com.eldrix.hermes.snomed — com.eldrix/hermes 1.4.1312

Package snomed defines the specification for SNOMED-CT releases in the RF2 format.

See the release file specifications

These are, in large part, raw representations of the release files with some small additions, predominantly relating to valid enumerations, to aid computability.

These structures are designed to cope with importing any SNOMED-CT distribution, including full distributions, a snapshot or a delta.

• Full The files representing each type of component contain every version of every component ever released.
• Snapshot The files representing each type of component contain one version of every component released up to the time of the snapshot. The version of each component contained in a snapshot is the most recent version of that component at the time of the snapshot.
• Delta The files representing each type of component contain only component versions created since the previous release. Each component version in a delta release represents either a new component or a change to an existing component.

->vec clj multimethod

Turn a SNOMED entity into a vector

Acceptable clj

Access clj

After clj

AlternativeReferenceSet clj

AssociatedFinding clj

AssociatedMorphology clj

AssociatedProcedure clj

AssociatedWith clj

Attribute clj

BodyStructure clj

CausativeAgent clj

ClinicalCourse clj

ClinicalFinding clj

Component clj

ConceptModelAttribute clj

ConceptModelDataAttribute clj

CoreModule clj

Defined clj

defined? clj

(defined? c)

Is this concept fully defined? ie sufficiently defined by necessary conditions?

Definition clj

DirectDevice clj

DirectMorphology clj

DirectSubstance clj

DueTo clj

EntireTermCaseInsensitive clj

EntireTermCaseSensitive clj

EnvironmentGeographicLocation clj

Episodicity clj

Event clj

FindingContext clj

FindingInformer clj

FindingMethod clj

FindingSite clj

fully-specified-name? clj

(fully-specified-name? d)

FullySpecifiedName clj

HasActiveIngredient clj

HasDefinitionalManifestation clj

HasDoseForm clj

HasFocus clj

HasIntent clj

HasInterpretation clj

HasSpecimen clj

HistoricalAssociationReferenceSet clj

identifier->namespace clj

(identifier->namespace id)

Return a string representing the namespace of a long-form identifier, or nil. See [[https://confluence.ihtsdotools.org/display/DOCRELFMT/6.6+Namespace-Identifier]] The namespace-identifier is a string representation of an integer value, left padded with 0s as necessary to ensure there are always seven digits in the value.

identifier->type clj

(identifier->type id)

Get the type of SNOMED CT entity from the identifier specified.

The types are represented as namespaced keywords:

• :info.snomed/Concept
• :info.snomed/Description
• :info.snomed/Relationship.

IndirectDevice clj

IndirectMorphology clj

Interprets clj

is-defined? clj deprecated

DEPRECATED. Use defined? instead.

is-fully-specified-name? clj deprecated

DEPRECATED. Use fully-specified-name? instead.

is-primitive? clj deprecated

DEPRECATED. Use primitive? instead.

is-synonym? clj deprecated

DEPRECATED. Use synonym? instead.

IsA clj

LanguageTypeReferenceSet clj

LateralisableReferenceSet clj

Laterality clj

LinkageConcept clj

MandatoryConceptModelRule clj

MeasurementMethod clj

Method clj

ModelModule clj

ModuleDependencyReferenceSet clj

MovedFromReferenceSet clj

MovedToReferenceSet clj

MRCMAttributeDomainReferenceSet clj

MRCMAttributeRangeReferenceSet clj

MRCMDomainReferenceSet clj

MRCMModuleScopeReferenceSet clj

NavigationalConcept clj

ObservableEntity clj

Occurrence clj

OnlyInitialCharacterCaseInsensitive clj

Organism clj

parse-association-refset-item clj

(parse-association-refset-item pattern v)

parse-attribute-value-refset-item clj

(parse-attribute-value-refset-item pattern v)

parse-batch clj

(parse-batch batch)

Lazily parse a batch of SNOMED entities, returning a batch with data as parsed entities and not simply raw imported data.

parse-bool clj

(parse-bool s)

parse-complex-map-refset-item clj

(parse-complex-map-refset-item pattern v)

parse-concept clj

(parse-concept v)

parse-concrete-value clj

(parse-concrete-value v)

parse-date clj

(parse-date s)

parse-description clj

(parse-description v)

parse-extended-map-refset-item clj

(parse-extended-map-refset-item pattern v)

parse-fields clj

(parse-fields pattern values)

Parse the values 'v' using the pattern specification 'pattern'. Parameters:

• pattern : a string containing characters c, i or s.
• values : a sequence of values to be parsed.

