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

Class SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C extends SequencingDataLoaderConfig,B extends SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C,B>>

java.lang.Object

ubic.gemma.core.loader.expression.DataLoaderConfig.DataLoaderConfigBuilder<C,B>

ubic.gemma.core.loader.expression.sequencing.SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C,B>

Direct Known Subclasses:

SingleCellDataLoaderConfig.SingleCellDataLoaderConfigBuilder

Enclosing class:

SequencingDataLoaderConfig

public abstract static class SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C extends SequencingDataLoaderConfig,B extends SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C,B>>
extends DataLoaderConfig.DataLoaderConfigBuilder<C,B>

Constructor Summary

Constructors

Constructor	Description
SequencingDataLoaderConfigBuilder()

Method Summary

Modifier and Type	Method	Description
abstract C	build()
B	defaultSequencingMetadata(SequencingMetadata defaultSequencingMetadata)	Default sequencing metadata to use.
protected abstract B	self()
B	sequencingMetadataFile(Path sequencingMetadataFile)	File containing per-assay sequencing metadata.
String	toString()

Methods inherited from class ubic.gemma.core.loader.expression.DataLoaderConfig.DataLoaderConfigBuilder

dataPath, markQuantitationTypeAsPreferred, markQuantitationTypeAsRecomputedFromRawData, quantitationTypeName, quantitationTypeNewName, quantitationTypeNewScaleType, quantitationTypeNewType, renamingFile, replaceExistingQuantitationType

Methods inherited from class java.lang.Object

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

Constructor Details

SequencingDataLoaderConfigBuilder

public SequencingDataLoaderConfigBuilder()

Method Details

defaultSequencingMetadata

public B defaultSequencingMetadata(@Nullable
 SequencingMetadata defaultSequencingMetadata)

Default sequencing metadata to use.

This can be overwritten by the metadata file sequencingMetadataFile or by the delegate loader.

Returns:

this.

sequencingMetadataFile

public B sequencingMetadataFile(@Nullable
 Path sequencingMetadataFile)

File containing per-assay sequencing metadata.

Values from the file overrides the default metadata and the metadata from the delegate loader if any.

Returns:

this.

See Also:

• SequencingMetadataFileDataLoader

self

protected abstract B self()

Specified by:

self in class DataLoaderConfig.DataLoaderConfigBuilder<C extends SequencingDataLoaderConfig,B extends SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C,B>>

build

public abstract C build()

Specified by:

build in class DataLoaderConfig.DataLoaderConfigBuilder<C extends SequencingDataLoaderConfig,B extends SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C,B>>

toString

public String toString()

Overrides:

toString in class DataLoaderConfig.DataLoaderConfigBuilder<C extends SequencingDataLoaderConfig,B extends SequencingDataLoaderConfig.SequencingDataLoaderConfigBuilder<C,B>>