X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fgui%2FAlignViewportTest.java;fp=test%2Fjalview%2Fgui%2FAlignViewportTest.java;h=0b5840cd796dae7eb53a74d9cdb430d310e13a91;hb=f06554784411ddbf871d642e66c8dcb7f147d4a8;hp=4c553862a2b6a0103d12f6ee3cb3c1338d60dde8;hpb=cf06ee5d732af6cc874115aece1138adafca8ad7;p=jalview.git

diff --git a/test/jalview/gui/AlignViewportTest.java b/test/jalview/gui/AlignViewportTest.java
index 4c55386..0b5840c 100644
--- a/test/jalview/gui/AlignViewportTest.java
+++ b/test/jalview/gui/AlignViewportTest.java
@@ -1,15 +1,26 @@
 package jalview.gui;
 
 import static org.testng.AssertJUnit.assertEquals;
+import static org.testng.AssertJUnit.assertFalse;
+import static org.testng.AssertJUnit.assertNotNull;
 import static org.testng.AssertJUnit.assertSame;
+import static org.testng.AssertJUnit.assertTrue;
 
+import jalview.datamodel.AlignedCodonFrame;
 import jalview.datamodel.Alignment;
 import jalview.datamodel.AlignmentI;
 import jalview.datamodel.PDBEntry;
 import jalview.datamodel.PDBEntry.Type;
 import jalview.datamodel.Sequence;
 import jalview.datamodel.SequenceI;
+import jalview.io.FileLoader;
+import jalview.io.FormatAdapter;
+import jalview.structure.StructureSelectionManager;
 
+import java.util.LinkedHashSet;
+import java.util.Set;
+
+import org.testng.annotations.BeforeClass;
 import org.testng.annotations.BeforeMethod;
 import org.testng.annotations.Test;
 
@@ -19,6 +30,13 @@ public class AlignViewportTest
   AlignmentI al;
   AlignViewport testee;
 
