GVFMeta (HAPI FHIR - Core Library 0.7 API)

java.lang.Object
- ca.uhn.fhir.model.api.BaseElement
- - ca.uhn.fhir.model.api.BaseResource
  - - ca.uhn.fhir.model.dstu.resource.GVFMeta

All Implemented Interfaces:

ICompositeElement, IElement, IResource, ISupportsUndeclaredExtensions
```
public class GVFMeta
extends BaseResource
implements IResource
```
HAPI/FHIR GVFMeta Resource (Meta data of a GVF file)
Definition: Pragmas from a GVF

Requirements:

Profile Definition: http://hl7.org/fhir/profiles/GVFMeta

Nested Class Summary

Nested Classes
Modifier and Type	Class and Description
`static class`	`GVFMeta.Platform` Block class for child element: GVFMeta.platform (Sequencing platform)
`static class`	`GVFMeta.Subject` Block class for child element: GVFMeta.subject (Subject being described by the file)

Field Summary

Fields
Modifier and Type	Field and Description
`static StringClientParam`	`FILE` Fluent Client search parameter constant for file
`static Include`	`INCLUDE_SUBJECT_PATIENT` Constant for fluent queries to be used to add include statements.
`static ReferenceClientParam`	`PATIENT` Fluent Client search parameter constant for patient
`static String`	`SP_FILE` Search parameter constant for file
`static String`	`SP_PATIENT` Search parameter constant for patient

Fields inherited from class ca.uhn.fhir.model.api.BaseResource
SP_RES_ID, SP_RES_LANGUAGE

Constructor Summary

Constructors
Constructor and Description

GVFMeta()

