Examples with InputDataObjectType org.apache.airavata.model.application.io.InputDataObjectType used on opensource projects

Example 66 with InputDataObjectType

use of org.apache.airavata.model.application.io.InputDataObjectType in project airavata by apache.

the class RegisterSampleApplications method registerAmberInterface.

public void registerAmberInterface() {
    try {
        System.out.println("#### Registering Amber Interface #### \n");
        List<String> appModules = new ArrayList<String>();
        appModules.add(amberModuleId);
        InputDataObjectType input1 = RegisterSampleApplicationsUtils.createAppInput("Heat_Restart_File", null, DataType.URI, "-c", 1, true, true, false, "Heating up the system equilibration stage - 02_Heat.rst", null);
        InputDataObjectType input2 = RegisterSampleApplicationsUtils.createAppInput("Production_Control_File", null, DataType.URI, "-i ", 2, true, true, false, "Constant pressure and temperature for production stage - 03_Prod.in", null);
        InputDataObjectType input3 = RegisterSampleApplicationsUtils.createAppInput("Parameter_Topology_File", null, DataType.URI, "-p", 3, true, true, false, "Parameter and Topology coordinates - prmtop", null);
        List<InputDataObjectType> applicationInputs = new ArrayList<InputDataObjectType>();
        applicationInputs.add(input1);
        applicationInputs.add(input2);
        applicationInputs.add(input3);
        OutputDataObjectType output1 = RegisterSampleApplicationsUtils.createAppOutput("AMBER_Execution_Summary", "03_Prod.info", DataType.URI, true, true, "-inf");
        OutputDataObjectType output2 = RegisterSampleApplicationsUtils.createAppOutput("AMBER_Execution_log", "03_Prod.out", DataType.URI, true, true, "-o");
        OutputDataObjectType output3 = RegisterSampleApplicationsUtils.createAppOutput("AMBER_Trajectory_file", "03_Prod.mdcrd", DataType.URI, true, true, "-x");
        OutputDataObjectType output4 = RegisterSampleApplicationsUtils.createAppOutput("AMBER_Restart_file", "03_Prod.rst", DataType.URI, true, true, " -r");
        OutputDataObjectType output5 = RegisterSampleApplicationsUtils.createAppOutput("STDOUT", null, DataType.STDOUT, true, false, null);
        OutputDataObjectType output6 = RegisterSampleApplicationsUtils.createAppOutput("STDERR", null, DataType.STDERR, true, false, null);
        List<OutputDataObjectType> applicationOutputs = new ArrayList<OutputDataObjectType>();
        applicationOutputs.add(output1);
        applicationOutputs.add(output2);
        applicationOutputs.add(output3);
        applicationOutputs.add(output4);
        applicationOutputs.add(output5);
        applicationOutputs.add(output6);
        amberInterfaceId = airavataClient.registerApplicationInterface(new AuthzToken(""), DEFAULT_GATEWAY, RegisterSampleApplicationsUtils.createApplicationInterfaceDescription(amberName, amberDescription, appModules, applicationInputs, applicationOutputs));
        System.out.println("Amber Application Interface Id " + amberInterfaceId);
    } catch (TException e) {
        e.printStackTrace();
    }
}

Example 67 with InputDataObjectType

use of org.apache.airavata.model.application.io.InputDataObjectType in project airavata by apache.

the class RegisterSampleApplications method registerMPIInterface.

