diff --git a/src/main/java/de/hhu/ba/yoshikoWrapper/CyActivator.java b/src/main/java/de/hhu/ba/yoshikoWrapper/CyActivator.java
index 15bcfce642a3f08f6056fdc9fb297cd3fd7e4c87..b48e4112826df75319ab9a35c8faa1e0db9d7900 100644
--- a/src/main/java/de/hhu/ba/yoshikoWrapper/CyActivator.java
+++ b/src/main/java/de/hhu/ba/yoshikoWrapper/CyActivator.java
@@ -52,7 +52,6 @@ import static org.cytoscape.work.ServiceProperties.COMMAND_NAMESPACE;
import de.hhu.ba.yoshikoWrapper.core.ConfigurationManager;
import de.hhu.ba.yoshikoWrapper.core.CyCore;
import de.hhu.ba.yoshikoWrapper.core.LocalizationManager;
-import de.hhu.ba.yoshikoWrapper.core.YoshUtil;
import de.hhu.ba.yoshikoWrapper.core.YoshikoLoader;
import de.hhu.ba.yoshikoWrapper.swing.components.MainPanel;
import de.hhu.ba.yoshikoWrapper.taskFactories.CommandTaskFactory;
@@ -94,11 +93,11 @@ public class CyActivator extends AbstractCyActivator {
CyCore.rootNetworkManager = getService(context,CyRootNetworkManager.class);
//TODO: Not sure how to correctly infer arguments here
CyCore.renderingEngineFactory = getService(context,RenderingEngineFactory.class);
- CyCore.cloneNetworkTaskFactory = getService(context,CloneNetworkTaskFactory.class);
+ //CyCore.cloneNetworkTaskFactory = getService(context,CloneNetworkTaskFactory.class);
CyCore.commandExecutorTaskFactory = getService(context,CommandExecutorTaskFactory.class);
//Store a reference to the Version for easier access
- YoshUtil.version = context.getBundle().getVersion();
+ //YoshUtil.version = context.getBundle().getVersion();
//Set language according to settings -> Default to enUS
LocalizationManager.switchLanguage(cm.getProperties().getProperty("locale", "enUS"));
diff --git a/src/main/java/de/hhu/ba/yoshikoWrapper/core/CyCore.java b/src/main/java/de/hhu/ba/yoshikoWrapper/core/CyCore.java
index 0707782327a120d99aae7875d0a09ae0ea03c4e8..a7daab2b2db0bd4924af493749ea57244518bf61 100644
--- a/src/main/java/de/hhu/ba/yoshikoWrapper/core/CyCore.java
+++ b/src/main/java/de/hhu/ba/yoshikoWrapper/core/CyCore.java
@@ -55,7 +55,7 @@ public class CyCore {
public static CyApplicationManager cy;
public static DialogTaskManager dialogTaskManager;
public static ConfigurationManager cm;
- public static BundleContext context;
+ //public static BundleContext context;
public static CyServiceRegistrar registrar;
public static CyNetworkViewFactory networkViewFactory;
public static CyNetworkFactory networkFactory;
@@ -68,7 +68,7 @@ public class CyCore {
public static VisualMappingFunctionFactory continuousMappingFactory;
public static CyRootNetworkManager rootNetworkManager;
public static RenderingEngineFactory<CyNetwork> renderingEngineFactory;
- public static CloneNetworkTaskFactory cloneNetworkTaskFactory;
+ //public static CloneNetworkTaskFactory cloneNetworkTaskFactory;
public static CommandExecutorTaskFactory commandExecutorTaskFactory;
//
diff --git a/src/main/java/de/hhu/ba/yoshikoWrapper/core/LocalizationManager.java b/src/main/java/de/hhu/ba/yoshikoWrapper/core/LocalizationManager.java
index 70a972e2b65efacf49b9c85bae09f99cf14e6ee8..7f55098e4ac0cc4f00a45c4ad02d5e01934489fb 100644
--- a/src/main/java/de/hhu/ba/yoshikoWrapper/core/LocalizationManager.java
+++ b/src/main/java/de/hhu/ba/yoshikoWrapper/core/LocalizationManager.java
@@ -1,16 +1,16 @@
/*******************************************************************************
* Copyright (C) 2017 Philipp Spohr
- *
+ *
* Permission is hereby granted, free of charge, to any person obtaining a copy
* of this software and associated documentation files (the "Software"), to deal
* in the Software without restriction, including without limitation the rights
* to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
* copies of the Software, and to permit persons to whom the Software is
* furnished to do so, subject to the following conditions:
- *
+ *
* The above copyright notice and this permission notice shall be included in
* all copies or substantial portions of the Software.
