Populator.java

/*
 * Genoogle: Similar DNA Sequences Searching Engine and Tools. (http://genoogle.pih.bio.br)
 * Copyright (C) 2008,2009  Felipe Fernandes Albrecht (felipe.albrecht@gmail.com)
 *
 * For further information check the LICENSE file.
 */

package bio.pih.genoogle.seq.generator;

import java.io.FileNotFoundException;
import java.io.IOException;
import java.util.List;

import bio.pih.genoogle.seq.IllegalSymbolException;
import bio.pih.genoogle.seq.Sequence;

/**
 * Write to a file random sequences.
 * 
 * @author albrecht
 */
public class Populator {
	
 /**
 * <dna> <qtd> <range_from> <range_to> <file_path> <1-3>
 * @param args
 */
public static void main(String[] args) throws FileNotFoundException, IOException, IllegalSymbolException {
	if (args.length != 6) 
	{
		System.out.println("Quantidade de parametros invalido");
		System.out.println("<qtd> <length_range_from> <length_range_to> <file_path>" );
		return;
	}
	 
	int qtd = Integer.parseInt(args[1]);
	int lengthRangeFrom = Integer.parseInt(args[2]);
	int lengthRangeTo = Integer.parseInt(args[3]);
	String filePath = args[4];
	int writeTo = Integer.parseInt(args[5]);
	
	List<Sequence> populateSequences = DNASequencesPopulator.populateSequences(qtd, lengthRangeFrom, lengthRangeTo);
	if ((writeTo & 1) == 1) {
		DNASequencesPopulator.writePopulation(populateSequences, filePath+".seqs");	
	}
	
	if ((writeTo & 2) == 2) {
		DNASequencesPopulator.writePopulationAsFasta(populateSequences, filePath+".fasta");
	}
}
}