Package org.apache.airavata.schemas.gfac

Examples of org.apache.airavata.schemas.gfac.GramApplicationDeploymentType

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        /*
        * App
        */
        ApplicationDeploymentDescription appDesc = new ApplicationDeploymentDescription(GramApplicationDeploymentType.type);
        GramApplicationDeploymentType app = (GramApplicationDeploymentType) appDesc.getType();
        app.setCpuCount(1);
        app.setNodeCount(1);
        ApplicationDeploymentDescriptionType.ApplicationName name = appDesc.getType().addNewApplicationName();
        name.setStringValue("EchoLocal");
        app.setExecutableLocation("/bin/echo");
        app.setScratchWorkingDirectory(properties.getProperty("scratch.working.directory"));
        app.setCpuCount(1);
        ProjectAccountType projectAccountType = ((GramApplicationDeploymentType) appDesc.getType()).addNewProjectAccount();
        projectAccountType.setProjectAccountNumber(properties.getProperty("allocation.charge.number"));
        QueueType queueType = app.addNewQueue();
        queueType.setQueueName(properties.getProperty("defualt.queue"));
        app.setMaxMemory(100);
       
        /*
           * Service
           */
        ServiceDescription serv = new ServiceDescription();
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        ((GlobusHostType) host.getType()).setGridFTPEndPointArray(new String[]{properties.getProperty("gridftp.endpoint")});
        ((GlobusHostType) host.getType()).setGlobusGateKeeperEndPointArray(new String[]{properties.getProperty("gram.endpoints")});

        /* Application */
        ApplicationDeploymentDescription appDesc = new ApplicationDeploymentDescription(GramApplicationDeploymentType.type);
        GramApplicationDeploymentType app = (GramApplicationDeploymentType) appDesc.getType();
        app.setCpuCount(1);
        app.setNodeCount(1);
        ApplicationDeploymentDescriptionType.ApplicationName name = appDesc.getType().addNewApplicationName();
        name.setStringValue("EchoMPILocal");
        app.setExecutableLocation("/share/home/01437/ogce/airavata-test/mpi-hellow-world");
        app.setScratchWorkingDirectory(properties.getProperty("scratch.working.directory"));
        app.setCpuCount(16);
        app.setJobType(JobTypeType.MPI);
        //app.setMinMemory();
        ProjectAccountType projectAccountType = ((GramApplicationDeploymentType) appDesc.getType()).addNewProjectAccount();
        projectAccountType.setProjectAccountNumber(properties.getProperty("allocation.charge.number"));

        /* Service */
 
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        ((GlobusHostType) host.getType()).setGridFTPEndPointArray(new String[]{properties.getProperty("gridftp.endpoint")});
        ((GlobusHostType) host.getType()).setGlobusGateKeeperEndPointArray(new String[]{properties.getProperty("gram.endpoints")});

        /* Application */
        ApplicationDeploymentDescription appDesc = new ApplicationDeploymentDescription(GramApplicationDeploymentType.type);
        GramApplicationDeploymentType app = (GramApplicationDeploymentType) appDesc.getType();
        app.setNodeCount(1);
        ApplicationDeploymentDescriptionType.ApplicationName name = appDesc.getType().addNewApplicationName();
        name.setStringValue("MockPwscfMPI");
        app.setExecutableLocation("/share/home/01437/ogce/airavata-test/applications/MockPwscf/pwscf.w");
        app.setScratchWorkingDirectory(properties.getProperty("scratch.working.directory"));
        app.setStaticWorkingDirectory("/share/home/01437/ogce/airavata-test/applications/MockPwscf");
        app.setCpuCount(4);
        app.setJobType(JobTypeType.MPI);
        app.setMaxWallTime(9);
        ProjectAccountType projectAccountType = ((GramApplicationDeploymentType) appDesc.getType()).addNewProjectAccount();
        projectAccountType.setProjectAccountNumber(properties.getProperty("allocation.charge.number"));

