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Packages that use WaitingHandler | |
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com.compomics.util.db | This package contains database related classes. |
com.compomics.util.experiment.identification | This package contains experiment classes related to identifications. |
com.compomics.util.experiment.io.identifications | |
com.compomics.util.experiment.io.identifications.idfilereaders | This package contains experiment classes related to reading search engine files. |
com.compomics.util.experiment.io.massspectrometry | |
com.compomics.util.experiment.massspectrometry | This package contains experiment classes related to spectra. |
com.compomics.util.experiment.quantification | This package contains experiment classes related to quantification. |
com.compomics.util.gui.waiting.waitinghandlers |
Uses of WaitingHandler in com.compomics.util.db |
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Methods in com.compomics.util.db with parameters of type WaitingHandler | |
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void |
ObjectsCache.reduceMemoryConsumption(double share,
WaitingHandler waitingHandler)
Reduces the memory consumption by saving the given share of hits. |
void |
ObjectsCache.saveCache(WaitingHandler waitingHandler,
boolean emptyCache)
Saves the cache content in the database. |
Uses of WaitingHandler in com.compomics.util.experiment.identification |
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Methods in com.compomics.util.experiment.identification with parameters of type WaitingHandler | |
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void |
SequenceFactory.appendDecoySequences(File destinationFile,
WaitingHandler waitingHandler)
Appends decoy sequences to the desired file while displaying progress. |
void |
Identification.buildPeptidesAndProteins(WaitingHandler waitingHandler)
Creates the peptides and protein instances based on the spectrum matches. |
void |
SequenceFactory.loadFastaFile(File fastaFile,
WaitingHandler waitingHandler)
Loads a new FASTA file in the factory. |
Uses of WaitingHandler in com.compomics.util.experiment.io.identifications |
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Methods in com.compomics.util.experiment.io.identifications with parameters of type WaitingHandler | |
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HashSet<SpectrumMatch> |
IdfileReader.getAllSpectrumMatches(WaitingHandler waitingHandler)
This methods retrieves all the identifications from an identification file as a list of spectrum matches It is very important to close the file reader after creation. |
IdfileReader |
IdfileReaderFactory.getFileReader(File aFile,
WaitingHandler waitingHandler)
This method returns the proper identification file reader depending on the format of the provided file. |
Uses of WaitingHandler in com.compomics.util.experiment.io.identifications.idfilereaders |
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Methods in com.compomics.util.experiment.io.identifications.idfilereaders with parameters of type WaitingHandler | |
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HashSet<SpectrumMatch> |
XTandemIdfileReader.getAllSpectrumMatches(WaitingHandler waitingHandler)
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HashSet<SpectrumMatch> |
OMSSAIdfileReader.getAllSpectrumMatches(WaitingHandler waitingHandler)
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HashSet<SpectrumMatch> |
MascotIdfileReader.getAllSpectrumMatches(WaitingHandler waitingHandler)
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HashSet<SpectrumMatch> |
AndromedaIdfileReader.getAllSpectrumMatches(WaitingHandler waitingHandler)
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Constructors in com.compomics.util.experiment.io.identifications.idfilereaders with parameters of type WaitingHandler | |
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AndromedaIdfileReader(File resFile,
WaitingHandler waitingHandler)
Constructor for an Andromeda result file reader. |
Uses of WaitingHandler in com.compomics.util.experiment.io.massspectrometry |
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Methods in com.compomics.util.experiment.io.massspectrometry with parameters of type WaitingHandler | |
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static MgfIndex |
MgfReader.getIndexMap(File mgfFile,
WaitingHandler waitingHandler)
Returns the index of all spectra in the given MGF file. |
ArrayList<MgfIndex> |
MgfReader.splitFile(File mgfFile,
int nSpectra,
WaitingHandler waitingHandler)
Splits an mgf file into smaller ones and returns the indexes of the generated files. |
Uses of WaitingHandler in com.compomics.util.experiment.massspectrometry |
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Methods in com.compomics.util.experiment.massspectrometry with parameters of type WaitingHandler | |
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void |
SpectrumFactory.addSpectra(File spectrumFile,
WaitingHandler waitingHandler)
Add spectra to the factory. |
Uses of WaitingHandler in com.compomics.util.experiment.quantification |
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Methods in com.compomics.util.experiment.quantification with parameters of type WaitingHandler | |
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void |
Quantification.buildPeptidesAndProteinQuantifications(Identification identification,
WaitingHandler waitingHandler)
Creates the peptides and protein quantification instances based on the identification and the psm quantification. |
Uses of WaitingHandler in com.compomics.util.gui.waiting.waitinghandlers |
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Classes in com.compomics.util.gui.waiting.waitinghandlers that implement WaitingHandler | |
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class |
ProgressDialogX
A dialog for displaying information about progress. |
class |
WaitingDialog
A dialog displaying progress details. |
class |
WaitingHandlerCLIImpl
This class is an implementation of the WaitingHandler interface to be used when operating through the Command Line Interface. |
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