Allergyintolerance.shex

ShEx statement for allergyintolerance

PREFIX fhir: <http://hl7.org/fhir/> 
PREFIX fhirvs: <http://hl7.org/fhir/ValueSet/>
PREFIX xsd: <http://www.w3.org/2001/XMLSchema#> 
BASE <http://hl7.org/fhir/shape/>

start=@<AllergyIntolerance> AND {fhir:nodeRole [fhir:treeRoot]}


# Allergy or Intolerance (generally: Risk of adverse reaction to a substance)
<AllergyIntolerance> CLOSED {
    a [fhir:AllergyIntolerance];
    fhir:nodeRole [fhir:treeRoot]?;
    fhir:Resource.id @<id>?;                # Logical id of this artifact
    fhir:Resource.meta @<Meta>?;            # Metadata about the resource
    fhir:Resource.implicitRules @<uri>?;    # A set of rules under which this 
                                            # content was created 
    fhir:Resource.language @<code>?;        # Language of the resource content
    fhir:DomainResource.text @<Narrative>?;  # Text summary of the resource, for 
                                            # human interpretation 
    fhir:DomainResource.contained @<Resource>*;  # Contained, inline Resources
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:modifierExtension @<Extension>*;   # Extensions that cannot be ignored
    fhir:AllergyIntolerance.identifier @<Identifier>*;  # External ids for this item
    fhir:AllergyIntolerance.clinicalStatus @<code> AND
    	{fhir:value @fhirvs:allergy-clinical-status}?;  # active | inactive | resolved
    fhir:AllergyIntolerance.verificationStatus @<code> AND
    	{fhir:value @fhirvs:allergy-verification-status};  # unconfirmed | confirmed | refuted 
                                            # | entered-in-error 
    fhir:AllergyIntolerance.type @<code> AND
    	{fhir:value @fhirvs:allergy-intolerance-type}?;  # allergy | intolerance - Underlying 
                                            # mechanism (if known) 
    fhir:AllergyIntolerance.category @<code> AND
    	{fhir:value @fhirvs:allergy-intolerance-category}*;  # food | medication | biologic | 
                                            # environment 
    fhir:AllergyIntolerance.criticality @<code> AND
    	{fhir:value @fhirvs:allergy-intolerance-criticality}?;  # low | high | unable-to-assess
    fhir:AllergyIntolerance.code @<CodeableConcept>?;  # Allergy or intolerance code
    fhir:AllergyIntolerance.patient @<Reference>;  # Who the sensitivity is for
    (                                       # When allergy or intolerance was 
                                            # identified 
        fhir:AllergyIntolerance.onsetDateTime @<dateTime>  |
        fhir:AllergyIntolerance.onsetAge @<Age>  |
        fhir:AllergyIntolerance.onsetPeriod @<Period>  |
        fhir:AllergyIntolerance.onsetRange @<Range>  |
        fhir:AllergyIntolerance.onsetString @<string> 
    )?;
    fhir:AllergyIntolerance.assertedDate @<dateTime>?;  # Date record was believed accurate
    fhir:AllergyIntolerance.recorder        # Who recorded the sensitivity
    (   @<PractitionerReference> OR
        @<PatientReference>
    )?;
    fhir:AllergyIntolerance.asserter        # Source of the information about 
                                            # the allergy 
    (   @<PatientReference> OR
        @<RelatedPersonReference> OR
        @<PractitionerReference>
    )?;
    fhir:AllergyIntolerance.lastOccurrence @<dateTime>?;  # Date(/time) of last known 
                                            # occurrence of a reaction 
    fhir:AllergyIntolerance.note @<Annotation>*;  # Additional text not captured in 
                                            # other fields 
    fhir:AllergyIntolerance.reaction @<AllergyIntolerance.reaction>*;  # Adverse Reaction Events linked to 
                                            # exposure to substance 
    fhir:index xsd:integer?                 # Relative position in a list
}

