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Page History
...
OWL Element | LexEVS | Comments | |
---|---|---|---|
owl:Restriction | concept | Create an anonymous concept for the restriction | |
owl:Restriction | concept.id | System generated | No comments |
owl:Restriction | concept.isActive = true | No comments | |
owl:Restriction | concept.isAnonymous = true | Hardcoded "True" | |
owl:onProperty | association.id | No comments | |
owl: allValuesFrom | concept.entityDescription | String of allValuesFrom values | |
owl: allValuesFrom | concept.presentation.propertyId | Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value. | |
owl: allValuesFrom | concept.presentation.propertyName | Hardcoded "textualPresentation" | |
owl: allValuesFrom | concept.presentation.isPreferred = true | Hardcoded "true" | |
owl: allValuesFrom | concept.presentation.text | String of allValuesFrom values | |
owl: allValuesFrom | concept.conceptProperty.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |
owl: allValuesFrom | concept.conceptProperty.propertyName = type | Hardcoded "type" | |
owl: allValuesFrom | concept.conceptProperty.text = "owl:unionOf" | No comments | |
owl: someValuesFrom | concept.entityDescription | String of someValuesFrom values | |
owl: someValuesFrom | concept.presentation.propertyId | Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value. | |
owl: someValuesFrom | concept.presentation.propertyName | Hardcoded "textualPresentation" | |
owl: someValuesFrom | concept.presentation.isPreferred = true | Hardcoded "true" | |
owl: someValuesFrom | concept.presentation.text | String of someValuesFrom values | |
owl: someValuesFrom | concept.conceptProperty.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |
owl: someValuesFrom | concept.conceptProperty.propertyName = type | Hardcoded "type" | |
owl: someValuesFrom | concept.conceptProperty.text = "owl:intersectionOf" | No comments | |
owl:intersectionOf | concept.entityDescription | String of intersectionOf values (ie. Pizza and not VegetarianPizza) | |
owl:intersectionOf | concept.presentation.propertyId | Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value. | |
owl:intersectionOf | concept.presentation.propertyName | Hardcoded "textualPresentation" | |
owl:intersectionOf | concept.presentation.isPreferred = true | Hardcoded "true" | |
owl:intersectionOf | concept.presentation.text | String of intersectionOf values (ie. Pizza and not VegetarianPizza) | |
owl:intersectionOf | concept.conceptProperty.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |
owl:intersectionOf | concept.conceptProperty.propertyName = type | Hardcoded "type" | |
owl:intersectionOf | concept.conceptProperty.text = "owl:intersectionOf" | No comments | |
UnionOf | concept.conceptProperty.text = "owl:unionOf" | No comments | |
owl:complementOf | association | association.id = "subClassOf" | |
owl:oneOf | concept.entityDescription | String of oneOf values | |
owl:oneOf | concept.presentation.propertyId | Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value. | |
owl:oneOf | concept.presentation.propertyName | Hardcoded "textualPresentation" | |
owl:oneOf | concept.presentation.isPreferred = true | Hardcoded "true" | |
owl:oneOf | concept.presentation.text | String of oneOf values | |
owl:oneOf | concept.conceptProperty.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |
owl:oneOf | concept.conceptProperty.propertyName = type | Hardcoded "type" | |
owl:oneOf | concept.conceptProperty.text = "owl:intersectionOf" | No comments | |
owl:hasValue | associationQualification.nameAndValueList.content | No comments | |
owl:minCardinality | concept.entityDescription | String of minCardinality Values (ie. (hasTopping min 3) and Pizza) | |
owl:minCardinality | concept.presentation.propertyId | Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value. | |
owl:minCardinality | concept.presentation.propertyName | Hardcoded "textualPresentation" | |
owl:minCardinality | concept.presentation.isPreferred = true | Hardcoded "true" | |
owl:minCardinality | concept.presentation.text | String of minCardinality Value (ie. (hasTopping min 3) and Pizza) | |
owl:minCardinality | concept.conceptProperty.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |
owl:minCardinality | concept.conceptProperty.propertyName = type | Hardcoded "type" | |
owl:minCardinality | concept.conceptProperty.text = "owl:intersectionOf" | No comments | |
owl:maxCardinality | concept.entityDescription | String of maxCardinality Values (ie. (hasTopping max 2) and Pizza) | |
owl:maxCardinality | concept.presentation.propertyId | Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value. | |
owl:maxCardinality | concept.presentation.propertyName | Hardcoded "textualPresentation" | |
owl:maxCardinality | concept.presentation.isPreferred = true | Hardcoded "true" | |
owl:maxCardinality | concept.presentation.text | String of maxCardinality Values (ie. (hasTopping max 2) and Pizza) | |
owl:maxCardinality | concept.conceptProperty.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |
owl:maxCardinality | concept.conceptProperty.propertyName = type | Hardcoded "type" | |
owl:maxCardinality | concept.conceptProperty.text = "owl:intersectionOf" | No comments | |
owl:cardinality | concept.entityDescription | String of cardinality Values | |
owl:cardinality | concept.presentation.propertyId | Generated value for property textual presentation using "P" concatenated with a steadily incremented numerical value. | |
owl:cardinality | concept.presentation.propertyName | Hardcoded "textualPresentation" | |
owl:cardinality | concept.presentation.isPreferred = true | Hardcoded "true" | |
owl:cardinality | concept.presentation.text | String of cardinality Values | |
owl:cardinality | concept.conceptProperty.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |
owl:cardinality | concept.conceptProperty.propertyName = type | Hardcoded "type" | |
owl:cardinality | concept.conceptProperty.text = "owl:intersectionOf" | No comments | |
owl:disjointWith | association | association.id = "disjointWith" |
...
