[2/4] airavata git commit: removing gfac-config from pom and fixing build issues

[ch...@apache.org]

http://git-wip-us.apache.org/repos/asf/airavata/blob/405d31d8/modules/airavata-client/src/main/java/org/apache/airavata/client/tools/DocumentCreatorNew.java
----------------------------------------------------------------------
diff --git a/modules/airavata-client/src/main/java/org/apache/airavata/client/tools/DocumentCreatorNew.java b/modules/airavata-client/src/main/java/org/apache/airavata/client/tools/DocumentCreatorNew.java
index 6e5e707..1936593 100644
--- a/modules/airavata-client/src/main/java/org/apache/airavata/client/tools/DocumentCreatorNew.java
+++ b/modules/airavata-client/src/main/java/org/apache/airavata/client/tools/DocumentCreatorNew.java
@@ -1,823 +1,823 @@
-/*
- *
- * Licensed to the Apache Software Foundation (ASF) under one
- * or more contributor license agreements.  See the NOTICE file
- * distributed with this work for additional information
- * regarding copyright ownership.  The ASF licenses this file
- * to you under the Apache License, Version 2.0 (the
- * "License"); you may not use this file except in compliance
- * with the License.  You may obtain a copy of the License at
- *
- *   http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing,
- * software distributed under the License is distributed on an
- * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
- * KIND, either express or implied.  See the License for the
- * specific language governing permissions and limitations
- * under the License.
- *
-*/
-package org.apache.airavata.client.tools;
-
-import org.airavata.appcatalog.cpi.AppCatalog;
-import org.airavata.appcatalog.cpi.AppCatalogException;
-import org.apache.airavata.api.Airavata;
-import org.apache.airavata.common.utils.ClientSettings;
-import org.apache.airavata.model.appcatalog.appdeployment.ApplicationDeploymentDescription;
-import org.apache.airavata.model.appcatalog.appdeployment.ApplicationModule;
-import org.apache.airavata.model.appcatalog.appdeployment.ApplicationParallelismType;
-import org.apache.airavata.model.appcatalog.appinterface.ApplicationInterfaceDescription;
-import org.apache.airavata.model.appcatalog.appinterface.DataType;
-import org.apache.airavata.model.appcatalog.computeresource.*;
-import org.apache.airavata.model.appcatalog.gatewayprofile.ComputeResourcePreference;
-import org.apache.airavata.model.appcatalog.gatewayprofile.GatewayResourceProfile;
-import org.apache.airavata.model.error.AiravataClientException;
-import org.apache.airavata.model.error.AiravataSystemException;
-import org.apache.airavata.model.error.InvalidRequestException;
-import org.apache.thrift.TException;
-
-import java.io.File;
-import java.util.*;
-
-/**
- * This class has been moved to integration-tests module, use that instead of this
- */
-@Deprecated
-public class DocumentCreatorNew {
-
-    private AppCatalog appcatalog = null;
-    private String trestleshpcHostAddress = "trestles.sdsc.edu";
-    private String lonestarHostAddress = "lonestar.tacc.utexas.edu";
-    private String stampedeHostAddress = "stampede.tacc.xsede.org";
-    private String gridftpAddress = "gsiftp://trestles-dm1.sdsc.edu:2811";
-    private String gramAddress = "trestles-login1.sdsc.edu:2119/jobmanager-pbstest2";
-    private String bigRed2HostAddress = "bigred2.uits.iu.edu";
-
-    //App Module Id's
-    private static String echoModuleId;
-    private static String amberModuleId;
-    private static String autoDockModuleId;
-    private static String espressoModuleId;
-    private static String gromacsModuleId;
-    private static String lammpsModuleId;
-    private static String nwChemModuleId;
-    private static String trinityModuleId;
-    private static String wrfModuleId;
-    private Airavata.Client client;
-    private GatewayResourceProfile gatewayResourceProfile;
-
-    public DocumentCreatorNew(Airavata.Client client) throws AppCatalogException {
-        this.client = client;
-    }
-
-    public String createLocalHostDocs() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
-        //Define compute resource host
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(
-                "localhost", new ArrayList<String>(Arrays.asList(new String[]{"127.0.0.1"})), new ArrayList<String>(Arrays.asList(new String[]{"127.0.0.1"})));
-//    	host.setIsEmpty(true);
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-        LOCALSubmission localSubmission = new LOCALSubmission();
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.FORK, null, null, null);
-        localSubmission.setResourceJobManager(resourceJobManager);
-        client.addLocalSubmissionDetails(host.getComputeResourceId(), 1, localSubmission);
-
-        LOCALDataMovement localDataMovement = new LOCALDataMovement();
-        client.addLocalDataMovementDetails(host.getComputeResourceId(), 1, localDataMovement);
-
-        //Define application module
-        ApplicationModule module = DocumentCreatorUtils.createApplicationModule("echo", "1.0.0", "Local host echo applications");
-        module.setAppModuleId(client.registerApplicationModule(module));
-
-        //Define application interfaces
-        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
-//    	application.setIsEmpty(false);
-        application.setApplicationName("SimpleEcho0");
-        application.addToApplicationModules(module.getAppModuleId());
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", "Echo Input Data", null, DataType.STRING));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
-        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
-
-        //Define application deployment
-        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module.getAppModuleId(), "/bin/echo", ApplicationParallelismType.SERIAL, "Local echo app depoyment");
-        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
-
-        //Define gateway profile
-        ComputeResourcePreference computeResourcePreference = DocumentCreatorUtils.createComputeResourcePreference(
-                host.getComputeResourceId(), "/tmp", null,
-                false, null,
-                null, null);
-        gatewayResourceProfile = new GatewayResourceProfile();
-//		gatewayResourceProfile.setGatewayID("default");
-        gatewayResourceProfile.setGatewayName(ClientSettings.getSetting("default.registry.gateway", "php_reference_gateway"));
-        gatewayResourceProfile.addToComputeResourcePreferences(computeResourcePreference);
-        String gatewayId = client.registerGatewayResourceProfile(gatewayResourceProfile);
-        gatewayResourceProfile.setGatewayID(gatewayId);
-        client.addGatewayComputeResourcePreference(gatewayResourceProfile.getGatewayID(), host.getComputeResourceId(), computeResourcePreference);
-        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
-    }
-
-    private GatewayResourceProfile getGatewayResourceProfile() throws InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
-//    	if (gatewayResourceProfile==null){
-//    		try {
-//				gatewayResourceProfile = client.getGatewayResourceProfile(ga);
-//			} catch (Exception e) {
-//
-//			}
-        if (gatewayResourceProfile == null) {
-            gatewayResourceProfile = new GatewayResourceProfile();
-//				gatewayResourceProfile.setGatewayID("default");
-            gatewayResourceProfile.setGatewayName("default");
-            gatewayResourceProfile.setGatewayID(client.registerGatewayResourceProfile(gatewayResourceProfile));
-        }
-//    	}
-        return gatewayResourceProfile;
-
-    }
-
-    public String createSSHHostDocs() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription("gw111.iu.xsede.org", null, null);
-        host.addToIpAddresses("gw111.iu.xsede.org");
-        host.addToHostAliases("gw111.iu.xsede.org");
-        host.setResourceDescription("gw111 ssh access");
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-
-        SSHJobSubmission jobSubmission = new SSHJobSubmission();
-        jobSubmission.setSshPort(22);
-        jobSubmission.setSecurityProtocol(SecurityProtocol.SSH_KEYS);
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.FORK, null, null, null);
-        jobSubmission.setResourceJobManager(resourceJobManager);
-        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, jobSubmission);
-
-        SCPDataMovement scpDataMovement = new SCPDataMovement();
-        scpDataMovement.setSecurityProtocol(SecurityProtocol.SSH_KEYS);
-        scpDataMovement.setSshPort(22);
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-
-        ApplicationModule module = DocumentCreatorUtils.createApplicationModule("echo", "1.1", null);
-        module.setAppModuleId(client.registerApplicationModule(module));
-        ;
-
-        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module.getAppModuleId(), "/bin/echo", ApplicationParallelismType.SERIAL, "SSHEchoApplication");
-        client.registerApplicationDeployment(deployment);
-
-        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
-//    	application.setIsEmpty(false);
-        application.setApplicationName("SSHEcho1");
-        application.addToApplicationModules(module.getAppModuleId());
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", null, null, DataType.STRING));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
-        client.registerApplicationInterface(application);
-        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/tmp", null, false, null, null, null));
-        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
-    }
-
-    //
-//    public void createGramDocs() {
-////        /*
-////           creating host descriptor for gram
-////        */
-////        HostDescription host = new HostDescription(GlobusHostType.type);
-////        host.getType().setHostAddress(trestleshpcHostAddress);
-////        host.getType().setHostName(trestleshpcHostAddress);
-////        ((GlobusHostType) host.getType()).setGlobusGateKeeperEndPointArray(new String[]{gramAddress});
-////        ((GlobusHostType) host.getType()).setGridFTPEndPointArray(new String[]{gridftpAddress});
-////        try {
-////            airavataAPI.getApplicationManager().saveHostDescription(host);
-////        } catch (AiravataAPIInvocationException e) {
-////            e.printStackTrace();  //To change body of catch statement use File | Settings | File Templates.
