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package org.apache.airavata.gfac.ssh.handler;
import org.apache.airavata.common.utils.ServerSettings;
import org.apache.airavata.gfac.Constants;
import org.apache.airavata.gfac.GFacException;
import org.apache.airavata.gfac.core.context.JobExecutionContext;
import org.apache.airavata.gfac.core.handler.AbstractHandler;
import org.apache.airavata.gfac.core.handler.GFacHandlerException;
import org.apache.airavata.gfac.core.provider.GFacProviderException;
import org.apache.airavata.gfac.core.utils.GFacUtils;
import org.apache.airavata.gfac.core.utils.OutputUtils;
import org.apache.airavata.gfac.ssh.security.SSHSecurityContext;
import org.apache.airavata.gfac.ssh.util.GFACSSHUtils;
import org.apache.airavata.gsi.ssh.api.Cluster;
import org.apache.airavata.model.appcatalog.appinterface.DataType;
import org.apache.airavata.model.appcatalog.appinterface.OutputDataObjectType;
import org.apache.airavata.model.workspace.experiment.CorrectiveAction;
import org.apache.airavata.model.workspace.experiment.DataTransferDetails;
import org.apache.airavata.model.workspace.experiment.ErrorCategory;
import org.apache.airavata.model.workspace.experiment.TaskDetails;
import org.apache.airavata.model.workspace.experiment.TransferState;
import org.apache.airavata.model.workspace.experiment.TransferStatus;
import org.apache.airavata.registry.cpi.ChildDataType;
import org.slf4j.Logger;
import org.slf4j.LoggerFactory;
import java.io.File;
import java.io.PrintWriter;
import java.io.StringWriter;
import java.util.ArrayList;
import java.util.List;
import java.util.Map;
import java.util.Properties;
import java.util.Set;
public class SSHOutputHandler extends AbstractHandler {
private static final Logger log = LoggerFactory.getLogger(SSHOutputHandler.class);
public void invoke(JobExecutionContext jobExecutionContext) throws GFacHandlerException {
String hostAddress = jobExecutionContext.getHostName();
try {
if (jobExecutionContext.getSecurityContext(hostAddress) == null) {
GFACSSHUtils.addSecurityContext(jobExecutionContext);
}
} catch (Exception e) {
log.error(e.getMessage());
try {
StringWriter errors = new StringWriter();
e.printStackTrace(new PrintWriter(errors));
GFacUtils.saveErrorDetails(jobExecutionContext, errors.toString(), CorrectiveAction.CONTACT_SUPPORT, ErrorCategory.AIRAVATA_INTERNAL_ERROR);
} catch (GFacException e1) {
log.error(e1.getLocalizedMessage());
}
throw new GFacHandlerException("Error while creating SSHSecurityContext", e, e.getLocalizedMessage());
}
super.invoke(jobExecutionContext);
DataTransferDetails detail = new DataTransferDetails();
detail.setTransferDescription("Output data staging");
TransferStatus status = new TransferStatus();
Cluster cluster = null;
try {
cluster = ((SSHSecurityContext) jobExecutionContext.getSecurityContext(hostAddress)).getPbsCluster();
if (cluster == null) {
throw new GFacProviderException("Security context is not set properly");
} else {
log.info("Successfully retrieved the Security Context");
}
// Get the Stdouts and StdErrs
String timeStampedExperimentID = GFacUtils.createUniqueNameWithDate(jobExecutionContext.getExperimentID());
TaskDetails taskData = jobExecutionContext.getTaskData();
String outputDataDir = ServerSettings.getSetting(Constants.OUTPUT_DATA_DIR);
File localStdOutFile;
File localStdErrFile;
//FIXME: AdvancedOutput is remote location and third party transfer should work to make this work
// if (taskData.getAdvancedOutputDataHandling() != null) {
// outputDataDir = taskData.getAdvancedOutputDataHandling().getOutputDataDir();
// }
if (outputDataDir == null || outputDataDir.equals("")) {
outputDataDir = File.separator + "tmp";
}
outputDataDir = outputDataDir + File.separator + jobExecutionContext.getExperimentID() + "-" + jobExecutionContext.getTaskData().getTaskID();
(new File(outputDataDir)).mkdirs();
localStdOutFile = new File(outputDataDir + File.separator + timeStampedExperimentID + "stdout");
localStdErrFile = new File(outputDataDir + File.separator + timeStampedExperimentID + "stderr");
// cluster.makeDirectory(outputDataDir);
int i = 0;
String stdOutStr = "";
while (stdOutStr.isEmpty()) {
try {
cluster.scpFrom(jobExecutionContext.getStandardOutput(), localStdOutFile.getAbsolutePath());
stdOutStr = GFacUtils.readFileToString(localStdOutFile.getAbsolutePath());
} catch (Exception e) {
log.error(e.getLocalizedMessage());
Thread.sleep(2000);
}
i++;
if (i == 3) break;
}
Thread.sleep(1000);
cluster.scpFrom(jobExecutionContext.getStandardError(), localStdErrFile.getAbsolutePath());
Thread.sleep(1000);
String stdErrStr = GFacUtils.readFileToString(localStdErrFile.getAbsolutePath());
status.setTransferState(TransferState.STDOUT_DOWNLOAD);
detail.setTransferStatus(status);
detail.setTransferDescription("STDOUT:" + localStdOutFile.getAbsolutePath());
registry.add(ChildDataType.DATA_TRANSFER_DETAIL, detail, jobExecutionContext.getTaskData().getTaskID());
status.setTransferState(TransferState.STDERROR_DOWNLOAD);
detail.setTransferStatus(status);