RRF File Name | RRF Column Name | RRF Definition | NCI Meta only | LexGrid Model Element | Comments | ||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
None | None | None | None | codingScheme.representsVersion | No comments | ||||||||
None | None | None | None | codingScheme.codingScheme | hard Hard coded in java file as "UMLS_SemNet" | ||||||||
None | None | None | None | codingScheme.formalName | hard Hard coded in java file as "UMLS Semantic Network" | ||||||||
None | None | None | None | codingScheme.defaultLanguage | hard Hard coded in java file as "en" | ||||||||
None | None | None | None | codingScheme.approxNumConcepts | hard Hard coded in java file as | ||||||||
None | None | None | None | codingScheme.entityDescription | hard Hard coded in java file as "The UMLS Semantic Network is one of three UMLS Knowledge Sources developed as part of the Unified Medical Language System project. The network provides a consistent categorization of all concepts represented in the UMLS Metathesaurus." | ||||||||
license.txt | None | None | None | codingScheme.copyright | Read from license.txt file or hard coded reference in java file | ||||||||
license.txt | None | None | None | codingScheme.registeredName | hard Hard coded in java file as "urn:lsid:nlm.nih.gov:semnet" | ||||||||
license.txt | None | None | None | codingScheme.concepts.dc | hard Hard coded in java file as "concepts" | ||||||||
license.txt | None | None | None | codingScheme.relations.dc | hard Hard coded in java file as "relations" | ||||||||
license.txt | None | None | None | codingScheme.mappings.dc | hard Hard coded in java file as "mappings" | ||||||||
license.txt | None | None | None | codingScheme.localNameList |
| No comments | |||||||
license.txt | None | None | None |
|
|
|
| codingScheme.localNameList. | hard Hard coded in java file as "UMLS_SemNet" | ||||
license.txt | None | None | None | codingScheme.localNameList |
|
|
|
| No comments | ||||
license.txt | None | None | None | codingScheme.localNameList. |
| No comments | |||||||
license.txt | None | None | None |
|
|
|
| codingScheme.source |
|
|
| No comments | |
license.txt | None | None | None |
|
| codingScheme.source.content |
| No comments | |||||
license.txt | None | None | None |
|
|
|
| codingScheme.localNameList |
|
|
|
| No comments |
license.txt | None | None | None | codingScheme.localNameList. |
|
| No comments | ||||||
license.txt | None | None | None |
|
|
| codingScheme.localNameList |
|
|
|
| No comments | |
license.txt | None | None | None | codingScheme.localNameList. |
|
| No comments | ||||||
license.txt | None | None | None |
|
|
| codingScheme.localNameList |
|
|
|
| No comments | |
license.txt | None | None | None | codingScheme.localNameList. |
|
| No comments | ||||||
license.txt | None | None | None |
|
|
| codingScheme.localNameList |
|
|
|
| No comments | |
license.txt | None | None | None | codingScheme.localNameList. |
| No comments | |||||||
license.txt | None | None | None |
|
|
|
| mappings.supportedFormat |
| No comments | |||
license.txt | None | None | None |
|
|
|
| mappings.supportedFormat.localId | hard Hard coded in java file as "text/plain" | ||||
license.txt | None | None | None | mappings.supportedFormat.urn | hard Hard coded in java file as "urn:oid:2.16.840.1.113883.6.10:text_plain" | ||||||||
license.txt | None | None | None | mappings.supportedAssociation | No comments | ||||||||
SRDEF | RL | None | None | mappings.supportedAssociation.localId | No comments | ||||||||
SRDEF | RL | None | None | mappings.supportedContext | No comments | ||||||||
SRDEF | RL | None | None | mappings.supportedSource | No comments | ||||||||
SRDEF | RL | None | None | mappings.supportedSource.localId | hard Hard coded in java file as "NLM" | ||||||||
SRDEF | RL | None | None | mappings.supportedSource.urn | hard Hard coded in java file as "urn:lsid:nlm.nih.gov" | ||||||||
SRDEF | RL | None | None | mappings.supportedHierarchy | No comments | ||||||||
SRDEF | RL | None | None | mappings.supportedHierarchy.localId | hard Hard coded in java file as "is_a" | ||||||||
SRDEF | RL | None | None | mappings.supportedHierarchy.isForwardNavigable | hard Hard coded as "true" | ||||||||
SRDEF | RL | None | None | mappings.supportedHierarchy.rootCode | hard Hard coded as "@" | ||||||||
SRDEF | RL | None | None | mappings.supportedHierarchy.associationList | hard Hard coded in java file as "hasSubtype" | ||||||||
SRDEF | RL | None | None | mappings.supportedAssociationQualifier | v | ||||||||
SRFLD | COL | None | None | mappings.supportedProperty | No comments | ||||||||