        /* Service */
        ServiceDescription serv = new ServiceDescription();
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        /*
        * Application deployment description
        */
        ApplicationDeploymentDescription appDesc = new ApplicationDeploymentDescription(GramApplicationDeploymentType.type);
        GramApplicationDeploymentType app = (GramApplicationDeploymentType) appDesc.getType();
        app.setCpuCount(1);
        app.setNodeCount(1);
        ApplicationDeploymentDescriptionType.ApplicationName name = appDesc.getType().addNewApplicationName();
        name.setStringValue("FileBreed");
        app.setExecutableLocation("/bin/echo");
        app.setScratchWorkingDirectory(properties.getProperty("scratch.working.directory"));
        app.setCpuCount(1);
        ProjectAccountType projectAccountType = ((GramApplicationDeploymentType) appDesc.getType()).addNewProjectAccount();
        projectAccountType.setProjectAccountNumber(properties.getProperty("allocation.charge.number"));
        QueueType queueType = app.addNewQueue();
        queueType.setQueueName(properties.getProperty("defualt.queue"));
       
        /*
        * Application Service
        */
 
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      return String.valueOf(num);
    }
  }
 
    private void loadApplicationDescriptionAdvancedOptions() {
      GramApplicationDeploymentType gadType = getGramApplicationDescriptionType();
    if (gadType.getJobType()!=null) {
      cmbJobType.setSelectedItem(gadType
          .getJobType().toString());
    }
      txtMaxWallTime.setText(getPropValue(gadType.getMaxWallTime()));
        txtCpuCount.setText(getPropValue(gadType.getCpuCount()));
        txtNodeCount.setText(getPropValue(gadType.getNodeCount()));
        txtProcessorsPerNode.setText(getPropValue(gadType.getProcessorsPerNode()));
        txtMinMemory.setText(getPropValue(gadType.getMinMemory()));
        txtMaxMemory.setText(getPropValue(gadType.getMaxMemory()));
        txtNodeCount.setText(getPropValue(gadType.getNodeCount()));
    ProjectAccountType projectAccount = getProjectAccountType();

    txtProjectAccountNumber.setText(projectAccount.getProjectAccountNumber()==null? "":projectAccount.getProjectAccountNumber());
    txtProjectAccountDescription.setText(projectAccount.getProjectAccountDescription()==null? "":projectAccount.getProjectAccountDescription());
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    }

    ;

    public static GramAttributes configureRemoteJob(InvocationContext context) throws ToolsException {
        GramApplicationDeploymentType app = (GramApplicationDeploymentType) context.getExecutionDescription().getApp().getType();
        GramAttributes jobAttr = new GramAttributes();
        jobAttr.setExecutable(app.getExecutableLocation());
        jobAttr.setDirectory(app.getStaticWorkingDirectory());
        jobAttr.setStdout(app.getStandardOutput());
        jobAttr.setStderr(app.getStandardError());

        /*
         * The env here contains the env of the host and the application. i.e the env specified in the host description
         * and application description documents
         */
        NameValuePairType[] env = app.getApplicationEnvironmentArray();
        if (env.length != 0) {
            Map<String, String> nv = new HashMap<String, String>();
            for (int i = 0; i < env.length; i++) {
                String key = env[i].getName();
                String value = env[i].getValue();
                nv.put(key, value);
            }

            for (Entry<String, String> entry : nv.entrySet()) {
                jobAttr.addEnvVariable(entry.getKey(), entry.getValue());
            }
        }
        jobAttr.addEnvVariable(GFacConstants.INPUT_DATA_DIR_VAR_NAME, app.getInputDataDirectory());
        jobAttr.addEnvVariable(GFacConstants.OUTPUT_DATA_DIR_VAR_NAME, app.getOutputDataDirectory());

        if (app.getMaxWallTime() > 0) {
            log.info("Setting max wall clock time to " + app.getMaxWallTime());

            if (app.getMaxWallTime() > 30 && app.getQueue() != null && app.getQueue().getQueueName().equals("debug")) {
                throw new ToolsException("NCSA debug Queue only support jobs < 30 minutes");
            }

