package ca.uhn.fhir.model.dstu.resource;
import java.util.Date;
import java.util.List;
import ca.uhn.fhir.model.api.BaseElement;
import ca.uhn.fhir.model.api.BaseResource;
import ca.uhn.fhir.model.api.IElement;
import ca.uhn.fhir.model.api.IResource;
import ca.uhn.fhir.model.api.IResourceBlock;
import ca.uhn.fhir.model.api.TemporalPrecisionEnum;
import ca.uhn.fhir.model.api.annotation.Block;
import ca.uhn.fhir.model.api.annotation.Child;
import ca.uhn.fhir.model.api.annotation.Description;
import ca.uhn.fhir.model.api.annotation.ResourceDef;
import ca.uhn.fhir.model.dstu.composite.AttachmentDt;
import ca.uhn.fhir.model.dstu.composite.ResourceReferenceDt;
import ca.uhn.fhir.model.primitive.CodeDt;
import ca.uhn.fhir.model.primitive.DateDt;
import ca.uhn.fhir.model.primitive.IntegerDt;
import ca.uhn.fhir.model.primitive.StringDt;
import ca.uhn.fhir.model.primitive.UriDt;
/**
* HAPI/FHIR <b>GVFMeta</b> Resource
* (Meta data of a GVF file)
*
* <p>
* <b>Definition:</b>
* Pragmas from a GVF
* </p>
*
* <p>
* <b>Requirements:</b>
*
* </p>
*
* <p>
* <b>Profile Definition:</b>
* <a href="http://hl7.org/fhir/profiles/GVFMeta">http://hl7.org/fhir/profiles/GVFMeta</a>
* </p>
*
*/
@ResourceDef(name="GVFMeta", profile="http://hl7.org/fhir/profiles/GVFMeta", id="gvfmeta")
public class GVFMeta extends BaseResource implements IResource {
/**
* Search parameter constant for <b>patient</b>
* <p>
* Description: <b>Patient being described in the file</b><br/>
* Type: <b>reference</b><br/>
* Path: <b>GVFMeta.subject.patient</b><br/>
* </p>
*/
public static final String SP_PATIENT = "patient";
/**
* Search parameter constant for <b>file</b>
* <p>
* Description: <b>URL to source file of the resource</b><br/>
* Type: <b>string</b><br/>
* Path: <b>GVFMeta.sourceFile</b><br/>
* </p>
*/
public static final String SP_FILE = "file";
@Child(name="subject", order=0, min=0, max=Child.MAX_UNLIMITED)
@Description(
shortDefinition="Subject being described by the file",
formalDefinition="Subject being described by the file"
)
private java.util.List<Subject> mySubject;
@Child(name="sourceFile", type=AttachmentDt.class, order=1, min=1, max=1)
@Description(
shortDefinition="Source GVF file",
formalDefinition="GVF file from which data of the resource is extracted"
)
private AttachmentDt mySourceFile;
@Child(name="gvfVersion", type=CodeDt.class, order=2, min=0, max=1)
@Description(
shortDefinition="Version of the GVF file",
formalDefinition="Valid version of the GVF file"
)
private CodeDt myGvfVersion;
@Child(name="referenceFasta", type=UriDt.class, order=3, min=0, max=1)
@Description(
shortDefinition="FASTA file used as reference assembly",
formalDefinition="URL to FASTA file used as reference assembly"
)
private UriDt myReferenceFasta;
@Child(name="featureGFF3", type=UriDt.class, order=4, min=0, max=1)
@Description(
shortDefinition="GFF3 file containing feature being described in the file",
formalDefinition="GFF3 file containing feature being described in the file"
)
private UriDt myFeatureGFF3;
@Child(name="fileDate", type=DateDt.class, order=5, min=0, max=1)
@Description(
shortDefinition="Date when the file is updated",
formalDefinition="Date when the file is updated"
)
private DateDt myFileDate;
@Child(name="individual", type=StringDt.class, order=6, min=0, max=Child.MAX_UNLIMITED)
@Description(
shortDefinition="Id of individual being described in the file",
formalDefinition="Id of individual being described in the file"
)
private java.util.List<StringDt> myIndividual;
@Child(name="population", type=CodeDt.class, order=7, min=0, max=1)
@Description(
shortDefinition="Code for population which the individual can be categorized into",
formalDefinition="Code for population which the individual can be categorized into"