SRFLD | COL | None | None | mappings.supportedProperty.localId | If SRDEF appears in the FIL column then this is treated a potential supported property and is entered in supported properties as such. | ||||||||
SRFLD | COL | None | None | mappings.supportedProperty.urn | hard Hard coded in java file as "" | ||||||||
SRFLD | COL | None | None | mappings.supportedLanguage | No comments | ||||||||
SRFLD | COL | None | None | mappings.supportedLanguage.localId | hard Hard coded in java file as "en" | ||||||||
SRFLD | COL | None | None | mappings.supportedLanguage.urn | hard Hard coded in java file as "urn:oid:2.16.840.1.113883.6.84:en" | ||||||||
SRFLD | COL | None | None | mappings.supportedCodingScheme | No comments | ||||||||
SRFLD | COL | None | None | mappings.supportedCodingScheme.localId | hard Hard coded in java file as "UMLS_SemNet" | ||||||||
SRFLD | COL | None | None | mappings.supportedCodingScheme.urn | hard Hard coded in java file as "urn:lsid:nlm.nih.gov:semnet" | ||||||||
SRFLD | COL | None | None | mappings.supportedRepresentationalForm | No comments | ||||||||
SRFLD | COL | None | None | mappings.supportedConceptStatus | No comments | ||||||||
SRFLD | COL | None | None | mappings.supportedPropertyLink | No comments | ||||||||
SRFLD | COL | None | None | mappings.supportedPropertyQualifier | No comments | ||||||||
SRFLD | COL | None | None | mappings.supportedDataType | No comments |
Concepts
UMLS SemNet Mapping
RRF File Name | RRF Column Name | RRF Definition | NCI Meta only | LexGrid Model Element | Comments | |||||
---|---|---|---|---|---|---|---|---|---|---|
SRDEF | UI | None | None | concept.id(inherited from Entity) | No comments | |||||
SRDEF | STY/RL | None | None | concept.enitityDescription(inheritance path Entity->versionableAndDescribable) | No comments | |||||
SRDEF | STY/RL | None | None | concept.conceptProperty | No comments | |||||
SRDEF | NH | None | None | concept.conceptProperty.text.content | No comments | |||||
SRDEF | NH | None | None | concept.conceptProperty.format | hard Hard coded in java file as "text/plain" | |||||
SRDEF | NH | None | None | concept.conceptProperty.propertyName | hard Hard coded in java file as "NH" | |||||
SRDEF | NH | None | None | concept.conceptProperty.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |||||
SRDEF | NH | None | None | concept.presentation | No comments | |||||
SRDEF | NH | None | None | concept.presentation.propertyName (inherited from Property) | Hard coded in java file as "STY/RL" or "ABR" | |||||
SRDEF | NH | None | None | concept.presentation.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |||||
SRDEF | STY/RL, ABR | None | None | concept.presentation.text.content | No comments | |||||
SRDEF | STY/RL, ABR | None | None |
|
|
|
| concept.presentation.format | hard Hard coded in java file as "text/plain" |
|
SRDEF | STY/RL, ABR | None | None |
|
|
| concept.presentation.isPreferred | hard Hard coded in java file as true. | ||
SRDEF | STY/RL, ABR | None | None |
|
|
|
| concept.definition.propertyName (inherited from Property) | Hard coded in java file as "DEF" | |
SRDEF | STY/RL, ABR | None | None |
|
|
|
| concept.definition.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |
SRDEF | DEF | None | None | concept.definition.text.content | No comments | |||||
SRDEF | DEF | None | None | concept.definition.format | hard Hard coded in java file as "text/plain" | |||||
SRDEF | DEF | None | None | concept.definition.isPreferred | hard Hard coded in java file as true. | |||||
SRDEF | DEF | None | None | concept.comment | No comments | |||||
SRDEF | EX | None | None | concept.comment.propertyName (inherited from Property) | Hard coded in java file as "EX" | |||||
SRDEF | EX | None | None | concept.comment.text.content | No comments | |||||
SRDEF | EX | None | None | concept.comment.format | hard Hard coded in java file as "text/plain" | |||||
SRDEF | EX | None | None | concept.comment.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. | |||||
SRDEF | EX | None | None | concept.instruction | No comments | |||||
SRDEF | EX | None | None | concept.instruction.propertyName (inherited from Property) | Hard coded in java file as "UN" | |||||
SRDEF | UN | None | None | concept.instruction.text.content | No comments | |||||
SRDEF | UN | None | None | concept.instruction.format | hard Hard coded in java file as "text/plain" | |||||
SRDEF | UN | None | None | concept.instruction.propertyId | Generated value for property using "P" concatenated with a steadily incremented numerical value. |
...
