Package org.apache.airavata.schemas.gfac

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

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        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[]{}));
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        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()]);
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        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();  //To change body of catch statement use File | Settings | File Templates.
        }

        /*
            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);
        app.setMaxWallTime(10);
        /*
           * Use bat file if it is compiled on Windows
           */
        app.setExecutableLocation("/bin/echo");

        /*
           * Default tmp location
           */
        String tempDir = "/oasis/scratch/trestles/ogce/temp_project/";

    
        app.setScratchWorkingDirectory(tempDir);
        app.setInstalledParentPath("/opt/torque/bin/");

        try {
            airavataAPI.getApplicationManager().saveApplicationDescription(serviceName, trestleshpcHostAddress, appDesc);
        } catch (AiravataAPIInvocationException e) {
            e.printStackTrace();  //To change body of catch statement use File | Settings | File Templates.
        }

         /*
        * Service Description creation and saving
        */
        String wrfserviceName = "WRF";
        ServiceDescription wrfServ = new ServiceDescription();
        wrfServ.getType().setName(wrfserviceName);

        List<InputParameterType> wrfinputList = new ArrayList<InputParameterType>();
        List<OutputParameterType> wrfoutputList = new ArrayList<OutputParameterType>();


        InputParameterType wrfinput1 = InputParameterType.Factory.newInstance();
        wrfinput1.setParameterName("WRF_Namelist");
        ParameterType wrfparameterType1 = wrfinput1.addNewParameterType();
        wrfparameterType1.setType(DataType.URI);
        wrfparameterType1.setName("URI");

        InputParameterType wrfinput2 = InputParameterType.Factory.newInstance();
        wrfinput2.setParameterName("WRF_Input_File");
        ParameterType wrfparameterType2 = wrfinput2.addNewParameterType();
        wrfparameterType2.setType(DataType.URI);
        wrfparameterType2.setName("URI");

        InputParameterType wrfinput3 = InputParameterType.Factory.newInstance();
        wrfinput3.setParameterName("WRF_Boundary_File");
        ParameterType wrfparameterType3 = wrfinput3.addNewParameterType();
        wrfparameterType3.setType(DataType.URI);
        wrfparameterType3.setName("URI");

        OutputParameterType wrfOutput1 = OutputParameterType.Factory.newInstance();
        wrfOutput1.setParameterName("WRF_Output");
        ParameterType wrfoutparameterType1 = wrfOutput1.addNewParameterType();
        wrfoutparameterType1.setType(DataType.URI);
        wrfoutparameterType1.setName("URI");

        OutputParameterType wrfOutput2 = OutputParameterType.Factory.newInstance();
        wrfOutput2.setParameterName("WRF_Execution_Log");
        ParameterType wrfoutparameterType2 = wrfOutput2.addNewParameterType();
        wrfoutparameterType2.setType(DataType.URI);
        wrfoutparameterType2.setName("URI");

        wrfinputList.add(wrfinput1);
        wrfinputList.add(wrfinput2);
        wrfinputList.add(wrfinput3);
        wrfoutputList.add(wrfOutput1);
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        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()]);
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        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()]);
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    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[] {}));
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                // todo how to handle Enum
                if (getIOStringList()[0].equals(defaultTableModel.getValueAt(i, 0))) {
                    InputParameterType parameter = InputParameterType.Factory.newInstance();
                    parameter.setParameterName(parameterName);
                    parameter.setParameterDescription(parameterDescription);
                    ParameterType parameterType = parameter.addNewParameterType();
                    parameterType.setType(DataType.Enum.forString(paramType));
                    parameterType.setName(paramType);
                    inputParameters.add(parameter);

                } else {
                    OutputParameterType parameter = OutputParameterType.Factory.newInstance();
                    parameter.setParameterName(parameterName);
                    parameter.setParameterDescription(parameterDescription);
                    ParameterType parameterType = parameter.addNewParameterType();
                    parameterType.setType(DataType.Enum.forString(paramType));
                    parameterType.setName(paramType);
                    outputParameters.add(parameter);
                }
            }
        }
        getServiceDescriptionType().setInputParametersArray(inputParameters.toArray(new InputParameterType[] {}));
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        ServiceDescription serv = new ServiceDescription();
        serv.getType().setName(serviceName);

        InputParameterType input = InputParameterType.Factory.newInstance();
        input.setParameterName(inputName);
        ParameterType parameterType = input.addNewParameterType();
        parameterType.setType(DataType.Enum.forString(inputType));
        parameterType.setName(inputName);
        List<InputParameterType> inputList = new ArrayList<InputParameterType>();
        inputList.add(input);
        InputParameterType[] inputParamList = inputList.toArray(new InputParameterType[inputList
                .size()]);

        OutputParameterType output = OutputParameterType.Factory.newInstance();
        output.setParameterName(outputName);
        ParameterType parameterType1 = output.addNewParameterType();
        parameterType1.setType(DataType.Enum.forString(outputType));
        parameterType1.setName(outputName);
        List<OutputParameterType> outputList = new ArrayList<OutputParameterType>();
        outputList.add(output);
        OutputParameterType[] outputParamList = outputList
                .toArray(new OutputParameterType[outputList.size()]);
        serv.getType().setInputParametersArray(inputParamList);
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        InputParameterType[] inputParameterTypeArray = new InputParameterType[inputParams.size()];
        for (int i = 0; i < inputParams.size(); i++){
            InputParameterType parameter = InputParameterType.Factory.newInstance();
            parameter.setParameterName(inputParams.get(i).getName());
            parameter.setParameterValueArray(new String[]{inputParams.get(i).getName()});
            ParameterType parameterType = parameter.addNewParameterType();
            parameterType.setType(DataType.Enum.forString(inputParams.get(i).getType()));
            parameterType.setName(inputParams.get(i).getType());
            parameter.setParameterType(parameterType);
            inputParameterTypeArray[i] = parameter;
        }
        serviceDescription.getType().setInputParametersArray(inputParameterTypeArray);

