au.csiro.ontology.input

Class RF2Input

java.lang.Object

au.csiro.ontology.input.Input

au.csiro.ontology.input.RF2Input

public class RF2Input
extends Input

An RF set of input files.

Author:

Alejandro Metke

Nested Class Summary

Nested classes/interfaces inherited from class au.csiro.ontology.input.Input

Input.InputType

Field Summary

Fields

Modifier and Type	Field and Description
protected Set<String>	annotationRefsetFiles
protected Set<String>	associationRefsetFiles
protected Set<String>	attributeValueRefsetFiles
protected Set<String>	complexMapRefsetFiles
protected Set<String>	conceptsFiles
protected Set<String>	concreteDomainRefsetFiles
protected Set<String>	descriptionFormatRefsetFiles
protected Set<String>	descriptionsFiles
protected Set<String>	identifiersFiles
protected Set<String>	languageRefsetFiles
protected Set<String>	moduleDependenciesRefsetFiles
protected List<ModuleInfo>	modules
protected Set<String>	orderedRefsetFiles
protected Set<String>	querySpecificationRefsetFiles
protected Set<String>	refsetDescriptorRefsetFiles
protected Set<String>	relationshipsFiles
protected Inputs.ReleaseType	releaseType
protected Set<String>	simpleMapRefsetFiles
protected Set<String>	simpleRefsetFiles
protected Set<String>	statedRelationshipsFiles
protected Set<String>	textDefinitionsFiles

Fields inherited from class au.csiro.ontology.input.Input

base, inputType, zip

Constructor Summary

Constructors

Constructor and Description
RF2Input() Constructor.

Method Summary

Methods

Modifier and Type	Method and Description
Set<String>	getAnnotationRefsetFiles()
Set<String>	getAssociationRefsetFiles()
Set<String>	getAttributeValueRefsetFiles()
Set<String>	getComplexMapRefsetFiles()
Set<String>	getConceptsFiles()
Set<String>	getConcreteDomainRefsetFiles()
Set<String>	getDescriptionFormatRefsetFiles()
Set<String>	getDescriptionsFiles()
Set<String>	getIdentifiersFiles()
Set<String>	getLanguageRefsetFiles()
Set<String>	getModuleDependenciesRefsetFiles()
List<ModuleInfo>	getModules()
Set<String>	getOrderedRefsetFiles()
Set<String>	getQuerySpecificationRefsetFiles()
Set<String>	getRefsetDescriptorRefsetFiles()
Set<String>	getRelationshipsFiles()
Inputs.ReleaseType	getReleaseType()
Set<String>	getSimpleMapRefsetFiles()
Set<String>	getSimpleRefsetFiles()
Set<String>	getStatedRelationshipsFiles()
Set<String>	getTextDefinitionsFiles()
void	setAnnotationRefsetFiles(Set<String> annotationRefsetFiles)
void	setAssociationRefsetFiles(Set<String> associationRefsetFiles)
void	setAttributeValueRefsetFiles(Set<String> attributeValueRefsetFiles)
void	setComplexMapRefsetFiles(Set<String> complexMapRefsetFiles)
void	setConceptsFiles(Set<String> conceptsFiles)
void	setConcreteDomainRefsetFiles(Set<String> concreteDomainRefsetFiles)
void	setDescriptionFormatRefsetFiles(Set<String> descriptionFormatRefsetFiles)
void	setDescriptionsFiles(Set<String> descriptionsFiles)
void	setIdentifiersFiles(Set<String> identifiersFiles)
void	setLanguageRefsetFiles(Set<String> languageRefsetFiles)
void	setModuleDependenciesRefsetFiles(Set<String> moduleDependenciesRefsetFiles)
void	setModules(List<ModuleInfo> modules)
void	setOrderedRefsetFiles(Set<String> orderedRefsetFiles)
void	setQuerySpecificationRefsetFiles(Set<String> querySpecificationRefsetFiles)
void	setRefsetDescriptorRefsetFiles(Set<String> refsetDescriptorRefsetFiles)
void	setRelationshipsFiles(Set<String> relationshipsFiles)
void	setReleaseType(Inputs.ReleaseType releaseType)
void	setSimpleMapRefsetFiles(Set<String> simpleMapRefsetFiles)
void	setSimpleRefsetFiles(Set<String> simpleRefsetFiles)
void	setStatedRelationshipsFiles(Set<String> statedRelationshipsFiles)
void	setTextDefinitionsFile(Set<String> textDefinitionsFiles)