OBO Class | OBO Entity | LexGrid Model Element | Notes | ||
---|---|---|---|---|---|
Document Header | format-version |
| Not mapped. | ||
Document Header | data-version | CodingScheme.representsVersion | Creates a codingSchemeVersion and SystemRelease record. If not specified, then hard coded "UNASSIGNED" | ||
Document Header | version | CodingScheme.representsVersion | Deprecated - use data-version if present. | ||
Document Header | date |
| Not mapped. | ||
Document Header | saved-by |
| Ignored but included if contained in the remark entity. | ||
Document Header | auto-generated-by |
| Ignored but included if contained in the remark entity. | ||
Document Header | subsetdef |
| Not mapped. | ||
Document Header | import |
| Deprecated - Imports are used to assemble a larger document from smaller. | ||
Document Header | typeref |
| Deprecated. | ||
Document Header | synonymtypedef |
| Not mapped. | ||
Document Header | idspace |
| Not mapped.The idspace is a triple - localName, URN and description. | ||
Document Header | default-relationship-id-prefix |
| Not mapped. | ||
Document Header | id-mapping | CodingScheme.supportedAssociation | This is more generalized than the LexGrid model, as it supports mapping between *any* id's. Note that its primary purpose, however, is to handle supportedAssociation. | ||
Document Header | remark | CodingScheme.entityDescription | Will combine multiple remark entities into the entityDescription. | ||
Document Header | default-namespace | codingScheme.codingScheme | Will use default-namespace if provided; otherwise will use filename without the extension. | ||
Document Header | default-namespace | codingScheme.formalName | Will use default-namespace if provided; otherwise will use filename without the extension. | ||
Document Header | default-namespace | codingScheme.registeredName | Combination of "urn:lsid:bioontology.org:" and if provided, the value in "default-namespace"; but if not will use filename without the extension. | ||
|
| codingScheme.defaultLanguage | Hardcoded "en" | ||
|
| codingScheme.isNative | Hardcoded "true" | ||
Stanza | id | CodedEntry.conceptCode |
| ||
Stanza | name | CodedEntry.entityDescription |
| ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="e4e69fc4b94e90a2-84150661-41164a3f-910a8761-e6d426a36674bd4a0bfa9aef"><ac:plain-text-body><![CDATA[ |
|
| CodedEntry.presentation['textualPresentation'].text |
| ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="e1d5d9a9f4463f99-1dc02c83-44264e27-9bd985a6-641657ef7d4f02366489412a"><ac:plain-text-body><![CDATA[ |
|
| CodedEntry.presentation['textualPresentation'].isPreferred = true |
| ]]></ac:plain-text-body></ac:structured-macro> |
Stanza | alt_id | CodedEntry.property.property="alt_id" |
| ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="2cc2c36fbd59a04a-e7ac06ab-4e974b60-a9918826-3eb505566bd3b02e4bfd85b2"><ac:plain-text-body><![CDATA[ |
|
| CodedEntry.property['alt_id'].propertyId |
| ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="0409f13d9614cc5a-0754681a-45e945a7-bfb4be4b-a4ab1213f2fab10c291f1bec"><ac:plain-text-body><![CDATA[ |
|
| CodedEntry.property['alt_id'].text |
| ]]></ac:plain-text-body></ac:structured-macro> |
Stanza | is_anonymous | CodedEntry.isAnonymous = true |
| ||
Stanza | is_obsolete | CodedEntry.isActive = false |
| ||
Stanza | def | CodedEntry.definition |
| ||
|
| CodedEntry.definition.isPreferred = true |
| ||
Stanza | def.dbxref |
| See dbxref | ||
Stanza | comment | CodedEntry.comment.text |
| ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="7f864c3d6a2f05ba-2d11536f-47af4a04-a61c902a-55173f10a4c6a86c4e8ab8b6"><ac:plain-text-body><![CDATA[ | Stanza | subset | property[subset tag] | See subsetdef | ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="c3329de70f1c4974-265dab92-41f64230-8e2a8f37-52f1ec2c242d95f47cfc37b0"><ac:plain-text-body><![CDATA[ | Stanza | syonym | presentation['textualPresentation'].text |
| ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="08745dcb6273be90-bc1996a2-418a4520-ba86a508-e9e27afe8b7fb14343c55167"><ac:plain-text-body><![CDATA[ | Stanza | synonym.scope | presentation['textualPresentation'].degreeOfFidelity |
| ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="f3039aea89132476-45ff7e3d-41894617-aa5b92d5-cb9296fa5a909761eca05e7f"><ac:plain-text-body><![CDATA[ | Stanza | synonym.type | presentation['textualPresentation'].representationalForm |
| ]]></ac:plain-text-body></ac:structured-macro> |
Stanza | synonym.dbxref | (see dbxref) |
| ||
Stanza | exact_synonym |