# Adverse Reaction Events linked to exposure to substance
<AllergyIntolerance.reaction> CLOSED {
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:modifierExtension @<Extension>*;   # Extensions that cannot be ignored
    fhir:AllergyIntolerance.reaction.substance @<CodeableConcept>?;  # Specific substance or 
                                            # pharmaceutical product considered 
                                            # to be responsible for event 
    fhir:AllergyIntolerance.reaction.certainty @<code> AND
    	{fhir:value @fhirvs:reaction-event-certainty}?;  # unlikely | likely | confirmed | 
                                            # unknown 
    fhir:AllergyIntolerance.reaction.manifestation @<CodeableConcept>+;  # Clinical symptoms/signs associated 
                                            # with the Event 
    fhir:AllergyIntolerance.reaction.description @<string>?;  # Description of the event as a whole
    fhir:AllergyIntolerance.reaction.onset @<dateTime>?;  # Date(/time) when manifestations 
                                            # showed 
    fhir:AllergyIntolerance.reaction.severity @<code> AND
    	{fhir:value @fhirvs:reaction-event-severity}?;  # mild | moderate | severe (of event 
                                            # as a whole) 
    fhir:AllergyIntolerance.reaction.exposureRoute @<CodeableConcept>?;  # How the subject was exposed to the 
                                            # substance 
    fhir:AllergyIntolerance.reaction.note @<Annotation>*;  # Text about event not captured in 
                                            # other fields 
    fhir:index xsd:integer?                 # Relative position in a list
}

#---------------------- Data Types -------------------

# Primitive Type dateTime
<dateTime> CLOSED {
    fhir:Element.id @<id>?;                 # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:value xsd:gYear OR xsd:gYearMonth OR xsd:date OR xsd:dateTime?;  # Primitive value for dateTime
    fhir:index xsd:integer?                 # Relative position in a list
}

# Metadata about a resource
<Meta> CLOSED {
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:Meta.versionId @<id>?;             # Version specific identifier
    fhir:Meta.lastUpdated @<instant>?;      # When the resource version last 
                                            # changed 
    fhir:Meta.profile @<uri>*;              # Profiles this resource claims to 
                                            # conform to 
    fhir:Meta.security @<Coding>*;          # Security Labels applied to this 
                                            # resource 
    fhir:Meta.tag @<Coding>*;               # Tags applied to this resource
    fhir:index xsd:integer?                 # Relative position in a list
}

# Primitive Type code
<code> CLOSED {
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:value xsd:string?;                 # Primitive value for code
    fhir:index xsd:integer?                 # Relative position in a list
}

# Primitive Type string
<string> CLOSED {
    fhir:Element.id @<id>?;                 # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:value xsd:string MAXLENGTH 1048576?;  # Primitive value for string
    fhir:index xsd:integer?                 # Relative position in a list
}

# A reference from one resource to another
<Reference> CLOSED {
    fhir:link IRI?;
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:Reference.reference @<string>?;    # Literal reference, Relative, 
                                            # internal or absolute URL 
    fhir:Reference.identifier @<Identifier>?;  # Logical reference, when literal 
                                            # reference is not known 
    fhir:Reference.display @<string>?;      # Text alternative for the resource
    fhir:index xsd:integer?                 # Relative position in a list
}

# Base Resource
<Resource> {a .+;
    fhir:Resource.id @<id>?;                # Logical id of this artifact
    fhir:Resource.meta @<Meta>?;            # Metadata about the resource
    fhir:Resource.implicitRules @<uri>?;    # A set of rules under which this 
                                            # content was created 
    fhir:Resource.language @<code>?;        # Language of the resource content
    fhir:index xsd:integer?
}

# Time range defined by start and end date/time
<Period> CLOSED {
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:Period.start @<dateTime>?;         # Starting time with inclusive 
                                            # boundary 
    fhir:Period.end @<dateTime>?;           # End time with inclusive boundary, 
                                            # if not ongoing 
    fhir:index xsd:integer?                 # Relative position in a list
}

# Set of values bounded by low and high
<Range> CLOSED {
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:Range.low @<SimpleQuantity>?;      # Low limit
    fhir:Range.high @<SimpleQuantity>?;     # High limit
    fhir:index xsd:integer?                 # Relative position in a list
}