-////        }
+///*
+// *
+// * Licensed to the Apache Software Foundation (ASF) under one
+// * or more contributor license agreements.  See the NOTICE file
+// * distributed with this work for additional information
+// * regarding copyright ownership.  The ASF licenses this file
+// * to you under the Apache License, Version 2.0 (the
+// * "License"); you may not use this file except in compliance
+// * with the License.  You may obtain a copy of the License at
+// *
+// *   http://www.apache.org/licenses/LICENSE-2.0
+// *
+// * Unless required by applicable law or agreed to in writing,
+// * software distributed under the License is distributed on an
+// * "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY
+// * KIND, either express or implied.  See the License for the
+// * specific language governing permissions and limitations
+// * under the License.
+// *
+//*/
+//package org.apache.airavata.client.tools;
+//
+//import org.airavata.appcatalog.cpi.AppCatalog;
+//import org.airavata.appcatalog.cpi.AppCatalogException;
+//import org.apache.airavata.api.Airavata;
+//import org.apache.airavata.common.utils.ClientSettings;
+//import org.apache.airavata.model.appcatalog.appdeployment.ApplicationDeploymentDescription;
+//import org.apache.airavata.model.appcatalog.appdeployment.ApplicationModule;
+//import org.apache.airavata.model.appcatalog.appdeployment.ApplicationParallelismType;
+//import org.apache.airavata.model.appcatalog.appinterface.ApplicationInterfaceDescription;
+//import org.apache.airavata.model.appcatalog.appinterface.DataType;
+//import org.apache.airavata.model.appcatalog.computeresource.*;
+//import org.apache.airavata.model.appcatalog.gatewayprofile.ComputeResourcePreference;
+//import org.apache.airavata.model.appcatalog.gatewayprofile.GatewayResourceProfile;
+//import org.apache.airavata.model.error.AiravataClientException;
+//import org.apache.airavata.model.error.AiravataSystemException;
+//import org.apache.airavata.model.error.InvalidRequestException;
+//import org.apache.thrift.TException;
+//
+//import java.io.File;
+//import java.util.*;
+//
+///**
+// * This class has been moved to integration-tests module, use that instead of this
+// */
+//@Deprecated
+//public class DocumentCreatorNew {
+//
+//    private AppCatalog appcatalog = null;
+//    private String trestleshpcHostAddress = "trestles.sdsc.edu";
+//    private String lonestarHostAddress = "lonestar.tacc.utexas.edu";
+//    private String stampedeHostAddress = "stampede.tacc.xsede.org";
+//    private String gridftpAddress = "gsiftp://trestles-dm1.sdsc.edu:2811";
+//    private String gramAddress = "trestles-login1.sdsc.edu:2119/jobmanager-pbstest2";
+//    private String bigRed2HostAddress = "bigred2.uits.iu.edu";
+//
+//    //App Module Id's
+//    private static String echoModuleId;
+//    private static String amberModuleId;
+//    private static String autoDockModuleId;
+//    private static String espressoModuleId;
+//    private static String gromacsModuleId;
+//    private static String lammpsModuleId;
+//    private static String nwChemModuleId;
+//    private static String trinityModuleId;
+//    private static String wrfModuleId;
+//    private Airavata.Client client;
+//    private GatewayResourceProfile gatewayResourceProfile;
+//
+//    public DocumentCreatorNew(Airavata.Client client) throws AppCatalogException {
+//        this.client = client;
+//    }
+//
+//    public String createLocalHostDocs() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
+//        //Define compute resource host
+//        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(
+//                "localhost", new ArrayList<String>(Arrays.asList(new String[]{"127.0.0.1"})), new ArrayList<String>(Arrays.asList(new String[]{"127.0.0.1"})));
+////    	host.setIsEmpty(true);
+//        host.setComputeResourceId(client.registerComputeResource(host));
+//
+//        LOCALSubmission localSubmission = new LOCALSubmission();
+//        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.FORK, null, null, null);
+//        localSubmission.setResourceJobManager(resourceJobManager);
+//        client.addLocalSubmissionDetails(host.getComputeResourceId(), 1, localSubmission);
+//
+//        LOCALDataMovement localDataMovement = new LOCALDataMovement();
+//        client.addLocalDataMovementDetails(host.getComputeResourceId(), 1, localDataMovement);
+//
+//        //Define application module
+//        ApplicationModule module = DocumentCreatorUtils.createApplicationModule("echo", "1.0.0", "Local host echo applications");
+//        module.setAppModuleId(client.registerApplicationModule(module));
+//
+//        //Define application interfaces
+//        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
+////    	application.setIsEmpty(false);
+//        application.setApplicationName("SimpleEcho0");
+//        application.addToApplicationModules(module.getAppModuleId());
+//        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", "Echo Input Data", null, DataType.STRING));
+//        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
+//        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
+//
+//        //Define application deployment
+//        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module.getAppModuleId(), "/bin/echo", ApplicationParallelismType.SERIAL, "Local echo app depoyment");
+//        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
+//
+//        //Define gateway profile
+//        ComputeResourcePreference computeResourcePreference = DocumentCreatorUtils.createComputeResourcePreference(
+//                host.getComputeResourceId(), "/tmp", null,
+//                false, null,
+//                null, null);
+//        gatewayResourceProfile = new GatewayResourceProfile();
+////		gatewayResourceProfile.setGatewayID("default");
+//        gatewayResourceProfile.setGatewayName(ClientSettings.getSetting("default.registry.gateway", "php_reference_gateway"));
+//        gatewayResourceProfile.addToComputeResourcePreferences(computeResourcePreference);
+//        String gatewayId = client.registerGatewayResourceProfile(gatewayResourceProfile);
+//        gatewayResourceProfile.setGatewayID(gatewayId);
+//        client.addGatewayComputeResourcePreference(gatewayResourceProfile.getGatewayID(), host.getComputeResourceId(), computeResourcePreference);
+//        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
+//    }
+//
+//    private GatewayResourceProfile getGatewayResourceProfile() throws InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
+////    	if (gatewayResourceProfile==null){
+////    		try {
+////				gatewayResourceProfile = client.getGatewayResourceProfile(ga);
+////			} catch (Exception e) {
+////
+////			}
+//        if (gatewayResourceProfile == null) {
+//            gatewayResourceProfile = new GatewayResourceProfile();
+////				gatewayResourceProfile.setGatewayID("default");
+//            gatewayResourceProfile.setGatewayName("default");
+//            gatewayResourceProfile.setGatewayID(client.registerGatewayResourceProfile(gatewayResourceProfile));
+//        }
+////    	}
+//        return gatewayResourceProfile;
+//
+//    }
+//
+//    public String createSSHHostDocs() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
+//        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription("gw111.iu.xsede.org", null, null);
+//        host.addToIpAddresses("gw111.iu.xsede.org");
+//        host.addToHostAliases("gw111.iu.xsede.org");
+//        host.setResourceDescription("gw111 ssh access");
+//        host.setComputeResourceId(client.registerComputeResource(host));
+//
+//
+//        SSHJobSubmission jobSubmission = new SSHJobSubmission();
+//        jobSubmission.setSshPort(22);
+//        jobSubmission.setSecurityProtocol(SecurityProtocol.SSH_KEYS);
+//        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.FORK, null, null, null);
+//        jobSubmission.setResourceJobManager(resourceJobManager);
+//        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, jobSubmission);
+//
+//        SCPDataMovement scpDataMovement = new SCPDataMovement();
+//        scpDataMovement.setSecurityProtocol(SecurityProtocol.SSH_KEYS);
+//        scpDataMovement.setSshPort(22);
+//        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
+//
+//        ApplicationModule module = DocumentCreatorUtils.createApplicationModule("echo", "1.1", null);
+//        module.setAppModuleId(client.registerApplicationModule(module));
+//        ;
+//
+//        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module.getAppModuleId(), "/bin/echo", ApplicationParallelismType.SERIAL, "SSHEchoApplication");
+//        client.registerApplicationDeployment(deployment);
+//
+//        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
+////    	application.setIsEmpty(false);
+//        application.setApplicationName("SSHEcho1");
+//        application.addToApplicationModules(module.getAppModuleId());
+//        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", null, null, DataType.STRING));
+//        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
+//        client.registerApplicationInterface(application);
+//        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/tmp", null, false, null, null, null));
+//        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
+//    }
+//
+//    //
+////    public void createGramDocs() {
+//////        /*
+//////           creating host descriptor for gram
+//////        */
+//////        HostDescription host = new HostDescription(GlobusHostType.type);
+//////        host.getType().setHostAddress(trestleshpcHostAddress);
+//////        host.getType().setHostName(trestleshpcHostAddress);
+//////        ((GlobusHostType) host.getType()).setGlobusGateKeeperEndPointArray(new String[]{gramAddress});
+//////        ((GlobusHostType) host.getType()).setGridFTPEndPointArray(new String[]{gridftpAddress});
+//////        try {
+//////            airavataAPI.getApplicationManager().saveHostDescription(host);
+//////        } catch (AiravataAPIInvocationException e) {
+//////            e.printStackTrace();  //To change body of catch statement use File | Settings | File Templates.
