Merge branch 'develop' into bug/JAL-2541cutRelocateFeatures

[jalview.git] / test / jalview / structure / StructureMappingTest.java

diff --git a/test/jalview/structure/StructureMappingTest.java b/test/jalview/structure/StructureMappingTest.java
index f26c5f1..808e662 100644 (file)
--- a/test/jalview/structure/StructureMappingTest.java
+++ b/test/jalview/structure/StructureMappingTest.java
@@ -1,8 +1,34 @@
+/*
+ * 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.structure;
 
 import static org.testng.Assert.assertEquals;
+import static org.testng.Assert.assertFalse;
 import static org.testng.Assert.assertTrue;
 
+import jalview.datamodel.Mapping;
+import jalview.datamodel.Sequence;
+import jalview.datamodel.SequenceI;
+import jalview.util.MapList;
+
 import java.util.HashMap;
 import java.util.List;
 
@@ -11,9 +37,9 @@ import org.testng.annotations.Test;
 public class StructureMappingTest
 {
   @Test(groups = "Functional")
-  public void testgetPDBResNumRanges()
+  public void testGetPDBResNumRanges()
   {
-    HashMap<Integer, int[]> map = new HashMap<Integer, int[]>();
+    HashMap<Integer, int[]> map = new HashMap<>();
 
     StructureMapping mapping = new StructureMapping(null, null, null, null,
             map, null);
@@ -43,4 +69,75 @@ public class StructureMappingTest
     assertEquals(ranges.get(1)[0], 15);
     assertEquals(ranges.get(1)[1], 15);
   }
+
+  @Test(groups = "Functional")
+  public void testEquals()
+  {
+    SequenceI seq1 = new Sequence("seq1", "ABCDE");
+    SequenceI seq2 = new Sequence("seq1", "ABCDE");
+    String pdbFile = "a/b/file1.pdb";
+    String pdbId = "1a70";
+    String chain = "A";
+    String mappingDetails = "these are the mapping details, honest";
+    HashMap<Integer, int[]> map = new HashMap<>();
+
+    Mapping seqToPdbMapping = new Mapping(seq1,
+            new MapList(new int[]
+            { 1, 5 }, new int[] { 2, 6 }, 1, 1));
+    StructureMapping sm1 = new StructureMapping(seq1, pdbFile, pdbId, chain,
+            map, mappingDetails, seqToPdbMapping);
+    assertFalse(sm1.equals(null));
+    assertFalse(sm1.equals("x"));
+
+    StructureMapping sm2 = new StructureMapping(seq1, pdbFile, pdbId, chain,
+            map, mappingDetails, seqToPdbMapping);
+    assertTrue(sm1.equals(sm2));
+    assertTrue(sm2.equals(sm1));
+    assertEquals(sm1.hashCode(), sm2.hashCode());
+
+    // with different sequence
+    sm2 = new StructureMapping(seq2, pdbFile, pdbId, chain, map,
+            mappingDetails, seqToPdbMapping);
+    assertFalse(sm1.equals(sm2));
+    assertFalse(sm2.equals(sm1));
+
+    // with different file
+    sm2 = new StructureMapping(seq1, "a/b/file2.pdb", pdbId, chain, map,
+            mappingDetails, seqToPdbMapping);
+    assertFalse(sm1.equals(sm2));
+    assertFalse(sm2.equals(sm1));
+
+    // with different pdbid (case sensitive)
+    sm2 = new StructureMapping(seq1, pdbFile, "1A70", chain, map,
+            mappingDetails, seqToPdbMapping);
+    assertFalse(sm1.equals(sm2));
+    assertFalse(sm2.equals(sm1));
+
+    // with different chain
+    sm2 = new StructureMapping(seq1, pdbFile, pdbId, "B", map,
+            mappingDetails, seqToPdbMapping);
+    assertFalse(sm1.equals(sm2));
+    assertFalse(sm2.equals(sm1));
+
+    // map is ignore for this test
+    sm2 = new StructureMapping(seq1, pdbFile, pdbId, chain, null,
+            mappingDetails, seqToPdbMapping);
+    assertTrue(sm1.equals(sm2));
+    assertTrue(sm2.equals(sm1));
+
+    // with different mapping details
+    sm2 = new StructureMapping(seq1, pdbFile, pdbId, chain, map,
+            "different details!", seqToPdbMapping);
+    assertFalse(sm1.equals(sm2));
+    assertFalse(sm2.equals(sm1));
+
+    // with different seq to pdb mapping
+    Mapping map2 = new Mapping(seq1,
+            new MapList(new int[]
+            { 1, 5 }, new int[] { 3, 7 }, 1, 1));
+    sm2 = new StructureMapping(seq1, pdbFile, pdbId, chain, map,
+            mappingDetails, map2);
+    assertFalse(sm1.equals(sm2));
+    assertFalse(sm2.equals(sm1));
+  }
 }