Package fr.ens.biologie.genomique.eoulsan.design

Class DesignMetadataImpl

java.lang.Object

fr.ens.biologie.genomique.eoulsan.design.AbstractMetadata

fr.ens.biologie.genomique.eoulsan.design.DesignMetadataImpl

All Implemented Interfaces:

DesignMetadata, Metadata, Serializable

public class DesignMetadataImpl
extends AbstractMetadata
implements DesignMetadata

This class defines the default implementation of the design metadata.

Since:

2.0

Author:

Xavier Bauquet

See Also:

• Serialized Form

Field Summary

Fields inherited from interface fr.ens.biologie.genomique.eoulsan.design.DesignMetadata

ADDITIONAL_ANNOTATION_FILE_KEY, GENOME_FILE_KEY, GFF_FILE_KEY, GTF_FILE_KEY

Method Summary

Modifier and Type	Method	Description
boolean	containsAdditionalAnnotationFile()	Test if the additional annotation file field exists.
boolean	containsGenomeFile()	Test if the genomeFile field exists.
boolean	containsGffFile()	Test if the gffFile field exists.
boolean	containsGtfFile()	Test if the gtfFile field exists.
String	getAdditionalAnnotationFile()	Get the additional annotation file.
String	getGenomeFile()	Get the genome file.
String	getGffFile()	Get the GFF file.
String	getGtfFile()	Get the GTF file.
void	setAdditionalAnnotationFile(String newAdditionalAnotationFile)	Set the additional annotation file.
void	setGenomeFile(String newGenomeFile)	Set the genome file.
void	setGffFile(String newGffFile)	Set the gff file.
void	setGtfFile(String newGtfFile)	Set the gff file.

Methods inherited from class fr.ens.biologie.genomique.eoulsan.design.AbstractMetadata

contains, entrySet, equals, get, getAsBoolean, getAsList, getTrimmed, hashCode, isEmpty, keySet, remove, set, set, size, toString

Methods inherited from class java.lang.Object

getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface fr.ens.biologie.genomique.eoulsan.design.Metadata

contains, entrySet, get, getAsBoolean, getAsList, getTrimmed, isEmpty, keySet, remove, set, set, size

Method Details

getGenomeFile

public String getGenomeFile()

Description copied from interface: DesignMetadata

Get the genome file.

Specified by:

getGenomeFile in interface DesignMetadata

Returns:

the genome file

getGffFile

public String getGffFile()

Description copied from interface: DesignMetadata

Get the GFF file.

Specified by:

getGffFile in interface DesignMetadata

Returns:

the GFF file

getGtfFile

public String getGtfFile()

Description copied from interface: DesignMetadata

Get the GTF file.

Specified by:

getGtfFile in interface DesignMetadata

Returns:

the GTF file

getAdditionalAnnotationFile

public String getAdditionalAnnotationFile()

Description copied from interface: DesignMetadata

Get the additional annotation file.

Specified by:

getAdditionalAnnotationFile in interface DesignMetadata

Returns:

the additional annotation file

setGenomeFile

public void setGenomeFile(String newGenomeFile)

Description copied from interface: DesignMetadata

Set the genome file.

Specified by:

setGenomeFile in interface DesignMetadata

Parameters:

newGenomeFile - the new genome file

setGffFile

public void setGffFile(String newGffFile)

Description copied from interface: DesignMetadata

Set the gff file.

Specified by:

setGffFile in interface DesignMetadata

Parameters:

newGffFile - the new GFF file

setGtfFile

public void setGtfFile(String newGtfFile)

Description copied from interface: DesignMetadata

Set the gff file.

Specified by:

setGtfFile in interface DesignMetadata

Parameters:

newGtfFile - the new GTF file

setAdditionalAnnotationFile

public void setAdditionalAnnotationFile(String newAdditionalAnotationFile)

Description copied from interface: DesignMetadata

Set the additional annotation file.

Specified by:

setAdditionalAnnotationFile in interface DesignMetadata

Parameters:

newAdditionalAnotationFile - the new additional annotation file

containsGenomeFile

public boolean containsGenomeFile()

Description copied from interface: DesignMetadata

Test if the genomeFile field exists.

Specified by:

containsGenomeFile in interface DesignMetadata

Returns:

true if the genomeFile field exists

containsGffFile

public boolean containsGffFile()

Description copied from interface: DesignMetadata

Test if the gffFile field exists.

Specified by:

containsGffFile in interface DesignMetadata

Returns:

the gffFile field exists

containsGtfFile

public boolean containsGtfFile()

Description copied from interface: DesignMetadata

Test if the gtfFile field exists.

Specified by:

containsGtfFile in interface DesignMetadata

Returns:

the gtfFile field exists

containsAdditionalAnnotationFile

public boolean containsAdditionalAnnotationFile()

Description copied from interface: DesignMetadata

Test if the additional annotation file field exists.

Specified by:

containsAdditionalAnnotationFile in interface DesignMetadata

Returns:

the additional annotation file field exists