+//////        }
+//////
+//////
+//////        /*
+//////        * Service Description creation and saving
+//////        */
+//////        String serviceName = "SimpleEcho1";
+//////        ServiceDescription serv = new ServiceDescription();
+//////        serv.getType().setName(serviceName);
+//////
+//////        List<InputParameterType> inputList = new ArrayList<InputParameterType>();
+//////        List<OutputParameterType> outputList = new ArrayList<OutputParameterType>();
+//////
+//////        InputParameterType input = InputParameterType.Factory.newInstance();
+//////        input.setParameterName("echo_input");
+//////        ParameterType parameterType = input.addNewParameterType();
+//////        parameterType.setType(DataType.STRING);
+//////        parameterType.setName("String");
+//////
+//////        OutputParameterType output = OutputParameterType.Factory.newInstance();
+//////        output.setParameterName("echo_output");
+//////        ParameterType parameterType1 = output.addNewParameterType();
+//////        parameterType1.setType(DataType.STRING);
+//////        parameterType1.setName("String");
+//////
+//////        inputList.add(input);
+//////        outputList.add(output);
+//////
+//////        InputParameterType[] inputParamList = inputList.toArray(new InputParameterType[inputList.size()]);
+//////        OutputParameterType[] outputParamList = outputList.toArray(new OutputParameterType[outputList.size()]);
+//////
+//////        serv.getType().setInputParametersArray(inputParamList);
+//////        serv.getType().setOutputParametersArray(outputParamList);
+//////        try {
+//////            airavataAPI.getApplicationManager().saveServiceDescription(serv);
+//////        } catch (AiravataAPIInvocationException e) {
+//////            e.printStackTrace();
+//////        }
+//////
+//////        /*
+//////            Application descriptor creation and saving
+//////         */
+//////        ApplicationDescription appDesc = new ApplicationDescription(HpcApplicationDeploymentType.type);
+//////        HpcApplicationDeploymentType app = (HpcApplicationDeploymentType) appDesc.getType();
+//////        ApplicationDeploymentDescriptionType.ApplicationName name = ApplicationDeploymentDescriptionType.ApplicationName.Factory.newInstance();
+//////        name.setStringValue("EchoLocal");
+//////        app.setApplicationName(name);
+//////        ProjectAccountType projectAccountType = app.addNewProjectAccount();
+//////        projectAccountType.setProjectAccountNumber("sds128");
+//////
+//////        QueueType queueType = app.addNewQueue();
+//////        queueType.setQueueName("normal");
+//////
+//////        app.setCpuCount(1);
+//////        app.setJobType(JobTypeType.SERIAL);
+//////        app.setNodeCount(1);
+//////        app.setProcessorsPerNode(1);
+//////
+//////        /*
+//////           * Use bat file if it is compiled on Windows
+//////           */
+//////        app.setExecutableLocation("/bin/echo");
+//////
+//////        /*
+//////           * Default tmp location
+//////           */
+//////        String tempDir = "/home/ogce/scratch";
+//////        app.setScratchWorkingDirectory(tempDir);
+//////        app.setMaxMemory(10);
+//////
+//////
+//////        try {
+//////            airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, trestleshpcHostAddress, appDesc);
+//////        } catch (AiravataAPIInvocationException e) {
+//////            e.printStackTrace();  //To change body of catch statement use File | Settings | File Templates.
+//////        }
+////    }
+////
+//    public String createPBSDocsForOGCE_Echo() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
+//
+//        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(trestleshpcHostAddress, null, null);
+//        host.addToIpAddresses(trestleshpcHostAddress);
+//        host.addToHostAliases(trestleshpcHostAddress);
+//        host.setComputeResourceId(client.registerComputeResource(host));
+//
+//        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
+//        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.PBS, "/opt/torque/bin/", null, null);
+//        sshJobSubmission.setResourceJobManager(resourceJobManager);
+//        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
+//        sshJobSubmission.setSshPort(22);
+//        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
+//
+//        SCPDataMovement scpDataMovement = new SCPDataMovement();
+//        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
+//        scpDataMovement.setSshPort(22);
+//
+//        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
+//
+//        ApplicationModule module1 = DocumentCreatorUtils.createApplicationModule("echo", "1.2", null);
+//        module1.setAppModuleId(client.registerApplicationModule(module1));
+//
+//        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
+////    	application.setIsEmpty(false);
+//        application.setApplicationName("SimpleEcho2");
+//        application.addToApplicationModules(module1.getAppModuleId());
+//        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", "echo_input", null, DataType.STRING));
+//        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
+//
+//        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
+//
+//        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module1.getAppModuleId(), "/home/ogce/echo.sh", ApplicationParallelismType.SERIAL, "Echo application");
+//        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
+//
+//        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/oasis/scratch/trestles/ogce/temp_project/", "sds128", false, null, null, null));
+//        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
+//    }
+//
+//    public String createPBSDocsForOGCE_WRF() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
+//
+//        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(trestleshpcHostAddress, null, null);
+//        host.addToIpAddresses(trestleshpcHostAddress);
+//        host.addToHostAliases(trestleshpcHostAddress);
+//        host.setComputeResourceId(client.registerComputeResource(host));
+//
+//        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
+//        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.PBS, "/opt/torque/bin/", null, null);
+//        sshJobSubmission.setResourceJobManager(resourceJobManager);
+//        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
+//        sshJobSubmission.setSshPort(22);
+//        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
+//
+//        SCPDataMovement scpDataMovement = new SCPDataMovement();
+//        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
+//        scpDataMovement.setSshPort(22);
+//
+//        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
+//
+//        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/oasis/scratch/trestles/ogce/temp_project/", "sds128", false, null, null, null));
+//
+//        ApplicationModule module2 = DocumentCreatorUtils.createApplicationModule("wrf", "1.0.0", null);
+//        module2.setAppModuleId(client.registerApplicationModule(module2));
+//        ApplicationInterfaceDescription application2 = new ApplicationInterfaceDescription();
+////    	application2.setIsEmpty(false);
+//        application2.setApplicationName("WRF");
+//        application2.addToApplicationModules(module2.getAppModuleId());
+//        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Namelist", "WRF_Namelist", null, null, DataType.URI));
+//        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Boundary_File", "WRF_Boundary_File", null, null, DataType.URI));
+//        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Input_File", "WRF_Input_File", null, null, DataType.URI));
+//
+//        application2.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("WRF_Output", null, DataType.URI));
+//        application2.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("WRF_Execution_Log", null, DataType.URI));
+//        application2.setApplicationInterfaceId(client.registerApplicationInterface(application2));
+//
+//        ApplicationDeploymentDescription deployment2 = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module2.getAppModuleId(), "/home/ogce/production/app_wrappers/wrf_wrapper.sh", ApplicationParallelismType.MPI, "WRF");
+//        deployment2.setAppDeploymentId(client.registerApplicationDeployment(deployment2));
+//        return host.getComputeResourceId() + "," + application2.getApplicationInterfaceId();
+//    }
+//
+//    public String createSlumWRFDocs() throws AppCatalogException, TException {
+//        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(stampedeHostAddress, null, null);
+//        host.addToHostAliases(stampedeHostAddress);
+//        host.addToIpAddresses(stampedeHostAddress);
+//        host.setComputeResourceId(client.registerComputeResource(host));
+//
+//        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.SLURM, "/usr/bin/", null, "push");
+//        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
+//        sshJobSubmission.setResourceJobManager(resourceJobManager);
+//        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
+//        sshJobSubmission.setSshPort(2222);
+//
+//        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
+//        SCPDataMovement scpDataMovement = new SCPDataMovement();
+//        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
+//        scpDataMovement.setSshPort(22);
