From 17bd9beaf7f358a44e5bf36a5855fe6727d506dc Mon Sep 17 00:00:00 2001
From: Federico Igne <federico.igne@cs.ox.ac.uk>
Date: Tue, 10 May 2022 18:17:06 +0100
Subject: [pagoda] Move project to Scala

This commit includes a few changes:
- The repository still uses Maven to manage dependency but it is now a
  Scala project.
- The code has been ported from OWLAPI 3.4.10 to 5.1.20
- A proof of concept program using both RSAComb and PAGOdA has been
  added.
---
 .../java/org/semanticweb/simpleETL/SimpleETL.java  | 76 ++++++++++++++++++++++
 1 file changed, 76 insertions(+)
 create mode 100644 src/main/java/org/semanticweb/simpleETL/SimpleETL.java

(limited to 'src/main/java/org/semanticweb/simpleETL/SimpleETL.java')

diff --git a/src/main/java/org/semanticweb/simpleETL/SimpleETL.java b/src/main/java/org/semanticweb/simpleETL/SimpleETL.java
new file mode 100644
index 0000000..cc91e1f
--- /dev/null
+++ b/src/main/java/org/semanticweb/simpleETL/SimpleETL.java
@@ -0,0 +1,76 @@
+package org.semanticweb.simpleETL;
+
+import org.openrdf.rio.RDFParser;
+import org.openrdf.rio.RDFWriter;
+import org.openrdf.rio.rdfxml.RDFXMLParser;
+import org.openrdf.rio.turtle.TurtleWriter;
+import uk.ac.ox.cs.pagoda.util.Utility;
+
+import java.io.File;
+import java.io.FileInputStream;
+import java.io.FileOutputStream;
+import java.util.regex.Pattern;
+
+public class SimpleETL {
+	
+	protected final static String m_prefix_LUBM = "http://www.lehigh.edu/~zhp2/2004/0401/univ-bench.owl#";
+	protected final static String m_prefix_UOBM = "http://semantics.crl.ibm.com/univ-bench-dl.owl#";
+	protected final static String m_prefix_FLY= "http://www.virtualflybrain.org/ontologies/individual_neurons/FC_neuron_GF_an.owl#";
+
+	String m_prefix; 
+	String m_fileToImport;
+	String m_fileToExport; 
+	
+	public SimpleETL(String prefix, String fileToImport) {
+		m_prefix = prefix; 
+		m_fileToImport = fileToImport; 
+		m_fileToExport = m_fileToImport.replace(".owl", ".ttl"); 
+	}
+	
+	public SimpleETL(String prefix, String fileToImport, String outPath) {
+		m_prefix = prefix; 
+		m_fileToImport = fileToImport;
+		File file = new File(outPath); 
+		if (file.exists() && file.isDirectory())
+			m_fileToExport = outPath + Utility.FILE_SEPARATOR + "data.ttl"; 
+		else 
+			m_fileToExport = outPath; 
+//				+ Utility.FILE_SEPARATOR + m_fileToImport.substring(m_fileToImport.lastIndexOf(Utility.FILE_SEPARATOR), m_fileToImport.lastIndexOf(".")) + ".ttl"; 
+	}
+	
+	public void rewrite() throws Exception {
+//		RDFParser parser = new TurtleParser();
+		RDFParser parser = new RDFXMLParser(); 
+		
+		FileOutputStream fos = new FileOutputStream(m_fileToExport); 
+		try {
+			RDFWriter writer = new TurtleWriter(fos);
+		
+//			String m_fileToExport = m_fileToImport.replace(".owl", ".ntriple"); 
+//			RDFWriter writer = new NTriplesWriter(new FileOutputStream(m_fileToExport));
+		
+			RDFHandlerWriter multiHandler = new RDFHandlerWriter(writer);
+			parser.setRDFHandler(multiHandler);
+			File fileToImport = new File(m_fileToImport);
+			if(fileToImport.isDirectory()) {
+				for(File file : fileToImport.listFiles()) {
+					if(file.isFile() && (Pattern.matches(".*.owl", file.getName()) || Pattern.matches(".*.rdf", file.getName()))) {
+						Utility.logDebug("Parsing " + file.getName());
+						parser.parse(new FileInputStream(file), m_prefix);
+					}
+				}
+			}
+			else
+				parser.parse(new FileInputStream(fileToImport), m_prefix);
+			writer.endRDF();
+		}
+		finally {
+			fos.close();
+		}
+		Utility.logDebug("SimpleETL rewriting DONE: additional ontology data is saved in " + m_fileToExport + ".");
+	}
+	
+	public String getExportedFile() {
+		return m_fileToExport; 
+	}
+}
-- 
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