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/**
* Title: ProAlign<p>
* Description: <p>
* Copyright: Copyright (c) Ari Loytynoja<p>
* License: GNU GENERAL PUBLIC LICENSE<p>
* @see http://www.gnu.org/copyleft/gpl.html
* Company: ULB<p>
* @author Ari Loytynoja
* @version 1.0
*/
package proalign;
public class WinClustalw extends Thread {
String command;
int num;
boolean running = true;
WinClustalw(int num, String command) {
this.num = num;
this.command = command;
start();
}
public void run(){
runClustalw(num,command);
running = false;
}
/**
* Run native ClustalW
*/
public native void runClustalw(int num, String cmnd);
static {
Runtime.getRuntime().load(ProAlign.clustalwPath);
}
/**
* Get output and write it in the log.
*/
private void writeout(String txt) {
//System.out.println(txt);
ProAlign.log(txt);
try {
sleep(20);
} catch(InterruptedException e) {}
}
}
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