            jobAttr.setMaxWallTime(app.getMaxWallTime());
            jobAttr.set("proxy_timeout", "1");
        } else {
            jobAttr.setMaxWallTime(30);
        }

        if (app.getStandardInput() != null && !"".equals(app.getStandardInput())) {
            jobAttr.setStdin(app.getStandardInput());
        } else {
            MessageContext<Object> input = context.getInput();
            for (Iterator<String> iterator = input.getNames(); iterator.hasNext(); ) {
                String paramName = iterator.next();
                ActualParameter actualParameter = (ActualParameter) input.getValue(paramName);
                if ("URIArray".equals(actualParameter.getType().getType().toString())) {
                    String[] values = ((URIArrayType) actualParameter.getType()).getValueArray();
                    for (String value : values) {
                        jobAttr.addArgument(value);
                    }
                } else {
                    String paramValue = input.getStringValue(paramName);
                    jobAttr.addArgument(paramValue);
                }
            }
        }
        // Using the workflowContext Header values if user provided them in the request and overwrite the default values in DD
        ContextHeaderDocument.ContextHeader currentContextHeader = WorkflowContextHeaderBuilder.getCurrentContextHeader();
        if (currentContextHeader.getWorkflowSchedulingContext() != null) {
            if (currentContextHeader != null &&
                    currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray() != null &&
                    currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray().length > 0) {
                try {
                    int cpuCount = currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray()[0].getCpuCount();
                    if(cpuCount>0){
                        app.setCpuCount(cpuCount);
                    }
                } catch (NullPointerException e) {
                    log.info("No Value sent in WorkflowContextHeader for CPU Count, value in the Deployment Descriptor will be used");
                    context.getExecutionContext().getNotifier().executionFail(context, e, "No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
                }
                try {
                    int nodeCount = currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray()[0].getNodeCount();
                    if(nodeCount>0){
                        app.setNodeCount(nodeCount);
                    }
                } catch (NullPointerException e) {
                    log.info("No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
                    context.getExecutionContext().getNotifier().executionFail(context, e, "No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
                }
                try {
                    String queueName = currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray()[0].getQueueName();
                    if (queueName != null) {
                        if(app.getQueue() == null){
                            QueueType queueType = app.addNewQueue();
                            queueType.setQueueName(queueName);
                        }else{
                            app.getQueue().setQueueName(queueName);
                        }
                    }
                } catch (NullPointerException e) {
                    log.info("No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
                    context.getExecutionContext().getNotifier().executionFail(context, e, "No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
                }
            }
        }
        if (app.getNodeCount() > 0) {
            jobAttr.set("hostCount", String.valueOf(app.getNodeCount()));
            log.info("Setting number of Nodes to " + app.getCpuCount());
        }
        if (app.getCpuCount() > 0) {
            log.info("Setting number of procs to " + app.getCpuCount());
            jobAttr.setNumProcs(app.getCpuCount());
        }
        if (app.getMinMemory() > 0) {
            log.info("Setting minimum memory to " + app.getMinMemory());
            jobAttr.setMinMemory(app.getMinMemory());
        }
        if (app.getMaxMemory() > 0) {
            log.info("Setting maximum memory to " + app.getMaxMemory());
            jobAttr.setMaxMemory(app.getMaxMemory());
        }
        if (app.getProjectAccount() != null) {
            if (app.getProjectAccount().getProjectAccountNumber() != null) {
                log.info("Setting project to " + app.getProjectAccount().getProjectAccountNumber());
                jobAttr.setProject(app.getProjectAccount().getProjectAccountNumber());
            }
        }
        if (app.getQueue() != null) {
            if (app.getQueue().getQueueName() != null) {
                System.out.println("Testing");
                log.info("Setting job queue to " + app.getQueue().getQueueName());
                jobAttr.setQueue(app.getQueue().getQueueName());
            }
        }
        String jobType = JobType.SINGLE.toString();
        if (app.getJobType() != null) {
            jobType = app.getJobType().toString();
        }
        if (jobType.equalsIgnoreCase(JobType.SINGLE.toString())) {
            log.info("Setting job type to single");
            jobAttr.setJobType(GramAttributes.JOBTYPE_SINGLE);
        } if (jobType.equalsIgnoreCase(JobType.SERIAL.toString())) {
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    }

