org.hl7.fhir.Sequence

All Implemented Interfaces:: org.jvnet.jaxb2_commons.lang.Equals2, org.jvnet.jaxb2_commons.lang.HashCode2, org.jvnet.jaxb2_commons.lang.ToString2

public class Sequence extends DomainResource implements org.jvnet.jaxb2_commons.lang.Equals2, org.jvnet.jaxb2_commons.lang.HashCode2, org.jvnet.jaxb2_commons.lang.ToString2

If the element is present, it must have either a @value, an @id, or extensions

Java class for Sequence complex type.

The following schema fragment specifies the expected content contained within this class.

 <complexType name="Sequence">
   <complexContent>
     <extension base="{http://hl7.org/fhir}DomainResource">
       <sequence>
         <element name="type" type="{http://hl7.org/fhir}sequenceType"/>
         <element name="patient" type="{http://hl7.org/fhir}Reference" minOccurs="0"/>
         <element name="specimen" type="{http://hl7.org/fhir}Reference" minOccurs="0"/>
         <element name="device" type="{http://hl7.org/fhir}Reference" minOccurs="0"/>
         <element name="quantity" type="{http://hl7.org/fhir}Quantity" minOccurs="0"/>
         <element name="species" type="{http://hl7.org/fhir}CodeableConcept" minOccurs="0"/>
         <element name="referenceSeq" type="{http://hl7.org/fhir}Sequence.ReferenceSeq" maxOccurs="unbounded" minOccurs="0"/>
         <element name="variation" type="{http://hl7.org/fhir}Sequence.Variation" minOccurs="0"/>
         <element name="quality" type="{http://hl7.org/fhir}Sequence.Quality" maxOccurs="unbounded" minOccurs="0"/>
         <element name="allelicState" type="{http://hl7.org/fhir}CodeableConcept" minOccurs="0"/>
         <element name="allelicFrequency" type="{http://hl7.org/fhir}decimal" minOccurs="0"/>
         <element name="copyNumberEvent" type="{http://hl7.org/fhir}CodeableConcept" minOccurs="0"/>
         <element name="readCoverage" type="{http://hl7.org/fhir}integer" minOccurs="0"/>
         <element name="repository" type="{http://hl7.org/fhir}Sequence.Repository" maxOccurs="unbounded" minOccurs="0"/>
         <element name="pointer" type="{http://hl7.org/fhir}Reference" maxOccurs="unbounded" minOccurs="0"/>
         <element name="observedSeq" type="{http://hl7.org/fhir}string" minOccurs="0"/>
         <element name="observation" type="{http://hl7.org/fhir}Reference" minOccurs="0"/>
         <element name="structureVariation" type="{http://hl7.org/fhir}Sequence.StructureVariation" minOccurs="0"/>
       </sequence>
     </extension>
   </complexContent>
 </complexType>

Field Summary

Fields

Modifier and Type

Field

Description

protected Decimal

allelicFrequency

protected CodeableConcept

allelicState

protected CodeableConcept

copyNumberEvent

protected Reference

device

protected Reference

observation

protected String

observedSeq

protected Reference

patient

protected List<Reference>

pointer

protected List<SequenceQuality>

quality

protected Quantity

quantity

protected Integer

readCoverage

protected List<SequenceReferenceSeq>

referenceSeq

protected List<SequenceRepository>

repository

protected CodeableConcept

species

protected Reference

specimen

protected SequenceStructureVariation

structureVariation

protected SequenceType

type

protected SequenceVariation

variation

Fields inherited from class org.hl7.fhir.DomainResource
contained, extension, modifierExtension, text

Fields inherited from class org.hl7.fhir.Resource
id, implicitRules, language, meta
Constructor Summary

Constructors

Constructor

Description

Sequence()
Method Summary

Modifier and Type

Method

Description

StringBuilder

append(org.jvnet.jaxb2_commons.locator.ObjectLocator locator, StringBuilder buffer, org.jvnet.jaxb2_commons.lang.ToStringStrategy2 strategy)