)
private CodeDt myPopulation;
@Child(name="platform", order=8, min=0, max=1)
@Description(
shortDefinition="Sequencing platform",
formalDefinition="Technology platform used in the sequencing"
)
private Platform myPlatform;
@Child(name="sequencingScope", type=CodeDt.class, order=9, min=0, max=1)
@Description(
shortDefinition="Sequencing scope",
formalDefinition="Scope of the sequencing"
)
private CodeDt mySequencingScope;
@Child(name="captureMethod", type=CodeDt.class, order=10, min=0, max=1)
@Description(
shortDefinition="Capture method",
formalDefinition="Capture method used in the sequencing"
)
private CodeDt myCaptureMethod;
@Child(name="captureRegions", type=UriDt.class, order=11, min=0, max=1)
@Description(
shortDefinition="Region captured in the file",
formalDefinition="Region captured in the file"
)
private UriDt myCaptureRegions;
@Child(name="sequenceAlignment", type=StringDt.class, order=12, min=0, max=1)
@Description(
shortDefinition="Sequence alignment algorithm/pipline used",
formalDefinition="Sequence alignment algorithm/pipline used"
)
private StringDt mySequenceAlignment;
@Child(name="variantCalling", type=StringDt.class, order=13, min=0, max=1)
@Description(
shortDefinition="Pipline used for variant calling",
formalDefinition="Pipline used for variant calling"
)
private StringDt myVariantCalling;
@Child(name="sampleDescription", type=StringDt.class, order=14, min=0, max=1)
@Description(
shortDefinition="Description of sample used in the sequencing",
formalDefinition="Description of sample used in the sequencing"
)
private StringDt mySampleDescription;
@Child(name="genomicSource", type=CodeDt.class, order=15, min=0, max=1)
@Description(
shortDefinition="Source of the sample",
formalDefinition="Source of the sample"
)
private CodeDt myGenomicSource;
@Override
public boolean isEmpty() {
return super.isBaseEmpty() && ca.uhn.fhir.util.ElementUtil.isEmpty( mySubject, mySourceFile, myGvfVersion, myReferenceFasta, myFeatureGFF3, myFileDate, myIndividual, myPopulation, myPlatform, mySequencingScope, myCaptureMethod, myCaptureRegions, mySequenceAlignment, myVariantCalling, mySampleDescription, myGenomicSource);
}
@Override
public java.util.List<IElement> getAllPopulatedChildElements() {
return getAllPopulatedChildElementsOfType(null);
}
@Override
public <T extends IElement> List<T> getAllPopulatedChildElementsOfType(Class<T> theType) {
return ca.uhn.fhir.util.ElementUtil.allPopulatedChildElements(theType, mySubject, mySourceFile, myGvfVersion, myReferenceFasta, myFeatureGFF3, myFileDate, myIndividual, myPopulation, myPlatform, mySequencingScope, myCaptureMethod, myCaptureRegions, mySequenceAlignment, myVariantCalling, mySampleDescription, myGenomicSource);
}
/**
* Gets the value(s) for <b>subject</b> (Subject being described by the file).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Subject being described by the file
* </p>
*/
public java.util.List<Subject> getSubject() {
if (mySubject == null) {
mySubject = new java.util.ArrayList<Subject>();
}
return mySubject;
}
/**
* Sets the value(s) for <b>subject</b> (Subject being described by the file)
*
* <p>
* <b>Definition:</b>
* Subject being described by the file
* </p>
*/
public GVFMeta setSubject(java.util.List<Subject> theValue) {
mySubject = theValue;
return this;
}
/**
* Adds and returns a new value for <b>subject</b> (Subject being described by the file)
*
* <p>
* <b>Definition:</b>
* Subject being described by the file
* </p>
*/
public Subject addSubject() {
Subject newType = new Subject();
getSubject().add(newType);
return newType;
}
/**
* Gets the first repetition for <b>subject</b> (Subject being described by the file),
* creating it if it does not already exist.
