ChopFile.java

package convertors;

import java.io.BufferedReader;
import java.io.BufferedWriter;
import java.io.File;
import java.io.FileReader;
import java.io.FileWriter;
import java.io.IOException;

public class ChopFile
{

	public static int LINES_BLOCK_SIZE = 10000;

	public static void chopFile(File inputFile)
	{
		chopFile(inputFile, LINES_BLOCK_SIZE);
	}

	public static void chopFile(File inputFile, int linesBlockSize)
	{
		chopFile(inputFile, linesBlockSize, false);
	}

	public static void chopFile(File inputFile, boolean headOnly)
	{
		chopFile(inputFile, LINES_BLOCK_SIZE, headOnly);
	}

	public static void chopFile(File inputFile, int linesBlockSize, boolean headOnly)
	{
		try
		{
			BufferedReader input = new BufferedReader(new FileReader(inputFile));
			BufferedWriter output = new BufferedWriter(new FileWriter(inputFile.getAbsolutePath() + ".part1"));
			try
			{
				String line = null;
				int count = 0;
				while ((line = input.readLine()) != null && count < linesBlockSize)
				{
					output.write(line.substring(0, 2002)); // # chars per line
					output.write(System.getProperty("line.separator"));
					count++;
				}
			}
			finally
			{
				input.close();
				output.close();
			}
		}
		catch (IOException ex)
		{
			ex.printStackTrace();
		}
	}

	public static void main(String[] args)
	{
		String fileLocation = "D:/data/xgapdata/HumanPublicSets/193sgenome.ped";
		File inputFile = new File(fileLocation);
		ChopFile.chopFile(inputFile, 1000, true);
	}

}