Pattern definition

• c : A SNOMED CT component identifier (SCTID) referring to a concept, description or relationship.
• i : A signed integer
• s : A UTF-8 text string. See https://confluence.ihtsdotools.org/display/DOCRELFMT/3.3.2+Release+File+Naming+Convention

parse-language-refset-item clj

(parse-language-refset-item pattern v)

parse-module-dependency-refset-item clj

(parse-module-dependency-refset-item pattern v)

parse-mrcm-attribute-domain-refset-item clj

(parse-mrcm-attribute-domain-refset-item _pattern v)

parse-mrcm-attribute-range-refset-item clj

(parse-mrcm-attribute-range-refset-item _pattern v)

parse-mrcm-domain-refset-item clj

(parse-mrcm-domain-refset-item _pattern v)

parse-mrcm-module-scope-refset-item clj

(parse-mrcm-module-scope-refset-item _pattern v)

parse-owl-expression-refset-item clj

(parse-owl-expression-refset-item pattern v)

parse-refset-descriptor-item clj

(parse-refset-descriptor-item _pattern v)

parse-relationship clj

(parse-relationship v)

parse-simple-map-refset-item clj

(parse-simple-map-refset-item pattern v)

parse-simple-refset-item clj

(parse-simple-refset-item pattern v)

parse-snomed-filename clj

(parse-snomed-filename filename)

Parse a filename according the specifications outlined in https://confluence.ihtsdotools.org/display/DOCRELFMT/3.3.2+Release+File+Naming+Convention Each filename should match the following pattern: [FileType] _ [ContentType] _ [ContentSubType] _ [CountryNamespace] _ [VersionDate] . [FileExtension] . Returns a map containing all the information from the filename, or nil if the filename does not match the specification.

parsers clj

PartiallyEquivalentToReferenceSet clj

partition-identifier clj

(partition-identifier id)

Return the partition from the identifier. The partition identifier is stored in the penultimate last two digits. See https://confluence.ihtsdotools.org/display/DOCRELFMT/5.5.+Partition+Identifier identifier: 0123456789 meaning: xxxxxxxppc pp - partition identifier c - check digit.

partitions clj

Map of partition identifiers to type of entity. The penultimate two digits of a SNOMED CT identifier given the partition identifier.

PartOf clj

PathologicalProcess clj

PharmaceuticalBiologicalProduct clj

PhysicalForce clj

PhysicalObject clj

PossiblyEquivalentToReferenceSet clj

Preferred clj

Primitive clj

primitive? clj

(primitive? c)

Is this concept primitive? ie not sufficiently defined by necessary conditions?

Priority clj

Procedure clj

ProcedureContext clj

ProcedureDevice clj

ProcedureMorphology clj

ProcedureSite clj

ProcedureSiteDirect clj

ProcedureSiteIndirect clj

Property clj

QualifierValue clj

RecipientCategory clj

RecordArtefact clj

ReferenceSet clj

ReferenceSetConcept clj

RefersToReferenceSet clj

refset-reifier clj

(refset-reifier attribute-description-concept-ids)

Given a sequence of attribute description concept identifiers, return a function to reify a SimpleRefset into its concrete subtype.

The canonical pattern of attribute description concept identifiers is provided by SNOMED CT. For example, those for complex maps are found here

Reification of refset items could occur at time of import, or at runtime.

refset-standard-patterns clj

ReplacedByReferenceSet clj

RevisionStatus clj

Root clj

RouteOfAdministration clj

SameAsReferenceSet clj

ScaleType clj

Severity clj

Side clj

SimilarToReferenceSet clj

SituationWithExplicitContext clj

snomed-file-pattern clj

SocialContext clj

SpecialConcept clj

Specimen clj

SpecimenProcedure clj

SpecimenSourceIdentity clj

SpecimenSourceMorphology clj

SpecimenSourceTopography clj

SpecimenSubstance clj

StagingAndScales clj

SubjectOfInformation clj

SubjectRelationshipContext clj

Substance clj

SurgicalApproach clj

Synonym clj

synonym? clj

(synonym? d)

TemporalContext clj

term->lowercase clj

(term->lowercase {:keys [caseSignificanceId term]})

Return the term of the description as a lower-case string, if possible, as determined by the case significance flag.

TimeAspect clj

unparse clj multimethod

Export data as per the SNOMED RF2 file format specification.

unsafe-parse-uuid clj

(unsafe-parse-uuid s)

UsingAccessDevice clj

UsingDevice clj

UsingEnergy clj

UsingSubstance clj

valid? clj multimethod

WasAReferenceSet clj