StringBuilder

appendFields(org.jvnet.jaxb2_commons.locator.ObjectLocator locator, StringBuilder buffer, org.jvnet.jaxb2_commons.lang.ToStringStrategy2 strategy)

boolean

equals(Object object)

boolean

equals(org.jvnet.jaxb2_commons.locator.ObjectLocator thisLocator, org.jvnet.jaxb2_commons.locator.ObjectLocator thatLocator, Object object, org.jvnet.jaxb2_commons.lang.EqualsStrategy2 strategy)

Decimal

getAllelicFrequency()

Gets the value of the allelicFrequency property.

CodeableConcept

getAllelicState()

Gets the value of the allelicState property.

CodeableConcept

getCopyNumberEvent()

Gets the value of the copyNumberEvent property.

Reference

getDevice()

Gets the value of the device property.

Reference

getObservation()

Gets the value of the observation property.

String

getObservedSeq()

Gets the value of the observedSeq property.

Reference

getPatient()

Gets the value of the patient property.

List<Reference>

getPointer()

Gets the value of the pointer property.

List<SequenceQuality>

getQuality()

Gets the value of the quality property.

Quantity

getQuantity()

Gets the value of the quantity property.

Integer

getReadCoverage()

Gets the value of the readCoverage property.

List<SequenceReferenceSeq>

getReferenceSeq()

Gets the value of the referenceSeq property.

List<SequenceRepository>

getRepository()

Gets the value of the repository property.

CodeableConcept

getSpecies()

Gets the value of the species property.

Reference

getSpecimen()

Gets the value of the specimen property.

SequenceStructureVariation

getStructureVariation()

Gets the value of the structureVariation property.

SequenceType

getType()

Gets the value of the type property.

SequenceVariation

getVariation()

Gets the value of the variation property.

int

hashCode()

int

hashCode(org.jvnet.jaxb2_commons.locator.ObjectLocator locator, org.jvnet.jaxb2_commons.lang.HashCodeStrategy2 strategy)

void

setAllelicFrequency(Decimal value)

Sets the value of the allelicFrequency property.

void

setAllelicState(CodeableConcept value)

Sets the value of the allelicState property.

void

setCopyNumberEvent(CodeableConcept value)

Sets the value of the copyNumberEvent property.

void

setDevice(Reference value)

Sets the value of the device property.

void

setObservation(Reference value)

Sets the value of the observation property.

void

setObservedSeq(String value)

Sets the value of the observedSeq property.

void

setPatient(Reference value)

Sets the value of the patient property.

void

setPointer(List<Reference> value)

void

setQuality(List<SequenceQuality> value)

void

setQuantity(Quantity value)

Sets the value of the quantity property.

void

setReadCoverage(Integer value)

Sets the value of the readCoverage property.

void

setReferenceSeq(List<SequenceReferenceSeq> value)

void

setRepository(List<SequenceRepository> value)

void

setSpecies(CodeableConcept value)

Sets the value of the species property.

void

setSpecimen(Reference value)

Sets the value of the specimen property.

void

setStructureVariation(SequenceStructureVariation value)

Sets the value of the structureVariation property.

void

setType(SequenceType value)

Sets the value of the type property.

void

setVariation(SequenceVariation value)

Sets the value of the variation property.