- *
+ *
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
* IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
* FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
@@ -30,21 +30,21 @@ import java.util.ResourceBundle;
* This class should never be initialized
*/
public class LocalizationManager {
-
+
/**
* Default constructor, hidden to prevent invocation
*/
private LocalizationManager() {};
-
+
//Locales
-
+
static public final Locale usEnglish = new Locale("en","US");
static public final Locale german = new Locale("de","DE");
static public final Locale serbocroatianLatin = new Locale("hr","HR");
static public final Locale modernGreek = new Locale("el","EL");
//Map
-
+
static private final HashMap<String, Locale> locales;
static
{
@@ -56,12 +56,12 @@ public class LocalizationManager {
}
-
+
static private ResourceBundle currentBundle;
-
+
static private Locale currentLocale = usEnglish;
-
+
private static void updateBundle() {
currentBundle = ResourceBundle.getBundle("YoshikoStrings",currentLocale);
CyCore.cm.getProperties().setProperty(
@@ -69,22 +69,22 @@ public class LocalizationManager {
currentLocale.getLanguage()+currentLocale.getCountry()
);
}
-
+
//https://en.wikipedia.org/wiki/Regional_Indicator_Symbol -> Right now there are not enough fonts support this
- public static String localeToUnicodeFlag(Locale locale) {
- String countryCode = locale.getCountry();
- int firstLetter = Character.codePointAt(countryCode, 0)-0x41+0x1F1E6;
- int secondLetter = Character.codePointAt(countryCode, 1)-0x41+0x1F1E6;
- return new String(Character.toChars(firstLetter))+new String(Character.toChars(secondLetter));
- }
+// public static String localeToUnicodeFlag(Locale locale) {
+// String countryCode = locale.getCountry();
+// int firstLetter = Character.codePointAt(countryCode, 0)-0x41+0x1F1E6;
+// int secondLetter = Character.codePointAt(countryCode, 1)-0x41+0x1F1E6;
+// return new String(Character.toChars(firstLetter))+new String(Character.toChars(secondLetter));
+// }
//SETTER/GETTER methods
-
+
static public Collection<Locale> getLocales(){
return locales.values();
}
-
+
/**
* Returns the localized string corresponding to the given key.
* This is the main method that should be used for accessing strings and is preferable to any use of constant strings.
@@ -97,7 +97,7 @@ public class LocalizationManager {
}
return currentBundle.getString(key);
}
-
+
static public void switchLanguage(Locale lcl) {
currentLocale = lcl;
updateBundle();
diff --git a/src/main/java/de/hhu/ba/yoshikoWrapper/core/YoshUtil.java b/src/main/java/de/hhu/ba/yoshikoWrapper/core/YoshUtil.java
deleted file mode 100644
index 9580bd570bd9236e71f08aced0b19b57cc941141..0000000000000000000000000000000000000000
--- a/src/main/java/de/hhu/ba/yoshikoWrapper/core/YoshUtil.java
+++ /dev/null
@@ -1,10 +0,0 @@
-package de.hhu.ba.yoshikoWrapper.core;
-
-
-import org.osgi.framework.Version;
-
-public class YoshUtil {
- public static Version version;
-
- public static final String ABOUT_LINK = "https://spqrph.github.io/cytoscape-tutorials/presentations/yoshiko/yoshiko.html#/title";
-}
diff --git a/src/main/java/de/hhu/ba/yoshikoWrapper/cytoUtil/GraphAnalyzer.java b/src/main/java/de/hhu/ba/yoshikoWrapper/cytoUtil/GraphAnalyzer.java
index b569a77a709193df99689ed8c66c024c50545aa0..1ef7cc8345a480edecdeadb8803c5e8634e838e4 100644
--- a/src/main/java/de/hhu/ba/yoshikoWrapper/cytoUtil/GraphAnalyzer.java
+++ b/src/main/java/de/hhu/ba/yoshikoWrapper/cytoUtil/GraphAnalyzer.java
@@ -55,14 +55,14 @@ public class GraphAnalyzer {
return false;
}
- public static boolean isDirected(CyNetwork net) {
- for (CyEdge e: net.getEdgeList()) {
- if (e.isDirected()) {
- return true;
- }
- }
- return false;
- }
+// public static boolean isDirected(CyNetwork net) {
+// for (CyEdge e: net.getEdgeList()) {
+// if (e.isDirected()) {
+// return true;
+// }
+// }
+// return false;
+// }
/**
* Generates a fitting bitmask by choosing the reduction rules that appear to be the best choice based on current research
diff --git a/src/main/java/de/hhu/ba/yoshikoWrapper/swing/components/HelpButton.java b/src/main/java/de/hhu/ba/yoshikoWrapper/swing/components/HelpButton.java