detail.setTransferDescription("STDERR:" + localStdErrFile.getAbsolutePath());
registry.add(ChildDataType.DATA_TRANSFER_DETAIL, detail, jobExecutionContext.getTaskData().getTaskID());
List outputArray = new ArrayList();
Map output = jobExecutionContext.getOutMessageContext().getParameters();
Set keys = output.keySet();
for (String paramName : keys) {
OutputDataObjectType actualParameter = (OutputDataObjectType) output.get(paramName);
if (DataType.URI == actualParameter.getType()) {
List outputList = null;
int retry = 3;
while (retry > 0) {
outputList = cluster.listDirectory(jobExecutionContext.getOutputDir());
if (outputList.size() > 0) {
break;
}
retry--;
Thread.sleep(2000);
}
if (outputList.size() == 0 || outputList.get(0).isEmpty() || outputList.size() > 1) {
OutputUtils.fillOutputFromStdout(output, stdOutStr, stdErrStr, outputArray);
Set strings = output.keySet();
outputArray.clear();
for (String key : strings) {
OutputDataObjectType actualParameter1 = (OutputDataObjectType) output.get(key);
if (DataType.URI == actualParameter1.getType()) {
String downloadFile = actualParameter1.getValue();
cluster.scpFrom(downloadFile, outputDataDir);
String fileName = downloadFile.substring(downloadFile.lastIndexOf(File.separatorChar) + 1, downloadFile.length());
String localFile = outputDataDir + File.separator + fileName;
jobExecutionContext.addOutputFile(localFile);
actualParameter1.setValue(localFile);
OutputDataObjectType dataObjectType = new OutputDataObjectType();
dataObjectType.setValue(localFile);
dataObjectType.setName(key);
dataObjectType.setType(DataType.URI);
outputArray.add(dataObjectType);
}else if (DataType.STDOUT == actualParameter.getType()) {
String fileName = localStdOutFile.getName();
String localFile = outputDataDir + File.separator + fileName;
jobExecutionContext.addOutputFile(localFile);
actualParameter.setValue(localFile);
OutputDataObjectType dataObjectType = new OutputDataObjectType();
dataObjectType.setValue(localFile);
dataObjectType.setName(key);
dataObjectType.setType(DataType.STDOUT);
outputArray.add(dataObjectType);
}else if (DataType.STDERR == actualParameter.getType()) {
String fileName = localStdErrFile.getName();
String localFile = outputDataDir + File.separator + fileName;
jobExecutionContext.addOutputFile(localFile);
actualParameter.setValue(localFile);
OutputDataObjectType dataObjectType = new OutputDataObjectType();
dataObjectType.setValue(localFile);
dataObjectType.setName(key);
dataObjectType.setType(DataType.STDERR);
outputArray.add(dataObjectType);
}
}
break;
} else if (outputList.size() == 1) {//FIXME: Ultrascan case
String valueList = outputList.get(0);
cluster.scpFrom(jobExecutionContext.getOutputDir() + File.separator + valueList, outputDataDir);
String outputPath = outputDataDir + File.separator + valueList;
jobExecutionContext.addOutputFile(outputPath);
actualParameter.setValue(outputPath);
OutputDataObjectType dataObjectType = new OutputDataObjectType();
dataObjectType.setValue(outputPath);
dataObjectType.setName(paramName);
dataObjectType.setType(DataType.URI);
outputArray.add(dataObjectType);
}
} else {
OutputUtils.fillOutputFromStdout(output, stdOutStr, stdErrStr, outputArray);
}
}
if (outputArray == null || outputArray.isEmpty()) {
log.error("Empty Output returned from the Application, Double check the application and ApplicationDescriptor output Parameter Names");
if (jobExecutionContext.getTaskData().getAdvancedOutputDataHandling() == null) {
throw new GFacHandlerException(
"Empty Output returned from the Application, Double check the application"
+ "and ApplicationDescriptor output Parameter Names");
}
}
jobExecutionContext.setStandardError(localStdErrFile.getAbsolutePath());
jobExecutionContext.setStandardOutput(localStdOutFile.getAbsolutePath());
jobExecutionContext.setOutputDir(outputDataDir);
status.setTransferState(TransferState.DOWNLOAD);
detail.setTransferStatus(status);
detail.setTransferDescription(outputDataDir);
registry.add(ChildDataType.DATA_TRANSFER_DETAIL, detail, jobExecutionContext.getTaskData().getTaskID());
registry.add(ChildDataType.EXPERIMENT_OUTPUT, outputArray, jobExecutionContext.getExperimentID());
} catch (Exception e) {
try {
status.setTransferState(TransferState.FAILED);
detail.setTransferStatus(status);
registry.add(ChildDataType.DATA_TRANSFER_DETAIL, detail, jobExecutionContext.getTaskData().getTaskID());
StringWriter errors = new StringWriter();
e.printStackTrace(new PrintWriter(errors));
GFacUtils.saveErrorDetails(jobExecutionContext, errors.toString(), CorrectiveAction.CONTACT_SUPPORT, ErrorCategory.FILE_SYSTEM_FAILURE);
} catch (Exception e1) {
throw new GFacHandlerException("Error persisting status", e1, e1.getLocalizedMessage());
}
throw new GFacHandlerException("Error in retrieving results", e);
}
}
@Override
public void recover(JobExecutionContext jobExecutionContext) throws GFacHandlerException {
// TODO: Auto generated method body.
}
public void initProperties(Properties properties) throws GFacHandlerException {
}
}
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