# Primitive Type uri
<uri> CLOSED {
    fhir:Element.id @<id>?;                 # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:value xsd:string?;                 # Primitive value for uri
    fhir:index xsd:integer?                 # Relative position in a list
}

# Text node with attribution
<Annotation> CLOSED {
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    (                                       # Individual responsible for the 
                                            # annotation 
        fhir:Annotation.authorReference @<Reference>  |
        fhir:Annotation.authorReference @<Reference>  |
        fhir:Annotation.authorReference @<Reference>  |
        fhir:Annotation.authorString @<string> 
    )?;
    fhir:Annotation.time @<dateTime>?;      # When the annotation was made
    fhir:Annotation.text @<string>;         # The annotation  - text content
    fhir:index xsd:integer?                 # Relative position in a list
}

<Extension> {fhir:extension @<Extension>*;
    fhir:index xsd:integer?
}

# An identifier intended for computation
<Identifier> CLOSED {
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:Identifier.use @<code> AND
    	{fhir:value @fhirvs:identifier-use}?;  # usual | official | temp | 
                                            # secondary (If known) 
    fhir:Identifier.type @<CodeableConcept>?;  # Description of identifier
    fhir:Identifier.system @<uri>?;         # The namespace for the identifier
    fhir:Identifier.value @<string>?;       # The value that is unique
    fhir:Identifier.period @<Period>?;      # Time period when id is/was valid 
                                            # for use 
    fhir:Identifier.assigner @<Reference>?;  # Organization that issued id (may 
                                            # be just text) 
    fhir:index xsd:integer?                 # Relative position in a list
}

# A human-readable formatted text, including images
<Narrative> CLOSED {
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:Narrative.status @<code> AND
    	{fhir:value @fhirvs:narrative-status};  # generated | extensions | 
                                            # additional | empty 
    fhir:Narrative.div xsd:string;          # Limited xhtml content
    fhir:index xsd:integer?                 # Relative position in a list
}

# Primitive Type id
<id> CLOSED {
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:value xsd:string?;                 # Primitive value for id
    fhir:index xsd:integer?                 # Relative position in a list
}

# A duration of time during which an organism (or a process) has existed
<Age> CLOSED {
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:Quantity.value @<decimal>?;        # Numerical value (with implicit 
                                            # precision) 
    fhir:Quantity.comparator @<code> AND
    	{fhir:value @fhirvs:quantity-comparator}?;  # < | <= | >= | > - how to 
                                            # understand the value 
    fhir:Quantity.unit @<string>?;          # Unit representation
    fhir:Quantity.system @<uri>?;           # System that defines coded unit form
    fhir:Quantity.code @<code>?;            # Coded form of the unit
    fhir:index xsd:integer?                 # Relative position in a list
}

# Concept - reference to a terminology or just  text
<CodeableConcept> CLOSED {
    fhir:concept IRI*;
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:CodeableConcept.coding @<Coding>*;  # Code defined by a terminology 
                                            # system 
    fhir:CodeableConcept.text @<string>?;   # Plain text representation of the 
                                            # concept 
    fhir:index xsd:integer?                 # Relative position in a list
}

# A fixed quantity (no comparator)
<SimpleQuantity> CLOSED {
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:Quantity.value @<decimal>?;        # Numerical value (with implicit 
                                            # precision) 
    fhir:Quantity.unit @<string>?;          # Unit representation
    fhir:Quantity.system @<uri>?;           # System that defines coded unit form
    fhir:Quantity.code @<code>?;            # Coded form of the unit
    fhir:index xsd:integer?                 # Relative position in a list
}

# Primitive Type instant
<instant> CLOSED {
    fhir:Element.id @<id>?;                 # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:value xsd:dateTime?;               # Primitive value for instant
    fhir:index xsd:integer?                 # Relative position in a list
}

