eu.isas.peptideshaker.export

Class PsdbExporter

java.lang.Object

eu.isas.peptideshaker.export.PsdbExporter

public class PsdbExporter
extends Object

This class exports a PeptideShaker project as pdsb file.

Author:

Marc Vaudel

Constructor Summary

Constructors

Constructor and Description
PsdbExporter()

Method Summary

Modifier and Type

Method and Description

static void

saveAs(File destinationFile, com.compomics.util.waiting.WaitingHandler waitingHandler, com.compomics.util.experiment.identification.Identification identification, com.compomics.util.parameters.identification.IdentificationParameters identificationParameters, com.compomics.util.experiment.io.biology.protein.SequenceProvider sequenceProvider, com.compomics.util.experiment.io.biology.protein.ProteinDetailsProvider proteinDetailsProvider, com.compomics.util.parameters.quantification.spectrum_counting.SpectrumCountingParameters spectrumCountingParameters, ProjectDetails projectDetails, com.compomics.util.gui.filtering.FilterParameters filterParameters, com.compomics.util.experiment.identification.peptide_shaker.Metrics metrics, com.compomics.util.experiment.biology.genes.GeneMaps geneMaps, com.compomics.util.parameters.peptide_shaker.ProjectType projectType, com.compomics.util.experiment.identification.features.IdentificationFeaturesCache identificationFeaturesCache, boolean emptyCache, DisplayParameters displayParameters, File dbFolder) Saves the given data in a psdb file.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

PsdbExporter

public PsdbExporter()

Method Detail

saveAs

public static void saveAs(File destinationFile,
                          com.compomics.util.waiting.WaitingHandler waitingHandler,
                          com.compomics.util.experiment.identification.Identification identification,
                          com.compomics.util.parameters.identification.IdentificationParameters identificationParameters,
                          com.compomics.util.experiment.io.biology.protein.SequenceProvider sequenceProvider,
                          com.compomics.util.experiment.io.biology.protein.ProteinDetailsProvider proteinDetailsProvider,
                          com.compomics.util.parameters.quantification.spectrum_counting.SpectrumCountingParameters spectrumCountingParameters,
                          ProjectDetails projectDetails,
                          com.compomics.util.gui.filtering.FilterParameters filterParameters,
                          com.compomics.util.experiment.identification.peptide_shaker.Metrics metrics,
                          com.compomics.util.experiment.biology.genes.GeneMaps geneMaps,
                          com.compomics.util.parameters.peptide_shaker.ProjectType projectType,
                          com.compomics.util.experiment.identification.features.IdentificationFeaturesCache identificationFeaturesCache,
                          boolean emptyCache,
                          DisplayParameters displayParameters,
                          File dbFolder)
                   throws IOException

Saves the given data in a psdb file.

Parameters:

destinationFile - the destination psdb file

waitingHandler - a waiting handler used to cancel the saving

identification - the identification to save

sequenceProvider - the sequence provider

identificationParameters - the identification parameters

proteinDetailsProvider - the protein details providers

spectrumCountingParameters - the spectrum counting preferences

projectDetails - the project details

filterParameters - the filtering preferences

displayParameters - the display preferences

metrics - the dataset

projectType - the project type

geneMaps - the gene maps

identificationFeaturesCache - the identification features cache

emptyCache - a boolean indicating whether the object cache should be emptied

dbFolder - the path to the folder where the database is located

Throws:

IOException - thrown whenever an error occurred while reading or writing a file