*
* <p>
* <b>Definition:</b>
* Subject being described by the file
* </p>
*/
public Subject getSubjectFirstRep() {
if (getSubject().isEmpty()) {
return addSubject();
}
return getSubject().get(0);
}
/**
* Gets the value(s) for <b>sourceFile</b> (Source GVF file).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* GVF file from which data of the resource is extracted
* </p>
*/
public AttachmentDt getSourceFile() {
if (mySourceFile == null) {
mySourceFile = new AttachmentDt();
}
return mySourceFile;
}
/**
* Sets the value(s) for <b>sourceFile</b> (Source GVF file)
*
* <p>
* <b>Definition:</b>
* GVF file from which data of the resource is extracted
* </p>
*/
public GVFMeta setSourceFile(AttachmentDt theValue) {
mySourceFile = theValue;
return this;
}
/**
* Gets the value(s) for <b>gvfVersion</b> (Version of the GVF file).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Valid version of the GVF file
* </p>
*/
public CodeDt getGvfVersion() {
if (myGvfVersion == null) {
myGvfVersion = new CodeDt();
}
return myGvfVersion;
}
/**
* Sets the value(s) for <b>gvfVersion</b> (Version of the GVF file)
*
* <p>
* <b>Definition:</b>
* Valid version of the GVF file
* </p>
*/
public GVFMeta setGvfVersion(CodeDt theValue) {
myGvfVersion = theValue;
return this;
}
/**
* Sets the value for <b>gvfVersion</b> (Version of the GVF file)
*
* <p>
* <b>Definition:</b>
* Valid version of the GVF file
* </p>
*/
public GVFMeta setGvfVersion( String theCode) {
myGvfVersion = new CodeDt(theCode);
return this;
}
/**
* Gets the value(s) for <b>referenceFasta</b> (FASTA file used as reference assembly).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* URL to FASTA file used as reference assembly
* </p>
*/
public UriDt getReferenceFasta() {
if (myReferenceFasta == null) {
myReferenceFasta = new UriDt();
}
return myReferenceFasta;
}
/**
* Sets the value(s) for <b>referenceFasta</b> (FASTA file used as reference assembly)
*
* <p>
* <b>Definition:</b>
* URL to FASTA file used as reference assembly
* </p>
*/
public GVFMeta setReferenceFasta(UriDt theValue) {
myReferenceFasta = theValue;
return this;
}
/**
* Sets the value for <b>referenceFasta</b> (FASTA file used as reference assembly)
*
* <p>
* <b>Definition:</b>
* URL to FASTA file used as reference assembly
* </p>
*/
public GVFMeta setReferenceFasta( String theUri) {
myReferenceFasta = new UriDt(theUri);
return this;
}
/**
* Gets the value(s) for <b>featureGFF3</b> (GFF3 file containing feature being described in the file).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* GFF3 file containing feature being described in the file
* </p>
*/
public UriDt getFeatureGFF3() {
if (myFeatureGFF3 == null) {
myFeatureGFF3 = new UriDt();
}
return myFeatureGFF3;
}
/**
* Sets the value(s) for <b>featureGFF3</b> (GFF3 file containing feature being described in the file)
*
* <p>
* <b>Definition:</b>
* GFF3 file containing feature being described in the file
* </p>
*/
public GVFMeta setFeatureGFF3(UriDt theValue) {
myFeatureGFF3 = theValue;
return this;
}
/**
* Sets the value for <b>featureGFF3</b> (GFF3 file containing feature being described in the file)
*
* <p>
* <b>Definition:</b>
* GFF3 file containing feature being described in the file
* </p>
*/
public GVFMeta setFeatureGFF3( String theUri) {
myFeatureGFF3 = new UriDt(theUri);
return this;
}
/**
* Gets the value(s) for <b>fileDate</b> (Date when the file is updated).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Date when the file is updated
* </p>
*/
public DateDt getFileDate() {
if (myFileDate == null) {
myFileDate = new DateDt();
}
return myFileDate;
}
/**
* Sets the value(s) for <b>fileDate</b> (Date when the file is updated)
*
* <p>
* <b>Definition:</b>
* Date when the file is updated
* </p>
*/
public GVFMeta setFileDate(DateDt theValue) {
myFileDate = theValue;
return this;
}
/**
* Sets the value for <b>fileDate</b> (Date when the file is updated)
*
* <p>
* <b>Definition:</b>
* Date when the file is updated
* </p>
*/
public GVFMeta setFileDate( Date theDate, TemporalPrecisionEnum thePrecision) {
myFileDate = new DateDt(theDate, thePrecision);
return this;
}
/**
* Sets the value for <b>fileDate</b> (Date when the file is updated)
*
* <p>
* <b>Definition:</b>
* Date when the file is updated
* </p>
*/
public GVFMeta setFileDateWithDayPrecision( Date theDate) {
myFileDate = new DateDt(theDate);
return this;
}
/**
* Gets the value(s) for <b>individual</b> (Id of individual being described in the file).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Id of individual being described in the file
* </p>
*/
public java.util.List<StringDt> getIndividual() {
if (myIndividual == null) {
myIndividual = new java.util.ArrayList<StringDt>();
}
return myIndividual;
}
/**
* Sets the value(s) for <b>individual</b> (Id of individual being described in the file)
*
* <p>
* <b>Definition:</b>
* Id of individual being described in the file
* </p>
*/
public GVFMeta setIndividual(java.util.List<StringDt> theValue) {
myIndividual = theValue;
return this;
}
/**
* Adds and returns a new value for <b>individual</b> (Id of individual being described in the file)
*
* <p>
* <b>Definition:</b>
* Id of individual being described in the file
* </p>
*/
public StringDt addIndividual() {
StringDt newType = new StringDt();
getIndividual().add(newType);
return newType;
}
/**
* Gets the first repetition for <b>individual</b> (Id of individual being described in the file),
* creating it if it does not already exist.