public void registerMPIInterface() {
    try {
        System.out.println("#### Registering MPI Interface #### \n");
        List<String> appModules = new ArrayList<String>();
        appModules.add(mpiModuleId);
        InputDataObjectType input1 = RegisterSampleApplicationsUtils.createAppInput("Sample_Input", "", DataType.STRING, null, 1, true, false, false, "An optional MPI source file", null);
        InputDataObjectType input11 = RegisterSampleApplicationsUtils.createAppInput("US3INPUT", "", DataType.URI, null, 1, true, false, false, "Input US3 file", null);
        InputDataObjectType input12 = RegisterSampleApplicationsUtils.createAppInput("US3INPUTARG", "", DataType.STRING, null, 1, true, false, false, "Input US3 Arg", null);
        InputDataObjectType input2 = RegisterSampleApplicationsUtils.createAppInput("NumberOfProcesses", "", DataType.INTEGER, null, 2, false, true, false, "Number Of Processes", null);
        InputDataObjectType input3 = RegisterSampleApplicationsUtils.createAppInput("ProcessesPerHost", "", DataType.INTEGER, null, 3, false, true, false, "Processes per host", null);
        List<InputDataObjectType> applicationInputs = new ArrayList<InputDataObjectType>();
        applicationInputs.add(input1);
        applicationInputs.add(input2);
        applicationInputs.add(input3);
        applicationInputs.add(input11);
        applicationInputs.add(input12);
        OutputDataObjectType output1 = RegisterSampleApplicationsUtils.createAppOutput("STDOutput", "", DataType.STDOUT, true, true, null);
        OutputDataObjectType output2 = RegisterSampleApplicationsUtils.createAppOutput("STDErr", "", DataType.STDERR, true, true, null);
        OutputDataObjectType output3 = RegisterSampleApplicationsUtils.createAppOutput("US3OUT", "", DataType.STRING, true, false, null);
        List<OutputDataObjectType> applicationOutputs = new ArrayList<OutputDataObjectType>();
        applicationOutputs.add(output1);
        applicationOutputs.add(output2);
        applicationOutputs.add(output3);
        mpiInterfaceId = airavataClient.registerApplicationInterface(new AuthzToken(""), DEFAULT_GATEWAY, RegisterSampleApplicationsUtils.createApplicationInterfaceDescription(mpiName, mpiDescription, appModules, applicationInputs, applicationOutputs));
        System.out.println("MPI Application Interface Id " + mpiInterfaceId);
    } catch (TException e) {
        e.printStackTrace();
    }
}

Example 68 with InputDataObjectType

use of org.apache.airavata.model.application.io.InputDataObjectType in project airavata by apache.

the class RegisterSampleApplications method registerLammpsInterface.

public void registerLammpsInterface() {
    try {
        System.out.println("#### Registering LAMMPS Interface #### \n");
        List<String> appModules = new ArrayList<String>();
        appModules.add(lammpsModuleId);
        appModules.add(lammpsModuleId1);
        InputDataObjectType input1 = RegisterSampleApplicationsUtils.createAppInput("Friction_Simulation_Input", null, DataType.URI, "<", 1, true, true, false, "Friction Simulation Input - in.friction", null);
        List<InputDataObjectType> applicationInputs = new ArrayList<InputDataObjectType>();
        applicationInputs.add(input1);
        OutputDataObjectType output1 = RegisterSampleApplicationsUtils.createAppOutput("LAMMPS_Simulation_Log", null, DataType.URI, true, true, null);
        OutputDataObjectType output2 = RegisterSampleApplicationsUtils.createAppOutput("STDOUT", null, DataType.STDOUT, true, true, null);
        OutputDataObjectType output3 = RegisterSampleApplicationsUtils.createAppOutput("STDERR", null, DataType.STDERR, true, true, null);
        List<OutputDataObjectType> applicationOutputs = new ArrayList<OutputDataObjectType>();
        applicationOutputs.add(output1);
        applicationOutputs.add(output2);
        applicationOutputs.add(output3);
        lammpsInterfaceId = airavataClient.registerApplicationInterface(new AuthzToken(""), DEFAULT_GATEWAY, RegisterSampleApplicationsUtils.createApplicationInterfaceDescription(lammpsName, lammpsDescription, appModules, applicationInputs, applicationOutputs));
        System.out.println("LAMMPS Application Interface Id " + lammpsInterfaceId);
    } catch (TException e) {
        e.printStackTrace();
    }
}

Example 69 with InputDataObjectType

use of org.apache.airavata.model.application.io.InputDataObjectType in project airavata by apache.

the class CreateLaunchBES method createEchoExperimentForFSD.