String

toString()

Sequence

withAllelicFrequency(Decimal value)

Sequence

withAllelicState(CodeableConcept value)

Sequence

withContained(Collection<ResourceContainer> values)

Sequence

withContained(ResourceContainer... values)

Sequence

withCopyNumberEvent(CodeableConcept value)

Sequence

withDevice(Reference value)

Sequence

withExtension(Collection<Extension> values)

Sequence

withExtension(Extension... values)

Sequence

withId(Id value)

Sequence

withImplicitRules(Uri value)

Sequence

withLanguage(Code value)

Sequence

withMeta(Meta value)

Sequence

withModifierExtension(Collection<Extension> values)

Sequence

withModifierExtension(Extension... values)

Sequence

withObservation(Reference value)

Sequence

withObservedSeq(String value)

Sequence

withPatient(Reference value)

Sequence

withPointer(Collection<Reference> values)

Sequence

withPointer(Reference... values)

Sequence

withQuality(Collection<SequenceQuality> values)

Sequence

withQuality(SequenceQuality... values)

Sequence

withQuantity(Quantity value)

Sequence

withReadCoverage(Integer value)

Sequence

withReferenceSeq(Collection<SequenceReferenceSeq> values)

Sequence

withReferenceSeq(SequenceReferenceSeq... values)

Sequence

withRepository(Collection<SequenceRepository> values)

Sequence

withRepository(SequenceRepository... values)

Sequence

withSpecies(CodeableConcept value)

Sequence

withSpecimen(Reference value)

Sequence

withStructureVariation(SequenceStructureVariation value)

Sequence

withText(Narrative value)

Sequence

withType(SequenceType value)

Sequence

withVariation(SequenceVariation value)

Methods inherited from class org.hl7.fhir.DomainResource
getContained, getExtension, getModifierExtension, getText, setContained, setExtension, setModifierExtension, setText

Methods inherited from class org.hl7.fhir.Resource
getId, getImplicitRules, getLanguage, getMeta, setId, setImplicitRules, setLanguage, setMeta

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

Field Details
- type
  
  protected SequenceType type
- patient
  
  protected Reference patient
- specimen
  
  protected Reference specimen
- device
  
  protected Reference device
- quantity
  
  protected Quantity quantity
- species
  
  protected CodeableConcept species
- referenceSeq
  
  protected List<SequenceReferenceSeq> referenceSeq
- variation
  
  protected SequenceVariation variation
- quality
  
  protected List<SequenceQuality> quality
- allelicState
  
  protected CodeableConcept allelicState
- allelicFrequency
  
  protected Decimal allelicFrequency
- copyNumberEvent
  
  protected CodeableConcept copyNumberEvent
- readCoverage
  
  protected Integer readCoverage
- repository
  
  protected List<SequenceRepository> repository
- pointer
  
  protected List<Reference> pointer
- observedSeq
  
  protected String observedSeq
- observation
  
  protected Reference observation
- structureVariation
  
  protected SequenceStructureVariation structureVariation
Constructor Details
- Sequence
  
  public Sequence()
Method Details
- getType
  
  public SequenceType getType()
  
  Gets the value of the type property.
  
  Returns:
  
  possible object is SequenceType
- setType
  
  public void setType(SequenceType value)
  
  Sets the value of the type property.
  
  Parameters:
  
  value - allowed object is SequenceType
- getPatient
  
  public Reference getPatient()
  
  Gets the value of the patient property.
  
  Returns:
  
  possible object is Reference
- setPatient
  
  public void setPatient(Reference value)
  
  Sets the value of the patient property.
  
  Parameters:
  
  value - allowed object is Reference
- getSpecimen
  
  public Reference getSpecimen()
  
  Gets the value of the specimen property.
  
  Returns:
  
  possible object is Reference
- setSpecimen
  
  public void setSpecimen(Reference value)
  
  Sets the value of the specimen property.
  
  Parameters:
  
  value - allowed object is Reference
- getDevice
  
  public Reference getDevice()
  
  Gets the value of the device property.
  
  Returns:
  
  possible object is Reference
- setDevice
  
  public void setDevice(Reference value)
  
  Sets the value of the device property.
  
  Parameters:
  
  value - allowed object is Reference
- getQuantity
  
  public Quantity getQuantity()
  
  Gets the value of the quantity property.
  
  Returns:
  
  possible object is Quantity
- setQuantity
  
  public void setQuantity(Quantity value)
  
  Sets the value of the quantity property.
  