        List<ServiceParameters> outputParams = serviceDescriptor.getOutputParams();
        OutputParameterType[] outputParameterTypeArray = new OutputParameterType[outputParams.size()];
        for (int i = 0; i < outputParams.size(); i++){
            OutputParameterType parameter = OutputParameterType.Factory.newInstance();
            parameter.setParameterName(outputParams.get(i).getName());
            ParameterType parameterType = parameter.addNewParameterType();
            parameterType.setType(DataType.Enum.forString(outputParams.get(i).getType()));
            parameterType.setName(outputParams.get(i).getType());
            parameter.setParameterType(parameterType);
            outputParameterTypeArray[i] = parameter;
        }
        serviceDescription.getType().setOutputParametersArray(outputParameterTypeArray);
        return serviceDescription;
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        serv.getType().setDescription(serviceName);

        //Creating input parameters
        InputParameterType parameter = InputParameterType.Factory.newInstance();
        parameter.setParameterName("molecule_id");
        ParameterType parameterType = parameter.addNewParameterType();
        parameterType.setType(DataType.STRING);
        parameterType.setName("String");
        inputParameters.add(parameter);

        parameter = InputParameterType.Factory.newInstance();
        parameter.setParameterName("geom_mol2");
        parameterType = parameter.addNewParameterType();
        parameterType.setType(DataType.URI);
        parameterType.setName("URI");
        inputParameters.add(parameter);

        parameter = InputParameterType.Factory.newInstance();
        parameter.setParameterName("toppar_main_tgz");
        parameterType = parameter.addNewParameterType();
        parameterType.setType(DataType.URI);
        parameterType.setName("URI");
        inputParameters.add(parameter);

        parameter = InputParameterType.Factory.newInstance();
        parameter.setParameterName("toppar_usr_tgz");
        parameterType = parameter.addNewParameterType();
        parameterType.setType(DataType.URI);
        parameterType.setName("URI");
        inputParameters.add(parameter);

        parameter = InputParameterType.Factory.newInstance();
        parameter.setParameterName("toppar_mol_str");
        parameterType = parameter.addNewParameterType();
        parameterType.setType(DataType.URI);
        parameterType.setName("URI");
        inputParameters.add(parameter);

        parameter = InputParameterType.Factory.newInstance();
        parameter.setParameterName("molecule_dir_in_tgz");
        parameterType = parameter.addNewParameterType();
        parameterType.setType(DataType.URI);
        parameterType.setName("URI");
        inputParameters.add(parameter);

        parameter = InputParameterType.Factory.newInstance();
        parameter.setParameterName("GC_UserName");
        parameterType = parameter.addNewParameterType();
        parameterType.setType(DataType.STRING);
        parameterType.setName("String");
        inputParameters.add(parameter);

        parameter = InputParameterType.Factory.newInstance();
        parameter.setParameterName("GC_ProjectName");
        parameterType = parameter.addNewParameterType();
        parameterType.setType(DataType.STRING);
        parameterType.setName("String");
        inputParameters.add(parameter);

        parameter = InputParameterType.Factory.newInstance();
        parameter.setParameterName("GC_WorkflowName");
        parameterType = parameter.addNewParameterType();
        parameterType.setType(DataType.STRING);
        parameterType.setName("String");
        inputParameters.add(parameter);

        //Creating output parameters
        OutputParameterType outputParameter = OutputParameterType.Factory.newInstance();
        outputParameter.setParameterName("opt_freq_input_gjf");
        ParameterType outputParaType = outputParameter.addNewParameterType();
        outputParaType.setType(DataType.URI);
        outputParaType.setName("URI");
        outputParameters.add(outputParameter);

        outputParameter = OutputParameterType.Factory.newInstance();
        outputParameter.setParameterName("charmm_miminized_crd");
        outputParaType = outputParameter.addNewParameterType();
        outputParaType.setType(DataType.URI);
        outputParaType.setName("URI");
        outputParameters.add(outputParameter);

        outputParameter = OutputParameterType.Factory.newInstance();
        outputParameter.setParameterName("step1_log");
        outputParaType = outputParameter.addNewParameterType();
        outputParaType.setType(DataType.URI);
        outputParaType.setName("URI");
        outputParameters.add(outputParameter);

        outputParameter = OutputParameterType.Factory.newInstance();
        outputParameter.setParameterName("molecule_dir_out_tgz");
        outputParaType = outputParameter.addNewParameterType();
        outputParaType.setType(DataType.URI);
        outputParaType.setName("URI");
        outputParameters.add(outputParameter);

        outputParameter = OutputParameterType.Factory.newInstance();
        outputParameter.setParameterName("gcvars");
        outputParaType = outputParameter.addNewParameterType();
        outputParaType.setType(DataType.URI);
        outputParaType.setName("URI");
        outputParameters.add(outputParameter);

        //Setting input and output parameters to serviceDescriptor
        serv.getType().setInputParametersArray(inputParameters.toArray(new InputParameterType[]{}));
        serv.getType().setOutputParametersArray(outputParameters.toArray(new OutputParameterType[]{}));
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