Index: /BH13SPARQLBuilder/src/org/biohackathon/SPARQLBuilder/endpointMetadata/MetadataFile.java
===================================================================
--- /BH13SPARQLBuilder/src/org/biohackathon/SPARQLBuilder/endpointMetadata/MetadataFile.java (revision 163)
+++ /BH13SPARQLBuilder/src/org/biohackathon/SPARQLBuilder/endpointMetadata/MetadataFile.java (revision 176)
@@ -2,4 +2,5 @@
 
 import java.io.File;
+import java.util.ArrayList;
 import java.util.Calendar;
 
@@ -13,4 +14,5 @@
 import com.hp.hpl.jena.rdf.model.Property;
 import com.hp.hpl.jena.rdf.model.RDFNode;
+import com.hp.hpl.jena.rdf.model.ResIterator;
 import com.hp.hpl.jena.rdf.model.Resource;
 
@@ -50,4 +52,266 @@
 	
 	
+	//TODO
+	public static boolean validate(File file) throws Exception{
+		Model tmpModel = RDFDataMgr.loadModel(file.getAbsolutePath());
+		String endpointURI = getEndpointURI(tmpModel);
+		
+		//TODO
+		return true;
+	}
+
+
+	public static Resource getDefaultDataset(Model model) throws Exception{
+		Property sd_default_dataset = model.getProperty(URICollection.PROPERTY_SD_DEFAULT_DATA_SET);
+		NodeIterator nit = model.listObjectsOfProperty(sd_default_dataset);
+		Resource defaultDataSet = null;
+		if( nit.hasNext() ){
+			RDFNode node = nit.next();
+			defaultDataSet = node.asResource();
+		}
+		return defaultDataSet;
+	}
+
+
+	public static long getTriples(Resource defaultDataset) throws Exception{
+		// numTriples
+		Model model = defaultDataset.getModel();
+		Property void_triples = model.getProperty(URICollection.PROPERTY_VOID_TRIPLES);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, void_triples);
+		long numTriples = 0;
+		if( nit.hasNext()){
+			Literal numTriplesLit = nit.next().asLiteral();
+			numTriples = numTriplesLit.getLong();
+		}
+		return numTriples;
+	}
+	
+	
+	public static long getProperties(Resource defaultDataset) throws Exception{
+		Model model = defaultDataset.getModel();
+		Property void_properties = model.getProperty(URICollection.PROPERTY_VOID_PROPERTIES);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, void_properties);
+		long numProperties = 0;
+		if( nit.hasNext()){
+			Literal numPropertiesLit = nit.next().asLiteral();
+			numProperties = numPropertiesLit.getLong();
+		}
+		return numProperties;
+	}
+	
+
+	public static long getClasses(Resource defaultDataset) throws Exception{
+		Model model = defaultDataset.getModel();
+		Property void_classes = model.getProperty(URICollection.PROPERTY_VOID_CLASSES);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, void_classes);
+		long numClasses = 0;
+		if( nit.hasNext()){
+			Literal numClassesLit = nit.next().asLiteral();
+			numClasses = numClassesLit.getLong();
+		}
+		return numClasses;
+	}
+
+	
+	public static long getDatatypes(Resource defaultDataset) throws Exception{
+		Model model = defaultDataset.getModel();
+		Property sbm_datatypes = model.getProperty(URICollection.PROPERTY_SB_DATATYPES);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, sbm_datatypes);
+		long numDatatypes = 0;
+		if( nit.hasNext()){
+			Literal numDatatypesLit = nit.next().asLiteral();
+			numDatatypes = numDatatypesLit.getLong();
+		}
+		return numDatatypes;
+	}
+
+	
+	public static long getEndpointCategory(Resource defaultDataset) throws Exception{
+		Model model = defaultDataset.getModel();
+		Property sbm_endpointCategory = model.getProperty(URICollection.PROPERTY_SB_ENDPOINT_CATEGORY);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, sbm_endpointCategory);
+		long endpointCategory = 0;
+		if( nit.hasNext()){
+			Literal endpointCategoryLit = nit.next().asLiteral();