Methods inherited from class au.csiro.ontology.input.Input

close, getBase, getInputStream, getInputType, setBase, setInputType

Methods inherited from class java.lang.Object

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

Field Detail

conceptsFiles

protected Set<String> conceptsFiles

descriptionsFiles

protected Set<String> descriptionsFiles

identifiersFiles

protected Set<String> identifiersFiles

relationshipsFiles

protected Set<String> relationshipsFiles

statedRelationshipsFiles

protected Set<String> statedRelationshipsFiles

textDefinitionsFiles

protected Set<String> textDefinitionsFiles

refsetDescriptorRefsetFiles

protected Set<String> refsetDescriptorRefsetFiles

descriptionFormatRefsetFiles

protected Set<String> descriptionFormatRefsetFiles

moduleDependenciesRefsetFiles

protected Set<String> moduleDependenciesRefsetFiles

languageRefsetFiles

protected Set<String> languageRefsetFiles

simpleRefsetFiles

protected Set<String> simpleRefsetFiles

orderedRefsetFiles

protected Set<String> orderedRefsetFiles

attributeValueRefsetFiles

protected Set<String> attributeValueRefsetFiles

simpleMapRefsetFiles

protected Set<String> simpleMapRefsetFiles

complexMapRefsetFiles

protected Set<String> complexMapRefsetFiles

querySpecificationRefsetFiles

protected Set<String> querySpecificationRefsetFiles

annotationRefsetFiles

protected Set<String> annotationRefsetFiles

associationRefsetFiles

protected Set<String> associationRefsetFiles

concreteDomainRefsetFiles

protected Set<String> concreteDomainRefsetFiles

releaseType

protected Inputs.ReleaseType releaseType

modules

protected List<ModuleInfo> modules

Constructor Detail

RF2Input

public RF2Input()

Constructor.

Method Detail

getConceptsFiles

public Set<String> getConceptsFiles()

Returns:

the conceptsFiles

setConceptsFiles

public void setConceptsFiles(Set<String> conceptsFiles)

Parameters:

conceptsFiles - the conceptsFiles to set

getDescriptionsFiles

public Set<String> getDescriptionsFiles()

Returns:

the descriptionsFiles

setDescriptionsFiles

public void setDescriptionsFiles(Set<String> descriptionsFiles)

Parameters:

descriptionsFiles - the descriptionsFiles to set

getIdentifiersFiles

public Set<String> getIdentifiersFiles()

Returns:

the identifiersFiles

setIdentifiersFiles

public void setIdentifiersFiles(Set<String> identifiersFiles)

Parameters:

identifiersFiles - the identifiersFiles to set

getRelationshipsFiles

public Set<String> getRelationshipsFiles()

Returns:

the relationshipsFiles

setRelationshipsFiles

public void setRelationshipsFiles(Set<String> relationshipsFiles)

Parameters:

relationshipsFiles - the relationshipsFiles to set

getStatedRelationshipsFiles

public Set<String> getStatedRelationshipsFiles()

Returns:

the statedRelationshipsFiles

setStatedRelationshipsFiles

public void setStatedRelationshipsFiles(Set<String> statedRelationshipsFiles)

Parameters:

statedRelationshipsFiles - the statedRelationshipsFiles to set

getTextDefinitionsFiles

public Set<String> getTextDefinitionsFiles()

Returns:

the textDefinitionsFiles

setTextDefinitionsFile

public void setTextDefinitionsFile(Set<String> textDefinitionsFiles)

Parameters:

textDefinitionsFiles - the textDefinitionsFiles to set

getRefsetDescriptorRefsetFiles

public Set<String> getRefsetDescriptorRefsetFiles()

Returns:

the refsetDescriptorRefsetFiles

setRefsetDescriptorRefsetFiles

public void setRefsetDescriptorRefsetFiles(Set<String> refsetDescriptorRefsetFiles)

Parameters:

refsetDescriptorRefsetFiles - the refsetDescriptorRefsetFiles to set

getDescriptionFormatRefsetFiles

public Set<String> getDescriptionFormatRefsetFiles()

Returns:

the descriptionFormatRefsetFiles

setDescriptionFormatRefsetFiles

public void setDescriptionFormatRefsetFiles(Set<String> descriptionFormatRefsetFiles)