+//        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
+//        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
+//
+//        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/home1/01437/ogce", "TG-STA110014S", false, null, null, null));
+//
+//        ApplicationModule module2 = DocumentCreatorUtils.createApplicationModule("wrf", "1.0.0", null);
+//        module2.setAppModuleId(client.registerApplicationModule(module2));
+//        ApplicationInterfaceDescription application2 = new ApplicationInterfaceDescription();
+//        //    	application2.setIsEmpty(false);
+//        application2.setApplicationName("WRF");
+//        application2.addToApplicationModules(module2.getAppModuleId());
+//        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Namelist", "WRF_Namelist", null, null, DataType.URI));
+//        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Boundary_File", "WRF_Boundary_File", null, null, DataType.URI));
+//        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Input_File", "WRF_Input_File", null, null, DataType.URI));
+//
+//        application2.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("WRF_Output", null, DataType.URI));
+//        application2.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("WRF_Execution_Log", null, DataType.URI));
+//        application2.setApplicationInterfaceId(client.registerApplicationInterface(application2));
+//
+//        ApplicationDeploymentDescription deployment2 = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module2.getAppModuleId(), "/home1/01437/ogce/production/app_wrappers/wrf_wrapper.sh", ApplicationParallelismType.MPI, "WRF");
+//        deployment2.setAppDeploymentId(client.registerApplicationDeployment(deployment2));
+//        return host.getComputeResourceId() + "," + application2.getApplicationInterfaceId();
+//
+//    }
+//
+//    public String createSlurmDocs() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
+//        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(stampedeHostAddress, null, null);
+//        host.addToHostAliases(stampedeHostAddress);
+//        host.addToIpAddresses(stampedeHostAddress);
+//        host.setComputeResourceId(client.registerComputeResource(host));
+//
+//        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.SLURM, "/usr/bin/", null, "push");
+//        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
+//        sshJobSubmission.setResourceJobManager(resourceJobManager);
+//        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
+//        sshJobSubmission.setSshPort(2222);
+//        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
+//
+//        SCPDataMovement scpDataMovement = new SCPDataMovement();
+//        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
+//        scpDataMovement.setSshPort(22);
+//        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
+//
+//        ApplicationModule module = DocumentCreatorUtils.createApplicationModule("echo", "1.3", null);
+//        module.setAppModuleId(client.registerApplicationModule(module));
+//
+//        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
+////    	application.setIsEmpty(false);
+//        application.setApplicationName("SimpleEcho3");
+//        application.addToApplicationModules(module.getAppModuleId());
+//        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", null, null, DataType.STRING));
+//        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
+//        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
+//
+//        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module.getAppModuleId(), "/bin/echo", ApplicationParallelismType.SERIAL, "EchoLocal");
+//        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
+//
+//        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/home1/01437/ogce", "TG-STA110014S", false, null, null, null));
+//        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
+//    }
+//
+//    public String createSGEDocs() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
+//        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(lonestarHostAddress, null, null);
+//        host.addToHostAliases(lonestarHostAddress);
+//        host.addToIpAddresses(lonestarHostAddress);
+//        host.setComputeResourceId(client.registerComputeResource(host));
+//
+//        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.UGE, "/opt/sge6.2/bin/lx24-amd64/", null, null);
+//        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
+//        sshJobSubmission.setResourceJobManager(resourceJobManager);
+//        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
+//        sshJobSubmission.setSshPort(22);
+//
+//        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
+//
+//        SCPDataMovement scpDataMovement = new SCPDataMovement();
+//        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
+//        scpDataMovement.setSshPort(22);
+//        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
+//
+//        ApplicationModule module = DocumentCreatorUtils.createApplicationModule("echo", "1.4", null);
+//        module.setAppModuleId(client.registerApplicationModule(module));
+//
+//        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
+////    	application.setIsEmpty(false);
+//        application.setApplicationName("SimpleEcho4");
+//        application.addToApplicationModules(module.getAppModuleId());
+//        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", null, null, DataType.STRING));
+//        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
+//        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
+//
+//        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module.getAppModuleId(), "/bin/echo", ApplicationParallelismType.SERIAL, "EchoLocal");
+//        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
+//
+//        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/home1/01437/ogce", "TG-STA110014S", false, null, null, null));
+//        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
+//    }
+//
+////	public void createEchoHostDocs() {
+////		String serviceName = "Echo";
+////		ServiceDescription serviceDescription = new ServiceDescription();
+////		List<InputParameterType> inputParameters = new ArrayList<InputParameterType>();
+////		List<OutputParameterType> outputParameters = new ArrayList<OutputParameterType>();
+////		serviceDescription.getType().setName(serviceName);
+////		serviceDescription.getType().setDescription("Echo service");
+////		// Creating input parameters
+////		InputParameterType parameter = InputParameterType.Factory.newInstance();
+////		parameter.setParameterName("echo_input");
+////		parameter.setParameterDescription("echo input");
+////		ParameterType parameterType = parameter.addNewParameterType();
+////		parameterType.setType(DataType.STRING);
+////		parameterType.setName("String");
+////		inputParameters.add(parameter);
 ////
+////		// Creating output parameters
+////		OutputParameterType outputParameter = OutputParameterType.Factory.newInstance();
+////		outputParameter.setParameterName("echo_output");
+////		outputParameter.setParameterDescription("Echo output");
+////		ParameterType outputParaType = outputParameter.addNewParameterType();
+////		outputParaType.setType(DataType.STRING);
+////		outputParaType.setName("String");
+////		outputParameters.add(outputParameter);
 ////
-////        /*
-////        * Service Description creation and saving
-////        */
-////        String serviceName = "SimpleEcho1";
-////        ServiceDescription serv = new ServiceDescription();
-////        serv.getType().setName(serviceName);
+////		// Setting input and output parameters to serviceDescriptor
+////		serviceDescription.getType().setInputParametersArray(inputParameters.toArray(new InputParameterType[] {}));
+////		serviceDescription.getType().setOutputParametersArray(outputParameters.toArray(new OutputParameterType[] {}));
 ////
-////        List<InputParameterType> inputList = new ArrayList<InputParameterType>();
-////        List<OutputParameterType> outputList = new ArrayList<OutputParameterType>();
+////		try {
+////			airavataAPI.getApplicationManager().saveServiceDescription(serviceDescription);
+////		} catch (AiravataAPIInvocationException e) {
+////			e.printStackTrace(); // To change body of catch statement use File |
+////									// Settings | File Templates.
+////		}
+////		// Localhost
+////		ApplicationDescription applicationDeploymentDescription = new ApplicationDescription();
+////		ApplicationDeploymentDescriptionType applicationDeploymentDescriptionType = applicationDeploymentDescription.getType();
+////		applicationDeploymentDescriptionType.addNewApplicationName().setStringValue(serviceName);
+////		applicationDeploymentDescriptionType.setExecutableLocation("/bin/echo");
+////		applicationDeploymentDescriptionType.setScratchWorkingDirectory("/tmp");
 ////
-////        InputParameterType input = InputParameterType.Factory.newInstance();
-////        input.setParameterName("echo_input");
-////        ParameterType parameterType = input.addNewParameterType();
-////        parameterType.setType(DataType.STRING);
-////        parameterType.setName("String");
+////		try {
+////			airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, "localhost", applicationDeploymentDescription);
+////		} catch (AiravataAPIInvocationException e) {
+////			e.printStackTrace(); // To change body of catch statement use File |
+////									// Settings | File Templates.
