Uses of Class
eu.isas.reporter.cli.ReportCLIInputBean

Packages that use ReportCLIInputBean
Package
Description
eu.isas.reporter.cli
Package containing the CLI classes.

  • Uses of ReportCLIInputBean in eu.isas.reporter.cli

    Methods in eu.isas.reporter.cli that return ReportCLIInputBean
    Modifier and Type
    Method
    Description
    ReportCLIInputBean
    ReporterCLIInputBean.getReportCLIInputBean()
    Returns the report export options required.
    Methods in eu.isas.reporter.cli with parameters of type ReportCLIInputBean
    Modifier and Type
    Method
    Description
    static void
    CLIExportMethods.exportDocumentation(ReportCLIInputBean reportCLIInputBean, String reportType, com.compomics.util.waiting.WaitingHandler waitingHandler)
    Writes the documentation corresponding to an export given the command line arguments.
    static void
    CLIExportMethods.exportReport(ReportCLIInputBean reportCLIInputBean, String reportType, String experiment, eu.isas.peptideshaker.preferences.ProjectDetails projectDetails, com.compomics.util.experiment.identification.Identification identification, com.compomics.util.experiment.biology.genes.GeneMaps geneMaps, com.compomics.util.experiment.identification.features.IdentificationFeaturesGenerator identificationFeaturesGenerator, com.compomics.util.experiment.io.biology.protein.SequenceProvider sequenceProvider, com.compomics.util.experiment.mass_spectrometry.SpectrumProvider spectrumProvider, com.compomics.util.experiment.io.biology.protein.ProteinDetailsProvider proteinDetailsProvider, QuantificationFeaturesGenerator quantificationFeaturesGenerator, com.compomics.util.experiment.quantification.reporterion.ReporterIonQuantification reporterIonQuantification, ReporterSettings reporterSettings, com.compomics.util.parameters.identification.IdentificationParameters identificationParameters, int nSurroundingAA, com.compomics.util.parameters.quantification.spectrum_counting.SpectrumCountingParameters spectrumCountingParameters, com.compomics.util.waiting.WaitingHandler waitingHandler)
    Writes an export according to the command line settings contained in the reportCLIInputBean.
    Constructors in eu.isas.reporter.cli with parameters of type ReportCLIInputBean
    Modifier
    Constructor
    Description
     
    ReportCLI(ReportCLIInputBean reportCLIInputBean)
    Construct a new ReportCLI runnable from a ReportCLI Bean.