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

Interface DesignMetadata

All Superinterfaces:

Metadata

All Known Implementing Classes:

DesignMetadataImpl

public interface DesignMetadata
extends Metadata

This interface defines the design metadata.

Since:

2.0

Author:

Xavier Bauquet

Field Summary

Fields

Modifier and Type	Field	Description
static final String	ADDITIONAL_ANNOTATION_FILE_KEY
static final String	GENOME_FILE_KEY
static final String	GFF_FILE_KEY
static final String	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 interface fr.ens.biologie.genomique.eoulsan.design.Metadata

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

Field Details

GENOME_FILE_KEY

static final String GENOME_FILE_KEY

See Also:

• Constant Field Values

GFF_FILE_KEY

static final String GFF_FILE_KEY

See Also:

• Constant Field Values

GTF_FILE_KEY

static final String GTF_FILE_KEY

See Also:

• Constant Field Values

ADDITIONAL_ANNOTATION_FILE_KEY

static final String ADDITIONAL_ANNOTATION_FILE_KEY

See Also:

• Constant Field Values

Method Details

getGenomeFile

String getGenomeFile()

Get the genome file.

Returns:

the genome file

getGffFile

String getGffFile()

Get the GFF file.

Returns:

the GFF file

getGtfFile

String getGtfFile()

Get the GTF file.

Returns:

the GTF file

getAdditionalAnnotationFile

String getAdditionalAnnotationFile()

Get the additional annotation file.

Returns:

the additional annotation file

setGenomeFile

void setGenomeFile(String newGenomeFile)

Set the genome file.

Parameters:

newGenomeFile - the new genome file

setGffFile

void setGffFile(String newGffFile)

Set the gff file.

Parameters:

newGffFile - the new GFF file

setGtfFile

void setGtfFile(String newGtfFile)

Set the gff file.

Parameters:

newGtfFile - the new GTF file

setAdditionalAnnotationFile

void setAdditionalAnnotationFile(String newAdditionalAnotationFile)

Set the additional annotation file.

Parameters:

newAdditionalAnotationFile - the new additional annotation file

containsGenomeFile

boolean containsGenomeFile()

Test if the genomeFile field exists.

Returns:

true if the genomeFile field exists

containsGffFile

boolean containsGffFile()

Test if the gffFile field exists.

Returns:

the gffFile field exists

containsGtfFile

boolean containsGtfFile()

Test if the gtfFile field exists.

Returns:

the gtfFile field exists

containsAdditionalAnnotationFile

boolean containsAdditionalAnnotationFile()

Test if the additional annotation file field exists.

Returns:

the additional annotation file field exists