Package ca.corefacility.bioinformatics.irida.model.export

Class NcbiBioSampleFiles.Builder

java.lang.Object

ca.corefacility.bioinformatics.irida.model.export.NcbiBioSampleFiles.Builder

Enclosing class:

NcbiBioSampleFiles

public static class NcbiBioSampleFiles.Builder
extends java.lang.Object

Builder class for NcbiBioSampleFiles

Constructor Summary

Constructors

Constructor	Description
Builder()

Method Summary

Modifier and Type	Method	Description
NcbiBioSampleFiles.Builder	bioSample(java.lang.String bioSample)	BioSample identifier for these files
NcbiBioSampleFiles	build()	Build an instance of NcbiBioSampleFiles
NcbiBioSampleFiles.Builder	files(java.util.Set<SingleEndSequenceFile> files)	set the single end files
NcbiBioSampleFiles.Builder	instrumentModel(NcbiInstrumentModel instrument_model)	Sequencer model that created these files
NcbiBioSampleFiles.Builder	libraryConstructionProtocol(java.lang.String library_construction_protocol)	String describing the library construction protocol
NcbiBioSampleFiles.Builder	libraryName(java.lang.String library_name)	Name of the library for these files
NcbiBioSampleFiles.Builder	librarySelection(NcbiLibrarySelection library_selection)	Method used to select the library for these files
NcbiBioSampleFiles.Builder	librarySource(NcbiLibrarySource library_source)	Set the library source
NcbiBioSampleFiles.Builder	libraryStrategy(NcbiLibraryStrategy library_strategy)	Strategy used for generating this library
NcbiBioSampleFiles.Builder	namespace(java.lang.String namespace)	Namespace for generating the submission identifier
NcbiBioSampleFiles.Builder	pairs(java.util.Set<SequenceFilePair> pairs)	set the file pairs

Methods inherited from class java.lang.Object

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

Constructor Detail

Builder

public Builder()

Method Detail

files

public NcbiBioSampleFiles.Builder files(java.util.Set<SingleEndSequenceFile> files)

set the single end files

Parameters:

files - the single end files

Returns:

the builder

pairs

public NcbiBioSampleFiles.Builder pairs(java.util.Set<SequenceFilePair> pairs)

set the file pairs

Parameters:

pairs - the file pairs

Returns:

the builder

instrumentModel

public NcbiBioSampleFiles.Builder instrumentModel(NcbiInstrumentModel instrument_model)

Sequencer model that created these files

Parameters:

instrument_model - NcbiInstrumentModel instance

Returns:

NcbiBioSampleFiles.Builder

libraryName

public NcbiBioSampleFiles.Builder libraryName(java.lang.String library_name)

Name of the library for these files

Parameters:

library_name - String name

Returns:

NcbiBioSampleFiles.Builder

librarySelection

public NcbiBioSampleFiles.Builder librarySelection(NcbiLibrarySelection library_selection)

Method used to select the library for these files

Parameters:

library_selection - NcbiLibrarySelection

Returns:

NcbiBioSampleFiles.Builder

librarySource

public NcbiBioSampleFiles.Builder librarySource(NcbiLibrarySource library_source)

Set the library source

Parameters:

library_source - the library_source

Returns:

a builder

libraryStrategy

public NcbiBioSampleFiles.Builder libraryStrategy(NcbiLibraryStrategy library_strategy)

Strategy used for generating this library

Parameters:

library_strategy - NcbiLibraryStrategy

Returns:

NcbiBioSampleFiles.Builder

libraryConstructionProtocol

public NcbiBioSampleFiles.Builder libraryConstructionProtocol(java.lang.String library_construction_protocol)

String describing the library construction protocol

Parameters:

library_construction_protocol - String protocol description

Returns:

NcbiBioSampleFiles.Builder

bioSample

public NcbiBioSampleFiles.Builder bioSample(java.lang.String bioSample)

BioSample identifier for these files

Parameters:

bioSample - String BioSample id

Returns:

NcbiBioSampleFiles.Builder

namespace

public NcbiBioSampleFiles.Builder namespace(java.lang.String namespace)

Namespace for generating the submission identifier

Parameters:

namespace - String namespace

Returns:

NcbiBioSampleFiles.Builder

build

public NcbiBioSampleFiles build()

Build an instance of NcbiBioSampleFiles

Returns:

Newly constructd NcbiBioSampleFiles