use mockito for mocking objects

converter-CellDesigner/src/test/java/lcsb/mapviewer/converter/model/celldesigner/structure/ModificationResidueTest.java

@@ -4,6 +4,7 @@ import static org.junit.Assert.*;
 
 import org.apache.commons.lang3.SerializationUtils;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.common.Configuration;
 import lcsb.mapviewer.common.exception.InvalidArgumentException;
@@ -104,13 +105,7 @@ public class ModificationResidueTest extends CellDesignerTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() {
-    new CellDesignerModificationResidue() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    }.copy();
+    Mockito.spy(CellDesignerModificationResidue.class).copy();
   }
 
 }

model/src/test/java/lcsb/mapviewer/model/graphics/ArrowTypeDataComparatorTest.java

@@ -3,6 +3,7 @@ package lcsb.mapviewer.model.graphics;
 import static org.junit.Assert.*;
 
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 
@@ -27,9 +28,7 @@ public class ArrowTypeDataComparatorTest extends ModelTestFunctions {
   public void testCompareDifferent() {
     assertTrue(comparator.compare(new ArrowTypeData(), null) != 0);
     assertTrue(comparator.compare(null, new ArrowTypeData()) != 0);
-    assertTrue(comparator.compare(new ArrowTypeData() {
-      private static final long serialVersionUID = 1L;
-    }, new ArrowTypeData()) != 0);
+    assertTrue(comparator.compare(Mockito.spy(ArrowTypeData.class), new ArrowTypeData()) != 0);
 
     ArrowTypeData atd1 = new ArrowTypeData();
     ArrowTypeData atd2 = new ArrowTypeData();

model/src/test/java/lcsb/mapviewer/model/graphics/ArrowTypeDataTest.java

@@ -4,6 +4,7 @@ import static org.junit.Assert.*;
 
 import org.apache.commons.lang3.SerializationUtils;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
@@ -41,13 +42,7 @@ public class ArrowTypeDataTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() {
-    new ArrowTypeData() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    }.copy();
+    Mockito.spy(ArrowTypeData.class).copy();
   }
 
 }

model/src/test/java/lcsb/mapviewer/model/graphics/PolylineDataComparatorTest.java

@@ -6,6 +6,7 @@ import java.awt.Color;
 import java.awt.geom.Point2D;
 
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
@@ -83,9 +84,7 @@ public class PolylineDataComparatorTest extends ModelTestFunctions {
     assertTrue(comparator.compare(pd1, pd2) != 0);
     assertTrue(comparator.compare(pd2, pd1) != 0);
 
-    assertTrue(comparator.compare(pd2, new PolylineData() {
-      private static final long serialVersionUID = 1L;
-    }) != 0);
+    assertTrue(comparator.compare(pd2, Mockito.spy(PolylineData.class)) != 0);
   }
 
 }

model/src/test/java/lcsb/mapviewer/model/graphics/PolylineDataTest.java

@@ -11,6 +11,7 @@ import org.apache.commons.lang3.SerializationUtils;
 import org.apache.logging.log4j.LogManager;
 import org.apache.logging.log4j.Logger;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.Configuration;
@@ -284,14 +285,7 @@ public class PolylineDataTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() throws Exception {
-    PolylineData pd = new PolylineData() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    };
-    pd.copy();
+    Mockito.spy(PolylineData.class).copy();
   }
 
   @Test

model/src/test/java/lcsb/mapviewer/model/map/OverviewImageComparatorTest.java

@@ -3,8 +3,10 @@ package lcsb.mapviewer.model.map;
 import static org.junit.Assert.*;
 
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
+import lcsb.mapviewer.model.map.layout.graphics.Layer;
 
 public class OverviewImageComparatorTest extends ModelTestFunctions {
 
@@ -61,9 +63,7 @@ public class OverviewImageComparatorTest extends ModelTestFunctions {
     assertTrue(0 != oic.compare(oi, null));
     assertTrue(0 != oic.compare(null, oi2));
 
-    assertTrue(0 != oic.compare(new OverviewImage() {
-      private static final long serialVersionUID = 1L;
-    }, oi2));
+    assertTrue(0 != oic.compare(Mockito.spy(OverviewImage.class), oi2));
 
     oi = new OverviewImage();
     oi2 = new OverviewImage();

model/src/test/java/lcsb/mapviewer/model/map/OverviewImageLinkComparatorTest.java

@@ -3,8 +3,10 @@ package lcsb.mapviewer.model.map;
 import static org.junit.Assert.*;
 
