htsjdk.samtools.apps.TimeChannel Maven / Gradle / Ivy
/*
* The MIT License
*
* Copyright (c) 2010 The Broad Institute
*
* Permission is hereby granted, free of charge, to any person obtaining a copy
* of this software and associated documentation files (the "Software"), to deal
* in the Software without restriction, including without limitation the rights
* to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
* copies of the Software, and to permit persons to whom the Software is
* furnished to do so, subject to the following conditions:
*
* The above copyright notice and this permission notice shall be included in
* all copies or substantial portions of the Software.
*
* THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
* IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
* FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
* AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
* LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
* OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
*/
package htsjdk.samtools.apps;
import java.io.File;
import java.io.FileInputStream;
import java.nio.MappedByteBuffer;
import java.nio.channels.FileChannel;
/**
* @author [email protected]
* @deprecated This is deprecated with no replacement. 1/19
*/
@Deprecated
public class TimeChannel {
public static void main(String[] args) throws Exception {
long fileSize = new File(args[0]).length();
FileInputStream in = new FileInputStream(args[0]);
FileChannel channel = in.getChannel();
byte[] buf = new byte[64 * 1024];
long totalBytesRead = 0;
long mappedOffset = 0;
// Map a round number of bytes that might correspond to some kind of page size boundary.
long maxToMapAtATime = 1024 * 1024 * 1024;
long mappedSize = Math.min(fileSize, maxToMapAtATime);
while (totalBytesRead < fileSize) {
System.err.println("mappedOffset: " + mappedOffset + "; mappedSize: " + mappedSize);
System.err.println("fileSize: " + fileSize + "; totalBytesRead: " + totalBytesRead);
MappedByteBuffer mappedBuffer = channel.map(FileChannel.MapMode.READ_ONLY, mappedOffset, mappedSize);
while (mappedBuffer.remaining() > 0) {
int bytesRead = Math.min(mappedBuffer.remaining(), buf.length);
mappedBuffer.get(buf, 0, bytesRead);
totalBytesRead += bytesRead;
}
mappedOffset += mappedSize;
mappedSize = Math.min(fileSize - totalBytesRead, maxToMapAtATime);
}
System.out.println("Total bytes: " + totalBytesRead);
}
}