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/* Copyright (c) 2009 Peter Troshin
*
* JAva Bioinformatics Analysis Web Services (JABAWS) @version: 1.0
*
* This library is free software; you can redistribute it and/or modify it under the terms of the
* Apache License version 2 as published by the Apache Software Foundation
*
* This library is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without
* even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the Apache
* License for more details.
*
* A copy of the license is in apache_license.txt. It is also available here:
* @see: http://www.apache.org/licenses/LICENSE-2.0.txt
*
* Any republication or derived work distributed in source code form
* must include this copyright and license notice.
*/
package compbio.engine.cluster.drmaa;
import org.apache.log4j.Logger;
import org.ggf.drmaa.DrmaaException;
import compbio.engine.AsyncExecutor;
import compbio.engine.Cleaner;
import compbio.engine.Configurator;
import compbio.engine.client.ConfiguredExecutable;
import compbio.engine.client.Util;
import compbio.metadata.JobSubmissionException;
import compbio.metadata.ResultNotAvailableException;
/**
* Single cluster job runner class
*
* @author pvtroshin
* @version 1.0 August 2009
*
* TODO after call to submitJob() no setters really work as the job
* template gets deleted, this needs to be taken into account in this
* class design!
*/
public class AsyncJobRunner implements AsyncExecutor {
private static Logger log = Logger.getLogger(AsyncJobRunner.class);
@Override
public String submitJob(ConfiguredExecutable<?> executable)
throws JobSubmissionException {
JobRunner jr = new JobRunner(executable);
jr.submitJob(); // ignore cluster job id as it could be retrieved from
// fs
return executable.getTaskId();
}
@Override
public boolean cancelJob(String jobId) {
ClusterSession clustSession = ClusterSession.getInstance();
return compbio.engine.cluster.drmaa.ClusterUtil.cancelJob(jobId,
clustSession);
}
/**
* This will never return clust.engine.JobStatus.CANCELLED as for sun grid
* engine cancelled job is the same as failed. Cancelled jobs needs to be
* tracked manually!
*/
@Override
public compbio.metadata.JobStatus getJobStatus(String jobId) {
return JobRunner.getJobStatus(jobId);
}
@Override
public boolean cleanup(String jobId) {
String workDir = Configurator.getWorkDirectory(jobId);
return Cleaner.deleteAllFiles(workDir);
}
@Override
public ConfiguredExecutable<?> getResults(String jobId)
throws ResultNotAvailableException {
assert Util.isValidJobId(jobId);
ClusterSession csession = ClusterSession.getInstance();
ConfiguredExecutable<?> exec;
try {
exec = csession.getResults(jobId);
} catch (DrmaaException e) {
log.error(e.getLocalizedMessage(), e.getCause());
throw new ResultNotAvailableException(e);
}
return exec;
}
@Override
public String getWorkDirectory(String jobId) {
return Configurator.getWorkDirectory(jobId);
}
} // class end
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