Uses of Class
fr.ens.biologie.genomique.aozan.aozan3.RunData
-
-
Uses of RunData in fr.ens.biologie.genomique.aozan.aozan3
Methods in fr.ens.biologie.genomique.aozan.aozan3 that return RunData Modifier and Type Method Description RunData
RunData. newCategory(DataType.Category category)
Create a new RunType object from the current object with a new category.RunData
RunData. newLocation(DataLocation location)
Create a new RunData object from the current object with a new location.static RunData
RunDataFactory. newPartialProcessedIlluminaRunData(DataStorage storage, Path path, SequencerSource source)
Create a new Illumina partial processed run data.static RunData
RunDataFactory. newPartialRawIlluminaRunData(DataStorage storage, Path path, SequencerSource source)
Create a new partial Illumina run data.static RunData
RunDataFactory. newProcessedIlluminaRunData(DataStorage storage, Path path, SequencerSource source)
Create a new Illumina processed run data.static RunData
RunDataFactory. newRawIlluminaRunData(DataStorage storage, Path path, SequencerSource source)
Create a new Illumina run data.RunData
RunData. newRunId(RunId runId)
Create a new RunData object from the current object with a new run Id.RunData
RunData. newTechnology(DataType.SequencingTechnology technology)
Create a new RunType object from the current object with a new technology.RunData
RunData. newType(DataType type)
Create a new RunData object from the current object with a new type.RunData
RunData. newType(String type)
Create a new RunType object from the current object with a new type.RunData
RunData. setLogOnly(boolean logOnly)
Create a new RunType object from the current object with a new log only setting.RunData
RunData. setPartialData(boolean partialData)
Create a new RunType object from the current object with a new partial data setting. -
Uses of RunData in fr.ens.biologie.genomique.aozan.aozan3.dataprocessor
Methods in fr.ens.biologie.genomique.aozan.aozan3.dataprocessor that return RunData Modifier and Type Method Description RunData
InputData. get(DataType dataType)
Get the first RunData with a matching data type.RunData
InputData. get(DataType.Category category)
Get a RunData from its data type.RunData
InputData. getLastRunData()
RunData
InputData. getTheOnlyElement()
Get the only RunData element in the collectionMethods in fr.ens.biologie.genomique.aozan.aozan3.dataprocessor that return types with arguments of type RunData Modifier and Type Method Description Set<RunData>
InputData. entries()
Get all the entries in the collectionSet<RunData>
DataProcessor.ProcessResult. getRunData()
Get the output data.Set<RunData>
SimpleProcessResult. getRunData()
Methods in fr.ens.biologie.genomique.aozan.aozan3.dataprocessor with parameters of type RunData Modifier and Type Method Description void
InputData. add(RunData runData)
Add a run data.Method parameters in fr.ens.biologie.genomique.aozan.aozan3.dataprocessor with type arguments of type RunData Modifier and Type Method Description void
InputData. add(Collection<RunData> collection)
Add a run data.Constructors in fr.ens.biologie.genomique.aozan.aozan3.dataprocessor with parameters of type RunData Constructor Description InputData(RunData runData)
Create a new object with one elementSimpleProcessResult(RunData outputRunData, EmailMessage email)
Constructor.Constructor parameters in fr.ens.biologie.genomique.aozan.aozan3.dataprocessor with type arguments of type RunData Constructor Description InputData(Collection<RunData> runData)
Create a new object with the content of a collection of RunData objects.SimpleProcessResult(Set<RunData> outputRunData, EmailMessage email)
Constructor. -
Uses of RunData in fr.ens.biologie.genomique.aozan.aozan3.dataprovider
Methods in fr.ens.biologie.genomique.aozan.aozan3.dataprovider that return types with arguments of type RunData Modifier and Type Method Description List<RunData>
EmptyRunDataProvider. listCompletedRunData(Collection<RunId> excludedRuns)
List<RunData>
IlluminaProcessedRunDataProvider. listCompletedRunData(Collection<RunId> excludedRuns)
List<RunData>
IlluminaRawRunDataProvider. listCompletedRunData(Collection<RunId> excludedRuns)
default List<RunData>
RunDataProvider. listCompletedRunData()
List available completed runs.List<RunData>
RunDataProvider. listCompletedRunData(Collection<RunId> excludedRuns)
List available runs in progress.List<RunData>
EmptyRunDataProvider. listInProgressRunData(Collection<RunId> excludedRuns)
List<RunData>
IlluminaProcessedRunDataProvider. listInProgressRunData(Collection<RunId> excludedRuns)
List<RunData>
IlluminaRawRunDataProvider. listInProgressRunData(Collection<RunId> excludedRuns)
default List<RunData>
RunDataProvider. listInProgressRunData()
List available runs in progress.List<RunData>
RunDataProvider. listInProgressRunData(Collection<RunId> excludedRuns)
List available runs in progress. -
Uses of RunData in fr.ens.biologie.genomique.aozan.aozan3.log
Methods in fr.ens.biologie.genomique.aozan.aozan3.log with parameters of type RunData Modifier and Type Method Description void
Aozan3Logger. debug(RunData runData, String message)
Log a debug message.static void
Aozan3Logger. debug(fr.ens.biologie.genomique.kenetre.log.GenericLogger logger, RunData runData, String message)
Log a debug message.void
Aozan3Logger. error(RunData runData, String message)
Log an error message.void
Aozan3Logger. error(RunData runData, Throwable exception)
Log an error message.static void
Aozan3Logger. error(fr.ens.biologie.genomique.kenetre.log.GenericLogger logger, RunData runData, String message)
Log an error message.static void
Aozan3Logger. error(fr.ens.biologie.genomique.kenetre.log.GenericLogger logger, RunData runData, Throwable exception)
Log an error message.void
Aozan3Logger. info(RunData runData, String message)
Log an info message.static void
Aozan3Logger. info(fr.ens.biologie.genomique.kenetre.log.GenericLogger logger, RunData runData, String message)
Log an info message.void
Aozan3Logger. warn(RunData runData, String message)
Log a warning message.static void
Aozan3Logger. warn(fr.ens.biologie.genomique.kenetre.log.GenericLogger logger, RunData runData, String message)
Log a warning message. -
Uses of RunData in fr.ens.biologie.genomique.aozan.aozan3.runconfigurationprovider
Methods in fr.ens.biologie.genomique.aozan.aozan3.runconfigurationprovider with parameters of type RunData Modifier and Type Method Description RunConfiguration
EmptyRunConfigurationProvider. getRunConfiguration(RunData runData)
RunConfiguration
IlluminaSamplesheetRunConfigurationProvider. getRunConfiguration(RunData runData)
RunConfiguration
RunConfigurationProvider. getRunConfiguration(RunData runData)
Get the run configuration for a run data
-