+  @BeforeClass(alwaysRun = true)
+  public static void setUpBeforeClass() throws Exception
+  {
+    jalview.bin.Jalview.main(new String[] { "-props",
+        "test/jalview/testProps.jvprops" });
+  }
+
  @BeforeMethod(alwaysRun = true)
   public void setUp()
   {
@@ -84,4 +102,155 @@ public class AlignViewportTest
     // no sequence refers to PDBEntry[2]
     assertEquals(0, seqs[2].length);
   }
+
+  /**
+   * Test that a mapping is not deregistered when a second view is closed but
+   * the first still holds a reference to the mapping
+   */
+  @Test(groups ={ "Functional" })
+  public void testDeregisterMapping_onCloseView()
+  {
+    /*
+     * alignment with reference to mappings
+     */
+    AlignFrame af1 = new FileLoader().LoadFileWaitTillLoaded(
+            ">Seq1\nCAGT\n", FormatAdapter.PASTE);
+  
+    AlignedCodonFrame acf1 = new AlignedCodonFrame();
+    AlignedCodonFrame acf2 = new AlignedCodonFrame();
+  
+    Set<AlignedCodonFrame> mappings = new LinkedHashSet<AlignedCodonFrame>();
+    mappings.add(acf1);
+    mappings.add(acf2);
+    af1.getViewport().getAlignment().setCodonFrames(mappings);
+    af1.newView_actionPerformed(null);
+  
+    /*
+     * Verify that creating the alignment for the new View has registered the
+     * mappings
+     */
+    StructureSelectionManager ssm = StructureSelectionManager
+            .getStructureSelectionManager(Desktop.instance);
+    assertEquals(2, ssm.seqmappings.size());
+    assertTrue(ssm.seqmappings.contains(acf1));
+    assertTrue(ssm.seqmappings.contains(acf2));
+  
+    /*
+     * Close the second view. Verify that mappings are not removed as the first
+     * view still holds a reference to them.
+     */
+    af1.closeMenuItem_actionPerformed(false);
+    assertEquals(2, ssm.seqmappings.size());
+    assertTrue(ssm.seqmappings.contains(acf1));
+    assertTrue(ssm.seqmappings.contains(acf2));
+  }
+
+  /**
+   * Test that a mapping is deregistered if no alignment holds a reference to it
+   */
+  @Test(groups ={ "Functional" })
+  public void testDeregisterMapping_withNoReference()
+  {
+    Desktop d = Desktop.instance;
+    assertNotNull(d);
+    StructureSelectionManager ssm = StructureSelectionManager
+            .getStructureSelectionManager(Desktop.instance);
+    ssm.resetAll();
+
+    AlignFrame af1 = new FileLoader().LoadFileWaitTillLoaded(
+            ">Seq1\nRSVQ\n", FormatAdapter.PASTE);
+    AlignFrame af2 = new FileLoader().LoadFileWaitTillLoaded(
+            ">Seq2\nDGEL\n", FormatAdapter.PASTE);
+  
+    AlignedCodonFrame acf1 = new AlignedCodonFrame();
+    AlignedCodonFrame acf2 = new AlignedCodonFrame();
+    AlignedCodonFrame acf3 = new AlignedCodonFrame();
+  
+    Set<AlignedCodonFrame> mappings1 = new LinkedHashSet<AlignedCodonFrame>();
+    mappings1.add(acf1);
+    af1.getViewport().getAlignment().setCodonFrames(mappings1);
+
+    Set<AlignedCodonFrame> mappings2 = new LinkedHashSet<AlignedCodonFrame>();
+    mappings2.add(acf2);
+    mappings2.add(acf3);
+    af2.getViewport().getAlignment().setCodonFrames(mappings2);
+  
+    /*
+     * AlignFrame1 has mapping acf1, AlignFrame2 has acf2 and acf3
+     */
+
+    Set<AlignedCodonFrame> ssmMappings = ssm.seqmappings;
+    assertEquals(0, ssmMappings.size());
+    ssm.registerMapping(acf1);
+    assertEquals(1, ssmMappings.size());
+    ssm.registerMapping(acf2);
+    assertEquals(2, ssmMappings.size());
+    ssm.registerMapping(acf3);
+    assertEquals(3, ssmMappings.size());
+
+    /*
+     * Closing AlignFrame2 should remove its mappings from
+     * StructureSelectionManager, since AlignFrame1 has no reference to them
+     */
+    af2.closeMenuItem_actionPerformed(true);
+    assertEquals(1, ssmMappings.size());
+    assertTrue(ssmMappings.contains(acf1));
+  }
+
+  /**
+   * Test that a mapping is not deregistered if another alignment holds a
+   * reference to it
+   */
+  @Test(groups ={ "Functional" })
+  public void testDeregisterMapping_withReference()
+  {
+    Desktop d = Desktop.instance;
+    assertNotNull(d);
+    StructureSelectionManager ssm = StructureSelectionManager
+            .getStructureSelectionManager(Desktop.instance);
+    ssm.resetAll();
+  
+    AlignFrame af1 = new FileLoader().LoadFileWaitTillLoaded(
+            ">Seq1\nRSVQ\n", FormatAdapter.PASTE);
+    AlignFrame af2 = new FileLoader().LoadFileWaitTillLoaded(
+            ">Seq2\nDGEL\n", FormatAdapter.PASTE);
+  
+    AlignedCodonFrame acf1 = new AlignedCodonFrame();
+    AlignedCodonFrame acf2 = new AlignedCodonFrame();
+    AlignedCodonFrame acf3 = new AlignedCodonFrame();
+  
+    Set<AlignedCodonFrame> mappings1 = new LinkedHashSet<AlignedCodonFrame>();
+    mappings1.add(acf1);
+    mappings1.add(acf2);
+    af1.getViewport().getAlignment().setCodonFrames(mappings1);
+  
+    Set<AlignedCodonFrame> mappings2 = new LinkedHashSet<AlignedCodonFrame>();
+    mappings2.add(acf2);
+    mappings2.add(acf3);
+    af2.getViewport().getAlignment().setCodonFrames(mappings2);
+  
+    /*
+     * AlignFrame1 has mappings acf1 and acf2, AlignFrame2 has acf2 and acf3
+     */
+  
+    Set<AlignedCodonFrame> ssmMappings = ssm.seqmappings;
+    assertEquals(0, ssmMappings.size());
+    ssm.registerMapping(acf1);
+    assertEquals(1, ssmMappings.size());
+    ssm.registerMapping(acf2);
+    assertEquals(2, ssmMappings.size());
+    ssm.registerMapping(acf3);
+    assertEquals(3, ssmMappings.size());
+  
+    /*
+     * Closing AlignFrame2 should remove mapping acf3 from
+     * StructureSelectionManager, but not acf2, since AlignFrame1 still has a
+     * reference to it
+     */
+    af2.closeMenuItem_actionPerformed(true);
+    assertEquals(2, ssmMappings.size());
+    assertTrue(ssmMappings.contains(acf1));
+    assertTrue(ssmMappings.contains(acf2));
+    assertFalse(ssmMappings.contains(acf3));
+  }
 }