# A reference to a code defined by a terminology system
<Coding> CLOSED {
    fhir:concept IRI?;
    fhir:Element.id @<string>?;             # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:Coding.system @<uri>?;             # Identity of the terminology system
    fhir:Coding.version @<string>?;         # Version of the system - if relevant
    fhir:Coding.code @<code>?;              # Symbol in syntax defined by the 
                                            # system 
    fhir:Coding.display @<string>?;         # Representation defined by the 
                                            # system 
    fhir:Coding.userSelected @<boolean>?;   # If this coding was chosen directly 
                                            # by the user 
    fhir:index xsd:integer?                 # Relative position in a list
}

# Primitive Type decimal
<decimal> CLOSED {
    fhir:Element.id @<id>?;                 # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:value xsd:decimal?;                # Primitive value for decimal
    fhir:index xsd:integer?                 # Relative position in a list
}

# Primitive Type boolean
<boolean> CLOSED {
    fhir:Element.id @<id>?;                 # xml:id (or equivalent in JSON)
    fhir:extension @<Extension>*;           # Additional Content defined by 
                                            # implementations 
    fhir:value xsd:boolean?;                # Primitive value for boolean
    fhir:index xsd:integer?                 # Relative position in a list
}

#---------------------- Reference Types -------------------

<PractitionerReference> CLOSED {
    fhir:Element.id @<id>?;
    fhir:extension @<Extension>*;
    fhir:link @<Practitioner> OR CLOSED {a fhir:Practitioner}?;
    fhir:Reference.reference @<string>?;
    fhir:Reference.display @<string>?;
    fhir:index xsd:integer?
}

<Practitioner> {
    a [fhir:Practitioner];
    fhir:nodeRole [fhir:treeRoot]?
}

<PatientReference> CLOSED {
    fhir:Element.id @<id>?;
    fhir:extension @<Extension>*;
    fhir:link @<Patient> OR CLOSED {a fhir:Patient}?;
    fhir:Reference.reference @<string>?;
    fhir:Reference.display @<string>?;
    fhir:index xsd:integer?
}

<Patient> {
    a [fhir:Patient];
    fhir:nodeRole [fhir:treeRoot]?
}

<RelatedPersonReference> CLOSED {
    fhir:Element.id @<id>?;
    fhir:extension @<Extension>*;
    fhir:link @<RelatedPerson> OR CLOSED {a fhir:RelatedPerson}?;
    fhir:Reference.reference @<string>?;
    fhir:Reference.display @<string>?;
    fhir:index xsd:integer?
}

<RelatedPerson> {
    a [fhir:RelatedPerson];
    fhir:nodeRole [fhir:treeRoot]?
}

#---------------------- Value Sets ------------------------

# Identifies the purpose for this identifier, if known .
fhirvs:identifier-use ["usual" "official" "temp" "secondary"]

# Statement about the degree of clinical certainty that a specific substance was the cause of the manifestation in an reaction event.
fhirvs:reaction-event-certainty ["unlikely" "likely" "confirmed" "unknown"]

# Clinical assessment of the severity of a reaction event as a whole, potentially considering multiple different manifestations.
fhirvs:reaction-event-severity ["mild" "moderate" "severe"]

# Category of an identified substance.
fhirvs:allergy-intolerance-category ["food" "medication" "biologic" "environment"]

# Assertion about certainty associated with a propensity, or potential risk, of a reaction to the identified substance.
fhirvs:allergy-verification-status ["unconfirmed" "confirmed" "refuted" "entered-in-error"]

# The status of a resource narrative
fhirvs:narrative-status ["generated" "extensions" "additional" "empty"]

# The clinical status of the allergy or intolerance.
fhirvs:allergy-clinical-status ["active" "inactive" "resolved"]

# Identification of the underlying physiological mechanism for a Reaction Risk.
fhirvs:allergy-intolerance-type ["allergy" "intolerance"]

# Estimate of the potential clinical harm, or seriousness, of a reaction to an identified substance.
fhirvs:allergy-intolerance-criticality ["low" "high" "unable-to-assess"]

# How the Quantity should be understood and represented.
fhirvs:quantity-comparator ["<" "<=" ">=" ">"]