Constructors
Constructor and Description
`GVFMeta()`

Method Summary

Methods
Modifier and Type	Method and Description
`StringDt`	`addIndividual()` Adds and returns a new value for individual (Id of individual being described in the file)
`GVFMeta`	`addIndividual(String theString)` Adds a new value for individual (Id of individual being described in the file)
`GVFMeta.Subject`	`addSubject()` Adds and returns a new value for subject (Subject being described by the file)
`<T extends IElement> List<T>`	`getAllPopulatedChildElementsOfType(Class<T> theType)` Returns a list containing all child elements matching a given type
`CodeDt`	`getCaptureMethod()` Gets the value(s) for captureMethod (Capture method).
`UriDt`	`getCaptureRegions()` Gets the value(s) for captureRegions (Region captured in the file).
`UriDt`	`getFeatureGFF3()` Gets the value(s) for featureGFF3 (GFF3 file containing feature being described in the file).
`DateDt`	`getFileDate()` Gets the value(s) for fileDate (Date when the file is updated).
`CodeDt`	`getGenomicSource()` Gets the value(s) for genomicSource (Source of the sample).
`CodeDt`	`getGvfVersion()` Gets the value(s) for gvfVersion (Version of the GVF file).
`List<StringDt>`	`getIndividual()` Gets the value(s) for individual (Id of individual being described in the file).
`StringDt`	`getIndividualFirstRep()` Gets the first repetition for individual (Id of individual being described in the file), creating it if it does not already exist.
`GVFMeta.Platform`	`getPlatform()` Gets the value(s) for platform (Sequencing platform).
`CodeDt`	`getPopulation()` Gets the value(s) for population (Code for population which the individual can be categorized into).
`UriDt`	`getReferenceFasta()` Gets the value(s) for referenceFasta (FASTA file used as reference assembly).
`StringDt`	`getSampleDescription()` Gets the value(s) for sampleDescription (Description of sample used in the sequencing).
`StringDt`	`getSequenceAlignment()` Gets the value(s) for sequenceAlignment (Sequence alignment algorithm/pipline used).
`CodeDt`	`getSequencingScope()` Gets the value(s) for sequencingScope (Sequencing scope).
`AttachmentDt`	`getSourceFile()` Gets the value(s) for sourceFile (Source GVF file).
`List<GVFMeta.Subject>`	`getSubject()` Gets the value(s) for subject (Subject being described by the file).
`GVFMeta.Subject`	`getSubjectFirstRep()` Gets the first repetition for subject (Subject being described by the file), creating it if it does not already exist.
`StringDt`	`getVariantCalling()` Gets the value(s) for variantCalling (Pipline used for variant calling).
`boolean`	`isEmpty()`
`GVFMeta`	`setCaptureMethod(CodeDt theValue)` Sets the value(s) for captureMethod (Capture method)
`GVFMeta`	`setCaptureMethod(String theCode)` Sets the value for captureMethod (Capture method)
`GVFMeta`	`setCaptureRegions(String theUri)` Sets the value for captureRegions (Region captured in the file)
`GVFMeta`	`setCaptureRegions(UriDt theValue)` Sets the value(s) for captureRegions (Region captured in the file)
`GVFMeta`	`setFeatureGFF3(String theUri)` Sets the value for featureGFF3 (GFF3 file containing feature being described in the file)
`GVFMeta`	`setFeatureGFF3(UriDt theValue)` Sets the value(s) for featureGFF3 (GFF3 file containing feature being described in the file)
`GVFMeta`	`setFileDate(DateDt theValue)` Sets the value(s) for fileDate (Date when the file is updated)
`GVFMeta`	`setFileDate(Date theDate, TemporalPrecisionEnum thePrecision)` Sets the value for fileDate (Date when the file is updated)
`GVFMeta`	`setFileDateWithDayPrecision(Date theDate)` Sets the value for fileDate (Date when the file is updated)
`GVFMeta`	`setGenomicSource(CodeDt theValue)` Sets the value(s) for genomicSource (Source of the sample)
`GVFMeta`	`setGenomicSource(String theCode)` Sets the value for genomicSource (Source of the sample)
`GVFMeta`	`setGvfVersion(CodeDt theValue)` Sets the value(s) for gvfVersion (Version of the GVF file)
`GVFMeta`	`setGvfVersion(String theCode)` Sets the value for gvfVersion (Version of the GVF file)
`GVFMeta`	`setIndividual(List<StringDt> theValue)` Sets the value(s) for individual (Id of individual being described in the file)
`GVFMeta`	`setPlatform(GVFMeta.Platform theValue)` Sets the value(s) for platform (Sequencing platform)
`GVFMeta`	`setPopulation(CodeDt theValue)` Sets the value(s) for population (Code for population which the individual can be categorized into)
`GVFMeta`	`setPopulation(String theCode)` Sets the value for population (Code for population which the individual can be categorized into)
`GVFMeta`	`setReferenceFasta(String theUri)` Sets the value for referenceFasta (FASTA file used as reference assembly)
`GVFMeta`	`setReferenceFasta(UriDt theValue)` Sets the value(s) for referenceFasta (FASTA file used as reference assembly)
`GVFMeta`	`setSampleDescription(String theString)` Sets the value for sampleDescription (Description of sample used in the sequencing)
`GVFMeta`	`setSampleDescription(StringDt theValue)` Sets the value(s) for sampleDescription (Description of sample used in the sequencing)
`GVFMeta`	`setSequenceAlignment(String theString)` Sets the value for sequenceAlignment (Sequence alignment algorithm/pipline used)
`GVFMeta`	`setSequenceAlignment(StringDt theValue)` Sets the value(s) for sequenceAlignment (Sequence alignment algorithm/pipline used)
`GVFMeta`	`setSequencingScope(CodeDt theValue)` Sets the value(s) for sequencingScope (Sequencing scope)
`GVFMeta`	`setSequencingScope(String theCode)` Sets the value for sequencingScope (Sequencing scope)
`GVFMeta`	`setSourceFile(AttachmentDt theValue)` Sets the value(s) for sourceFile (Source GVF file)
`GVFMeta`	`setSubject(List<GVFMeta.Subject> theValue)` Sets the value(s) for subject (Subject being described by the file)
`GVFMeta`	`setVariantCalling(String theString)` Sets the value for variantCalling (Pipline used for variant calling)
`GVFMeta`	`setVariantCalling(StringDt theValue)` Sets the value(s) for variantCalling (Pipline used for variant calling)

Methods inherited from class ca.uhn.fhir.model.api.BaseResource
getContained, getId, getLanguage, getResourceMetadata, getText, isBaseEmpty, setContained, setId, setId, setLanguage, setResourceMetadata, setText, toString

Methods inherited from class ca.uhn.fhir.model.api.BaseElement
addUndeclaredExtension, addUndeclaredExtension, addUndeclaredExtension, getAllUndeclaredExtensions, getUndeclaredExtensions, getUndeclaredExtensionsByUrl, getUndeclaredModifierExtensions

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface ca.uhn.fhir.model.api.IResource
getContained, getId, getLanguage, getResourceMetadata, getText, setId, setLanguage, setResourceMetadata

- Field Detail
  - SP_PATIENT
```
public static final String SP_PATIENT
```
    Search parameter constant for patient
    Description: Patient being described in the file
    Type: reference
    Path: GVFMeta.subject.patient
    