+////		}
+////		// Stampede
+////		/*
+////		 * Application descriptor creation and saving
+////		 */
+////		ApplicationDescription appDesc1 = new ApplicationDescription(HpcApplicationDeploymentType.type);
+////		HpcApplicationDeploymentType app1 = (HpcApplicationDeploymentType) appDesc1.getType();
+////		ApplicationDeploymentDescriptionType.ApplicationName name = ApplicationDeploymentDescriptionType.ApplicationName.Factory.newInstance();
+////		name.setStringValue(serviceName);
+////		app1.setApplicationName(name);
+////		ProjectAccountType projectAccountType = app1.addNewProjectAccount();
+////		projectAccountType.setProjectAccountNumber("TG-STA110014S");
 ////
-////        OutputParameterType output = OutputParameterType.Factory.newInstance();
-////        output.setParameterName("echo_output");
-////        ParameterType parameterType1 = output.addNewParameterType();
-////        parameterType1.setType(DataType.STRING);
-////        parameterType1.setName("String");
+////		QueueType queueType = app1.addNewQueue();
+////		queueType.setQueueName("normal");
 ////
-////        inputList.add(input);
-////        outputList.add(output);
+////		app1.setCpuCount(1);
+////		app1.setJobType(JobTypeType.SERIAL);
+////		app1.setNodeCount(1);
+////		app1.setProcessorsPerNode(1);
+////		app1.setMaxWallTime(10);
+////		/*
+////		 * Use bat file if it is compiled on Windows
+////		 */
+////		app1.setExecutableLocation("/bin/echo");
 ////
-////        InputParameterType[] inputParamList = inputList.toArray(new InputParameterType[inputList.size()]);
-////        OutputParameterType[] outputParamList = outputList.toArray(new OutputParameterType[outputList.size()]);
+////		/*
+////		 * Default tmp location
+////		 */
+////		String tempDir = "/home1/01437/ogce";
 ////
-////        serv.getType().setInputParametersArray(inputParamList);
-////        serv.getType().setOutputParametersArray(outputParamList);
-////        try {
-////            airavataAPI.getApplicationManager().saveServiceDescription(serv);
-////        } catch (AiravataAPIInvocationException e) {
-////            e.printStackTrace();
-////        }
+////		app1.setScratchWorkingDirectory(tempDir);
+////		app1.setInstalledParentPath("/usr/bin/");
 ////
-////        /*
-////            Application descriptor creation and saving
-////         */
-////        ApplicationDescription appDesc = new ApplicationDescription(HpcApplicationDeploymentType.type);
-////        HpcApplicationDeploymentType app = (HpcApplicationDeploymentType) appDesc.getType();
-////        ApplicationDeploymentDescriptionType.ApplicationName name = ApplicationDeploymentDescriptionType.ApplicationName.Factory.newInstance();
-////        name.setStringValue("EchoLocal");
-////        app.setApplicationName(name);
-////        ProjectAccountType projectAccountType = app.addNewProjectAccount();
-////        projectAccountType.setProjectAccountNumber("sds128");
+////		try {
+////			airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, stampedeHostAddress, appDesc1);
+////		} catch (AiravataAPIInvocationException e) {
+////			e.printStackTrace(); // To change body of catch statement use File |
+////									// Settings | File Templates.
+////		}
+////		// Trestles
+////		/*
+////		 * Application descriptor creation and saving
+////		 */
+////		ApplicationDescription appDesc2 = new ApplicationDescription(HpcApplicationDeploymentType.type);
+////		HpcApplicationDeploymentType app2 = (HpcApplicationDeploymentType) appDesc2.getType();
+////		ApplicationDeploymentDescriptionType.ApplicationName name2 = ApplicationDeploymentDescriptionType.ApplicationName.Factory.newInstance();
+////		name2.setStringValue(serviceName);
+////		app2.setApplicationName(name);
+////		ProjectAccountType projectAccountType2 = app2.addNewProjectAccount();
+////		projectAccountType2.setProjectAccountNumber("sds128");
 ////
-////        QueueType queueType = app.addNewQueue();
-////        queueType.setQueueName("normal");
+////		QueueType queueType2 = app2.addNewQueue();
+////		queueType2.setQueueName("normal");
 ////
-////        app.setCpuCount(1);
-////        app.setJobType(JobTypeType.SERIAL);
-////        app.setNodeCount(1);
-////        app.setProcessorsPerNode(1);
+////		app2.setCpuCount(1);
+////		app2.setJobType(JobTypeType.SERIAL);
+////		app2.setNodeCount(1);
+////		app2.setProcessorsPerNode(1);
+////		app2.setMaxWallTime(10);
+////		/*
+////		 * Use bat file if it is compiled on Windows
+////		 */
+////		app2.setExecutableLocation("/bin/echo");
 ////
-////        /*
-////           * Use bat file if it is compiled on Windows
-////           */
-////        app.setExecutableLocation("/bin/echo");
+////		/*
+////		 * Default tmp location
+////		 */
+////		String tempDir2 = "/home/ogce/scratch";
 ////
-////        /*
-////           * Default tmp location
-////           */
-////        String tempDir = "/home/ogce/scratch";
-////        app.setScratchWorkingDirectory(tempDir);
-////        app.setMaxMemory(10);
+////		app2.setScratchWorkingDirectory(tempDir2);
+////		app2.setInstalledParentPath("/opt/torque/bin/");
 ////
+////		try {
+////			airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, trestleshpcHostAddress, appDesc2);
+////		} catch (AiravataAPIInvocationException e) {
+////			e.printStackTrace(); // To change body of catch statement use File |
+////									// Settings | File Templates.
+////		}
+////		// Lonestar
+////		/*
+////		 * Application descriptor creation and saving
+////		 */
+////		ApplicationDescription appDesc3 = new ApplicationDescription(HpcApplicationDeploymentType.type);
+////		HpcApplicationDeploymentType app3 = (HpcApplicationDeploymentType) appDesc3.getType();
+////		ApplicationDeploymentDescriptionType.ApplicationName name3 = ApplicationDeploymentDescriptionType.ApplicationName.Factory.newInstance();
+////		name3.setStringValue(serviceName);
+////		app3.setApplicationName(name);
+////		ProjectAccountType projectAccountType3 = app3.addNewProjectAccount();
+////		projectAccountType3.setProjectAccountNumber("TG-STA110014S");
 ////
-////        try {
-////            airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, trestleshpcHostAddress, appDesc);
-////        } catch (AiravataAPIInvocationException e) {
-////            e.printStackTrace();  //To change body of catch statement use File | Settings | File Templates.
-////        }
+////		QueueType queueType3 = app3.addNewQueue();
+////		queueType3.setQueueName("normal");
+////
+////		app3.setCpuCount(1);
+////		app3.setJobType(JobTypeType.SERIAL);
+////		app3.setNodeCount(1);
+////		app3.setProcessorsPerNode(1);
+////		app3.setMaxWallTime(10);
+////		/*
+////		 * Use bat file if it is compiled on Windows
+////		 */
+////		app3.setExecutableLocation("/bin/echo");
+////
+////		/*
+////		 * Default tmp location
+////		 */
+////		String tempDir3 = "/home1/01437/ogce";
+////
+////		app3.setScratchWorkingDirectory(tempDir3);
+////		app3.setInstalledParentPath("/opt/sge6.2/bin/lx24-amd64/");
+////
+////		try {
+////			airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, lonestarHostAddress, appDesc3);
+////		} catch (AiravataAPIInvocationException e) {
+////			e.printStackTrace(); // To change body of catch statement use File |
+////									// Settings | File Templates.