| See synonym | ||
Stanza | narrow_synonym |
| See synonym | ||
Stanza | broad_synonym |
| See synonym | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="662b257d17c5cde3-42e88bcf-49fa46a8-a851a1d2-48d1b9990ed2d8b3d68e45ad"><ac:plain-text-body><![CDATA[ | Stanza | xref | associations.['mapsTo'] |
| ]]></ac:plain-text-body></ac:structured-macro> |
Stanza | xref_analog |
| See synonym | ||
Stanza | xref_unk |
|
| ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="6c9fe031e5cc12f8-a39259ca-487f49d1-b68d82e3-d2cc3f2f8153a929ffaf2051"><ac:plain-text-body><![CDATA[ | Stanza | is_a | associations.['hasSubtype'] | Reverse of the source and target. | ]]></ac:plain-text-body></ac:structured-macro> |
Stanza | is_a.namespace |
| If present, the supplied namespace becomes the owning "codingScheme". | ||
Stanza | is_a.derived | associations.hasSubtype.associationQualifier | If present, need to include derived in the supportedAssociationQualifiers section | ||
Stanza | intersection_of |
| Processed the same way that OWL intersection operator is processed. This includes creation of anonymous sets. | ||
Stanza | union_of |
| Same as OWL | ||
Stanza | disjoint_from |
| Same as OWL | ||
Stanza | relationship | associations. |
| ||
Stanza | relationship.not_necessary | associations..associationQualifier |
| ||
Stanza | relationship.inverse_necessary | associations..associationQualifier |
| ||
Stanza | relationship.namespace |
| If present, the supplied namespace becomes the owning "codingScheme". | ||
Stanza | relationship.derived | associations..associationQualifier |
| ||
Stanza | relationship.cardinality | associations..associationQualifier |
| ||
Stanza | relationship.maxCardinality | associations..associationQualifier |
| ||
Stanza | relationship.minCardinality | associations..associationQualifier |
| ||
Stanza | is_obsolete | codedEntry.isActive = false |
| ||
|
| codedEntry.conceptStatus="is_obsolete" |
| ||
Stanza | replaced_by |
|
| ||
Stanza | consider |
| Not Mapped | ||
Stanza | use_term |
| (deprecated) | ||
dbxref | dbxref name | CodedEntry..source |
| ||
|
| supportedSource | dbxref name format is inconsistent. In most cases, it can be the localName of supportedSource, but special processing may be necessary in the case of URL's, etc | ||
dbxref | dbxref description |
| Not mapped. | ||
dbxref | trailing modifiers |
| Not mapped. | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="cb1c1a2ecb22ceab-1d1a9498-44b946b4-a870a894-59170faa8c22ce204a3da320"><ac:plain-text-body><![CDATA[ | typeDef Stanza | domain | associations.['has_domain'] |
| ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="def9fc4552e10939-5a4be6b2-4a874d09-b4bda6a1-f542b38464f91705886eecd9"><ac:plain-text-body><![CDATA[ | typeDef Stanza | range | associations.['has_range'] |
| ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="2274c60e733c4745-cbbfaa02-44574132-8807ad7a-1cead1985e826268f7a8fa38"><ac:plain-text-body><![CDATA[ | typeDef Stanza | is_cyclic | property['is_cyclic'] |
| ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="e277259471eab50d-795eceb2-43a94c1b-86a98ee8-8120a7d6811ae370d5605952"><ac:plain-text-body><![CDATA[ | typeDef Stanza | is_reflexive | property['is_reflexive'] |
| ]]></ac:plain-text-body></ac:structured-macro> |
|
| association.isReflexive |
| ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="daa58298b644c2d2-885b7dba-459f4501-bbbd84a4-5d9659efb55c93904b4f6f41"><ac:plain-text-body><![CDATA[ | typeDef Stanza | is_symmetric | property['is_symmetric'] |
| ]]></ac:plain-text-body></ac:structured-macro> |
|
| association.isSymmetric |
| ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="6e291ea16853bd6f-e5a7972a-41df468e-b65b8cfd-e5b73a01dc603b967f2b5a22"><ac:plain-text-body><![CDATA[ | typeDef Stanza | is_transitive | property['is_transitive'] |
| ]]></ac:plain-text-body></ac:structured-macro> |
|
| association.isTransitive |
| ||
typeDef Stanza | inverse_of | association.inverse |
| ||
instance stanza | id | same rules as general stanza | same rules as general stanza | ||
instance stanza | name | same rules as general stanza | same rules as general stanza | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="da445fd52a04af6d-eeba18b4-46bb46fb-9c29a5d5-835f5d809aabccde190f7389"><ac:plain-text-body><![CDATA[ | instance stanza | instance_of | association['has_instance'] |
| ]]></ac:plain-text-body></ac:structured-macro> |
instance stanza |
| CodedEntry.property.property="" | data type properties go in Coded Entry property section |
...