    See Also:
    Constant Field Values
  - PATIENT
```
public static final ReferenceClientParam PATIENT
```
    Fluent Client search parameter constant for patient
    Description: Patient being described in the file
    Type: reference
    Path: GVFMeta.subject.patient
  - INCLUDE_SUBJECT_PATIENT
```
public static final Include INCLUDE_SUBJECT_PATIENT
```
    Constant for fluent queries to be used to add include statements. Specifies the path value of "GVFMeta.subject.patient".
  - SP_FILE
```
public static final String SP_FILE
```
    Search parameter constant for file
    Description: URL to source file of the resource
    Type: string
    Path: GVFMeta.sourceFile
    
    See Also:
    Constant Field Values
  - FILE
```
public static final StringClientParam FILE
```
    Fluent Client search parameter constant for file
    Description: URL to source file of the resource
    Type: string
    Path: GVFMeta.sourceFile
- Constructor Detail
  - GVFMeta
```
public GVFMeta()
```
- Method Detail
  - isEmpty
```
public boolean isEmpty()
```
    Specified by:
    
    isEmpty in interface IElement
  - getAllPopulatedChildElementsOfType
```
public <T extends IElement> List<T> getAllPopulatedChildElementsOfType(Class<T> theType)
```
    Description copied from interface: ICompositeElement
    
    Returns a list containing all child elements matching a given type
    
    Specified by:
    
    getAllPopulatedChildElementsOfType in interface ICompositeElement
    
    Parameters:
    theType - The type to match. If set to null, all child elements will be returned
  - getSubject
```
public List<GVFMeta.Subject> getSubject()
```
    Gets the value(s) for subject (Subject being described by the file). creating it if it does not exist. Will not return null.
    Definition: Subject being described by the file
  - setSubject
```
public GVFMeta setSubject(List<GVFMeta.Subject> theValue)
```
    Sets the value(s) for subject (Subject being described by the file)
    Definition: Subject being described by the file
  - addSubject
```
public GVFMeta.Subject addSubject()
```
    Adds and returns a new value for subject (Subject being described by the file)
    Definition: Subject being described by the file
  - getSubjectFirstRep
```
public GVFMeta.Subject getSubjectFirstRep()
```
    Gets the first repetition for subject (Subject being described by the file), creating it if it does not already exist.
    Definition: Subject being described by the file
  - getSourceFile
```
public AttachmentDt getSourceFile()
```
    Gets the value(s) for sourceFile (Source GVF file). creating it if it does not exist. Will not return null.
    Definition: GVF file from which data of the resource is extracted
  - setSourceFile
```
public GVFMeta setSourceFile(AttachmentDt theValue)
```
    Sets the value(s) for sourceFile (Source GVF file)
    Definition: GVF file from which data of the resource is extracted
  - getGvfVersion
```
public CodeDt getGvfVersion()
```
    Gets the value(s) for gvfVersion (Version of the GVF file). creating it if it does not exist. Will not return null.
    Definition: Valid version of the GVF file
  - setGvfVersion
```
public GVFMeta setGvfVersion(CodeDt theValue)
```
    Sets the value(s) for gvfVersion (Version of the GVF file)
    Definition: Valid version of the GVF file
  - setGvfVersion
```
public GVFMeta setGvfVersion(String theCode)
```
    Sets the value for gvfVersion (Version of the GVF file)
    Definition: Valid version of the GVF file
  - getReferenceFasta
```
public UriDt getReferenceFasta()
```
    Gets the value(s) for referenceFasta (FASTA file used as reference assembly). creating it if it does not exist. Will not return null.
    Definition: URL to FASTA file used as reference assembly
  - setReferenceFasta
```
public GVFMeta setReferenceFasta(UriDt theValue)
```
    Sets the value(s) for referenceFasta (FASTA file used as reference assembly)
    Definition: URL to FASTA file used as reference assembly
  - setReferenceFasta
```
public GVFMeta setReferenceFasta(String theUri)
```
    Sets the value for referenceFasta (FASTA file used as reference assembly)
    Definition: URL to FASTA file used as reference assembly
  - getFeatureGFF3
```
public UriDt getFeatureGFF3()
```
    Gets the value(s) for featureGFF3 (GFF3 file containing feature being described in the file). creating it if it does not exist. Will not return null.
    Definition: GFF3 file containing feature being described in the file
  - setFeatureGFF3
```
public GVFMeta setFeatureGFF3(UriDt theValue)
```
    Sets the value(s) for featureGFF3 (GFF3 file containing feature being described in the file)
    Definition: GFF3 file containing feature being described in the file
  - setFeatureGFF3
```
public GVFMeta setFeatureGFF3(String theUri)
```
    Sets the value for featureGFF3 (GFF3 file containing feature being described in the file)
    Definition: GFF3 file containing feature being described in the file
  - getFileDate
```
public DateDt getFileDate()
```
    Gets the value(s) for fileDate (Date when the file is updated). creating it if it does not exist. Will not return null.
    Definition: Date when the file is updated
  - setFileDate
```
public GVFMeta setFileDate(DateDt theValue)
```
    Sets the value(s) for fileDate (Date when the file is updated)
    Definition: Date when the file is updated
  - setFileDateWithDayPrecision
```
public GVFMeta setFileDateWithDayPrecision(Date theDate)
```
    Sets the value for fileDate (Date when the file is updated)
    Definition: Date when the file is updated
  - setFileDate
```
public GVFMeta setFileDate(Date theDate,
                  TemporalPrecisionEnum thePrecision)
```
    Sets the value for fileDate (Date when the file is updated)
    Definition: Date when the file is updated
  - getIndividual
```
public List<StringDt> getIndividual()
```
    Gets the value(s) for individual (Id of individual being described in the file). creating it if it does not exist. Will not return null.
    Definition: Id of individual being described in the file
  - setIndividual
```
public GVFMeta setIndividual(List<StringDt> theValue)
```
    Sets the value(s) for individual (Id of individual being described in the file)
    Definition: Id of individual being described in the file
  - addIndividual
```
public StringDt addIndividual()
```
    Adds and returns a new value for individual (Id of individual being described in the file)
    Definition: Id of individual being described in the file
  - getIndividualFirstRep
```
public StringDt getIndividualFirstRep()
```
    Gets the first repetition for individual (Id of individual being described in the file), creating it if it does not already exist.
    Definition: Id of individual being described in the file
  - addIndividual
```
public GVFMeta addIndividual(String theString)
```
    Adds a new value for individual (Id of individual being described in the file)
    Definition: Id of individual being described in the file
    
