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

Example 26 with OutputDataObjectType

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

the class RegisterSampleApplications method registerAutoDockInterface.

public void registerAutoDockInterface() {
    try {
        System.out.println("#### Registering AutoDock Interface #### \n");
        List<String> appModules = new ArrayList<String>();
        appModules.add(autoDockModuleId);
        InputDataObjectType input1 = RegisterSampleApplicationsUtils.createAppInput("Heat_Restart_File", null, DataType.URI, null, 1, true, true, false, "Heating up the system equilibration stage", null);
        InputDataObjectType input2 = RegisterSampleApplicationsUtils.createAppInput("Production_Control_File", null, DataType.URI, null, 2, true, true, false, "Constant pressure and temperature for production stage", null);
        InputDataObjectType input3 = RegisterSampleApplicationsUtils.createAppInput("Parameter_Topology_File", null, DataType.URI, null, 3, true, true, false, "Parameter and Topology coordinates", null);
        List<InputDataObjectType> applicationInputs = new ArrayList<InputDataObjectType>();
        applicationInputs.add(input1);
        applicationInputs.add(input2);
        applicationInputs.add(input3);
        OutputDataObjectType output1 = RegisterSampleApplicationsUtils.createAppOutput("STDOUT", null, DataType.STDOUT, true, true, null);
        OutputDataObjectType output2 = RegisterSampleApplicationsUtils.createAppOutput("STDERR", null, DataType.STDERR, true, true, null);
        List<OutputDataObjectType> applicationOutputs = new ArrayList<OutputDataObjectType>();
        applicationOutputs.add(output1);
        applicationOutputs.add(output2);
        autoDockInterfaceId = airavataClient.registerApplicationInterface(new AuthzToken(""), DEFAULT_GATEWAY, RegisterSampleApplicationsUtils.createApplicationInterfaceDescription(autoDockName, autoDockDescription, appModules, applicationInputs, applicationOutputs));
        System.out.println("AutoDock Application Interface Id " + autoDockInterfaceId);
    } catch (TException e) {
        e.printStackTrace();
    }
}

Example 27 with OutputDataObjectType

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

the class CreateLaunchBES method createMPIExperimentForFSD.

public static String createMPIExperimentForFSD(Airavata.Client client) throws TException {
    try {
        List<InputDataObjectType> exInputs = client.getApplicationInputs(new AuthzToken(""), mpiAppId);
        for (InputDataObjectType inputDataObjectType : exInputs) {
            // }
            if (inputDataObjectType.getName().equalsIgnoreCase("NumberOfProcesses")) {
                inputDataObjectType.setValue("32");
            }
            if (inputDataObjectType.getName().equalsIgnoreCase("US3INPUT")) {
                inputDataObjectType.setValue("file://home/m.memon/us3input/smallerdata/hpcinput-uslims3.uthscsa.edu-uslims3_cauma3-01594.tar");
            }
            if (inputDataObjectType.getName().equalsIgnoreCase("US3INPUTARG")) {
                inputDataObjectType.setValue("hpcinput-uslims3.uthscsa.edu-uslims3_cauma3-01594.tar");
            }
        }
        List<OutputDataObjectType> exOut = client.getApplicationOutputs(new AuthzToken(""), mpiAppId);
        for (OutputDataObjectType outputDataObjectType : exOut) {
            if (outputDataObjectType.getName().equals("US3OUT")) {
                outputDataObjectType.setValue("output/analysis-results.tar");
            }
        }
        ExperimentModel simpleExperiment = ExperimentModelUtil.createSimpleExperiment(DEFAULT_GATEWAY, "default", "admin", "mpiExperiment", "HelloMPI", mpiAppId, exInputs);
        simpleExperiment.setExperimentOutputs(exOut);
        Map<String, String> computeResources = airavataClient.getAvailableAppInterfaceComputeResources(new AuthzToken(""), mpiAppId);
        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, 0, 4, 0, null, 10, 0);
                    UserConfigurationDataModel userConfigurationData = new UserConfigurationDataModel();
                    userConfigurationData.setAiravataAutoSchedule(false);
                    userConfigurationData.setOverrideManualScheduledParams(false);
                    userConfigurationData.setComputationalResourceScheduling(scheduling);
                    userConfigurationData.setGenerateCert(true);
                    userConfigurationData.setUserDN("CN=m.memon, O=Ultrascan Gateway, C=DE");
                    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;
}

Example 28 with OutputDataObjectType

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

the class CreateLaunchExperiment method createExperimentTRINITYStampede.

public static String createExperimentTRINITYStampede(Airavata.Client client) throws TException {
    try {
        List<InputDataObjectType> exInputs = client.getApplicationInputs(new AuthzToken(""), trinityAppId);
        setTRINITYInputs(exInputs);
        List<OutputDataObjectType> exOut = client.getApplicationOutputs(new AuthzToken(""), trinityAppId);
        ExperimentModel simpleExperiment = ExperimentModelUtil.createSimpleExperiment(DEFAULT_GATEWAY, "default", "admin", "TrinityExperiment", "Testing", trinityAppId, exInputs);
        simpleExperiment.setExperimentOutputs(exOut);
        Map<String, String> computeResources = airavataClient.getAvailableAppInterfaceComputeResources(new AuthzToken(""), trinityAppId);
        if (computeResources != null && computeResources.size() != 0) {
            for (String id : computeResources.keySet()) {
                String resourceName = computeResources.get(id);
                if (resourceName.equals(stampedeHostName)) {
                    ComputationalResourceSchedulingModel scheduling = ExperimentModelUtil.createComputationResourceScheduling(id, 1, 16, 1, "development", 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;
}

Example 29 with OutputDataObjectType

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

the class CreateLaunchExperiment method createEchoExperimentForTrestles.

public static String createEchoExperimentForTrestles(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("default", "admin", "test project");
        String projectId = client.createProject(new AuthzToken(""), DEFAULT_GATEWAY, project);
        ExperimentModel simpleExperiment = ExperimentModelUtil.createSimpleExperiment(DEFAULT_GATEWAY, projectId, "admin", "echoExperiment", "SimpleEcho3", 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(trestlesHostName)) {
                    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;
}

Example 30 with OutputDataObjectType

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

the class CreateLaunchExperiment method createExperimentAUTODOCKStampede.

public static String createExperimentAUTODOCKStampede(Airavata.Client client) throws TException {
    try {
        List<InputDataObjectType> exInputs = client.getApplicationInputs(new AuthzToken(""), nwchemAppId);
        setAUTODOCKInputs(exInputs);
        List<OutputDataObjectType> exOut = client.getApplicationOutputs(new AuthzToken(""), nwchemAppId);
        ExperimentModel simpleExperiment = ExperimentModelUtil.createSimpleExperiment(DEFAULT_GATEWAY, "default", "admin", "AutoDockExperiment", "Testing", autodockAppId, exInputs);
        simpleExperiment.setExperimentOutputs(exOut);
        Map<String, String> computeResources = airavataClient.getAvailableAppInterfaceComputeResources(new AuthzToken(""), autodockAppId);
        if (computeResources != null && computeResources.size() != 0) {
            for (String id : computeResources.keySet()) {
                String resourceName = computeResources.get(id);
                if (resourceName.equals(stampedeHostName)) {
                    ComputationalResourceSchedulingModel scheduling = ExperimentModelUtil.createComputationResourceScheduling(id, 1, 16, 1, "development", 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;
}