*
* <p>
* <b>Definition:</b>
* Id of individual being described in the file
* </p>
*/
public StringDt getIndividualFirstRep() {
if (getIndividual().isEmpty()) {
return addIndividual();
}
return getIndividual().get(0);
}
/**
* Adds a new value for <b>individual</b> (Id of individual being described in the file)
*
* <p>
* <b>Definition:</b>
* Id of individual being described in the file
* </p>
*
* @return Returns a reference to this object, to allow for simple chaining.
*/
public GVFMeta addIndividual( String theString) {
if (myIndividual == null) {
myIndividual = new java.util.ArrayList<StringDt>();
}
myIndividual.add(new StringDt(theString));
return this;
}
/**
* Gets the value(s) for <b>population</b> (Code for population which the individual can be categorized into).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Code for population which the individual can be categorized into
* </p>
*/
public CodeDt getPopulation() {
if (myPopulation == null) {
myPopulation = new CodeDt();
}
return myPopulation;
}
/**
* Sets the value(s) for <b>population</b> (Code for population which the individual can be categorized into)
*
* <p>
* <b>Definition:</b>
* Code for population which the individual can be categorized into
* </p>
*/
public GVFMeta setPopulation(CodeDt theValue) {
myPopulation = theValue;
return this;
}
/**
* Sets the value for <b>population</b> (Code for population which the individual can be categorized into)
*
* <p>
* <b>Definition:</b>
* Code for population which the individual can be categorized into
* </p>
*/
public GVFMeta setPopulation( String theCode) {
myPopulation = new CodeDt(theCode);
return this;
}
/**
* Gets the value(s) for <b>platform</b> (Sequencing platform).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Technology platform used in the sequencing
* </p>
*/
public Platform getPlatform() {
if (myPlatform == null) {
myPlatform = new Platform();
}
return myPlatform;
}
/**
* Sets the value(s) for <b>platform</b> (Sequencing platform)
*
* <p>
* <b>Definition:</b>
* Technology platform used in the sequencing
* </p>
*/
public GVFMeta setPlatform(Platform theValue) {
myPlatform = theValue;
return this;
}
/**
* Gets the value(s) for <b>sequencingScope</b> (Sequencing scope).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Scope of the sequencing
* </p>
*/
public CodeDt getSequencingScope() {
if (mySequencingScope == null) {
mySequencingScope = new CodeDt();
}
return mySequencingScope;
}
/**
* Sets the value(s) for <b>sequencingScope</b> (Sequencing scope)
*
* <p>
* <b>Definition:</b>
* Scope of the sequencing
* </p>
*/
public GVFMeta setSequencingScope(CodeDt theValue) {
mySequencingScope = theValue;
return this;
}
/**
* Sets the value for <b>sequencingScope</b> (Sequencing scope)
*
* <p>
* <b>Definition:</b>
* Scope of the sequencing
* </p>
*/
public GVFMeta setSequencingScope( String theCode) {
mySequencingScope = new CodeDt(theCode);
return this;
}
/**
* Gets the value(s) for <b>captureMethod</b> (Capture method).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Capture method used in the sequencing
* </p>
*/
public CodeDt getCaptureMethod() {
if (myCaptureMethod == null) {
myCaptureMethod = new CodeDt();
}
return myCaptureMethod;
}
/**
* Sets the value(s) for <b>captureMethod</b> (Capture method)
*
* <p>
* <b>Definition:</b>
* Capture method used in the sequencing
* </p>
*/
public GVFMeta setCaptureMethod(CodeDt theValue) {
myCaptureMethod = theValue;
return this;
}
/**
* Sets the value for <b>captureMethod</b> (Capture method)
*
* <p>
* <b>Definition:</b>
* Capture method used in the sequencing
* </p>
*/
public GVFMeta setCaptureMethod( String theCode) {
myCaptureMethod = new CodeDt(theCode);
return this;
}
/**
* Gets the value(s) for <b>captureRegions</b> (Region captured in the file).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Region captured in the file