    Returns:
    Returns a reference to this object, to allow for simple chaining.
  - getPopulation
```
public CodeDt getPopulation()
```
    Gets the value(s) for population (Code for population which the individual can be categorized into). creating it if it does not exist. Will not return null.
    Definition: Code for population which the individual can be categorized into
  - setPopulation
```
public GVFMeta setPopulation(CodeDt theValue)
```
    Sets the value(s) for population (Code for population which the individual can be categorized into)
    Definition: Code for population which the individual can be categorized into
  - setPopulation
```
public GVFMeta setPopulation(String theCode)
```
    Sets the value for population (Code for population which the individual can be categorized into)
    Definition: Code for population which the individual can be categorized into
  - getPlatform
```
public GVFMeta.Platform getPlatform()
```
    Gets the value(s) for platform (Sequencing platform). creating it if it does not exist. Will not return null.
    Definition: Technology platform used in the sequencing
  - setPlatform
```
public GVFMeta setPlatform(GVFMeta.Platform theValue)
```
    Sets the value(s) for platform (Sequencing platform)
    Definition: Technology platform used in the sequencing
  - getSequencingScope
```
public CodeDt getSequencingScope()
```
    Gets the value(s) for sequencingScope (Sequencing scope). creating it if it does not exist. Will not return null.
    Definition: Scope of the sequencing
  - setSequencingScope
```
public GVFMeta setSequencingScope(CodeDt theValue)
```
    Sets the value(s) for sequencingScope (Sequencing scope)
    Definition: Scope of the sequencing
  - setSequencingScope
```
public GVFMeta setSequencingScope(String theCode)
```
    Sets the value for sequencingScope (Sequencing scope)
    Definition: Scope of the sequencing
  - getCaptureMethod
```
public CodeDt getCaptureMethod()
```
    Gets the value(s) for captureMethod (Capture method). creating it if it does not exist. Will not return null.
    Definition: Capture method used in the sequencing
  - setCaptureMethod
```
public GVFMeta setCaptureMethod(CodeDt theValue)
```
    Sets the value(s) for captureMethod (Capture method)
    Definition: Capture method used in the sequencing
  - setCaptureMethod
```
public GVFMeta setCaptureMethod(String theCode)
```
    Sets the value for captureMethod (Capture method)
    Definition: Capture method used in the sequencing
  - getCaptureRegions
```
public UriDt getCaptureRegions()
```
    Gets the value(s) for captureRegions (Region captured in the file). creating it if it does not exist. Will not return null.
    Definition: Region captured in the file
  - setCaptureRegions
```
public GVFMeta setCaptureRegions(UriDt theValue)
```
    Sets the value(s) for captureRegions (Region captured in the file)
    Definition: Region captured in the file
  - setCaptureRegions
```
public GVFMeta setCaptureRegions(String theUri)
```
    Sets the value for captureRegions (Region captured in the file)
    Definition: Region captured in the file
  - getSequenceAlignment
```
public StringDt getSequenceAlignment()
```
    Gets the value(s) for sequenceAlignment (Sequence alignment algorithm/pipline used). creating it if it does not exist. Will not return null.
    Definition: Sequence alignment algorithm/pipline used
  - setSequenceAlignment
```
public GVFMeta setSequenceAlignment(StringDt theValue)
```
    Sets the value(s) for sequenceAlignment (Sequence alignment algorithm/pipline used)
    Definition: Sequence alignment algorithm/pipline used
  - setSequenceAlignment
```
public GVFMeta setSequenceAlignment(String theString)
```
    Sets the value for sequenceAlignment (Sequence alignment algorithm/pipline used)
    Definition: Sequence alignment algorithm/pipline used
  - getVariantCalling
```
public StringDt getVariantCalling()
```
    Gets the value(s) for variantCalling (Pipline used for variant calling). creating it if it does not exist. Will not return null.
    Definition: Pipline used for variant calling
  - setVariantCalling
```
public GVFMeta setVariantCalling(StringDt theValue)
```
    Sets the value(s) for variantCalling (Pipline used for variant calling)
    Definition: Pipline used for variant calling
  - setVariantCalling
```
public GVFMeta setVariantCalling(String theString)
```
    Sets the value for variantCalling (Pipline used for variant calling)
    Definition: Pipline used for variant calling
  - getSampleDescription
```
public StringDt getSampleDescription()
```
    Gets the value(s) for sampleDescription (Description of sample used in the sequencing). creating it if it does not exist. Will not return null.
    Definition: Description of sample used in the sequencing
  - setSampleDescription
```
public GVFMeta setSampleDescription(StringDt theValue)
```
    Sets the value(s) for sampleDescription (Description of sample used in the sequencing)
    Definition: Description of sample used in the sequencing
  - setSampleDescription
```
public GVFMeta setSampleDescription(String theString)
```
    Sets the value for sampleDescription (Description of sample used in the sequencing)
    Definition: Description of sample used in the sequencing
  - getGenomicSource
```
public CodeDt getGenomicSource()
```
    Gets the value(s) for genomicSource (Source of the sample). creating it if it does not exist. Will not return null.
    Definition: Source of the sample
  - setGenomicSource
```
public GVFMeta setGenomicSource(CodeDt theValue)
```
    Sets the value(s) for genomicSource (Source of the sample)
    Definition: Source of the sample
  - setGenomicSource
```
public GVFMeta setGenomicSource(String theCode)
```
    Sets the value for genomicSource (Source of the sample)
    Definition: Source of the sample