    ;

    public static GramAttributes configureRemoteJob(InvocationContext context) throws ToolsException {
        GramApplicationDeploymentType app = (GramApplicationDeploymentType) context.getExecutionDescription().getApp().getType();
        GramAttributes jobAttr = new GramAttributes();
        jobAttr.setExecutable(app.getExecutableLocation());
        jobAttr.setDirectory(app.getStaticWorkingDirectory());
        jobAttr.setStdout(app.getStandardOutput());
        jobAttr.setStderr(app.getStandardError());

        /*
         * The env here contains the env of the host and the application. i.e the env specified in the host description
         * and application description documents
         */
        NameValuePairType[] env = app.getApplicationEnvironmentArray();
        if (env.length != 0) {
            Map<String, String> nv = new HashMap<String, String>();
            for (int i = 0; i < env.length; i++) {
                String key = env[i].getName();
                String value = env[i].getValue();
                nv.put(key, value);
            }

            for (Entry<String, String> entry : nv.entrySet()) {
                jobAttr.addEnvVariable(entry.getKey(), entry.getValue());
            }
        }
        jobAttr.addEnvVariable(GFacConstants.INPUT_DATA_DIR_VAR_NAME, app.getInputDataDirectory());
        jobAttr.addEnvVariable(GFacConstants.OUTPUT_DATA_DIR_VAR_NAME, app.getOutputDataDirectory());

        if (app.getMaxWallTime() > 0) {
            log.info("Setting max wall clock time to " + app.getMaxWallTime());

            if (app.getMaxWallTime() > 30 && app.getQueue() != null && app.getQueue().getQueueName().equals("debug")) {
                throw new ToolsException("NCSA debug Queue only support jobs < 30 minutes");
            }

            jobAttr.setMaxWallTime(app.getMaxWallTime());
            jobAttr.set("proxy_timeout", "1");
        } else {
            jobAttr.setMaxWallTime(30);
        }

