RF2Input (Internal Core Ontology Model 4.0.0 API)

java.lang.Object
- au.csiro.ontology.input.Input
- - au.csiro.ontology.input.RF2Input

```
public class RF2Input
extends Input
```
An set of RF2 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>`	`attributeDomainRefsetFiles`
`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>`	`nnfRelationshipsFiles`
`protected Set<String>`	`orderedRefsetFiles`
`protected Set<String>`	`owlAxiomRefsetFiles`
`protected Set<String>`	`owlExpressionRefsetFiles`
`protected Set<String>`	`owlOntologyRefsetFiles`
`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.

Constructors
Constructor and Description
`RF2Input()` Constructor.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method and Description
`Set<String>`	`getAnnotationRefsetFiles()`
`Set<String>`	`getAssociationRefsetFiles()`
`Set<String>`	`getAttributeDomainRefsetFiles()`
`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>`	`getNnfRelationshipsFiles()`
`Set<String>`	`getOrderedRefsetFiles()`
`Set<String>`	`getOwlAxiomRefsetFiles()`
`Set<String>`	`getOwlExpressionRefsetFiles()`
`Set<String>`	`getOwlOntologyRefsetFiles()`
`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`	`setAttributeDomainRefsetFiles(Set<String> attributeDomainRefsetFiles)`
`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`	`setNnfRelationshipsFiles(Set<String> relationshipsFiles)`
`void`	`setOrderedRefsetFiles(Set<String> orderedRefsetFiles)`
`void`	`setOwlAxiomRefsetFiles(Set<String> owlAxiomRefsetFiles)`
`void`	`setOwlExpressionRefsetFiles(Set<String> owlExpressionRefsetFiles)`
`void`	`setOwlOntologyRefsetFiles(Set<String> owlOntologyRefsetFiles)`
`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)`
`void`	`setTextDefinitionsFiles(Set<String> textDefinitionsFiles)`
`void`	`validate()`

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

nnfRelationshipsFiles

protected Set<String> nnfRelationshipsFiles

textDefinitionsFiles

protected Set<String> textDefinitionsFiles

owlOntologyRefsetFiles

protected Set<String> owlOntologyRefsetFiles

owlAxiomRefsetFiles

protected Set<String> owlAxiomRefsetFiles

owlExpressionRefsetFiles

protected Set<String> owlExpressionRefsetFiles

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

attributeDomainRefsetFiles

protected Set<String> attributeDomainRefsetFiles

releaseType

protected Inputs.ReleaseType releaseType

modules
```
protected List<ModuleInfo> modules
```

Constructor Detail
- RF2Input
```
public RF2Input()
```
  Constructor.

Method Detail
- validate
```
public void validate()
```
  Overrides:
  
  validate in class Input
- 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
- getNnfRelationshipsFiles
```
public Set<String> getNnfRelationshipsFiles()
```
  Returns:
  
  the relationshipsFiles
- setNnfRelationshipsFiles
```
public void setNnfRelationshipsFiles(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
- getOwlExpressionRefsetFiles
```
public Set<String> getOwlExpressionRefsetFiles()
```
- setOwlExpressionRefsetFiles
```
public void setOwlExpressionRefsetFiles(Set<String> owlExpressionRefsetFiles)
```
- 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
- getAttributeDomainRefsetFiles
```
public Set<String> getAttributeDomainRefsetFiles()
```
  Returns:
  
  the attributeDomainRefsetFiles
- setAttributeDomainRefsetFiles
```
public void setAttributeDomainRefsetFiles(Set<String> attributeDomainRefsetFiles)
```
  Parameters:
  
  attributeDomainRefsetFiles - the attributeDomainRefsetFiles 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
- getRelationshipsFiles
```
public Set<String> getRelationshipsFiles()
```
- setRelationshipsFiles
```
public void setRelationshipsFiles(Set<String> relationshipsFiles)
```
- getOwlOntologyRefsetFiles
```
public Set<String> getOwlOntologyRefsetFiles()
```
- setOwlOntologyRefsetFiles
```
public void setOwlOntologyRefsetFiles(Set<String> owlOntologyRefsetFiles)
```
- getOwlAxiomRefsetFiles
```
public Set<String> getOwlAxiomRefsetFiles()
```
- setOwlAxiomRefsetFiles
```
public void setOwlAxiomRefsetFiles(Set<String> owlAxiomRefsetFiles)
```
- setTextDefinitionsFiles
```
public void setTextDefinitionsFiles(Set<String> textDefinitionsFiles)
```

Class RF2Input

Nested Class Summary

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

Field Summary

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

Constructor Summary

Method Summary

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

Methods inherited from class java.lang.Object

Field Detail

conceptsFiles

descriptionsFiles

identifiersFiles

relationshipsFiles

statedRelationshipsFiles

nnfRelationshipsFiles

textDefinitionsFiles

owlOntologyRefsetFiles

owlAxiomRefsetFiles

owlExpressionRefsetFiles

refsetDescriptorRefsetFiles

descriptionFormatRefsetFiles

moduleDependenciesRefsetFiles

languageRefsetFiles

simpleRefsetFiles

orderedRefsetFiles

attributeValueRefsetFiles

simpleMapRefsetFiles

complexMapRefsetFiles

querySpecificationRefsetFiles

annotationRefsetFiles

associationRefsetFiles

concreteDomainRefsetFiles

attributeDomainRefsetFiles

releaseType

modules

Constructor Detail

RF2Input

Method Detail

validate

getConceptsFiles

setConceptsFiles

getDescriptionsFiles

setDescriptionsFiles

getIdentifiersFiles

setIdentifiersFiles

getNnfRelationshipsFiles

setNnfRelationshipsFiles

getStatedRelationshipsFiles

setStatedRelationshipsFiles

getTextDefinitionsFiles

setTextDefinitionsFile

getOwlExpressionRefsetFiles

setOwlExpressionRefsetFiles

getRefsetDescriptorRefsetFiles

setRefsetDescriptorRefsetFiles

getDescriptionFormatRefsetFiles

setDescriptionFormatRefsetFiles

getModuleDependenciesRefsetFiles

setModuleDependenciesRefsetFiles

getLanguageRefsetFiles

setLanguageRefsetFiles

getSimpleRefsetFiles

setSimpleRefsetFiles

getOrderedRefsetFiles

setOrderedRefsetFiles

getAttributeValueRefsetFiles

setAttributeValueRefsetFiles

getSimpleMapRefsetFiles

setSimpleMapRefsetFiles

getComplexMapRefsetFiles

setComplexMapRefsetFiles

getQuerySpecificationRefsetFiles

setQuerySpecificationRefsetFiles

getAnnotationRefsetFiles

setAnnotationRefsetFiles

getAssociationRefsetFiles

setAssociationRefsetFiles

getConcreteDomainRefsetFiles

setConcreteDomainRefsetFiles