HL7 Table | HL7 Column | LexGrid Model Element | Notes |
|
| |||||
---|---|---|---|---|---|---|---|---|---|---|
|
|
|
| Intentionally Not mapped | Outstanding issues | |||||
Model | <modelID> | <codingSchemeName> |
| |||||||
| <name> | <formalName> |
| |||||||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="43b9682f3b6d0e9e-a79c0f5c-4b3c4eba-9ba08868-8e77b9bef01f621d51dee14f"><ac:plain-text-body><![CDATA[ |
|
| <registeredName> | [http://www.hl7.org/Library/data-model/RIM | http://www.hl7.org/Library/data-model/RIM] *[1] | ]]></ac:plain-text-body></ac:structured-macro> | ||||
|
| <defaultLanguage> | en* | |||||||
| <versionNumber> | <representsVersion> |
| |||||||
|
| <isNative> | 0* | |||||||
|
| <approximateNumberofConcepts> | Result of count on concept bearing table? | |||||||
|
| <firstRelease> | MISSING |
|
| |||||
|
| <modifiedRelease> | MISSING |
|
| |||||
|
| <deprecated> | MISSING |
|
| |||||
| <description> | <entityDescription> |
|
|
| |||||
|
| <copyright> | MISSING |
|
| |||||
VCS_code_system | codeSystemId | codingScheme.registeredName | Moved to metadata file. |
|
| |||||
| codeSystemType | commonTypes::Properties | This is an HL7 specific code system property to distinguish internal vs external code systems. Moved to metadata file. |
|
| |||||
| codeSystemName | concept.conceptCode | Moved to metadata file. |
|
| |||||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="2b758a8ff5b28245-b16d03ab-497b4351-87bab96a-cdb128ab09227054c3423fd6"><ac:plain-text-body><![CDATA[ |
| codeSystemName | concept.presentation['textualPresentation'].text |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
| fullName | codingScheme.formalName |
|
|
| |||||
| description | codingScheme.entityDescription | Moved to metadata file. |
|
| |||||
| releaseId | codingScheme.representsVersion | Moved to metadata file. |
|
| |||||
| copyrightNotice | codingScheme.copyright | Moved to metadata file. |
|
| |||||
| literal('en') | codingScheme.defaultLanguage | Moved to metadata file. |
|
| |||||
VCS_concept_code_xref | internalId |
|
|
|
| |||||
| Concept Code | concept.conceptCode |
| RIM db column conceptCode2 |
| |||||
| Case Difference | commonTypes::Properties | Basically a proprty to outline whether there are case differences in the Concept Code or not (mainly used, but not restricted tor units of measure) | RIM db column codeInstance |
| |||||
| Status | concept.isActive=(conceptStatus=='A'?) |
| RIM db column conceptStatus |
| |||||
|
| concept.conceptStatus | Not used by HL7. A = isActive, R = retired |
|
| |||||
VCS_concept_designation | internalId | foreign key |
|
| ||||||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="3476b56e73511b63-95cca973-45e84a91-abbf9fb0-a76780e45350b2b4f191c1b1"><ac:plain-text-body><![CDATA[ |
| designation | concept.presentation['textualPresentation'].text |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
| designationSeq |
|
|
| ||||||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="f8021d9c93298fdb-f2432a2f-4d3841b5-886a8a7a-d7cde0b4d38f450fa501eb8b"><ac:plain-text-body><![CDATA[ |
| language | concept.presentation['textualPresentation'].language | Can be omitted if language = default language |
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="82ecc696b38ee78b-094cc946-49f84e00-9d169e43-673676eef5f0dc75ed95f62e"><ac:plain-text-body><![CDATA[ |
| preferredForLanguage | concept.presentation['textualPresentation'].isPreferred |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="282368c05e7cb78b-dabfd184-41a048c2-90fab336-2b40e1c99286d97c11b650f8"><ac:plain-text-body><![CDATA[ | VCS_concept_description | internalId | with(codeSystem[deref(internalId)].concept[deref(internalId)]).definition | foreign key |
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="efb4c9a810a69bec-353c6b16-48ce4880-a2309930-20681d96ae198f8180cae1c8"><ac:plain-text-body><![CDATA[ |
| description | concept.presentation['textualPresentation'].text |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="8e85187be9751ee5-2a85fa9c-473347d0-a21997f1-c10427dff13be41b047e7fd3"><ac:plain-text-body><![CDATA[ |
| language | concept.presentation['textualPresentation'].language |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="6262a7d53f12a549-ec6e59c2-476b4bbb-a8c5aeff-61eeeec73f23cec102a84fc1"><ac:plain-text-body><![CDATA[ |
| literal('true') | concept.presentation['textualPresentation'].isPreferred |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="3e8d69b9371fbbb6-6d4128a5-47a24b67-bb8ca195-530cbc4f60a2596ee0550c18"><ac:plain-text-body><![CDATA[ |
| uniqueId() | concept.presentation['textualPresentation'].propertyId |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="08996a0165326fc4-cf2dfae9-4f9d4141-a35fa15e-8a2d9fb5e2169df51a3e5878"><ac:plain-text-body><![CDATA[ |
