org.nanopub.op.Run Maven / Gradle / Ivy

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Java library for nanopublications based on RDF4J
There is a newer version: 1.63
package org.nanopub.op;

import java.io.IOException;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.HashMap;
import java.util.List;
import java.util.Map;

import org.eclipse.rdf4j.RDF4JException;
import org.eclipse.rdf4j.rio.RDFParserRegistry;
import org.eclipse.rdf4j.rio.RDFWriterRegistry;
import org.eclipse.rdf4j.rio.turtle.TurtleParserFactory;
import org.eclipse.rdf4j.rio.turtle.TurtleWriterFactory;
import org.nanopub.NanopubImpl;

public class Run {

	private Run() {}  // no instances allowed

	public static void main(String[] args) throws IOException, RDF4JException {
		NanopubImpl.ensureLoaded();
		
		// Not sure why this isnt' done automatically...:
		RDFParserRegistry.getInstance().add(new TurtleParserFactory());
		RDFWriterRegistry.getInstance().add(new TurtleWriterFactory());

		run(args);
	}

	private static List> runnableClasses = new ArrayList<>();
	private static Map> runnableClassesByName = new HashMap<>();
	private static Map> runnableClassesByShortcut = new HashMap<>();
	private static Map,String> runnableClassNames = new HashMap<>();
	private static Map,String> runnableClassShortcuts = new HashMap<>();

	private static void addRunnableClass(Class c, String shortcut) {
		runnableClasses.add(c);
		runnableClassesByName.put(c.getSimpleName(), c);
		runnableClassNames.put(c, c.getSimpleName());
		if (shortcut != null) {
			runnableClassesByShortcut.put(shortcut, c);
			runnableClassShortcuts.put(c, shortcut);
		}
	}

	static {
		addRunnableClass(Filter.class, "filter");
		addRunnableClass(Extract.class, "extract");
		addRunnableClass(Gml.class, "gml");
		addRunnableClass(Fingerprint.class, "fingerprint");
		addRunnableClass(Topic.class, "topic");
		addRunnableClass(Reuse.class, "reuse");
		addRunnableClass(Count.class, "count");
		addRunnableClass(Decontextualize.class, "decontext");
		addRunnableClass(Union.class, "union");
		addRunnableClass(IndexReuse.class, "ireuse");
		addRunnableClass(ExportJson.class, "exportjson");
		addRunnableClass(Namespaces.class, "namespaces");
		addRunnableClass(Aggregate.class, "aggregate");
		addRunnableClass(Import.class, "import");
		addRunnableClass(Create.class, "create");
	}

	public static void run(String[] command) throws IOException, RDF4JException {
		if (command.length == 0) {
			System.err.println("ERROR: missing command");
			System.err.println("Run with 'help' argument to show all available commands.");
			System.exit(1);
		}
		String cmd = command[0];
		String[] cmdArgs = Arrays.copyOfRange(command, 1, command.length);
		Class runClass = runnableClassesByName.get(cmd);
		if (runClass == null) {
			runClass = runnableClassesByShortcut.get(cmd);
		}
		if (runClass != null) {
			try {
				runClass.getMethod("main", String[].class).invoke(runClass, (Object) cmdArgs);
			} catch (Exception ex) {
				System.err.println("Internal error: " + ex.getMessage());
				ex.printStackTrace(System.err);
				System.exit(1);
			}
		} else if (cmd.equals("help")) {
			System.err.println("Available commands:");
			for (Class c : runnableClasses) {
				String s = runnableClassShortcuts.get(c);
				String n = runnableClassNames.get(c);
				if (s == null) {
					System.err.println("- " + n);
				} else {
					System.err.println("- " + s + " / " + n);
				}
			}
			System.exit(0);
		} else {
			System.err.println("ERROR. Unrecognized command: " + cmd);
			System.err.println("Run 'npop help' to show all available commands.");
			System.exit(1);
		}
	}

}