Page History
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OBO Class | OBO Entity | LexGrid Model Element | Notes | ||
---|---|---|---|---|---|
Document Header | format-version | None | 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 | None | Not mapped. | ||
Document Header | saved-by | None | Ignored but included if contained in the remark entity. | ||
Document Header | auto-generated-by | None | Ignored but included if contained in the remark entity. | ||
Document Header | subsetdef | None | Not mapped. | ||
Document Header | import | None | Deprecated - Imports are used to assemble a larger document from smaller. | ||
Document Header | typeref | None | Deprecated. | ||
Document Header | synonymtypedef | None | Not mapped. | ||
Document Header | idspace | None | Not mapped.The idspace is a triple - localName, URN and description. | ||
Document Header | default-relationship-id-prefix | None | 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.codingSchemeName | 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.codingSchemeURI | 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 | Entity.entityCode | No notes | ||
Stanza | name | Entity.entityDescription | No notes | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="88a0c80a2fbc7bd2-fa68709e-4db0407f-839e8831-27d59c5f8d056803eee071c9"><ac:plain-text-body><![CDATA[ |
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| Entity.presentation['textualPresentation'].text | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="41761843c58a22cd-5e7fea73-4e824192-ab00859d-84f728ab191cb5fd9ff85065"><ac:plain-text-body><![CDATA[ |
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| Entity.presentation['textualPresentation'].isPreferred = true | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
Stanza | alt_id | Entity.property.property="alt_id" | No notes | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="16e39a44c127f7be-4de9ec22-45d04331-a466b64a-2099de21024720e78c6f8528"><ac:plain-text-body><![CDATA[ |
|
| Entity.property['alt_id'].propertyId | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="df34a55dddd8fcc3-fb906d52-4d66440c-8c628637-6b24025bd4cba5aa6b3160a0"><ac:plain-text-body><![CDATA[ |
|
| Entity.property['alt_id'].text | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
Stanza | is_anonymous | Entity.isAnonymous = true | No notes | ||
Stanza | is_obsolete | Entity.isActive = false | No notes | ||
Stanza | def | Entity.definition | No notes | ||
|
| Entity.definition.isPreferred = true | No notes | ||
Stanza | def.dbxref | None | See dbxref | ||
Stanza | comment | Entity.comment.text | No notes | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="761321574c660cdf-a06f70d9-4268447e-91eaa8ea-2e4865dc9d69332541d741b8"><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="20fc2e3a326a190a-972dc6ea-4dfc49ff-94fc8868-12d538783e46520b251254c3"><ac:plain-text-body><![CDATA[ | Stanza | syonym | presentation['textualPresentation'].text | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="73360e43145933e6-948e8b58-462849bd-92b1bd5f-56884a2320dabb903ed58477"><ac:plain-text-body><![CDATA[ | Stanza | synonym.scope | presentation['textualPresentation'].degreeOfFidelity | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="1964f8bd8a981a4b-21d57223-45704036-abcf9bbc-975e72b36d9b9c99e8835677"><ac:plain-text-body><![CDATA[ | Stanza | synonym.type | presentation['textualPresentation'].representationalForm | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
Stanza | synonym.dbxref | (see dbxref) | No notes | ||
Stanza | exact_synonym | None | See synonym | ||
Stanza | narrow_synonym | None | See synonym | ||
Stanza | broad_synonym | None | See synonym | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="ceb56890ebc9023e-dae29ce0-410d4690-afe4b3d1-32ea75759821980e1c0bb065"><ac:plain-text-body><![CDATA[ | Stanza | xref | Property.['xref'] | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
Stanza | xref_analog | None | See synonym | ||