| literal('definition') | concept.presentation['textualPresentation'].property |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
VCS_concept_property | internalId | foreign key |
|
| ||||||
| propertyCode | concept.property.property |
|
|
| |||||
| propertySeq | Currently not used by HL7 |
|
| ||||||
| propartyValue | concept.property.text |
|
|
| |||||
| language | concept.property.language |
|
|
| |||||
VCS_concept_relationship | relationCode | association.association |
|
|
| |||||
| sourceInternalId | associationInstance.sourceConcept |
|
|
| |||||
| targetInternalId | associationTarget.targetConcept |
|
|
| |||||
Model | modelID | systemRelease.releaseId |
|
|
| |||||
| name | service.service |
|
|
| |||||
| versionNumber | service.version |
|
|
| |||||
| lastModifiedDate | systemRelease.releaseDate |
|
|
| |||||
| developingOrganization | systemRelease.releaseAgency |
|
|
| |||||
| committeeID |
|
|
| ||||||
| description | systemRelease.entityDescription |
|
|
| |||||
| concat('urn:oid:2.16.840.1.113883:',systemRelease.releaseId) | systemRelease.releaseURN |
|
|
| |||||
| literal('true') | systemRelease.isLatest | Also have to set the prior release isLatest to false |
|
| |||||
| preceding-sibling/releaseOrder + 1 | systemRelease.releaseOrder |
|
|
| |||||
Model | modelID | commonTypes::Properties |
|
|
| |||||
(Special mapping for NCI) | name | codingScheme.localName |
|
|
| |||||
| versionNumber | codingScheme.representsVersion |
|
|
| |||||
| lastModifiedDate | commonTypes::Properties |
|
|
| |||||
| developingOrganization | commonTypes::Properties |
|
|
| |||||
| committeeID |
|
|
| ||||||
| description | codingScheme.entityDescription |
|
|
| |||||
| concat('urn:oid:2.16.840.1.113883:',systemRelease.releaseId) | codingScheme.registeredName |
|
|
| |||||
| literal('true') | commonTypes::Properties | Also have to set the prior release isLatest to false |
|
| |||||
| preceding-sibling/releaseOrder + 1 | commonTypes::Properties |
|
|
| |||||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="adf329467343cf2c-a9098d2d-4b4546cc-b1f9bfc1-28b310fbc08b3d8b9b9a3250"><ac:plain-text-body><![CDATA[ | RIM_vocabulary_domain | vocDomain | codingscheme["VocabularyDomain"].concept.conceptCode | Vocabulary Domains are carried in a code system of vocabulary domains. |
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="14332a8865b76f49-1820e434-44854249-acb799d3-9349e88f895ed38b99679d75"><ac:plain-text-body><![CDATA[ |
|
| codingscheme["VocabularyDomain"].concept.presentation["textualPresentation"].text | preferredPresentation |
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="62052319769d08d6-9a0a36d2-4c52461e-bbbcaae8-038b7092429e03070267fa7c"><ac:plain-text-body><![CDATA[ |
| description | codingscheme["VocabularyDomain"].concept.definition.text | preferredDefinition for code |
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="e0055249a7114ca1-8ec85480-4f0d4c96-a15083d7-fc2bbcd99cfb07e2fdd47e4e"><ac:plain-text-body><![CDATA[ |
| restrictsDomain | codingscheme["VocabularyDomain"].association["hasSubtype"].sourceConcept | Should this be hasSubtype or something else? |
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="bc06fda4c4f70aba-d12a238b-4fa24f67-88358dde-538bcc4d0bf24b261cbe9ca2"><ac:plain-text-body><![CDATA[ |
|
| codingscheme["VocabularyDomain"].association["hasSubtype"].targetconcept = vocDomain |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="3de6e283e9a31a47-1addbc1a-44764320-90078b1a-0ed76b7677c02dbf8f69e04e"><ac:plain-text-body><![CDATA[ | VOC_code_reference | usedToBuildValueSet | with(valueDomain[registeredName=current()/.]) |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
| referencesConceptCode | ...valueDomainEntry/conceptCode | 1) id is synthesized |
|
| |||||
| referencesInternalId | Internal id's aren't exposed in lexGrid |
|
| ||||||
| relationship | ...valueDomainEntry/includeChildren = (relationship == 'hasSubtype') | Won't deal w/ non-hasSubtype relationships, but HL7 doesn't have any. |
|
| |||||
| includeReferencedCode | ...valueDomainEntry/isSelectable |
| Not in current implementation |
| |||||
| leafOnly | Not used in HL7 Model |
|
| ||||||
| directChildrenOnly | Not used in HL7 Model |
|
| ||||||
| isHeadCode |
| Only used when referenced in VOC_value_set_constructor. |
|
| |||||
| referencesCodeSystem | .../valueDomainEntry.codingScheme | Shortcut in HL7 model. Must = VOC_value_set.basedOnCodeSystem |
|
| |||||
| arbitraryUniqueValue() | .../valueDomainEntry.id |
|
|
| |||||
VOC_registered_code_system | codeSystemId | VOC_registered_code_system isn't currently transferred to Lexgrid |
|
| ||||||
| sponsor |
|
|
| ||||||
| publisher |
|
|
| ||||||