* </p>
*/
public UriDt getCaptureRegions() {
if (myCaptureRegions == null) {
myCaptureRegions = new UriDt();
}
return myCaptureRegions;
}
/**
* Sets the value(s) for <b>captureRegions</b> (Region captured in the file)
*
* <p>
* <b>Definition:</b>
* Region captured in the file
* </p>
*/
public GVFMeta setCaptureRegions(UriDt theValue) {
myCaptureRegions = theValue;
return this;
}
/**
* Sets the value for <b>captureRegions</b> (Region captured in the file)
*
* <p>
* <b>Definition:</b>
* Region captured in the file
* </p>
*/
public GVFMeta setCaptureRegions( String theUri) {
myCaptureRegions = new UriDt(theUri);
return this;
}
/**
* Gets the value(s) for <b>sequenceAlignment</b> (Sequence alignment algorithm/pipline used).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Sequence alignment algorithm/pipline used
* </p>
*/
public StringDt getSequenceAlignment() {
if (mySequenceAlignment == null) {
mySequenceAlignment = new StringDt();
}
return mySequenceAlignment;
}
/**
* Sets the value(s) for <b>sequenceAlignment</b> (Sequence alignment algorithm/pipline used)
*
* <p>
* <b>Definition:</b>
* Sequence alignment algorithm/pipline used
* </p>
*/
public GVFMeta setSequenceAlignment(StringDt theValue) {
mySequenceAlignment = theValue;
return this;
}
/**
* Sets the value for <b>sequenceAlignment</b> (Sequence alignment algorithm/pipline used)
*
* <p>
* <b>Definition:</b>
* Sequence alignment algorithm/pipline used
* </p>
*/
public GVFMeta setSequenceAlignment( String theString) {
mySequenceAlignment = new StringDt(theString);
return this;
}
/**
* Gets the value(s) for <b>variantCalling</b> (Pipline used for variant calling).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Pipline used for variant calling
* </p>
*/
public StringDt getVariantCalling() {
if (myVariantCalling == null) {
myVariantCalling = new StringDt();
}
return myVariantCalling;
}
/**
* Sets the value(s) for <b>variantCalling</b> (Pipline used for variant calling)
*
* <p>
* <b>Definition:</b>
* Pipline used for variant calling
* </p>
*/
public GVFMeta setVariantCalling(StringDt theValue) {
myVariantCalling = theValue;
return this;
}
/**
* Sets the value for <b>variantCalling</b> (Pipline used for variant calling)
*
* <p>
* <b>Definition:</b>
* Pipline used for variant calling
* </p>
*/
public GVFMeta setVariantCalling( String theString) {
myVariantCalling = new StringDt(theString);
return this;
}
/**
* Gets the value(s) for <b>sampleDescription</b> (Description of sample used in the sequencing).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Description of sample used in the sequencing
* </p>
*/
public StringDt getSampleDescription() {
if (mySampleDescription == null) {
mySampleDescription = new StringDt();
}
return mySampleDescription;
}
/**
* Sets the value(s) for <b>sampleDescription</b> (Description of sample used in the sequencing)
*
* <p>
* <b>Definition:</b>
* Description of sample used in the sequencing
* </p>
*/
public GVFMeta setSampleDescription(StringDt theValue) {
mySampleDescription = theValue;
return this;
}
/**
* Sets the value for <b>sampleDescription</b> (Description of sample used in the sequencing)
*
* <p>
* <b>Definition:</b>
* Description of sample used in the sequencing
* </p>
*/
public GVFMeta setSampleDescription( String theString) {
mySampleDescription = new StringDt(theString);
return this;
}
/**
* Gets the value(s) for <b>genomicSource</b> (Source of the sample).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Source of the sample
* </p>
*/
public CodeDt getGenomicSource() {
if (myGenomicSource == null) {
myGenomicSource = new CodeDt();
}
return myGenomicSource;
}
/**
* Sets the value(s) for <b>genomicSource</b> (Source of the sample)
*
* <p>
* <b>Definition:</b>
* Source of the sample
* </p>