+////		}
+////
+////	}
+//
+//    public String createBigRedDocs() throws InvalidRequestException, AiravataClientException, AiravataSystemException, TException, AppCatalogException {
+//        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription("bigred2", null, null);
+//        host.addToHostAliases(bigRed2HostAddress);
+//        host.addToIpAddresses(bigRed2HostAddress);
+//        host.setComputeResourceId(client.registerComputeResource(host));
+//
+//
+//        Map<JobManagerCommand, String> commands = new HashMap<JobManagerCommand, String>();
+//        commands.put(JobManagerCommand.SUBMISSION, "aprun -n");
+//        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.UGE, "/opt/torque/torque-4.2.3.1/bin/", commands, null);
+//        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
+//        sshJobSubmission.setResourceJobManager(resourceJobManager);
+//        sshJobSubmission.setSecurityProtocol(SecurityProtocol.SSH_KEYS);
+//        sshJobSubmission.setSshPort(22);
+//
+//        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
+//
+//        SCPDataMovement scpDataMovement = new SCPDataMovement();
+//        scpDataMovement.setSecurityProtocol(SecurityProtocol.SSH_KEYS);
+//        scpDataMovement.setSshPort(22);
+//        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
+//
+//        ApplicationModule module = DocumentCreatorUtils.createApplicationModule("echo", "1.5", null);
+//        module.setAppModuleId(client.registerApplicationModule(module));
+//
+//        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
+//        application.setApplicationName("SimpleEchoBR");
+//        application.addToApplicationModules(module.getAppModuleId());
+//        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", null, null, DataType.STRING));
+//        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
+//        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
+//
+//        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module.getAppModuleId(), "/N/u/lginnali/BigRed2/myjob/test.sh", ApplicationParallelismType.SERIAL, "EchoLocal");
+//        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
+//
+//        String date = (new Date()).toString();
+//        date = date.replaceAll(" ", "_");
+//        date = date.replaceAll(":", "_");
+//        String tempDir = "/N/u/lginnali/BigRed2/myjob";
+//        tempDir = tempDir + File.separator + "SimpleEcho" + "_" + date + "_" + UUID.randomUUID();
+//
+//        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), tempDir, "TG-STA110014S", false, null, null, null));
+//
+//
+//        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
 //    }
 //
-    public String createPBSDocsForOGCE_Echo() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
-
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(trestleshpcHostAddress, null, null);
-        host.addToIpAddresses(trestleshpcHostAddress);
-        host.addToHostAliases(trestleshpcHostAddress);
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.PBS, "/opt/torque/bin/", null, null);
-        sshJobSubmission.setResourceJobManager(resourceJobManager);
-        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
-        sshJobSubmission.setSshPort(22);
-        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
-
-        SCPDataMovement scpDataMovement = new SCPDataMovement();
-        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
-        scpDataMovement.setSshPort(22);
-
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-
-        ApplicationModule module1 = DocumentCreatorUtils.createApplicationModule("echo", "1.2", null);
-        module1.setAppModuleId(client.registerApplicationModule(module1));
-
-        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
-//    	application.setIsEmpty(false);
-        application.setApplicationName("SimpleEcho2");
-        application.addToApplicationModules(module1.getAppModuleId());
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", "echo_input", null, DataType.STRING));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
-
-        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
-
-        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module1.getAppModuleId(), "/home/ogce/echo.sh", ApplicationParallelismType.SERIAL, "Echo application");
-        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
-
-        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/oasis/scratch/trestles/ogce/temp_project/", "sds128", false, null, null, null));
-        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
-    }
-
-    public String createPBSDocsForOGCE_WRF() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
-
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(trestleshpcHostAddress, null, null);
-        host.addToIpAddresses(trestleshpcHostAddress);
-        host.addToHostAliases(trestleshpcHostAddress);
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.PBS, "/opt/torque/bin/", null, null);
-        sshJobSubmission.setResourceJobManager(resourceJobManager);
-        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
-        sshJobSubmission.setSshPort(22);
-        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
-
-        SCPDataMovement scpDataMovement = new SCPDataMovement();
-        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
-        scpDataMovement.setSshPort(22);
-
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-
-        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/oasis/scratch/trestles/ogce/temp_project/", "sds128", false, null, null, null));
-
-        ApplicationModule module2 = DocumentCreatorUtils.createApplicationModule("wrf", "1.0.0", null);
-        module2.setAppModuleId(client.registerApplicationModule(module2));
-        ApplicationInterfaceDescription application2 = new ApplicationInterfaceDescription();
-//    	application2.setIsEmpty(false);
-        application2.setApplicationName("WRF");
-        application2.addToApplicationModules(module2.getAppModuleId());
-        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Namelist", "WRF_Namelist", null, null, DataType.URI));
-        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Boundary_File", "WRF_Boundary_File", null, null, DataType.URI));
-        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Input_File", "WRF_Input_File", null, null, DataType.URI));
-
-        application2.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("WRF_Output", null, DataType.URI));
-        application2.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("WRF_Execution_Log", null, DataType.URI));
-        application2.setApplicationInterfaceId(client.registerApplicationInterface(application2));
-
-        ApplicationDeploymentDescription deployment2 = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module2.getAppModuleId(), "/home/ogce/production/app_wrappers/wrf_wrapper.sh", ApplicationParallelismType.MPI, "WRF");
-        deployment2.setAppDeploymentId(client.registerApplicationDeployment(deployment2));
-        return host.getComputeResourceId() + "," + application2.getApplicationInterfaceId();
-    }
-
-    public String createSlumWRFDocs() throws AppCatalogException, TException {
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(stampedeHostAddress, null, null);
-        host.addToHostAliases(stampedeHostAddress);
-        host.addToIpAddresses(stampedeHostAddress);
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.SLURM, "/usr/bin/", null, "push");
-        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
-        sshJobSubmission.setResourceJobManager(resourceJobManager);
-        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
-        sshJobSubmission.setSshPort(2222);
-
-        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
-        SCPDataMovement scpDataMovement = new SCPDataMovement();
-        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
-        scpDataMovement.setSshPort(22);
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-
-        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/home1/01437/ogce", "TG-STA110014S", false, null, null, null));
-
-        ApplicationModule module2 = DocumentCreatorUtils.createApplicationModule("wrf", "1.0.0", null);
-        module2.setAppModuleId(client.registerApplicationModule(module2));
-        ApplicationInterfaceDescription application2 = new ApplicationInterfaceDescription();
-        //    	application2.setIsEmpty(false);
-        application2.setApplicationName("WRF");
-        application2.addToApplicationModules(module2.getAppModuleId());
-        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Namelist", "WRF_Namelist", null, null, DataType.URI));
-        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Boundary_File", "WRF_Boundary_File", null, null, DataType.URI));
-        application2.addToApplicationInputs(DocumentCreatorUtils.createAppInput("WRF_Input_File", "WRF_Input_File", null, null, DataType.URI));
-
-        application2.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("WRF_Output", null, DataType.URI));
-        application2.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("WRF_Execution_Log", null, DataType.URI));
-        application2.setApplicationInterfaceId(client.registerApplicationInterface(application2));
-
-        ApplicationDeploymentDescription deployment2 = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module2.getAppModuleId(), "/home1/01437/ogce/production/app_wrappers/wrf_wrapper.sh", ApplicationParallelismType.MPI, "WRF");
-        deployment2.setAppDeploymentId(client.registerApplicationDeployment(deployment2));
-        return host.getComputeResourceId() + "," + application2.getApplicationInterfaceId();
-
-    }
-
-    public String createSlurmDocs() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(stampedeHostAddress, null, null);
-        host.addToHostAliases(stampedeHostAddress);
-        host.addToIpAddresses(stampedeHostAddress);
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.SLURM, "/usr/bin/", null, "push");
-        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
-        sshJobSubmission.setResourceJobManager(resourceJobManager);
-        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
-        sshJobSubmission.setSshPort(2222);
-        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
-
-        SCPDataMovement scpDataMovement = new SCPDataMovement();
-        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
-        scpDataMovement.setSshPort(22);
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-
-        ApplicationModule module = DocumentCreatorUtils.createApplicationModule("echo", "1.3", null);
-        module.setAppModuleId(client.registerApplicationModule(module));
-
-        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
-//    	application.setIsEmpty(false);
-        application.setApplicationName("SimpleEcho3");
-        application.addToApplicationModules(module.getAppModuleId());
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", null, null, DataType.STRING));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
-        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
-
-        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module.getAppModuleId(), "/bin/echo", ApplicationParallelismType.SERIAL, "EchoLocal");
-        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
-
-        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/home1/01437/ogce", "TG-STA110014S", false, null, null, null));
-        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
-    }
-
-    public String createSGEDocs() throws AppCatalogException, InvalidRequestException, AiravataClientException, AiravataSystemException, TException {
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(lonestarHostAddress, null, null);
-        host.addToHostAliases(lonestarHostAddress);
-        host.addToIpAddresses(lonestarHostAddress);
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.UGE, "/opt/sge6.2/bin/lx24-amd64/", null, null);
-        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
-        sshJobSubmission.setResourceJobManager(resourceJobManager);
-        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
-        sshJobSubmission.setSshPort(22);
-
-        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
-
-        SCPDataMovement scpDataMovement = new SCPDataMovement();
-        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
-        scpDataMovement.setSshPort(22);
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-
-        ApplicationModule module = DocumentCreatorUtils.createApplicationModule("echo", "1.4", null);
-        module.setAppModuleId(client.registerApplicationModule(module));
-
-        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
-//    	application.setIsEmpty(false);
-        application.setApplicationName("SimpleEcho4");
-        application.addToApplicationModules(module.getAppModuleId());
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", null, null, DataType.STRING));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
-        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
-
-        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module.getAppModuleId(), "/bin/echo", ApplicationParallelismType.SERIAL, "EchoLocal");
-        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
-
-        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/home1/01437/ogce", "TG-STA110014S", false, null, null, null));
-        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
-    }
-
-//	public void createEchoHostDocs() {
-//		String serviceName = "Echo";
-//		ServiceDescription serviceDescription = new ServiceDescription();
-//		List<InputParameterType> inputParameters = new ArrayList<InputParameterType>();
-//		List<OutputParameterType> outputParameters = new ArrayList<OutputParameterType>();
-//		serviceDescription.getType().setName(serviceName);
-//		serviceDescription.getType().setDescription("Echo service");
-//		// Creating input parameters
-//		InputParameterType parameter = InputParameterType.Factory.newInstance();
-//		parameter.setParameterName("echo_input");
-//		parameter.setParameterDescription("echo input");
-//		ParameterType parameterType = parameter.addNewParameterType();
-//		parameterType.setType(DataType.STRING);
-//		parameterType.setName("String");
-//		inputParameters.add(parameter);
-//
-//		// Creating output parameters
-//		OutputParameterType outputParameter = OutputParameterType.Factory.newInstance();
-//		outputParameter.setParameterName("echo_output");
-//		outputParameter.setParameterDescription("Echo output");
-//		ParameterType outputParaType = outputParameter.addNewParameterType();
-//		outputParaType.setType(DataType.STRING);
-//		outputParaType.setName("String");
-//		outputParameters.add(outputParameter);
-//
-//		// Setting input and output parameters to serviceDescriptor
-//		serviceDescription.getType().setInputParametersArray(inputParameters.toArray(new InputParameterType[] {}));
-//		serviceDescription.getType().setOutputParametersArray(outputParameters.toArray(new OutputParameterType[] {}));
-//
-//		try {
-//			airavataAPI.getApplicationManager().saveServiceDescription(serviceDescription);
-//		} catch (AiravataAPIInvocationException e) {
-//			e.printStackTrace(); // To change body of catch statement use File |
-//									// Settings | File Templates.