index bb7a004b480438f9f90e1bc0884b469d0ec2e844..fc2dc1887274ab61b759b955382d35cee3c300ed 100644
--- a/src/main/java/de/hhu/ba/yoshikoWrapper/swing/components/HelpButton.java
+++ b/src/main/java/de/hhu/ba/yoshikoWrapper/swing/components/HelpButton.java
@@ -4,16 +4,11 @@ import java.awt.event.ActionEvent;
import java.awt.event.ActionListener;
import java.awt.event.MouseEvent;
import java.awt.event.MouseListener;
-import java.io.IOException;
-import java.net.URI;
-import java.util.HashMap;
import javax.swing.BorderFactory;
import javax.swing.ImageIcon;
import javax.swing.JButton;
-import javax.swing.JOptionPane;
-import org.cytoscape.command.CommandExecutorTaskFactory;
import de.hhu.ba.yoshikoWrapper.core.LocalizationManager;
import de.hhu.ba.yoshikoWrapper.cytoUtil.CommandExecutor;
diff --git a/src/main/java/de/hhu/ba/yoshikoWrapper/swing/components/IntegerInputField.java b/src/main/java/de/hhu/ba/yoshikoWrapper/swing/components/IntegerInputField.java
index 04ffa2f772d4fb3a85a799cceddcdbff4399b690..d7d337652ee5627a088f5eb4d714c69fcdc9e95a 100644
--- a/src/main/java/de/hhu/ba/yoshikoWrapper/swing/components/IntegerInputField.java
+++ b/src/main/java/de/hhu/ba/yoshikoWrapper/swing/components/IntegerInputField.java
@@ -1,16 +1,16 @@
/*******************************************************************************
* Copyright (C) 2017 Philipp Spohr
- *
+ *
* Permission is hereby granted, free of charge, to any person obtaining a copy
* of this software and associated documentation files (the "Software"), to deal
* in the Software without restriction, including without limitation the rights
* to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
* copies of the Software, and to permit persons to whom the Software is
* furnished to do so, subject to the following conditions:
- *
+ *
* The above copyright notice and this permission notice shall be included in
* all copies or substantial portions of the Software.
- *
+ *
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
* IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
* FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
@@ -31,21 +31,21 @@ import de.hhu.ba.yoshikoWrapper.swing.FormatHelper;
*/
@SuppressWarnings("serial")
public class IntegerInputField extends JFormattedTextField{
-
+
private final NumberFormatter formatter;
- public IntegerInputField(int minValue, int maxValue) {
- super();
- formatter = FormatHelper.getIntegerFormatter(minValue,maxValue);
- this.setFormatter(formatter);
- this.setColumns(8);
- }
+// public IntegerInputField(int minValue, int maxValue) {
+// super();
+// formatter = FormatHelper.getIntegerFormatter(minValue,maxValue);
+// this.setFormatter(formatter);
+// this.setColumns(8);
+// }
public IntegerInputField() {
super();
formatter = FormatHelper.getIntegerFormatter();
this.setFormatter(formatter);
- this.setColumns(8);
+ this.setColumns(8);
}
public int getValueAsInt() {
diff --git a/src/main/java/de/hhu/ba/yoshikoWrapper/tasks/GetClustersTask.java b/src/main/java/de/hhu/ba/yoshikoWrapper/tasks/GetClustersTask.java
index 9975bbaa8b583f5a6947a2bf83a1168b3cf3ca50..0afa05ee33f92ccef1c46a09cdcccb6cfd4ba1c5 100644
--- a/src/main/java/de/hhu/ba/yoshikoWrapper/tasks/GetClustersTask.java
+++ b/src/main/java/de/hhu/ba/yoshikoWrapper/tasks/GetClustersTask.java
@@ -34,9 +34,7 @@ public class GetClustersTask implements ObservableTask {
}
@Override
- public void cancel() {
-
- }
+ public void cancel() {}
@SuppressWarnings("unchecked")
@Override
diff --git a/src/main/java/de/hhu/ba/yoshikoWrapper/tasks/GetSolutionsTask.java b/src/main/java/de/hhu/ba/yoshikoWrapper/tasks/GetSolutionsTask.java
index 318cc18dd7188c77c1cee7ce8074b3ac8941cbdb..cac56b267d25cd5290e1f5f3782d009ce487e18e 100644
--- a/src/main/java/de/hhu/ba/yoshikoWrapper/tasks/GetSolutionsTask.java
+++ b/src/main/java/de/hhu/ba/yoshikoWrapper/tasks/GetSolutionsTask.java
@@ -1,6 +1,5 @@
package de.hhu.ba.yoshikoWrapper.tasks;
-import java.util.ArrayList;
import java.util.Collection;
import org.cytoscape.work.ObservableTask;