  Parameters:
  
  value - allowed object is Quantity
- getSpecies
  
  public CodeableConcept getSpecies()
  
  Gets the value of the species property.
  
  Returns:
  
  possible object is CodeableConcept
- setSpecies
  
  public void setSpecies(CodeableConcept value)
  
  Sets the value of the species property.
  
  Parameters:
  
  value - allowed object is CodeableConcept
- getReferenceSeq
  
  public List<SequenceReferenceSeq> getReferenceSeq()
  Gets the value of the referenceSeq property.
  This accessor method returns a reference to the live list, not a snapshot. Therefore any modification you make to the returned list will be present inside the Jakarta XML Binding object. This is why there is not a set method for the referenceSeq property.
  For example, to add a new item, do as follows:
  getReferenceSeq().add(newItem);
  
  Objects of the following type(s) are allowed in the list SequenceReferenceSeq
- getVariation
  
  public SequenceVariation getVariation()
  
  Gets the value of the variation property.
  
  Returns:
  
  possible object is SequenceVariation
- setVariation
  
  public void setVariation(SequenceVariation value)
  
  Sets the value of the variation property.
  
  Parameters:
  
  value - allowed object is SequenceVariation
- getQuality
  
  public List<SequenceQuality> getQuality()
  Gets the value of the quality property.
  This accessor method returns a reference to the live list, not a snapshot. Therefore any modification you make to the returned list will be present inside the Jakarta XML Binding object. This is why there is not a set method for the quality property.
  For example, to add a new item, do as follows:
  getQuality().add(newItem);
  
  Objects of the following type(s) are allowed in the list SequenceQuality
- getAllelicState
  
  public CodeableConcept getAllelicState()
  
  Gets the value of the allelicState property.
  
  Returns:
  
  possible object is CodeableConcept
- setAllelicState
  
  public void setAllelicState(CodeableConcept value)
  
  Sets the value of the allelicState property.
  
  Parameters:
  
  value - allowed object is CodeableConcept
- getAllelicFrequency
  
  public Decimal getAllelicFrequency()
  
  Gets the value of the allelicFrequency property.
  
  Returns:
  
  possible object is Decimal
- setAllelicFrequency
  
  public void setAllelicFrequency(Decimal value)
  
  Sets the value of the allelicFrequency property.
  
  Parameters:
  
  value - allowed object is Decimal
- getCopyNumberEvent
  
  public CodeableConcept getCopyNumberEvent()
  
  Gets the value of the copyNumberEvent property.
  
  Returns:
  
  possible object is CodeableConcept
- setCopyNumberEvent
  
  public void setCopyNumberEvent(CodeableConcept value)
  
  Sets the value of the copyNumberEvent property.
  
  Parameters:
  
  value - allowed object is CodeableConcept
- getReadCoverage
  
  public Integer getReadCoverage()
  
  Gets the value of the readCoverage property.
  
  Returns:
  
  possible object is Integer
- setReadCoverage
  
  public void setReadCoverage(Integer value)
  
  Sets the value of the readCoverage property.
  
  Parameters:
  
  value - allowed object is Integer
- getRepository
  
  public List<SequenceRepository> getRepository()
  Gets the value of the repository property.
  This accessor method returns a reference to the live list, not a snapshot. Therefore any modification you make to the returned list will be present inside the Jakarta XML Binding object. This is why there is not a set method for the repository property.
  For example, to add a new item, do as follows:
  getRepository().add(newItem);
  
  Objects of the following type(s) are allowed in the list SequenceRepository
- getPointer
  
  public List<Reference> getPointer()
  Gets the value of the pointer property.
  This accessor method returns a reference to the live list, not a snapshot. Therefore any modification you make to the returned list will be present inside the Jakarta XML Binding object. This is why there is not a set method for the pointer property.
  For example, to add a new item, do as follows:
  getPointer().add(newItem);
  
  Objects of the following type(s) are allowed in the list Reference
- getObservedSeq
  
  public String getObservedSeq()
  
  Gets the value of the observedSeq property.
  