*/
public GVFMeta setGenomicSource(CodeDt theValue) {
myGenomicSource = theValue;
return this;
}
/**
* Sets the value for <b>genomicSource</b> (Source of the sample)
*
* <p>
* <b>Definition:</b>
* Source of the sample
* </p>
*/
public GVFMeta setGenomicSource( String theCode) {
myGenomicSource = new CodeDt(theCode);
return this;
}
/**
* Block class for child element: <b>GVFMeta.subject</b> (Subject being described by the file)
*
* <p>
* <b>Definition:</b>
* Subject being described by the file
* </p>
*/
@Block(name="GVFMeta.subject")
public static class Subject extends BaseElement implements IResourceBlock {
@Child(name="patient", order=0, min=0, max=1, type={
ca.uhn.fhir.model.dstu.resource.Patient.class })
@Description(
shortDefinition="Identity of the subejct",
formalDefinition="Identity of the subejct"
)
private ResourceReferenceDt myPatient;
@Child(name="fieldId", type=StringDt.class, order=1, min=0, max=1)
@Description(
shortDefinition="Id of individual field of the file that correspond to the subject",
formalDefinition="Id of individual field of the file that correspond to the subject"
)
private StringDt myFieldId;
@Override
public boolean isEmpty() {
return super.isBaseEmpty() && ca.uhn.fhir.util.ElementUtil.isEmpty( myPatient, myFieldId);
}
@Override
public java.util.List<IElement> getAllPopulatedChildElements() {
return getAllPopulatedChildElementsOfType(null);
}
@Override
public <T extends IElement> List<T> getAllPopulatedChildElementsOfType(Class<T> theType) {
return ca.uhn.fhir.util.ElementUtil.allPopulatedChildElements(theType, myPatient, myFieldId);
}
/**
* Gets the value(s) for <b>patient</b> (Identity of the subejct).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Identity of the subejct
* </p>
*/
public ResourceReferenceDt getPatient() {
if (myPatient == null) {
myPatient = new ResourceReferenceDt();
}
return myPatient;
}
/**
* Sets the value(s) for <b>patient</b> (Identity of the subejct)
*
* <p>
* <b>Definition:</b>
* Identity of the subejct
* </p>
*/
public Subject setPatient(ResourceReferenceDt theValue) {
myPatient = theValue;
return this;
}
/**
* Gets the value(s) for <b>fieldId</b> (Id of individual field of the file that correspond to the subject).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Id of individual field of the file that correspond to the subject
* </p>
*/
public StringDt getFieldId() {
if (myFieldId == null) {
myFieldId = new StringDt();
}
return myFieldId;
}
/**
* Sets the value(s) for <b>fieldId</b> (Id of individual field of the file that correspond to the subject)
*
* <p>
* <b>Definition:</b>
* Id of individual field of the file that correspond to the subject
* </p>
*/
public Subject setFieldId(StringDt theValue) {
myFieldId = theValue;
return this;
}
/**
* Sets the value for <b>fieldId</b> (Id of individual field of the file that correspond to the subject)
*
* <p>
* <b>Definition:</b>
* Id of individual field of the file that correspond to the subject
* </p>
*/
public Subject setFieldId( String theString) {
myFieldId = new StringDt(theString);
return this;
}
}
/**
* Block class for child element: <b>GVFMeta.platform</b> (Sequencing platform)
*
* <p>
* <b>Definition:</b>
* Technology platform used in the sequencing
* </p>
*/
@Block(name="GVFMeta.platform")
public static class Platform extends BaseElement implements IResourceBlock {
@Child(name="class", type=CodeDt.class, order=0, min=0, max=1)
@Description(
shortDefinition="Platform class",
formalDefinition="Class of the sequencing platform"
)
private CodeDt myClassElement;
@Child(name="version", type=StringDt.class, order=1, min=0, max=1)
@Description(
shortDefinition="Platform version",
formalDefinition="Version of the platform being used"
)
private StringDt myVersion;
@Child(name="name", type=CodeDt.class, order=2, min=0, max=1)
