X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=test%2Fjalview%2Fdatamodel%2FSequenceFeatureTest.java;h=2da8918a37c25742e69e133bf26d4e6b9bd97f8a;hb=5299e0d9142887a30889e8277d12039f10e5c36f;hp=d488a76ccc5bd84d32f8a66b6d13a3670eebeb9b;hpb=86f5f5c9315a7261cfb7efd33f6372ec53e1a382;p=jalview.git

diff --git a/test/jalview/datamodel/SequenceFeatureTest.java b/test/jalview/datamodel/SequenceFeatureTest.java
index d488a76..2da8918 100644
--- a/test/jalview/datamodel/SequenceFeatureTest.java
+++ b/test/jalview/datamodel/SequenceFeatureTest.java
@@ -1,13 +1,46 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
 package jalview.datamodel;
 
 import static org.testng.AssertJUnit.assertEquals;
+import static org.testng.AssertJUnit.assertFalse;
 import static org.testng.AssertJUnit.assertNull;
 import static org.testng.AssertJUnit.assertSame;
+import static org.testng.AssertJUnit.assertTrue;
 
+import jalview.gui.JvOptionPane;
+
+import org.testng.annotations.BeforeClass;
 import org.testng.annotations.Test;
 
 public class SequenceFeatureTest
 {
+
+  @BeforeClass(alwaysRun = true)
+  public void setUpJvOptionPane()
+  {
+    JvOptionPane.setInteractiveMode(false);
+    JvOptionPane.setMockResponse(JvOptionPane.CANCEL_OPTION);
+  }
+
   @Test(groups = { "Functional" })
   public void testCopyConstructor()
   {
@@ -62,4 +95,137 @@ public class SequenceFeatureTest
     sf.setValue("STRAND", ".");
     assertEquals(0, sf.getStrand());
   }
+
+  /**
+   * Tests for equality, and that equal objects have the same hashCode
+   */
+  @Test(groups = { "Functional" })
+  public void testEqualsAndHashCode()
+  {
+    SequenceFeature sf1 = new SequenceFeature("type", "desc", 22, 33,
+            12.5f, "group");
+    sf1.setValue("ID", "id");
+    sf1.setValue("Name", "name");
+    sf1.setValue("Parent", "parent");
+    sf1.setStrand("+");
+    sf1.setPhase("1");
+    SequenceFeature sf2 = new SequenceFeature("type", "desc", 22, 33,
+            12.5f, "group");
+    sf2.setValue("ID", "id");
+    sf2.setValue("Name", "name");
+    sf2.setValue("Parent", "parent");
+    sf2.setStrand("+");
+    sf2.setPhase("1");
+
+    assertFalse(sf1.equals(null));
+    assertTrue(sf1.equals(sf2));
+    assertTrue(sf2.equals(sf1));
+    assertEquals(sf1.hashCode(), sf2.hashCode());
+
+    // changing type breaks equals:
+    String restores = sf2.getType();
+    sf2.setType("Type");
+    assertFalse(sf1.equals(sf2));
+    sf2.setType(restores);
+
+    // changing description breaks equals:
+    restores = sf2.getDescription();
+    sf2.setDescription("Desc");
+    assertFalse(sf1.equals(sf2));
+    sf2.setDescription(restores);
+
+    // changing score breaks equals:
+    float restoref = sf2.getScore();
+    sf2.setScore(12.4f);
+    assertFalse(sf1.equals(sf2));
+    sf2.setScore(restoref);
+
+    // NaN doesn't match a number
+    restoref = sf2.getScore();
+    sf2.setScore(Float.NaN);
+    assertFalse(sf1.equals(sf2));
+
+    // NaN matches NaN
+    sf1.setScore(Float.NaN);
+    assertTrue(sf1.equals(sf2));
+    sf1.setScore(restoref);
+    sf2.setScore(restoref);
+
+    // changing start position breaks equals:
+    int restorei = sf2.getBegin();
+    sf2.setBegin(21);
+    assertFalse(sf1.equals(sf2));
+    sf2.setBegin(restorei);
+
+    // changing end position breaks equals:
+    restorei = sf2.getEnd();
+    sf2.setEnd(32);
+    assertFalse(sf1.equals(sf2));
+    sf2.setEnd(restorei);
+
+    // changing feature group breaks equals:
+    restores = sf2.getFeatureGroup();
+    sf2.setFeatureGroup("Group");
+    assertFalse(sf1.equals(sf2));
+    sf2.setFeatureGroup(restores);
+
+    // changing ID breaks equals:
+    restores = (String) sf2.getValue("ID");
+    sf2.setValue("ID", "id2");
+    assertFalse(sf1.equals(sf2));
+    sf2.setValue("ID", restores);
+
+    // changing Name breaks equals:
+    restores = (String) sf2.getValue("Name");
+    sf2.setValue("Name", "Name");
+    assertFalse(sf1.equals(sf2));
+    sf2.setValue("Name", restores);
+
+    // changing Parent breaks equals:
+    restores = (String) sf1.getValue("Parent");
+    sf1.setValue("Parent", "Parent");
+    assertFalse(sf1.equals(sf2));
+    sf1.setValue("Parent", restores);
+
+    // changing strand breaks equals:
+    restorei = sf2.getStrand();
+    sf2.setStrand("-");
+    assertFalse(sf1.equals(sf2));
+    sf2.setStrand(restorei == 1 ? "+" : "-");
+
+    // changing phase breaks equals:
+    restores = sf1.getPhase();
+    sf1.setPhase("2");
+    assertFalse(sf1.equals(sf2));
+    sf1.setPhase(restores);
+
+    // restore equality as sanity check:
+    assertTrue(sf1.equals(sf2));
+    assertTrue(sf2.equals(sf1));
+    assertEquals(sf1.hashCode(), sf2.hashCode());
+
+    // changing status doesn't change equals:
+    sf1.setStatus("new");
+    assertTrue(sf1.equals(sf2));
+  }
+
+  @Test(groups = { "Functional" })
+  public void testIsContactFeature()
+  {
+    SequenceFeature sf = new SequenceFeature("type", "desc", 22, 33, 12.5f,
+            "group");
+    assertFalse(sf.isContactFeature());
+    sf.setType("");
+    assertFalse(sf.isContactFeature());
+    sf.setType(null);
+    assertFalse(sf.isContactFeature());
+    sf.setType("Disulfide Bond");
+    assertTrue(sf.isContactFeature());
+    sf.setType("disulfide bond");
+    assertTrue(sf.isContactFeature());
+    sf.setType("Disulphide Bond");
+    assertTrue(sf.isContactFeature());
+    sf.setType("disulphide bond");
+    assertTrue(sf.isContactFeature());
+  }
 }