  Returns:
  
  possible object is String
- setObservedSeq
  
  public void setObservedSeq(String value)
  
  Sets the value of the observedSeq property.
  
  Parameters:
  
  value - allowed object is String
- getObservation
  
  public Reference getObservation()
  
  Gets the value of the observation property.
  
  Returns:
  
  possible object is Reference
- setObservation
  
  public void setObservation(Reference value)
  
  Sets the value of the observation property.
  
  Parameters:
  
  value - allowed object is Reference
- getStructureVariation
  
  public SequenceStructureVariation getStructureVariation()
  
  Gets the value of the structureVariation property.
  
  Returns:
  
  possible object is SequenceStructureVariation
- setStructureVariation
  
  public void setStructureVariation(SequenceStructureVariation value)
  
  Sets the value of the structureVariation property.
  
  Parameters:
  
  value - allowed object is SequenceStructureVariation
- withType
  
  public Sequence withType(SequenceType value)
- withPatient
  
  public Sequence withPatient(Reference value)
- withSpecimen
  
  public Sequence withSpecimen(Reference value)
- withDevice
  
  public Sequence withDevice(Reference value)
- withQuantity
  
  public Sequence withQuantity(Quantity value)
- withSpecies
  
  public Sequence withSpecies(CodeableConcept value)
- withReferenceSeq
  
  public Sequence withReferenceSeq(SequenceReferenceSeq... values)
- withReferenceSeq
  
  public Sequence withReferenceSeq(Collection<SequenceReferenceSeq> values)
- withVariation
  
  public Sequence withVariation(SequenceVariation value)
- withQuality
  
  public Sequence withQuality(SequenceQuality... values)
- withQuality
  
  public Sequence withQuality(Collection<SequenceQuality> values)
- withAllelicState
  
  public Sequence withAllelicState(CodeableConcept value)
- withAllelicFrequency
  
  public Sequence withAllelicFrequency(Decimal value)
- withCopyNumberEvent
  
  public Sequence withCopyNumberEvent(CodeableConcept value)
- withReadCoverage
  
  public Sequence withReadCoverage(Integer value)
- withRepository
  
  public Sequence withRepository(SequenceRepository... values)
- withRepository
  
  public Sequence withRepository(Collection<SequenceRepository> values)
- withPointer
  
  public Sequence withPointer(Reference... values)
- withPointer
  
  public Sequence withPointer(Collection<Reference> values)
- withObservedSeq
  
  public Sequence withObservedSeq(String value)
- withObservation
  
  public Sequence withObservation(Reference value)
- withStructureVariation
  
  public Sequence withStructureVariation(SequenceStructureVariation value)
- withText
  
  public Sequence withText(Narrative value)
  
  Overrides:
  
  withText in class DomainResource
- withContained
  
  public Sequence withContained(ResourceContainer... values)
  
  Overrides:
  
  withContained in class DomainResource
- withContained
  
  public Sequence withContained(Collection<ResourceContainer> values)
  
  Overrides:
  
  withContained in class DomainResource
- withExtension
  
  public Sequence withExtension(Extension... values)
  
  Overrides:
  
  withExtension in class DomainResource
- withExtension
  
  public Sequence withExtension(Collection<Extension> values)
  
  Overrides:
  
  withExtension in class DomainResource
- withModifierExtension
  
  public Sequence withModifierExtension(Extension... values)
  
  Overrides:
  
  withModifierExtension in class DomainResource
- withModifierExtension
  
  public Sequence withModifierExtension(Collection<Extension> values)
  
  Overrides:
  
  withModifierExtension in class DomainResource
- withId
  
  public Sequence withId(Id value)
  
  Overrides:
  
  withId in class DomainResource
- withMeta
  
  public Sequence withMeta(Meta value)
  
