diff --git a/plugins/neon/lib/ontosim.jar b/plugins/neon/lib/ontosim.jar
new file mode 100644
index 0000000000000000000000000000000000000000..ad2cc568669849a43bf4764d245c8f03d0571196
Binary files /dev/null and b/plugins/neon/lib/ontosim.jar differ
diff --git a/plugins/neon/src/fr/inrialpes/exmo/align/plugin/neontk/AlignView.java b/plugins/neon/src/fr/inrialpes/exmo/align/plugin/neontk/AlignView.java
index de280e48cbac447cfa80ad599df61f6c5abf085f..c5f23c4df2b6c8774d68a5a3a921b5c5d98b338a 100755
--- a/plugins/neon/src/fr/inrialpes/exmo/align/plugin/neontk/AlignView.java
+++ b/plugins/neon/src/fr/inrialpes/exmo/align/plugin/neontk/AlignView.java
@@ -21,18 +21,30 @@
package fr.inrialpes.exmo.align.plugin.neontk;
import org.eclipse.swt.SWT;
+import java.lang.ClassNotFoundException;
+import java.io.File;
-import java.io.File;
import java.io.FileWriter;
import java.io.PrintWriter;
import java.io.StringWriter;
+import java.io.IOException;
import java.net.URI;
+import java.net.URL;
import java.util.HashMap;
import java.util.Hashtable;
import java.util.Properties;
import java.util.Set;
import java.util.Vector;
+import java.util.HashSet;
+import java.util.StringTokenizer;
+import java.util.jar.Attributes.Name;
+import java.util.jar.Attributes;
+import java.util.jar.Manifest;
+import java.util.jar.JarFile;
+import java.util.zip.ZipEntry;
+import java.util.Enumeration;
+import java.util.Dictionary;
import org.eclipse.ui.part.ViewPart;
import org.eclipse.swt.events.SelectionEvent;
@@ -54,8 +66,14 @@ import org.eclipse.ui.forms.widgets.TableWrapData;
import org.eclipse.swt.widgets.Composite;
import org.eclipse.swt.widgets.Display;
import org.eclipse.core.resources.IWorkspaceRoot;
+
import org.eclipse.core.runtime.IPath;
+import org.eclipse.core.runtime.Path;
+import org.eclipse.core.runtime.FileLocator;
import org.eclipse.jface.dialogs.MessageDialog;
+
+import org.eclipse.core.resources.ResourcesPlugin;
+import org.osgi.framework.Bundle;
//import org.eclipse.jface.dialogs.MessageDialog;
//import org.semanticweb.kaon2.api.OntologyManager;
@@ -140,6 +158,7 @@ public class AlignView extends ViewPart
public File ontoFolder = null;
public File alignFolder = null;
public static File basicFolder = null;
+
@Override
public void createPartControl(final Composite parent) {
@@ -158,6 +177,8 @@ public class AlignView extends ViewPart
//createMUPSSection(composite, formToolkit);
//createInconsistencyResultSection(composite, formToolkit);
//this.refreshProjectList();
+
+ //IWorkbench wb = AlignmentPlugin.getDefault().getWorkbench();
IWorkspaceRoot root = org.eclipse.core.resources.ResourcesPlugin.getWorkspace().getRoot();
IPath location = root.getLocation();
String path = location.toOSString();
@@ -973,6 +994,147 @@ public class AlignView extends ViewPart
return alignId;
}
+ /**
+ * This function is taken from Alignment Server
+ */
+
+ public static void implementations( Class tosubclass, Set<String> list , String cp, boolean debug ){
+ Set<String> visited = new HashSet<String>();
+ //String classPath = System.getProperty("java.class.path",".");
+ String classPath = cp;
+ // Hack: this is not necessary
+ //classPath = classPath.substring(0,classPath.lastIndexOf(File.pathSeparatorChar));
+ //System.out.println("classes="+classPath);
+ //StringTokenizer tk = new StringTokenizer(classPath,File.pathSeparator);
+ StringTokenizer tk = new StringTokenizer(classPath, ":" );
+ classPath = "";
+ while ( tk != null && tk.hasMoreTokens() ){
+ StringTokenizer tk2 = tk;
+ tk = null;
+ //System.out.println( "path" + tk2.toString());
+ // Iterate on Classpath
+ while ( tk2.hasMoreTokens() ) {
+ try {
+ File file = new File( tk2.nextToken() );
+ if ( file.isDirectory() ) {
+ //System.err.println("DIR "+file);
+ String subs[] = file.list();
+ for(int index = 0 ; index < subs.length ; index ++ ){
+ //System.out.println(" "+subs[index]);
+ // IF class
+ if ( subs[index].endsWith(".class") ) {
+ String classname = subs[index].substring(0,subs[index].length()-6);
+ if (classname.startsWith(File.separator))
+ classname = classname.substring(1);
+ classname = classname.replace(File.separatorChar,'.');
+ try {
+ // JE: Here there is a bug that is that it is not possible
+ // to have ALL interfaces with this function!!!