-//		}
-//		// Localhost
-//		ApplicationDescription applicationDeploymentDescription = new ApplicationDescription();
-//		ApplicationDeploymentDescriptionType applicationDeploymentDescriptionType = applicationDeploymentDescription.getType();
-//		applicationDeploymentDescriptionType.addNewApplicationName().setStringValue(serviceName);
-//		applicationDeploymentDescriptionType.setExecutableLocation("/bin/echo");
-//		applicationDeploymentDescriptionType.setScratchWorkingDirectory("/tmp");
-//
-//		try {
-//			airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, "localhost", applicationDeploymentDescription);
-//		} catch (AiravataAPIInvocationException e) {
-//			e.printStackTrace(); // To change body of catch statement use File |
-//									// Settings | File Templates.
-//		}
-//		// Stampede
-//		/*
-//		 * Application descriptor creation and saving
-//		 */
-//		ApplicationDescription appDesc1 = new ApplicationDescription(HpcApplicationDeploymentType.type);
-//		HpcApplicationDeploymentType app1 = (HpcApplicationDeploymentType) appDesc1.getType();
-//		ApplicationDeploymentDescriptionType.ApplicationName name = ApplicationDeploymentDescriptionType.ApplicationName.Factory.newInstance();
-//		name.setStringValue(serviceName);
-//		app1.setApplicationName(name);
-//		ProjectAccountType projectAccountType = app1.addNewProjectAccount();
-//		projectAccountType.setProjectAccountNumber("TG-STA110014S");
-//
-//		QueueType queueType = app1.addNewQueue();
-//		queueType.setQueueName("normal");
-//
-//		app1.setCpuCount(1);
-//		app1.setJobType(JobTypeType.SERIAL);
-//		app1.setNodeCount(1);
-//		app1.setProcessorsPerNode(1);
-//		app1.setMaxWallTime(10);
-//		/*
-//		 * Use bat file if it is compiled on Windows
-//		 */
-//		app1.setExecutableLocation("/bin/echo");
-//
-//		/*
-//		 * Default tmp location
-//		 */
-//		String tempDir = "/home1/01437/ogce";
-//
-//		app1.setScratchWorkingDirectory(tempDir);
-//		app1.setInstalledParentPath("/usr/bin/");
-//
-//		try {
-//			airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, stampedeHostAddress, appDesc1);
-//		} catch (AiravataAPIInvocationException e) {
-//			e.printStackTrace(); // To change body of catch statement use File |
-//									// Settings | File Templates.
-//		}
-//		// Trestles
-//		/*
-//		 * Application descriptor creation and saving
-//		 */
-//		ApplicationDescription appDesc2 = new ApplicationDescription(HpcApplicationDeploymentType.type);
-//		HpcApplicationDeploymentType app2 = (HpcApplicationDeploymentType) appDesc2.getType();
-//		ApplicationDeploymentDescriptionType.ApplicationName name2 = ApplicationDeploymentDescriptionType.ApplicationName.Factory.newInstance();
-//		name2.setStringValue(serviceName);
-//		app2.setApplicationName(name);
-//		ProjectAccountType projectAccountType2 = app2.addNewProjectAccount();
-//		projectAccountType2.setProjectAccountNumber("sds128");
-//
-//		QueueType queueType2 = app2.addNewQueue();
-//		queueType2.setQueueName("normal");
-//
-//		app2.setCpuCount(1);
-//		app2.setJobType(JobTypeType.SERIAL);
-//		app2.setNodeCount(1);
-//		app2.setProcessorsPerNode(1);
-//		app2.setMaxWallTime(10);
-//		/*
-//		 * Use bat file if it is compiled on Windows
-//		 */
-//		app2.setExecutableLocation("/bin/echo");
-//
-//		/*
-//		 * Default tmp location
-//		 */
-//		String tempDir2 = "/home/ogce/scratch";
-//
-//		app2.setScratchWorkingDirectory(tempDir2);
-//		app2.setInstalledParentPath("/opt/torque/bin/");
-//
-//		try {
-//			airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, trestleshpcHostAddress, appDesc2);
-//		} catch (AiravataAPIInvocationException e) {
-//			e.printStackTrace(); // To change body of catch statement use File |
-//									// Settings | File Templates.
-//		}
-//		// Lonestar
-//		/*
-//		 * Application descriptor creation and saving
-//		 */
-//		ApplicationDescription appDesc3 = new ApplicationDescription(HpcApplicationDeploymentType.type);
-//		HpcApplicationDeploymentType app3 = (HpcApplicationDeploymentType) appDesc3.getType();
-//		ApplicationDeploymentDescriptionType.ApplicationName name3 = ApplicationDeploymentDescriptionType.ApplicationName.Factory.newInstance();
-//		name3.setStringValue(serviceName);
-//		app3.setApplicationName(name);
-//		ProjectAccountType projectAccountType3 = app3.addNewProjectAccount();
-//		projectAccountType3.setProjectAccountNumber("TG-STA110014S");
-//
-//		QueueType queueType3 = app3.addNewQueue();
-//		queueType3.setQueueName("normal");
-//
-//		app3.setCpuCount(1);
-//		app3.setJobType(JobTypeType.SERIAL);
-//		app3.setNodeCount(1);
-//		app3.setProcessorsPerNode(1);
-//		app3.setMaxWallTime(10);
-//		/*
-//		 * Use bat file if it is compiled on Windows
-//		 */
-//		app3.setExecutableLocation("/bin/echo");
-//
-//		/*
-//		 * Default tmp location
-//		 */
-//		String tempDir3 = "/home1/01437/ogce";
-//
-//		app3.setScratchWorkingDirectory(tempDir3);
-//		app3.setInstalledParentPath("/opt/sge6.2/bin/lx24-amd64/");
-//
-//		try {
-//			airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, lonestarHostAddress, appDesc3);
-//		} catch (AiravataAPIInvocationException e) {
-//			e.printStackTrace(); // To change body of catch statement use File |
-//									// Settings | File Templates.