  Overrides:
  
  withMeta in class DomainResource
- withImplicitRules
  
  public Sequence withImplicitRules(Uri value)
  
  Overrides:
  
  withImplicitRules in class DomainResource
- withLanguage
  
  public Sequence withLanguage(Code value)
  
  Overrides:
  
  withLanguage in class DomainResource
- equals
  
  public boolean equals(org.jvnet.jaxb2_commons.locator.ObjectLocator thisLocator, org.jvnet.jaxb2_commons.locator.ObjectLocator thatLocator, Object object, org.jvnet.jaxb2_commons.lang.EqualsStrategy2 strategy)
  
  Specified by:
  
  equals in interface org.jvnet.jaxb2_commons.lang.Equals2
  
  Overrides:
  
  equals in class DomainResource
- equals
  
  public boolean equals(Object object)
  
  Overrides:
  
  equals in class DomainResource
- hashCode
  
  public int hashCode(org.jvnet.jaxb2_commons.locator.ObjectLocator locator, org.jvnet.jaxb2_commons.lang.HashCodeStrategy2 strategy)
  
  Specified by:
  
  hashCode in interface org.jvnet.jaxb2_commons.lang.HashCode2
  
  Overrides:
  
  hashCode in class DomainResource
- hashCode
  
  public int hashCode()
  
  Overrides:
  
  hashCode in class DomainResource
- toString
  
  public String toString()
  
  Overrides:
  
  toString in class DomainResource
- append
  
  public StringBuilder append(org.jvnet.jaxb2_commons.locator.ObjectLocator locator, StringBuilder buffer, org.jvnet.jaxb2_commons.lang.ToStringStrategy2 strategy)
  
  Specified by:
  
  append in interface org.jvnet.jaxb2_commons.lang.ToString2
  
  Overrides:
  
  append in class DomainResource
- appendFields
  
  public StringBuilder appendFields(org.jvnet.jaxb2_commons.locator.ObjectLocator locator, StringBuilder buffer, org.jvnet.jaxb2_commons.lang.ToStringStrategy2 strategy)
  
  Specified by:
  
  appendFields in interface org.jvnet.jaxb2_commons.lang.ToString2
  
  Overrides:
  
  appendFields in class DomainResource
- setReferenceSeq
  
  public void setReferenceSeq(List<SequenceReferenceSeq> value)
- setQuality
  
  public void setQuality(List<SequenceQuality> value)
- setRepository
  
  public void setRepository(List<SequenceRepository> value)
- setPointer
  
  public void setPointer(List<Reference> value)

Class Sequence

Field Summary

Fields inherited from class org.hl7.fhir.DomainResource

Fields inherited from class org.hl7.fhir.Resource

Constructor Summary

Method Summary

Methods inherited from class org.hl7.fhir.DomainResource

Methods inherited from class org.hl7.fhir.Resource

Methods inherited from class java.lang.Object

Field Details

type

patient

specimen

device

quantity

species

referenceSeq

variation

quality

allelicState

allelicFrequency

copyNumberEvent

readCoverage

repository

pointer

observedSeq

observation

structureVariation

Constructor Details

Sequence

Method Details

getType

setType

getPatient

setPatient

getSpecimen

setSpecimen

getDevice

setDevice

getQuantity

setQuantity

getSpecies

setSpecies

getReferenceSeq

getVariation

setVariation

getQuality

getAllelicState

setAllelicState

getAllelicFrequency

setAllelicFrequency

getCopyNumberEvent

setCopyNumberEvent

getReadCoverage

setReadCoverage

getRepository

getPointer

getObservedSeq

setObservedSeq

getObservation

setObservation

getStructureVariation

setStructureVariation

withType

withPatient

withSpecimen

withDevice

withQuantity

withSpecies

withReferenceSeq

withReferenceSeq

withVariation

withQuality

withQuality

withAllelicState

withAllelicFrequency

withCopyNumberEvent

withReadCoverage

withRepository

withRepository