@Description(
shortDefinition="Platform name",
formalDefinition="Name of the platform being used"
)
private CodeDt myName;
@Child(name="identity", type=StringDt.class, order=3, min=0, max=1)
@Description(
shortDefinition="Platform id",
formalDefinition="Id of the platfrom being used"
)
private StringDt myIdentity;
@Child(name="readLength", type=IntegerDt.class, order=4, min=0, max=1)
@Description(
shortDefinition="Read length",
formalDefinition="Read length of the technology"
)
private IntegerDt myReadLength;
@Child(name="readType", type=CodeDt.class, order=5, min=0, max=1)
@Description(
shortDefinition="Read type",
formalDefinition="Read type of the technology"
)
private CodeDt myReadType;
@Child(name="readPairSpan", type=IntegerDt.class, order=6, min=0, max=1)
@Description(
shortDefinition="Read pair span",
formalDefinition="Read pair span of the technology"
)
private IntegerDt myReadPairSpan;
@Child(name="averageCoverage", type=IntegerDt.class, order=7, min=0, max=1)
@Description(
shortDefinition="Average coverage",
formalDefinition="Average coverage of the technology"
)
private IntegerDt myAverageCoverage;
@Override
public boolean isEmpty() {
return super.isBaseEmpty() && ca.uhn.fhir.util.ElementUtil.isEmpty( myClassElement, myVersion, myName, myIdentity, myReadLength, myReadType, myReadPairSpan, myAverageCoverage);
}
@Override
public java.util.List<IElement> getAllPopulatedChildElements() {
return getAllPopulatedChildElementsOfType(null);
}
@Override
public <T extends IElement> List<T> getAllPopulatedChildElementsOfType(Class<T> theType) {
return ca.uhn.fhir.util.ElementUtil.allPopulatedChildElements(theType, myClassElement, myVersion, myName, myIdentity, myReadLength, myReadType, myReadPairSpan, myAverageCoverage);
}
/**
* Gets the value(s) for <b>class</b> (Platform class).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Class of the sequencing platform
* </p>
*/
public CodeDt getClassElement() {
if (myClassElement == null) {
myClassElement = new CodeDt();
}
return myClassElement;
}
/**
* Sets the value(s) for <b>class</b> (Platform class)
*
* <p>
* <b>Definition:</b>
* Class of the sequencing platform
* </p>
*/
public Platform setClassElement(CodeDt theValue) {
myClassElement = theValue;
return this;
}
/**
* Sets the value for <b>class</b> (Platform class)
*
* <p>
* <b>Definition:</b>
* Class of the sequencing platform
* </p>
*/
public Platform setClassElement( String theCode) {
myClassElement = new CodeDt(theCode);
return this;
}
/**
* Gets the value(s) for <b>version</b> (Platform version).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Version of the platform being used
* </p>
*/
public StringDt getVersion() {
if (myVersion == null) {
myVersion = new StringDt();
}
return myVersion;
}
/**
* Sets the value(s) for <b>version</b> (Platform version)
*
* <p>
* <b>Definition:</b>
* Version of the platform being used
* </p>
*/
public Platform setVersion(StringDt theValue) {
myVersion = theValue;
return this;
}
/**
* Sets the value for <b>version</b> (Platform version)
*
* <p>
* <b>Definition:</b>
* Version of the platform being used
* </p>
*/
public Platform setVersion( String theString) {
myVersion = new StringDt(theString);
return this;
}
/**
* Gets the value(s) for <b>name</b> (Platform name).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Name of the platform being used
* </p>
*/
public CodeDt getName() {
if (myName == null) {
myName = new CodeDt();
}
return myName;
}
/**
* Sets the value(s) for <b>name</b> (Platform name)
*
* <p>
* <b>Definition:</b>
* Name of the platform being used
* </p>
*/
public Platform setName(CodeDt theValue) {
myName = theValue;
return this;
}
/**
* Sets the value for <b>name</b> (Platform name)
*
* <p>
* <b>Definition:</b>
* Name of the platform being used
* </p>
*/
public Platform setName( String theCode) {