        if (app.getStandardInput() != null && !"".equals(app.getStandardInput())) {
            jobAttr.setStdin(app.getStandardInput());
        } else {
            MessageContext<Object> input = context.getInput();
            for (Iterator<String> iterator = input.getNames(); iterator.hasNext(); ) {
                String paramName = iterator.next();
                ActualParameter actualParameter = (ActualParameter) input.getValue(paramName);
                if ("URIArray".equals(actualParameter.getType().getType().toString())) {
                    String[] values = ((URIArrayType) actualParameter.getType()).getValueArray();
                    for (String value : values) {
                        jobAttr.addArgument(value);
                    }
                } else {
                    String paramValue = input.getStringValue(paramName);
                    jobAttr.addArgument(paramValue);
                }
            }
        }
        // Using the workflowContext Header values if user provided them in the request and overwrite the default values in DD
        ContextHeaderDocument.ContextHeader currentContextHeader = WorkflowContextHeaderBuilder.getCurrentContextHeader();
        if (currentContextHeader.getWorkflowSchedulingContext() != null) {
            if (currentContextHeader != null &&
                    currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray() != null &&
                    currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray().length > 0) {
                try {
                    int cpuCount = currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray()[0].getCpuCount();
                    app.setCpuCount(cpuCount);
                } catch (NullPointerException e) {
                    log.info("No Value sent in WorkflowContextHeader for CPU Count, value in the Deployment Descriptor will be used");
                    context.getExecutionContext().getNotifier().executionFail(context, e, "No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
                }
                try {
                    int nodeCount = currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray()[0].getNodeCount();
                    app.setNodeCount(nodeCount);
                } catch (NullPointerException e) {
                    log.info("No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
                    context.getExecutionContext().getNotifier().executionFail(context, e, "No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
                }
                try {
                    String queueName = currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray()[0].getQueueName();
                    if (queueName != null) {
                        if(app.getQueue() == null){
                            QueueType queueType = app.addNewQueue();
                            queueType.setQueueName(queueName);
                        }else{
                            app.getQueue().setQueueName(queueName);
                        }
                    }
                } catch (NullPointerException e) {
                    log.info("No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
                    context.getExecutionContext().getNotifier().executionFail(context, e, "No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
                }
            }
        }
        if (app.getNodeCount() > 0) {
            jobAttr.set("hostCount", String.valueOf(app.getNodeCount()));
            log.info("Setting number of Nodes to " + app.getCpuCount());
        }
        if (app.getCpuCount() > 0) {
            log.info("Setting number of procs to " + app.getCpuCount());
            jobAttr.setNumProcs(app.getCpuCount());
        }
        if (app.getMinMemory() > 0) {
            log.info("Setting minimum memory to " + app.getMinMemory());
            jobAttr.setMinMemory(app.getMinMemory());
        }
        if (app.getMaxMemory() > 0) {
            log.info("Setting maximum memory to " + app.getMaxMemory());
            jobAttr.setMaxMemory(app.getMaxMemory());
        }
        if (app.getProjectAccount() != null) {
            if (app.getProjectAccount().getProjectAccountNumber() != null) {
                log.info("Setting project to " + app.getProjectAccount().getProjectAccountNumber());
                jobAttr.setProject(app.getProjectAccount().getProjectAccountNumber());
            }
        }
        if (app.getQueue() != null) {
            if (app.getQueue().getQueueName() != null) {
                System.out.println("Testing");
                log.info("Setting job queue to " + app.getQueue().getQueueName());
                jobAttr.setQueue(app.getQueue().getQueueName());
            }
        }
        String jobType = JobType.SINGLE.toString();
        if (app.getJobType() != null) {
            jobType = app.getJobType().toString();
        }
        if (jobType.equalsIgnoreCase(JobType.SINGLE.toString())) {
            log.info("Setting job type to single");
            jobAttr.setJobType(GramAttributes.JOBTYPE_SINGLE);
        } else if (jobType.equalsIgnoreCase(JobType.MPI.toString())) {
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      return String.valueOf(num);
    }
  }
 
    private void loadApplicationDescriptionAdvancedOptions() {
      GramApplicationDeploymentType gadType = getGramApplicationDescriptionType();
    if (gadType.getJobType()!=null) {
      cmbJobType.setSelectedItem(gadType
          .getJobType().toString());
    }
      txtMaxWallTime.setText(getPropValue(gadType.getMaxWallTime()));
        txtCpuCount.setText(getPropValue(gadType.getCpuCount()));
        txtProcessorsPerNode.setText(getPropValue(gadType.getProcessorsPerNode()));
        txtMinMemory.setText(getPropValue(gadType.getMinMemory()));
        txtMaxMemory.setText(getPropValue(gadType.getMaxMemory()));
    ProjectAccountType projectAccount = getProjectAccountType();

    txtProjectAccountNumber.setText(projectAccount.getProjectAccountNumber()==null? "":projectAccount.getProjectAccountNumber());
    txtProjectAccountDescription.setText(projectAccount.getProjectAccountDescription()==null? "":projectAccount.getProjectAccountDescription());
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    private enum JobType {
        SINGLE, MPI, MULTIPLE, CONDOR
    };

    public static GramAttributes configureRemoteJob(InvocationContext context) throws ToolsException {
        GramApplicationDeploymentType app = (GramApplicationDeploymentType) context.getExecutionDescription().getApp().getType();