+ // This is really stupid but that's life
+ // So it is compulsory that AlignmentProcess be declared
+ // as implemented
+ Class[] cls = Class.forName(classname).getInterfaces();
+ for ( int i=0; i < cls.length ; i++ ){
+ if ( cls[i] == tosubclass ) {
+ if (debug ) System.err.println(" -j-> "+classname);
+ list.add( classname );
+ }
+ if ( debug ) System.err.println(" I> "+cls[i] );
+ }
+ // Not one of our classes
+ } catch ( NoClassDefFoundError ncdex ) {
+ } catch (ClassNotFoundException cnfex) {
+ } catch (UnsatisfiedLinkError ule) {
+ } catch (ExceptionInInitializerError eiie) {
+ // This one has been added for OMWG, this is a bad error
+ }
+ }
+ }
+ } else if ( file.toString().endsWith(".jar") &&
+ !visited.contains( file.toString() ) &&
+ file.exists() ) {
+ if ( debug ) System.err.println("JAR "+file);
+ visited.add( file.toString() );
+ try {
+ JarFile jar = new JarFile( file );
+ Enumeration enumeration = jar.entries();
+ while( enumeration.hasMoreElements() ){
+ String classname = enumeration.nextElement().toString();
+ if ( debug ) System.err.println(" "+classname);
+ int len = classname.length()-6;
+ if( len > 0 && classname.substring(len).compareTo(".class") == 0) {
+ classname = classname.substring(0,len);
+ // Beware, in a Jarfile the separator is always "/"
+ // and it would not be dependent on the current system anyway.
+ //classname = classname.replaceAll(File.separator,".");
+ classname = classname.replaceAll("/",".");
+ try {
+ if ( classname.equals("org.apache.xalan.extensions.ExtensionHandlerGeneral") ) throw new ClassNotFoundException( "Stupid JAVA/Xalan bug");
+ Class cl = Class.forName(classname);
+ Class[] ints = cl.getInterfaces();
+ for ( int i=0; i < ints.length ; i++ ){
+ if ( ints[i] == tosubclass ) {
+ if (debug ) System.err.println(" -j-> "+classname);
+ list.add( classname );
+ }
+ if ( debug ) System.err.println(" I> "+ints[i] );
+ }
+ } catch ( NoClassDefFoundError ncdex ) {
+ } catch ( ClassNotFoundException cnfex ) {
+ if ( debug ) System.err.println(" ******** "+classname);
+ } catch ( UnsatisfiedLinkError ule ) {
+ } catch (ExceptionInInitializerError eiie) {
+ // This one has been added for OMWG, this is a bad error
+ }
+ }
+ }
+ // Iterate on needed Jarfiles
+ // JE(caveat): this deals naively with Jar files,
+ // in particular it does not deal with section'ed MANISFESTs
+ Attributes mainAttributes = jar.getManifest().getMainAttributes();
+ String path = mainAttributes.getValue( Name.CLASS_PATH );
+ if ( debug ) System.err.println(" >CP> "+path);
+ if ( path != null && !path.equals("") ) {
+ // JE: Not sure where to find the other Jars:
+ // in the path or at the local place?
+ //classPath += File.pathSeparator+file.getParent()+File.separator + path.replaceAll("[ \t]+",File.pathSeparator+file.getParent()+File.separator);
+ // This replaces the replaceAll which is not tolerant on Windows in having "\" as a separator
+ // Is there a way to make it iterable???