Parameters:

descriptionFormatRefsetFiles - the descriptionFormatRefsetFiles to set

getModuleDependenciesRefsetFiles

public Set<String> getModuleDependenciesRefsetFiles()

Returns:

the moduleDependenciesRefsetFiles

setModuleDependenciesRefsetFiles

public void setModuleDependenciesRefsetFiles(Set<String> moduleDependenciesRefsetFiles)

Parameters:

moduleDependenciesRefsetFiles - the moduleDependenciesRefsetFiles to set

getLanguageRefsetFiles

public Set<String> getLanguageRefsetFiles()

Returns:

the languageRefsetFiles

setLanguageRefsetFiles

public void setLanguageRefsetFiles(Set<String> languageRefsetFiles)

Parameters:

languageRefsetFiles - the languageRefsetFiles to set

getSimpleRefsetFiles

public Set<String> getSimpleRefsetFiles()

Returns:

the simpleRefsetFiles

setSimpleRefsetFiles

public void setSimpleRefsetFiles(Set<String> simpleRefsetFiles)

Parameters:

simpleRefsetFiles - the simpleRefsetFiles to set

getOrderedRefsetFiles

public Set<String> getOrderedRefsetFiles()

Returns:

the orderedRefsetFiles

setOrderedRefsetFiles

public void setOrderedRefsetFiles(Set<String> orderedRefsetFiles)

Parameters:

orderedRefsetFiles - the orderedRefsetFiles to set

getAttributeValueRefsetFiles

public Set<String> getAttributeValueRefsetFiles()

Returns:

the attributeValueRefsetFiles

setAttributeValueRefsetFiles

public void setAttributeValueRefsetFiles(Set<String> attributeValueRefsetFiles)

Parameters:

attributeValueRefsetFiles - the attributeValueRefsetFiles to set

getSimpleMapRefsetFiles

public Set<String> getSimpleMapRefsetFiles()

Returns:

the simpleMapRefsetFiles

setSimpleMapRefsetFiles

public void setSimpleMapRefsetFiles(Set<String> simpleMapRefsetFiles)

Parameters:

simpleMapRefsetFiles - the simpleMapRefsetFiles to set

getComplexMapRefsetFiles

public Set<String> getComplexMapRefsetFiles()

Returns:

the complexMapRefsetFiles

setComplexMapRefsetFiles

public void setComplexMapRefsetFiles(Set<String> complexMapRefsetFiles)

Parameters:

complexMapRefsetFiles - the complexMapRefsetFiles to set

getQuerySpecificationRefsetFiles

public Set<String> getQuerySpecificationRefsetFiles()

Returns:

the querySpecificationRefsetFiles

setQuerySpecificationRefsetFiles

public void setQuerySpecificationRefsetFiles(Set<String> querySpecificationRefsetFiles)

Parameters:

querySpecificationRefsetFiles - the querySpecificationRefsetFiles to set

getAnnotationRefsetFiles

public Set<String> getAnnotationRefsetFiles()

Returns:

the annotationRefsetFiles

setAnnotationRefsetFiles

public void setAnnotationRefsetFiles(Set<String> annotationRefsetFiles)

Parameters:

annotationRefsetFiles - the annotationRefsetFiles to set

getAssociationRefsetFiles

public Set<String> getAssociationRefsetFiles()

Returns:

the associationRefsetFiles

setAssociationRefsetFiles

public void setAssociationRefsetFiles(Set<String> associationRefsetFiles)

Parameters:

associationRefsetFiles - the associationRefsetFiles to set

getConcreteDomainRefsetFiles

public Set<String> getConcreteDomainRefsetFiles()

Returns:

the concreteDomainRefsetFiles

setConcreteDomainRefsetFiles

public void setConcreteDomainRefsetFiles(Set<String> concreteDomainRefsetFiles)

Parameters:

concreteDomainRefsetFiles - the concreteDomainRefsetFiles to set

getReleaseType

public Inputs.ReleaseType getReleaseType()

Returns:

the releaseType

setReleaseType

public void setReleaseType(Inputs.ReleaseType releaseType)

Parameters:

releaseType - the releaseType to set

getModules

public List<ModuleInfo> getModules()

Returns:

the modules

setModules

public void setModules(List<ModuleInfo> modules)

Parameters:

modules - the modules to set