        GramAttributes jobAttr = new GramAttributes();
        jobAttr.setExecutable(app.getExecutableLocation());
        jobAttr.setDirectory(app.getStaticWorkingDirectory());
        jobAttr.setStdout(app.getStandardOutput());
        jobAttr.setStderr(app.getStandardError());

        /*
         * The env here contains the env of the host and the application. i.e the env specified in the host description
         * and application description documents
         */
        NameValuePairType[] env = app.getApplicationEnvironmentArray();
        if(env.length != 0){
            Map<String, String> nv =new HashMap<String, String>();
            for (int i = 0; i < env.length; i++) {
                String key = env[i].getName();
                String value = env[i].getValue();
                nv.put(key, value);
            }

            for (Entry<String, String> entry : nv.entrySet()) {
                jobAttr.addEnvVariable(entry.getKey(), entry.getValue());
            }
        }
        jobAttr.addEnvVariable(GFacConstants.INPUT_DATA_DIR_VAR_NAME, app.getInputDataDirectory());
        jobAttr.addEnvVariable(GFacConstants.INPUT_DATA_DIR_VAR_NAME, app.getOutputDataDirectory());

        if (app.getMaxWallTime() > 0) {
            log.info("Setting max wall clock time to " + app.getMaxWallTime());

            if (app.getMaxWallTime() > 30 && app.getQueue() != null && app.getQueue().getQueueName().equals("debug")) {
                throw new ToolsException("NCSA debug Queue only support jobs < 30 minutes");
            }

            jobAttr.setMaxWallTime(app.getMaxWallTime());
            jobAttr.set("proxy_timeout", "1");
        } else {
            jobAttr.setMaxWallTime(29);
        }

        if (app.getStandardInput() != null) {
            jobAttr.setStdin(app.getStandardInput());
        } else {
            // input parameter
            for (Iterator<String> iterator = context.getInput().getNames(); iterator.hasNext();) {
                String key = iterator.next();
                jobAttr.addArgument(context.getInput().getStringValue(key));
            }
        }

        if (app.getNodeCount() > 1) {
            jobAttr.set("hostCount", String.valueOf(app.getNodeCount()));
        }
        if (app.getCpuCount() > 1) {
            log.info("Setting number of procs to " + app.getCpuCount());
            jobAttr.setNumProcs(app.getCpuCount());
        }
        if (app.getProjectAccount().getProjectAccountNumber() != null) {
            log.info("Setting project to " + app.getProjectAccount().getProjectAccountNumber());
            jobAttr.setProject(app.getProjectAccount().getProjectAccountNumber());
        }
        if(app.getQueue() != null){
        if (app.getQueue().getQueueName() != null) {
            System.out.println("Testing");
            log.info("Setting job queue to " + app.getQueue().getQueueName());
            jobAttr.setQueue(app.getQueue().getQueueName());
        }
        }

        String jobType = JobType.SINGLE.toString();
        if (app.getJobType() != null) {
            jobType = app.getJobType().toString();
        }

        if (jobType.equalsIgnoreCase(JobType.SINGLE.toString())) {
            log.info("Setting job type to single");
            jobAttr.setJobType(GramAttributes.JOBTYPE_SINGLE);
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    private enum JobType {
        SINGLE, MPI, MULTIPLE, CONDOR
    };

    public static GramAttributes configureRemoteJob(InvocationContext context) throws ToolsException {
        GramApplicationDeploymentType app = (GramApplicationDeploymentType) context.getExecutionDescription().getApp().getType();

        GramAttributes jobAttr = new GramAttributes();
        jobAttr.setExecutable(app.getExecutableLocation());
        jobAttr.setDirectory(app.getStaticWorkingDirectory());
        jobAttr.setStdout(app.getStandardOutput());
        jobAttr.setStderr(app.getStandardError());