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
+import lcsb.mapviewer.model.map.layout.graphics.Layer;
 
 public class OverviewImageLinkComparatorTest extends ModelTestFunctions {
 
@@ -55,13 +57,7 @@ public class OverviewImageLinkComparatorTest extends ModelTestFunctions {
     assertTrue(0 != oic.compare(oi, oi2));
     assertTrue(0 != oic.compare(oi, null));
     assertTrue(0 != oic.compare(null, oi2));
-    assertTrue(0 != oic.compare(new OverviewImageLink() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    }, oi2));
+    assertTrue(0 != oic.compare(Mockito.spy(OverviewImageLink.class), oi2));
   }
 
   @Test

model/src/test/java/lcsb/mapviewer/model/map/OverviewImageLinkTest.java

@@ -4,9 +4,11 @@ import static org.junit.Assert.*;
 
 import org.apache.commons.lang3.SerializationUtils;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
+import lcsb.mapviewer.model.map.layout.graphics.Layer;
 
 public class OverviewImageLinkTest extends ModelTestFunctions {
 
@@ -32,13 +34,7 @@ public class OverviewImageLinkTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() {
-    new OverviewImageLink() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    }.copy();
+    Mockito.spy(OverviewImageLink.class).copy();
   }
 
 }

model/src/test/java/lcsb/mapviewer/model/map/OverviewImageTest.java

@@ -7,9 +7,11 @@ import java.util.List;
 
 import org.apache.commons.lang3.SerializationUtils;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
+import lcsb.mapviewer.model.map.layout.graphics.Layer;
 
 public class OverviewImageTest extends ModelTestFunctions {
 
@@ -45,13 +47,7 @@ public class OverviewImageTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() {
-    new OverviewImage() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    }.copy();
+    Mockito.spy(OverviewImage.class).copy();
   }
 
 }

model/src/test/java/lcsb/mapviewer/model/map/OverviewLinkTest.java

@@ -3,8 +3,10 @@ package lcsb.mapviewer.model.map;
 import static org.junit.Assert.*;
 
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
+import lcsb.mapviewer.model.map.layout.graphics.Layer;
 
 public class OverviewLinkTest extends ModelTestFunctions {
 
@@ -18,19 +20,7 @@ public class OverviewLinkTest extends ModelTestFunctions {
 
   @Test
   public void testGetPolygonCoord() {
-    OverviewLink link = new OverviewLink() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-
-      @Override
-      public OverviewLink copy() {
-        // TODO Auto-generated method stub
-        return null;
-      }
-    };
+    OverviewLink link = Mockito.spy(OverviewLink.class);
     String polygon = "1,1 2,2 4,0";
     link.setPolygon(polygon);
     assertEquals(3, link.getPolygonCoordinates().size());
@@ -38,19 +28,7 @@ public class OverviewLinkTest extends ModelTestFunctions {
 
   @Test
   public void testGetters() {
-    OverviewLink link = new OverviewLink() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-
-      @Override
-      public OverviewLink copy() {
-        // TODO Auto-generated method stub
-        return null;
-      }
-    };
+    OverviewLink link = Mockito.spy(OverviewLink.class);
     OverviewImage image = new OverviewImage();
     int id = 309;
     link.setOverviewImage(image);

model/src/test/java/lcsb/mapviewer/model/map/OverviewModelLinkComparatorTest.java

@@ -3,6 +3,7 @@ package lcsb.mapviewer.model.map;
 import static org.junit.Assert.*;
 
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.model.map.model.Model;
@@ -68,9 +69,7 @@ public class OverviewModelLinkComparatorTest extends ModelTestFunctions {
 
     assertTrue(0 != oic.compare(oi, oi2));
 
-    assertTrue(0 != oic.compare(oi, new OverviewModelLink() {
-      private static final long serialVersionUID = 1L;
-    }));
+    assertTrue(0 != oic.compare(oi, Mockito.spy(OverviewModelLink.class)));
   }
 
   @Test

model/src/test/java/lcsb/mapviewer/model/map/OverviewModelLinkTest.java

@@ -4,6 +4,7 @@ import static org.junit.Assert.*;
 
 import org.apache.commons.lang3.SerializationUtils;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
@@ -55,13 +56,7 @@ public class OverviewModelLinkTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() {
-    new OverviewModelLink() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    }.copy();
+    Mockito.spy(OverviewModelLink.class).copy();
   }
 
 }

model/src/test/java/lcsb/mapviewer/model/map/OverviewSearchLinkTest.java

@@ -4,6 +4,7 @@ import static org.junit.Assert.*;
 
 import org.apache.commons.lang3.SerializationUtils;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
@@ -45,13 +46,7 @@ public class OverviewSearchLinkTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() {
-    new OverviewSearchLink() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    }.copy();
+    Mockito.spy(OverviewSearchLink.class).copy();
   }
 
