codekaust

public class MultipleThreads{
	public static void main(String[] args) {
		MyThread m = new MyThread();
		m.setName("m");
		m.run();
		m.start();				
		MyThread m2 = new MyThread();
		m2.setName("m2");
		m2.run();
		m2.start();

codekaust

SPECIES:
	chebi:
		for ~ http://identifiers.org/chebi/CHEBI:15905

		<annotation>
          <rdf:RDF>
            <rdf:Description rdf:about="#meta_s_0017">
              <bqbiol:is>
                <rdf:Bag>
                  <rdf:li rdf:resource="http://identifiers.org/chebi/CHEBI:15905"/>

codekaust

public String getBiggIdFromSynonym(String data_source_biggId, String synonym, String type){
    String biggId = new String();
    String query;

    switch (type){
      case TYPE_SPECIES:
        query = SELECT + "c." + COLUMN_BIGG_ID + FROM + COMPONENT + " c, " + DATA_SOURCE + " d, " + SYNONYM + " s"
                + WHERE + "d." + COLUMN_BIGG_ID + " = '%s' AND d." + COLUMN_ID + " = s." +
                COLUMN_DATA_SOURCE_ID + " AND s." + COLUMN_SYNONYM + " = '%s' AND s." + COLUMN_OME_ID + " = c."
                + COLUMN_ID;

codekaust

public boolean isGenePresentInBigg(GeneProduct geneProduct){
    String id = geneProduct.getId();
    if(id.startsWith("G_")){
      id=id.substring(2);
    }

    String query = SELECT + COLUMN_LOCUS_TAG + FROM + GENE + WHERE + COLUMN_LOCUS_TAG + " = '%s'";
    try {
      ResultSet rst = connector.query(query,id);
      return rst.next();

codekaust

private String getGeneProductBiGGIdFromUriList(List<String> list_Uri) {
    String biggId = null;
    for(String uri : list_Uri){
      String dataSource, synonym_id, currentBiGGId; //currentBiGGId is id calculated in current iteration
      synonym_id = uri.substring(uri.lastIndexOf('/')+1);
      uri = uri.substring(0,uri.lastIndexOf('/'));
      dataSource = uri.substring(uri.lastIndexOf('/')+1);

      //updating the dataSource and synonym_id to match bigg database
      switch (dataSource){

codekaust

private String getSpeciesBiGGIdFromUriList(List<String> list_Uri){
    String biggId = null;
    for(String uri : list_Uri){
      String dataSource, synonym_id, currentBiGGId; //currentBiGGId is id calculated in current iteration
      synonym_id = uri.substring(uri.lastIndexOf('/')+1);
      //crop uri to remove synonym identifier from end
      uri = uri.substring(0,uri.lastIndexOf('/'));
      dataSource = uri.substring(uri.lastIndexOf('/')+1);

      //updating the dataSource and synonym_id to match bigg database

codekaust

private String getReactionBiGGIdFromUriList(List<String> list_Uri){
    String biggId = null;
    for(String uri : list_Uri){
      String dataSource, synonym_id, currentBiGGId; //currentBiGGId is id calculated in current iteration
      synonym_id = uri.substring(uri.lastIndexOf('/')+1);
      uri = uri.substring(0,uri.lastIndexOf('/'));
      dataSource = uri.substring(uri.lastIndexOf('/')+1);

      //updating the dataSource and synonym_id to match bigg database
      switch (dataSource){

codekaust

public class ThreadUsingThreadClass{
	public static void main(String[] args) {
		System.out.println("Main thread name: "+ Thread.currentThread().getName());

		Thread t = new Thread(/*Thread name*/"Thread 1");
		t.start();

		// "Thread" constructor with thread_name parameter not "MyThread"
		// MyThread mt = new MyThread("Example_Thread");
		// mt.start();

codekaust

public class ThreadUsingRunnableInterface{
	public static void main(String[] args) {
		//without name
		Thread t1 = new Thread(new MyRunnable());
		t1.start();

		//with name
		Thread t2 = new Thread(new MyRunnable(), "Example_thread");
		t2.start();
	}

codekaust

public class ThreadUsingRunnableInterface{
	public static void main(String[] args) {
		Thread t2 = new Thread(
			()-> {
				System.out.println("Thread name: "+ Thread.currentThread().getName());
				System.out.println("Thread id: "+ Thread.currentThread().getId());
			}, "Example_thread");
		t2.start();
	}
}