Package ubic.gemma.core.loader.expression.sequencing

Class AbstractDelegatingSequencingDataLoader

java.lang.Object

ubic.gemma.core.loader.expression.AbstractDelegatingDataLoader

ubic.gemma.core.loader.expression.sequencing.AbstractDelegatingSequencingDataLoader

All Implemented Interfaces:

Closeable, AutoCloseable, DataLoader, SequencingDataLoader

Direct Known Subclasses:

AbstractDelegatingSingleCellDataLoader, SequencingMetadataFileDataLoader

public abstract class AbstractDelegatingSequencingDataLoader
extends AbstractDelegatingDataLoader
implements SequencingDataLoader

Constructor Summary

Constructors

Modifier	Constructor	Description
protected	AbstractDelegatingSequencingDataLoader(SequencingDataLoader delegate)

Method Summary

Modifier and Type	Method	Description
Map<BioAssay,SequencingMetadata>	getSequencingMetadata(Collection<BioAssay> samples)	Retrieve various sequencing metadata if counting data is present.

Methods inherited from class ubic.gemma.core.loader.expression.AbstractDelegatingDataLoader

close, getFactors, getGenes, getQuantitationTypes, getSampleNames, getSamplesCharacteristics, setBioAssayToSampleNameMapper, setDesignElementToGeneMapper, setIgnoreUnmatchedDesignElements, setIgnoreUnmatchedSamples

Methods inherited from class java.lang.Object

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

Methods inherited from interface ubic.gemma.core.loader.expression.DataLoader

close, getFactors, getGenes, getQuantitationTypes, getSampleNames, getSamplesCharacteristics, setBioAssayToSampleNameMapper, setDesignElementToGeneMapper, setIgnoreUnmatchedDesignElements, setIgnoreUnmatchedSamples

Constructor Detail

AbstractDelegatingSequencingDataLoader

protected AbstractDelegatingSequencingDataLoader(SequencingDataLoader delegate)

Method Detail

getSequencingMetadata

public Map<BioAssay,SequencingMetadata> getSequencingMetadata(Collection<BioAssay> samples)
                                                             throws IOException

Description copied from interface: SequencingDataLoader

Retrieve various sequencing metadata if counting data is present.

Specified by:

getSequencingMetadata in interface SequencingDataLoader

Throws:

IOException