+			endpointCategory = endpointCategoryLit.getLong();
+		}
+		return endpointCategory;
+	}
+
+	public static long getPropertyategory(Resource defaultDataset) throws Exception{
+		Model model = defaultDataset.getModel();
+		Property sbm_propertyCategory = model.getProperty(URICollection.PROPERTY_SB_PROPERTY_CATEGORY);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, sbm_propertyCategory);
+		long propertyCategory = 0;
+		if( nit.hasNext()){
+			Literal propertyCategoryLit = nit.next().asLiteral();
+			propertyCategory = propertyCategoryLit.getLong();
+		}
+		return propertyCategory;
+	}
+
+
+	public static long getClassCategory(Resource defaultDataset) throws Exception{
+		Model model = defaultDataset.getModel();
+		Property sbm_classCategory = model.getProperty(URICollection.PROPERTY_SB_CLASS_CATEGORY);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, sbm_classCategory);
+		long classCategory = 0;
+		if( nit.hasNext()){
+			Literal classCategoryLit = nit.next().asLiteral();
+			classCategory = classCategoryLit.getLong();
+		}
+		return classCategory;
+	}
+
+	
+	public static Resource[] getPropertyPartitions(Resource defaultDataset) throws Exception{
+		Model model = defaultDataset.getModel();
+		Property void_propertyPartition = model.getProperty(URICollection.PROPERTY_VOID_PROPERTY_PARTITION);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, void_propertyPartition);
+		ArrayList<Resource> propertyPartitions = new ArrayList<Resource>();
+		if( nit.hasNext()){
+			Resource propertyPartition = nit.next().asResource();
+			propertyPartitions.add(propertyPartition);
+		}
+		return propertyPartitions.toArray(new Resource[0]);
+	}
+
+	public static Resource[] getClassPartitions(Resource defaultDataset) throws Exception{
+		Model model = defaultDataset.getModel();
+		Property void_classPartition = model.getProperty(URICollection.PROPERTY_VOID_CLASS_PARTITION);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, void_classPartition);
+		ArrayList<Resource> classPartitions = new ArrayList<Resource>();
+		if( nit.hasNext()){
+			Resource classPartition = nit.next().asResource();
+			classPartitions.add(classPartition);
+		}
+		return classPartitions.toArray(new Resource[0]);
+	}
+	
+	public static Resource[] getNamedGraphs(Resource defaultDataset) throws Exception{
+		Model model = defaultDataset.getModel();
+		Property sd_namedGraph = model.getProperty(URICollection.PROPERTY_SD_NAMED_GRAPH);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, sd_namedGraph);
+		ArrayList<Resource> namedGraphs = new ArrayList<Resource>();
+		if( nit.hasNext()){
+			Resource namedGraph = nit.next().asResource();
+			namedGraphs.add(namedGraph);
+		}
+		return namedGraphs.toArray(new Resource[0]);
+	}
+	
+	public static String getName(Resource namedGraph) throws Exception{
+		Model model = namedGraph.getModel();
+		Property sd_name = model.getProperty(URICollection.PROPERTY_SD_NAME);
+		NodeIterator nit = model.listObjectsOfProperty(namedGraph, sd_name);
+		String name = null;
+		if( nit.hasNext()){
+			Literal nameLit = nit.next().asLiteral();
+			name = nameLit.getString();
+		}
+		return name;
+	}
+
+	public static Resource[] getPropertyCategorySubsets(Resource defaultDataset) throws Exception{
+		Model model = defaultDataset.getModel();
+		Property void_propertyCategorySubset = model.getProperty(URICollection.PROPERTY_SB_PROPERTY_CATEGORY_SUBSET);
+		NodeIterator nit = model.listObjectsOfProperty(defaultDataset, void_propertyCategorySubset);
+		ArrayList<Resource> propertyCategorySubsets = new ArrayList<Resource>();