 }

model/src/test/java/lcsb/mapviewer/model/map/SearchIndexTest.java

@@ -4,6 +4,7 @@ import static org.junit.Assert.*;
 
 import org.apache.commons.lang3.SerializationUtils;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
@@ -54,12 +55,7 @@ public class SearchIndexTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testCopyInvalid() {
-    new SearchIndex() {
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    }.copy();
+    Mockito.spy(SearchIndex.class).copy();
   }
 
   @Test

model/src/test/java/lcsb/mapviewer/model/map/layout/GeneVariationColorSchemaTest.java

@@ -7,9 +7,11 @@ import java.util.List;
 
 import org.apache.commons.lang3.SerializationUtils;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
+import lcsb.mapviewer.model.map.layout.graphics.Layer;
 
 public class GeneVariationColorSchemaTest extends ModelTestFunctions {
 
@@ -70,14 +72,7 @@ public class GeneVariationColorSchemaTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() {
-    GeneVariationColorSchema schema = new GeneVariationColorSchema() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    };
-    schema.copy();
+    Mockito.spy(GeneVariationColorSchema.class).copy();
   }
 
 }

model/src/test/java/lcsb/mapviewer/model/map/layout/GeneVariationTest.java

@@ -3,9 +3,11 @@ package lcsb.mapviewer.model.map.layout;
 import static org.junit.Assert.*;
 
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
+import lcsb.mapviewer.model.map.layout.graphics.Layer;
 
 public class GeneVariationTest extends ModelTestFunctions {
 
@@ -52,15 +54,7 @@ public class GeneVariationTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() throws Exception {
-    GeneVariation gv = new GeneVariation() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    };
-
-    gv.copy();
+    Mockito.spy(GeneVariation.class).copy();
   }
 
 }

model/src/test/java/lcsb/mapviewer/model/map/layout/GenericColorSchemaTest.java

@@ -4,6 +4,7 @@ import static org.junit.Assert.*;
 
 import org.apache.commons.lang3.SerializationUtils;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
@@ -42,13 +43,6 @@ public class GenericColorSchemaTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() {
-    GenericColorSchema schema = new GenericColorSchema() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    };
-    schema.copy();
+    Mockito.spy(GenericColorSchema.class).copy();
   }
 }

model/src/test/java/lcsb/mapviewer/model/map/layout/LayoutTest.java

@@ -4,11 +4,13 @@ import static org.junit.Assert.*;
 
 import org.apache.commons.lang3.SerializationUtils;
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.Configuration;
 import lcsb.mapviewer.common.exception.NotImplementedException;
 import lcsb.mapviewer.model.cache.UploadedFileEntry;
+import lcsb.mapviewer.model.map.layout.graphics.Layer;
 
 public class LayoutTest extends ModelTestFunctions {
 
@@ -69,14 +71,7 @@ public class LayoutTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalidCopy() {
-    Layout layout = new Layout() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    };
-    layout.copy();
+    Mockito.spy(Layout.class).copy();
   }
 
   @Test

model/src/test/java/lcsb/mapviewer/model/map/layout/graphics/LayerComparatorTest.java

@@ -3,6 +3,7 @@ package lcsb.mapviewer.model.map.layout.graphics;
 import static org.junit.Assert.*;
 
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
@@ -78,13 +79,7 @@ public class LayerComparatorTest extends ModelTestFunctions {
 
     assertTrue(comparator.compare(layer1, null) != 0);
     assertTrue(comparator.compare(null, layer1) != 0);
-    assertTrue(comparator.compare(layer1, new Layer() {
-
-      /**
-       * 
-       */
-      private static final long serialVersionUID = 1L;
-    }) != 0);
+    assertTrue(comparator.compare(layer1, Mockito.spy(Layer.class)) != 0);
 
     layer1 = getLayer();
     layer2 = getLayer();

model/src/test/java/lcsb/mapviewer/model/map/layout/graphics/LayerOvalComparatorTest.java

@@ -5,6 +5,7 @@ import static org.junit.Assert.*;
 import java.awt.Color;
 
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
@@ -106,9 +107,7 @@ public class LayerOvalComparatorTest extends ModelTestFunctions {
   public void testDifferent2() {
     LayerOval layer1 = getLayerOval();
 
-    assertTrue(comparator.compare(layer1, new LayerOval() {
-      private static final long serialVersionUID = 1L;
-    }) != 0);
+    assertTrue(comparator.compare(layer1, Mockito.spy(LayerOval.class)) != 0);
   }
 
   @Test(expected = NotImplementedException.class)