        /*
         * The env here contains the env of the host and the application. i.e the env specified in the host description
         * and application description documents
         */
        NameValuePairType[] env = app.getApplicationEnvironmentArray();
        if(env.length != 0){
            Map<String, String> nv =new HashMap<String, String>();
            for (int i = 0; i < env.length; i++) {
                String key = env[i].getName();
                String value = env[i].getValue();
                nv.put(key, value);
            }

            for (Entry<String, String> entry : nv.entrySet()) {
                jobAttr.addEnvVariable(entry.getKey(), entry.getValue());
            }
        }
        jobAttr.addEnvVariable(GFacConstants.INPUT_DATA_DIR_VAR_NAME, app.getInputDataDirectory());
        jobAttr.addEnvVariable(GFacConstants.OUTPUT_DATA_DIR_VAR_NAME, app.getOutputDataDirectory());

        if (app.getMaxWallTime() > 0) {
            log.info("Setting max wall clock time to " + app.getMaxWallTime());

            if (app.getMaxWallTime() > 30 && app.getQueue() != null && app.getQueue().getQueueName().equals("debug")) {
                throw new ToolsException("NCSA debug Queue only support jobs < 30 minutes");
            }

            jobAttr.setMaxWallTime(app.getMaxWallTime());
            jobAttr.set("proxy_timeout", "1");
        } else {
            jobAttr.setMaxWallTime(30);
        }

        if (app.getStandardInput() != null && !"".equals(app.getStandardInput())) {
            jobAttr.setStdin(app.getStandardInput());
        } else {
            // input parameter
            for (Iterator<String> iterator = context.getInput().getNames(); iterator.hasNext();) {
                String key = iterator.next();
                jobAttr.addArgument(context.getInput().getStringValue(key));
            }
        }
        // Using the workflowContext Header values if user provided them in the request and overwrite the default values in DD
        ContextHeaderDocument.ContextHeader currentContextHeader = WorkflowContextHeaderBuilder.getCurrentContextHeader();
        if (currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray() != null &&
                currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray().length > 0) {
            try {
                int cpuCount = currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray()[0].getCpuCount();
                app.setCpuCount(cpuCount);
            } catch (NullPointerException e) {
                log.info("No Value sent in WorkflowContextHeader for CPU Count, value in the Deployment Descriptor will be used");
            }
            try {
                int nodeCount = currentContextHeader.getWorkflowSchedulingContext().getApplicationSchedulingContextArray()[0].getNodeCount();
                app.setNodeCount(nodeCount);
            } catch (NullPointerException e) {
                log.info("No Value sent in WorkflowContextHeader for Node Count, value in the Deployment Descriptor will be used");
            }
        }
        if (app.getNodeCount() > 0) {
            jobAttr.set("hostCount", String.valueOf(app.getNodeCount()));
        }
        if (app.getCpuCount() > 0) {
            log.info("Setting number of procs to " + app.getCpuCount());
            jobAttr.setNumProcs(app.getCpuCount());
        }
        if (app.getMinMemory() > 0) {
            log.info("Setting minimum memory to " + app.getMinMemory());
            jobAttr.setMinMemory(app.getMinMemory());
        }
        if (app.getMaxMemory() > 0) {
            log.info("Setting maximum memory to " + app.getMaxMemory());
            jobAttr.setMaxMemory(app.getMaxMemory());
        }
        if (app.getProjectAccount() != null) {
            if (app.getProjectAccount().getProjectAccountNumber() != null) {
                log.info("Setting project to " + app.getProjectAccount().getProjectAccountNumber());
                jobAttr.setProject(app.getProjectAccount().getProjectAccountNumber());
            }
        }
        if(app.getQueue() != null){
        if (app.getQueue().getQueueName() != null) {
            System.out.println("Testing");
            log.info("Setting job queue to " + app.getQueue().getQueueName());
            jobAttr.setQueue(app.getQueue().getQueueName());
        }
        }

        String jobType = JobType.SINGLE.toString();
        if (app.getJobType() != null) {
            jobType = app.getJobType().toString();
        }

        if (jobType.equalsIgnoreCase(JobType.SINGLE.toString())) {
            log.info("Setting job type to single");
            jobAttr.setJobType(GramAttributes.JOBTYPE_SINGLE);
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