public class StructureChooserTest
     PDBFTSRestClientTest.setMock();
     SequenceI[] selectedSeqs = new SequenceI[] { upSeq };
     StructureChooser sc = new StructureChooser(selectedSeqs, seq, null);
+    ThreadwaitFor(500, sc);
+    
     sc.fetchStructuresMetaData();
     Collection<FTSData> ss = (Collection<FTSData>) PA.getValue(sc,
             "discoveredStructuresSet");
@@ -189,6 +217,22 @@ public class StructureChooserTest
     assertTrue(ss.size() > 0);
   }
 
+  private void ThreadwaitFor(int i, StructureChooser sc)
+  {
+    long timeout = i+System.currentTimeMillis();
+    while (!sc.isDialogVisible() && timeout > System.currentTimeMillis())
+    {
+      try {
+        Thread.sleep(50);
+      } catch (InterruptedException x)
+      {
+        
+      }
+    }
+    
+  }
+
+
   @Test(groups = { "Functional" })
   public void sanitizeSeqNameTest()
   {