-//		}
-//
-//	}
-
-    public String createBigRedDocs() throws InvalidRequestException, AiravataClientException, AiravataSystemException, TException, AppCatalogException {
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription("bigred2", null, null);
-        host.addToHostAliases(bigRed2HostAddress);
-        host.addToIpAddresses(bigRed2HostAddress);
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-
-        Map<JobManagerCommand, String> commands = new HashMap<JobManagerCommand, String>();
-        commands.put(JobManagerCommand.SUBMISSION, "aprun -n");
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.UGE, "/opt/torque/torque-4.2.3.1/bin/", commands, null);
-        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
-        sshJobSubmission.setResourceJobManager(resourceJobManager);
-        sshJobSubmission.setSecurityProtocol(SecurityProtocol.SSH_KEYS);
-        sshJobSubmission.setSshPort(22);
-
-        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
-
-        SCPDataMovement scpDataMovement = new SCPDataMovement();
-        scpDataMovement.setSecurityProtocol(SecurityProtocol.SSH_KEYS);
-        scpDataMovement.setSshPort(22);
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-
-        ApplicationModule module = DocumentCreatorUtils.createApplicationModule("echo", "1.5", null);
-        module.setAppModuleId(client.registerApplicationModule(module));
-
-        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
-        application.setApplicationName("SimpleEchoBR");
-        application.addToApplicationModules(module.getAppModuleId());
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("echo_input", "echo_input", null, null, DataType.STRING));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("echo_output", null, DataType.STRING));
-        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
-
-        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), module.getAppModuleId(), "/N/u/lginnali/BigRed2/myjob/test.sh", ApplicationParallelismType.SERIAL, "EchoLocal");
-        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
-
-        String date = (new Date()).toString();
-        date = date.replaceAll(" ", "_");
-        date = date.replaceAll(":", "_");
-        String tempDir = "/N/u/lginnali/BigRed2/myjob";
-        tempDir = tempDir + File.separator + "SimpleEcho" + "_" + date + "_" + UUID.randomUUID();
-
-        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), tempDir, "TG-STA110014S", false, null, null, null));
-
-
-        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
-    }
-
-    public String createBigRedAmberDocs() throws InvalidRequestException, AiravataClientException, AiravataSystemException, TException, AppCatalogException {
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription("bigred2", null, null);
-        host.addToHostAliases(bigRed2HostAddress);
-        host.addToIpAddresses(bigRed2HostAddress);
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-
-        Map<JobManagerCommand, String> commands = new HashMap<JobManagerCommand, String>();
-        commands.put(JobManagerCommand.SUBMISSION, "aprun -n 4");
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.UGE, "/opt/torque/torque-4.2.3.1/bin/", commands, null);
-        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
-        sshJobSubmission.setResourceJobManager(resourceJobManager);
-        sshJobSubmission.setSecurityProtocol(SecurityProtocol.SSH_KEYS);
-        sshJobSubmission.setSshPort(22);
-
-        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
-
-        SCPDataMovement scpDataMovement = new SCPDataMovement();
-        scpDataMovement.setSecurityProtocol(SecurityProtocol.SSH_KEYS);
-        scpDataMovement.setSshPort(22);
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-
-
-        ApplicationModule amodule = DocumentCreatorUtils.createApplicationModule("Amber", "12.0", null);
-        amodule.setAppModuleId(client.registerApplicationModule(amodule));
-
-
-        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
-        application.setApplicationName("AmberBR2");
-        application.addToApplicationModules(amodule.getAppModuleId());
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("AMBER_HEAT_RST", "AMBER_HEAT_RST", null, null, DataType.URI));
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("AMBER_PROD_IN", "AMBER_PROD_IN", null, null, DataType.URI));
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("AMBER_PRMTOP", "AMBER_PRMTOP", null, null, DataType.URI));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("AMBER_Prod.info", null, DataType.URI));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("AMBER_Prod.mdcrd", null, DataType.URI));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("AMBER_Prod.out", null, DataType.URI));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("AMBER_Prod.rst", null, DataType.URI));
-        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
-
-        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), amodule.getAppModuleId(), "/N/u/cgateway/BigRed2/sandbox/amber_wrapper.sh", ApplicationParallelismType.SERIAL, "AmberBR2");
-        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
-
-
-        String date = (new Date()).toString();
-        date = date.replaceAll(" ", "_");
-        date = date.replaceAll(":", "_");
-        String tempDir = "/N/u/cgateway/BigRed2/sandbox/jobs";
-        tempDir = tempDir + File.separator +
-                "Amber";
-
-        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), tempDir, null, false, null, null, null));
-
-
-        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
-    }
-
-    public String createStampedeAmberDocs() throws InvalidRequestException, AiravataClientException, AiravataSystemException, TException, AppCatalogException {
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(stampedeHostAddress, null, null);
-        host.addToHostAliases(stampedeHostAddress);
-        host.addToIpAddresses(stampedeHostAddress);
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.SLURM, "/usr/bin/", null, "push");
-        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
-        sshJobSubmission.setResourceJobManager(resourceJobManager);
-        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
-        sshJobSubmission.setSshPort(2222);
-        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
-
-        SCPDataMovement scpDataMovement = new SCPDataMovement();
-        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
-        scpDataMovement.setSshPort(22);
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-        ApplicationModule amodule = DocumentCreatorUtils.createApplicationModule("Amber", "12.0", null);
-        amodule.setAppModuleId(client.registerApplicationModule(amodule));
-
-
-        ApplicationInterfaceDescription application = new ApplicationInterfaceDescription();
-        application.setApplicationName("AmberBR2");
-        application.addToApplicationModules(amodule.getAppModuleId());
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("AMBER_HEAT_RST", "AMBER_HEAT_RST", null, null, DataType.URI));
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("AMBER_PROD_IN", "AMBER_PROD_IN", null, null, DataType.URI));
-        application.addToApplicationInputs(DocumentCreatorUtils.createAppInput("AMBER_PRMTOP", "AMBER_PRMTOP", null, null, DataType.URI));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("AMBER_Prod.info", null, DataType.URI));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("AMBER_Prod.mdcrd", null, DataType.URI));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("AMBER_Prod.out", null, DataType.URI));
-        application.addToApplicationOutputs(DocumentCreatorUtils.createAppOutput("AMBER_Prod.rst", null, DataType.URI));
-        application.setApplicationInterfaceId(client.registerApplicationInterface(application));
-
-        ApplicationDeploymentDescription deployment = DocumentCreatorUtils.createApplicationDeployment(host.getComputeResourceId(), amodule.getAppModuleId(), "/home1/01437/ogce/production/app_wrappers/amber_wrapper.sh", ApplicationParallelismType.SERIAL, "AmberStampede");
-        deployment.setAppDeploymentId(client.registerApplicationDeployment(deployment));
-
-        client.addGatewayComputeResourcePreference(getGatewayResourceProfile().getGatewayID(), host.getComputeResourceId(), DocumentCreatorUtils.createComputeResourcePreference(host.getComputeResourceId(), "/home1/01437/ogce", "TG-STA110014S", false, null, null, null));
-
-
-        return host.getComputeResourceId() + "," + application.getApplicationInterfaceId();
-
-    }
-
-    public String createTrestlesAmberDocs() throws InvalidRequestException, AiravataClientException, AiravataSystemException, TException, AppCatalogException {
-        ComputeResourceDescription host = DocumentCreatorUtils.createComputeResourceDescription(trestleshpcHostAddress, null, null);
-        host.addToIpAddresses(trestleshpcHostAddress);
-        host.addToHostAliases(trestleshpcHostAddress);
-        host.setComputeResourceId(client.registerComputeResource(host));
-
-        SSHJobSubmission sshJobSubmission = new SSHJobSubmission();
-        ResourceJobManager resourceJobManager = DocumentCreatorUtils.createResourceJobManager(ResourceJobManagerType.PBS, "/opt/torque/bin/", null, null);
-        sshJobSubmission.setResourceJobManager(resourceJobManager);
-        sshJobSubmission.setSecurityProtocol(SecurityProtocol.GSI);
-        sshJobSubmission.setSshPort(22);
-        client.addSSHJobSubmissionDetails(host.getComputeResourceId(), 1, sshJobSubmission);
-
-        SCPDataMovement scpDataMovement = new SCPDataMovement();
-        scpDataMovement.setSecurityProtocol(SecurityProtocol.GSI);
-        scpDataMovement.setSshPort(22);
-        client.addSCPDataMovementDetails(host.getComputeResourceId(), 1, scpDataMovement);
-
-        ApplicationModule amodule = DocumentCreatorUtils.createApplicationModule("Amber", "12.0", null);
-        amodule.setAppModuleId(client.registerApplicationModule(amodule));
-

<TRUNCATED>