unused attributes removed

CellDesigner-plugin/src/main/java/lcsb/mapviewer/cdplugin/copypaste/CopyAction.java

@@ -12,7 +12,7 @@ import lcsb.mapviewer.common.SystemClipboard;
 import lcsb.mapviewer.common.exception.InvalidXmlSchemaException;
 
 /**
- * CD Plugin action resposible for translating annotation stored in notes to xml
+ * CD Plugin action responsible for translating annotation stored in notes to xml
  * format stored in annotations.
  * 
  * @author Piotr Gawron
@@ -25,7 +25,7 @@ public class CopyAction extends CopyPasteAbstractAction {
   private final Logger logger = Logger.getLogger(CopyAction.class.getName());
 
   /**
-   * Method that perform annotation of a celldesigner species listed in
+   * Method that perform annotation of a CellDesigner species listed in
    * speciesList.
    * 
    * @param plug
@@ -44,9 +44,6 @@ public class CopyAction extends CopyPasteAbstractAction {
 
     SystemClipboard sc = new SystemClipboard();
 
-    this.setWindow(win);
-    this.setPlug(plug);
-
     int size = speciesList.size();
 
     PluginSBase chosenElement = null;

CellDesigner-plugin/src/main/java/lcsb/mapviewer/cdplugin/copypaste/CopyPasteAbstractAction.java

@@ -5,7 +5,6 @@ import java.util.Set;
 
 import org.apache.log4j.Logger;
 
-import jp.sbi.celldesigner.MainWindow;
 import lcsb.mapviewer.common.Pair;
 import lcsb.mapviewer.common.exception.InvalidXmlSchemaException;
 import lcsb.mapviewer.converter.annotation.XmlAnnotationParser;
@@ -32,15 +31,6 @@ public class CopyPasteAbstractAction {
    * stored in system clipboard.
    */
   private static final String PREFIX = "[MIRIAM]";
-  /**
-   * Plugin object which ran this action. This object is used to update
-   * information about species
-   */
-  private CopyPastePlugin plug;
-  /**
-   * Object of CellDesigner main form.
-   */
-  private MainWindow window;
 
   /**
    * Serializes {@link MiriamData} into string that will be stored into system
@@ -148,39 +138,4 @@ public class CopyPasteAbstractAction {
 
     return new Pair<Set<MiriamData>, String>(set, notes);
   }
-
-  /**
-   * @return the plug
-   * @see #plug
-   */
-  protected CopyPastePlugin getPlug() {
-    return plug;
-  }
-
-  /**
-   * @param plug
-   *          the plug to set
-   * @see #plug
-   */
-  protected void setPlug(CopyPastePlugin plug) {
-    this.plug = plug;
-  }
-
-  /**
-   * @return the window
-   * @see #window
-   */
-  protected MainWindow getWindow() {
-    return window;
-  }
-
-  /**
-   * @param window
-   *          the window to set
-   * @see #window
-   */
-  protected void setWindow(MainWindow window) {
-    this.window = window;
-  }
-
 }
\ No newline at end of file

CellDesigner-plugin/src/main/java/lcsb/mapviewer/cdplugin/copypaste/PasteAction.java

@@ -55,9 +55,6 @@ public class PasteAction extends CopyPasteAbstractAction {
     String notes = data.getRight();
     Set<MiriamData> set = data.getLeft();
 
-    this.setWindow(win);
-    this.setPlug(plug);
-
     int size = speciesList.size();
     for (int i = 0; i < size; i++) {
       PluginSBase element = speciesList.get(i);

CellDesigner-plugin/src/test/java/lcsb/mapviewer/cdplugin/AllCdPluginTests.java

+package lcsb.mapviewer.cdplugin;
+
+import org.junit.runner.RunWith;
+import org.junit.runners.Suite;
+import org.junit.runners.Suite.SuiteClasses;
+
+import lcsb.mapviewer.cdplugin.copypaste.AllCopyPasteTests;
+
+@RunWith(Suite.class)
+@SuiteClasses({ AllCopyPasteTests.class })
+public class AllCdPluginTests {
+
+}

CellDesigner-plugin/src/test/java/lcsb/mapviewer/cdplugin/copypaste/AllCopyPasteTests.java

+package lcsb.mapviewer.cdplugin.copypaste;
+
+import org.junit.runner.RunWith;
+import org.junit.runners.Suite;
+import org.junit.runners.Suite.SuiteClasses;
+
+@RunWith(Suite.class)
+@SuiteClasses({ CopyPasteAbstractActionTest.class })
+public class AllCopyPasteTests {
+
+}