+		if( nit.hasNext()){
+			Resource propertyCategorySubset = nit.next().asResource();
+			propertyCategorySubsets.add(propertyCategorySubset);
+		}
+		return propertyCategorySubsets.toArray(new Resource[0]);
+	}
+
+	public static Property[] getProperties(Model model) throws Exception{
+		Resource rdf_property = model.getResource(URICollection.CLASS_RDF_PROPERTY);
+		Property rdf_type = model.getProperty(URICollection.PROPERTY_RDF_TYPE);
+		ResIterator rit = model.listSubjectsWithProperty(rdf_type, rdf_property);
+		ArrayList<Resource> properties = new ArrayList<Resource>();
+		if( rit.hasNext()){
+			String propertyURI  = rit.next().getURI();
+			Property property = model.getProperty(propertyURI);
+			properties.add(property);
+		}
+		return properties.toArray(new Property[0]);
+	}
+
+	
+	public static Resource[] getClasses(Model model) throws Exception{
+		Resource rdfs_class = model.getResource(URICollection.RESOURCE_RDFS_CLASS);
+		Property rdf_type = model.getProperty(URICollection.PROPERTY_RDF_TYPE);
+		ResIterator rit = model.listSubjectsWithProperty(rdf_type, rdfs_class);
+		ArrayList<Resource> classes = new ArrayList<Resource>();
+		if( rit.hasNext()){
+			Resource classRes  = rit.next();
+			classes.add(classRes);
+		}
+		return classes.toArray(new Resource[0]);
+	}
+
+	public static Resource[] getClassRelations(Resource propertyPartition) throws Exception{
+		//TODO
+		return null;
+	}
+	
+	public static String getEndpointURI(Model model) throws Exception{
+		Property sd_endpoint = model.getProperty(URICollection.PROPERTY_SD_ENDPOINT);
+		NodeIterator nit = model.listObjectsOfProperty(sd_endpoint);
+		Resource endPointRes = null;
+		String endpointURI = null;
+		if( nit.hasNext() ){
+				RDFNode endPointNode = nit.next();
+				endPointRes = endPointNode.asResource();
+				endpointURI = endPointRes.getURI();
+		}
+		return endpointURI;
+	}
+
+	
+	private Resource getCrawlLogBlankNode(Resource defaultDataset) throws Exception {
+		Model model = defaultDataset.getModel();
+		// log
+		Property sbm_crawlLog = model.getProperty(URICollection.PROPERTY_SB_CRAWL_LOG);
+		NodeIterator nit = model.listObjectsOfProperty(sbm_crawlLog);
+		Resource crawlLogBlankNode = null;
+		if( nit.hasNext() ){
+				RDFNode node = nit.next();
+				crawlLogBlankNode = node.asResource();
+		}
+		return crawlLogBlankNode;
+	}
+
+	private Calendar getStartTime(Resource crawlLogBlankNode) throws Exception{
+		Model model = crawlLogBlankNode.getModel();
+		Property sbm_startTime = model.getProperty(URICollection.PROPERTY_SB_CRAWL_START_TIME);
+		NodeIterator nit = model.listObjectsOfProperty(sbm_startTime);
+		Calendar startCal = null;
+		if( nit.hasNext() ){
+			Literal startTimeLit = null;
+			RDFNode node = nit.next();
+			startTimeLit = node.asLiteral();
+			startCal = ((com.hp.hpl.jena.datatypes.xsd.XSDDateTime)(startTimeLit.getValue())).asCalendar();
+		}
+		return startCal;
+	}
+
+	private Calendar getEndTime(Resource crawlLogBlankNode) throws Exception{
+		Model model = crawlLogBlankNode.getModel();
+		Property sbm_endTime = model.getProperty(URICollection.PROPERTY_SB_CRAWL_END_TIME);
+		NodeIterator nit = model.listObjectsOfProperty(sbm_endTime);
+		Calendar endCal = null;
+		if( nit.hasNext() ){
+			Literal endTimeLit = null;
+			RDFNode node = nit.next();
+			endTimeLit = node.asLiteral();
+			endCal = ((com.hp.hpl.jena.datatypes.xsd.XSDDateTime)(endTimeLit.getValue())).asCalendar();
+		}
+		return endCal;
+	}
+	
+	
+	
+	
 	private void readFile(File file) throws Exception{
 		model = RDFDataMgr.loadModel(file.getAbsolutePath());