Class GVFMeta

Nested Class Summary

Field Summary

Fields inherited from class ca.uhn.fhir.model.api.BaseResource

Constructor Summary

Method Summary

Methods inherited from class ca.uhn.fhir.model.api.BaseResource

Methods inherited from class ca.uhn.fhir.model.api.BaseElement

Methods inherited from class java.lang.Object

Methods inherited from interface ca.uhn.fhir.model.api.IResource

Field Detail

SP_PATIENT

PATIENT

INCLUDE_SUBJECT_PATIENT

SP_FILE

FILE

Constructor Detail

GVFMeta

Method Detail

isEmpty

getAllPopulatedChildElementsOfType

getSubject

setSubject

addSubject

getSubjectFirstRep

getSourceFile

setSourceFile

getGvfVersion

setGvfVersion

setGvfVersion

getReferenceFasta

setReferenceFasta

setReferenceFasta

getFeatureGFF3

setFeatureGFF3

setFeatureGFF3

getFileDate

setFileDate

setFileDateWithDayPrecision

setFileDate

getIndividual

setIndividual

addIndividual

getIndividualFirstRep

addIndividual

getPopulation

setPopulation

setPopulation

getPlatform

setPlatform

getSequencingScope

setSequencingScope

setSequencingScope

getCaptureMethod

setCaptureMethod

setCaptureMethod

getCaptureRegions

setCaptureRegions

setCaptureRegions

getSequenceAlignment

setSequenceAlignment

setSequenceAlignment

getVariantCalling

setVariantCalling

setVariantCalling

getSampleDescription

setSampleDescription

setSampleDescription

getGenomicSource

setGenomicSource

setGenomicSource