myName = new CodeDt(theCode);
return this;
}
/**
* Gets the value(s) for <b>identity</b> (Platform id).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Id of the platfrom being used
* </p>
*/
public StringDt getIdentity() {
if (myIdentity == null) {
myIdentity = new StringDt();
}
return myIdentity;
}
/**
* Sets the value(s) for <b>identity</b> (Platform id)
*
* <p>
* <b>Definition:</b>
* Id of the platfrom being used
* </p>
*/
public Platform setIdentity(StringDt theValue) {
myIdentity = theValue;
return this;
}
/**
* Sets the value for <b>identity</b> (Platform id)
*
* <p>
* <b>Definition:</b>
* Id of the platfrom being used
* </p>
*/
public Platform setIdentity( String theString) {
myIdentity = new StringDt(theString);
return this;
}
/**
* Gets the value(s) for <b>readLength</b> (Read length).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Read length of the technology
* </p>
*/
public IntegerDt getReadLength() {
if (myReadLength == null) {
myReadLength = new IntegerDt();
}
return myReadLength;
}
/**
* Sets the value(s) for <b>readLength</b> (Read length)
*
* <p>
* <b>Definition:</b>
* Read length of the technology
* </p>
*/
public Platform setReadLength(IntegerDt theValue) {
myReadLength = theValue;
return this;
}
/**
* Sets the value for <b>readLength</b> (Read length)
*
* <p>
* <b>Definition:</b>
* Read length of the technology
* </p>
*/
public Platform setReadLength( int theInteger) {
myReadLength = new IntegerDt(theInteger);
return this;
}
/**
* Gets the value(s) for <b>readType</b> (Read type).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Read type of the technology
* </p>
*/
public CodeDt getReadType() {
if (myReadType == null) {
myReadType = new CodeDt();
}
return myReadType;
}
/**
* Sets the value(s) for <b>readType</b> (Read type)
*
* <p>
* <b>Definition:</b>
* Read type of the technology
* </p>
*/
public Platform setReadType(CodeDt theValue) {
myReadType = theValue;
return this;
}
/**
* Sets the value for <b>readType</b> (Read type)
*
* <p>
* <b>Definition:</b>
* Read type of the technology
* </p>
*/
public Platform setReadType( String theCode) {
myReadType = new CodeDt(theCode);
return this;
}
/**
* Gets the value(s) for <b>readPairSpan</b> (Read pair span).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Read pair span of the technology
* </p>
*/
public IntegerDt getReadPairSpan() {
if (myReadPairSpan == null) {
myReadPairSpan = new IntegerDt();
}
return myReadPairSpan;
}
/**
* Sets the value(s) for <b>readPairSpan</b> (Read pair span)
*
* <p>
* <b>Definition:</b>
* Read pair span of the technology
* </p>
*/
public Platform setReadPairSpan(IntegerDt theValue) {
myReadPairSpan = theValue;
return this;
}
/**
* Sets the value for <b>readPairSpan</b> (Read pair span)
*
* <p>
* <b>Definition:</b>
* Read pair span of the technology
* </p>
*/
public Platform setReadPairSpan( int theInteger) {
myReadPairSpan = new IntegerDt(theInteger);
return this;
}
/**
* Gets the value(s) for <b>averageCoverage</b> (Average coverage).
* creating it if it does
* not exist. Will not return <code>null</code>.
*
* <p>
* <b>Definition:</b>
* Average coverage of the technology
* </p>
*/
public IntegerDt getAverageCoverage() {
if (myAverageCoverage == null) {
myAverageCoverage = new IntegerDt();
}
return myAverageCoverage;
}
/**
* Sets the value(s) for <b>averageCoverage</b> (Average coverage)
*
* <p>
* <b>Definition:</b>
* Average coverage of the technology
* </p>
*/
public Platform setAverageCoverage(IntegerDt theValue) {
myAverageCoverage = theValue;
return this;
}
/**
* Sets the value for <b>averageCoverage</b> (Average coverage)
*
* <p>
* <b>Definition:</b>
* Average coverage of the technology
* </p>
*/
public Platform setAverageCoverage( int theInteger) {
myAverageCoverage = new IntegerDt(theInteger);
return this;
}
}
}