+ for( StringTokenizer token = new StringTokenizer(path," \t"); token.hasMoreTokens(); )
+ //classPath += File.pathSeparator+file.getParent()+File.separator+token.nextToken();
+ classPath += ":"+file.getParent()+File.separator+token.nextToken();
+ }
+ } catch (NullPointerException nullexp) { //Raised by JarFile
+ System.err.println("Warning "+file+" unavailable");
+ }
+ }
+ } catch( IOException e ) {
+ continue;
+ }
+ }
+ if ( !classPath.equals("") ) {
+ //tk = new StringTokenizer(classPath,File.pathSeparator);
+ tk = new StringTokenizer(classPath,":");
+ classPath = "";
+ }
+ }
+ }
+
+ /**
+ * This function is taken from Alignment Server
+ */
+ public static Set<String> implementations( String interfaceName, String cp ) {
+ Set<String> list = new HashSet<String>();
+ try {
+ Class toclass = Class.forName(interfaceName);
+
+ implementations( toclass, list, cp, false );
+ } catch (ClassNotFoundException ex) {
+ System.err.println("Class "+interfaceName+" not found!");
+ }
+ return list;
+ }
+
void offlineInit(boolean init) {
online = false;
methods.removeAll();
@@ -981,24 +1143,52 @@ public class AlignView extends ViewPart
ontoBox1.removeAll();
ontoBox2.removeAll();
- String[] methodList = new String[8];
- methodList[0] = "fr.inrialpes.exmo.align.impl.method.NameEqAlignment";
+ Bundle bundle = AlignmentPlugin.getDefault().getBundle();
+
+ Dictionary dic = bundle.getHeaders();
+
+ String classpath = dic.get("Bundle-ClassPath").toString();
+
+ URL url = FileLocator.find(AlignmentPlugin.getDefault().getBundle(), new Path(""), null);
+ try {
+ url = FileLocator.resolve(url);
+ }catch (IOException ioe){ }
+
+
+
+ String[] files = classpath.split(",");
+ classpath = "";
+ for(int k=0; k < files.length; k++) {
+ classpath += url.toString()+files[k]+":";
+ }
+ //System.out.println("classpath2="+ classpath);
+
+ Set<String> ms = new HashSet<String>();
+ ms = implementations( "org.semanticweb.owl.align.AlignmentProcess", classpath );
+ ms.remove("fr.inrialpes.exmo.align.impl.DistanceAlignment"); // this one is generic
+ ms.remove("fr.inrialpes.exmo.align.ling.JWNLAlignment"); // requires WordNet
+ //System.out.println("ms="+ms.size());
+ String[] methodList = new String[ms.size()];
+ int j=0;
+ for(String m : ms) methodList[j++] = m;
+
+ //methodList[0] = "fr.inrialpes.exmo.align.impl.method.NameEqAlignment";
- methodList[1] = "fr.inrialpes.exmo.align.impl.method.StringDistAlignment";
+ //methodList[1] = "fr.inrialpes.exmo.align.impl.method.StringDistAlignment";
- methodList[2] = "fr.inrialpes.exmo.align.impl.method.SMOANameAlignment";
+ //methodList[2] = "fr.inrialpes.exmo.align.impl.method.SMOANameAlignment";
- methodList[3] = "fr.inrialpes.exmo.align.impl.method.SubsDistNameAlignment";
+ //methodList[3] = "fr.inrialpes.exmo.align.impl.method.SubsDistNameAlignment";
- methodList[4] = "fr.inrialpes.exmo.align.impl.method.StrucSubsDistAlignment";
+ //methodList[4] = "fr.inrialpes.exmo.align.impl.method.StrucSubsDistAlignment";
- methodList[5] = "fr.inrialpes.exmo.align.impl.method.NameAndPropertyAlignment";
+ //methodList[5] = "fr.inrialpes.exmo.align.impl.method.NameAndPropertyAlignment";
- methodList[6] = "fr.inrialpes.exmo.align.impl.method.ClassStructAlignment";
+ //methodList[6] = "fr.inrialpes.exmo.align.impl.method.ClassStructAlignment";
- methodList[7] = "fr.inrialpes.exmo.align.impl.method.EditDistNameAlignment";
+ //methodList[7] = "fr.inrialpes.exmo.align.impl.method.EditDistNameAlignment";
- selectedMethod = methodList[0];
+ if(methodList.length > 0) selectedMethod = methodList[0];
methods.removeAll();
methods.setItems( methodList );
methods.setEnabled(true);