| versionReportingMethod |
|
|
| ||||||
| licensingInformation | This field should really be transfer to copyright? |
|
| ||||||
| inUMLS |
|
|
| ||||||
| systemSpecificLocatorInfo |
|
|
| ||||||
| uri |
|
|
| ||||||
| isExternal |
|
|
| ||||||
VOC_value_set | valueSetId | valueDomain.registeredName |
|
|
| |||||
| valueSetName | valueDomain.valueDomain | Name is the key in LexGrid, and is optional in HL7 - will need to be addressed. |
|
| |||||
| basedOnCodeSystem | valueDomain.defaultCodingScheme | Optional in HL7, required in LexGrid. |
|
| |||||
| description | valueDomain.entityDescription |
|
|
| |||||
| definingExpression | Not used. |
|
| ||||||
| allCodes | if 'true': valueDomain.conceptCode = "@", valueDomain.includeChildren='true' |
|
|
| |||||
| isTaxonomicSet | No mapping available |
|
| ||||||
| valueSetAuthority | Included in valueSetID |
|
| ||||||
| valueSetNumber |
|
|
| ||||||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="b1a98504e3e2d49e-d7ed97a8-4f544b50-ad87891b-cd0dd4342dd99e73f8af7f63"><ac:plain-text-body><![CDATA[ | VOC_value_set_constructor | usedToBuildValueSet | new valueDomainEntry(parent = valueDomain[valueSetId=current()/.],id=unique()) |
|
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
| includesOrExcludesSet | valueDomainEntry.includesValueDomain |
|
|
| |||||
| includeHeadCode | valueDomainEntry.isSelectable |
|
|
| |||||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="df94684af7da4a84-ee871ac4-44584277-8e4ba513-6383720d814d8deb97300c36"><ac:plain-text-body><![CDATA[ |
|
| valueDomainEntry.conceptCode = VOC_code_reference[usedToBuildValueSet=current().usedToBuildValueSet and isHeadCode=true].referencesConceptCode | Assumes that there always is a head code. |
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
VOC_vocabulary_domain_value_set | representsVocDomain | (selector) |
|
|
| |||||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="9ebcfc3d601d1d9f-ad6c17e8-44b44428-8a35a36f-1b7379fceeb3ccd17bc62826"><ac:plain-text-body><![CDATA[ |
| definedByValueSet | codingscheme['VocabularyDomain'].concept[representsVocDomain].property['definedByValueSet'].text | have to get 'representsVocDomain' into supportedProperty header |
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="a3bddc1e2cdb964c-61c34b52-41154402-b670a9b3-41a527dc3fd81b3ccf21ca88"><ac:plain-text-body><![CDATA[ |
| appliesInContext | codingscheme['VocabularyDomain'].concept[representsVocDomain].property['definedByValueSet'].usageContext | Have to get all the contexts in the VocabularyDomain supportedContext header |
|
| ]]></ac:plain-text-body></ac:structured-macro> | |||
VCS_release_version | releaseId | codingSchemeVersion.version |
This is not the way that things are done at the moment. At the moment, VCS_release_versions are loaded into systemRelease. Entered if one or more concept/relationship change. |
|
| |||||
|
| valueDomainVersion.version | Set iff one or more value sets change |
|
| |||||
| literal("false") | codingSchemeVersion.isComplete | All versions are delta's in this model |
|
| |||||
| releaseAgency |
|
|
| ||||||
| releaseDate | codingSchemeVersion.versionDate |
|
|
| |||||
|
| valueDomainVersion.versionDate |
|
|
| |||||
| description | codingSchemeVersion.entityDescription |
|
|
| |||||
|
| valueDomainVersion.entityDescription |
|
|
| |||||
| editorID | There is no place for these currently. |
|
| ||||||
| forWhomID |
|
| |||||||
| concat('urn:oid:2.16.840.1.113883:',systemRelease.releaseId) |
| This corresponds to the containing system release when the sytem release occurs. It is empty until then. |
|
|
...
|
|
| Source Definition |
|
|
|
|
|
|
| Comments | ||
|
| Column | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 |
| ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="96756dc0d22bee53-718b0a69-49f34edf-b5b6a9b9-4df1e1cedd3a33421b42f001"><ac:plain-text-body><![CDATA[ | Line | 1 |
| <codingSchemeName> | <codingSchemeId> | <defaultLanguage> | <formalName> | [<version>] | [<source>] | [<description>] | [<copyright>] | This must be the first line. It contains the coding scheme metadata. | ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="a5e5a18b3f21fdb0-34803f7c-44d84868-91ca9384-f83f91128e9a422f9905a0f5"><ac:plain-text-body><![CDATA[ | 2 |
| [<code>] | <name> | [<description>] |
|
|
|
|
| Beginning of concepts in coding scheme. | ]]></ac:plain-text-body></ac:structured-macro> | |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="19ebcbed22aff114-5474c94e-413f44bd-9231b01e-3951d5b26a3f66c7bbc1c9f4"><ac:plain-text-body><![CDATA[ | 3 |
|
| [<code>] | <name> | [<description>] |
|
|
|
| Represent hierarchical 'hasSubtype' relationship nesting (name hasSubtype name) | ]]></ac:plain-text-body></ac:structured-macro> |
...