public static String createEchoExperimentForFSD(Airavata.Client client) throws TException {
    try {
        List<InputDataObjectType> exInputs = client.getApplicationInputs(new AuthzToken(""), echoAppId);
        for (InputDataObjectType inputDataObjectType : exInputs) {
            if (inputDataObjectType.getName().equalsIgnoreCase("Input_to_Echo")) {
                inputDataObjectType.setValue("Hello World");
            } else if (inputDataObjectType.getName().equalsIgnoreCase("Input_to_Echo2")) {
                inputDataObjectType.setValue("http://www.textfiles.com/100/ad.txt");
            } else if (inputDataObjectType.getName().equalsIgnoreCase("Input_to_Echo3")) {
                inputDataObjectType.setValue("file:///tmp/test.txt");
            }
        }
        List<OutputDataObjectType> exOut = client.getApplicationOutputs(new AuthzToken(""), echoAppId);
        ExperimentModel simpleExperiment = ExperimentModelUtil.createSimpleExperiment(DEFAULT_GATEWAY, "default", "admin", "echoExperiment", "SimpleEcho2", echoAppId, exInputs);
        simpleExperiment.setExperimentOutputs(exOut);
        Map<String, String> computeResources = airavataClient.getAvailableAppInterfaceComputeResources(new AuthzToken(""), echoAppId);
        if (computeResources != null && computeResources.size() != 0) {
            for (String id : computeResources.keySet()) {
                String resourceName = computeResources.get(id);
                if (resourceName.equals(unicoreHostName)) {
                    ComputationalResourceSchedulingModel scheduling = ExperimentModelUtil.createComputationResourceScheduling(id, 1, 1, 1, "normal", 30, 1048576);
                    UserConfigurationDataModel userConfigurationData = new UserConfigurationDataModel();
                    userConfigurationData.setAiravataAutoSchedule(false);
                    userConfigurationData.setOverrideManualScheduledParams(false);
                    userConfigurationData.setComputationalResourceScheduling(scheduling);
                    userConfigurationData.setGenerateCert(false);
                    userConfigurationData.setUserDN("");
                    return client.createExperiment(new AuthzToken(""), DEFAULT_GATEWAY, simpleExperiment);
                }
            }
        }
    } catch (AiravataSystemException e) {
        logger.error("Error occured while creating the experiment...", e.getMessage());
        throw new AiravataSystemException(e);
    } catch (InvalidRequestException e) {
        logger.error("Error occured while creating the experiment...", e.getMessage());
        throw new InvalidRequestException(e);
    } catch (AiravataClientException e) {
        logger.error("Error occured while creating the experiment...", e.getMessage());
        throw new AiravataClientException(e);
    } catch (TException e) {
        logger.error("Error occured while creating the experiment...", e.getMessage());
        throw new TException(e);
    }
    return null;
}

Example 70 with InputDataObjectType

use of org.apache.airavata.model.application.io.InputDataObjectType in project airavata by apache.

the class CreateLaunchExperiment method createExperimentEchoForLocalHost.

public static String createExperimentEchoForLocalHost(Airavata.Client client) throws TException {
    try {
        List<InputDataObjectType> exInputs = client.getApplicationInputs(new AuthzToken(""), echoAppId);
        for (InputDataObjectType inputDataObjectType : exInputs) {
            if (inputDataObjectType.getName().equalsIgnoreCase("Input_to_Echo")) {
                inputDataObjectType.setValue("Hello World");
            }
        }
        List<OutputDataObjectType> exOut = client.getApplicationOutputs(new AuthzToken(""), echoAppId);
        Project project = ProjectModelUtil.createProject("project1", "admin", "test project");
        String projectId = client.createProject(new AuthzToken(""), DEFAULT_GATEWAY, project);
        ExperimentModel simpleExperiment = ExperimentModelUtil.createSimpleExperiment(DEFAULT_GATEWAY, projectId, "admin", "echoExperiment", "Echo Test", echoAppId, exInputs);
        simpleExperiment.setExperimentOutputs(exOut);
        Map<String, String> computeResources = airavataClient.getAvailableAppInterfaceComputeResources(new AuthzToken(""), echoAppId);
        if (computeResources != null && computeResources.size() != 0) {
            for (String id : computeResources.keySet()) {
                String resourceName = computeResources.get(id);
                if (resourceName.equals(localHost)) {
                    ComputationalResourceSchedulingModel scheduling = ExperimentModelUtil.createComputationResourceScheduling(id, 1, 1, 1, "normal", 30, 1);
                    UserConfigurationDataModel userConfigurationData = new UserConfigurationDataModel();
                    userConfigurationData.setAiravataAutoSchedule(false);
                    userConfigurationData.setOverrideManualScheduledParams(false);
                    userConfigurationData.setComputationalResourceScheduling(scheduling);
                    simpleExperiment.setUserConfigurationData(userConfigurationData);
                    return client.createExperiment(new AuthzToken(""), DEFAULT_GATEWAY, simpleExperiment);
                }
            }
        }
    } catch (AiravataSystemException e) {
        logger.error("Error occured while creating the experiment...", e.getMessage());
        throw new AiravataSystemException(e);
    } catch (InvalidRequestException e) {
        logger.error("Error occured while creating the experiment...", e.getMessage());
        throw new InvalidRequestException(e);
    } catch (AiravataClientException e) {
        logger.error("Error occured while creating the experiment...", e.getMessage());
        throw new AiravataClientException(e);
    } catch (TException e) {
        logger.error("Error occured while creating the experiment...", e.getMessage());
        throw new TException(e);
    }
    return null;
}