Stanza | xref_unk | None | No notes | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="e7097b39765646ee-75f12932-41354c62-b323ac72-b4d114fb2e17aceecefb776a"><ac:plain-text-body><![CDATA[ | Stanza | is_a | AssociationPredicate.['is_a'] | Reverse of the source and target. | ]]></ac:plain-text-body></ac:structured-macro> |
Stanza | is_a.namespace | None | If present, the supplied namespace becomes the owning "codingScheme". | ||
Stanza | is_a.derived | AssociationPredicate.is_a.AssociationSource.AssociationTarget.associationQualifier | If present, need to include derived in the supportedAssociationQualifiers section | ||
Stanza | intersection_of | None | Processed the same way that OWL intersection operator is processed. This includes creation of anonymous sets. | ||
Stanza | union_of | None | Same as OWL | ||
Stanza | disjoint_from | None | Same as OWL | ||
Stanza | relationship | associations. | No notes | ||
Stanza | relationship.not_necessary | AssociationTarget..associationQualifier | No notes | ||
Stanza | relationship.inverse_necessary | AssociationTarget..associationQualifier | No notes | ||
Stanza | relationship.namespace | None | If present, the supplied namespace becomes the owning "codingScheme". | ||
Stanza | relationship.derived | AssociationTarget..associationQualifier | No notes | ||
Stanza | relationship.cardinality | AssociationTarget..associationQualifier | No notes | ||
Stanza | relationship.maxCardinality | AssociationTarget..associationQualifier | No notes | ||
Stanza | relationship.minCardinality | AssociationTarget..associationQualifier | No notes | ||
Stanza | is_obsolete | Entity.isActive = false | No notes | ||
|
| Entity.conceptStatus="is_obsolete" | No notes | ||
Stanza | replaced_by | None | No notes | ||
Stanza | consider | None | Not Mapped | ||
Stanza | use_term | None | (deprecated) | ||
dbxref | dbxref name | Entity.source | No notes | ||
dbxref | dbxref name | 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 | None | Not mapped. | ||
dbxref | trailing modifiers | None | Not mapped. | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="ca11c88de0e04a73-e323e8c0-4fde40cd-a5bcb627-7071cb7c35f84095271df3b9"><ac:plain-text-body><![CDATA[ | typeDef Stanza | domain | AssociationPredicate.['has_domain'] | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="c3f081345b4be87a-694c86fe-48174d80-980aade8-d206cf9beb8e55a8700a7765"><ac:plain-text-body><![CDATA[ | typeDef Stanza | range | AssociationPredicate.['has_range'] | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="3f88d5007dd907f1-0d79cdfb-419a4930-aa0b9cc1-37e6b6c0a23418135c9537c5"><ac:plain-text-body><![CDATA[ | typeDef Stanza | is_cyclic | property['is_cyclic'] | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="34bfe3a71c91dbcc-19883956-4e6548ec-b4c29a90-678c2e5062c71a4d4014aee0"><ac:plain-text-body><![CDATA[ | typeDef Stanza | is_reflexive | property['is_reflexive'] | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
typeDef Stanza | is_reflexive | AssociationEntity.isReflexive | No notes | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="3c39e1b5833db778-71346c9f-45054886-9057ab7c-5db57af8f231673040be0aef"><ac:plain-text-body><![CDATA[ | typeDef Stanza | is_symmetric | property['is_symmetric'] | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
typeDef Stanza | is_symmetric | association.isSymmetric | No notes | ||
<ac:structured-macro ac:name="unmigrated-wiki-markup" ac:schema-version="1" ac:macro-id="7da3ea0dbf29df13-ac164593-45ad4340-af428699-968a21d180e4044a9d2a90f2"><ac:plain-text-body><![CDATA[ | typeDef Stanza | is_transitive | property['is_transitive'] | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
typeDef Stanza | is_transitive | association.isTransitive | No notes | ||
typeDef Stanza | inverse_of | association.inverse | No notes | ||
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="913d194bf3c82879-5b9910c8-48d84a4d-a031868d-5e6b1ef3415ad05d0e2af64d"><ac:plain-text-body><![CDATA[ | instance stanza | instance_of | AssociationPredicate['has_instance'] | No notes | ]]></ac:plain-text-body></ac:structured-macro> |
instance stanza |
| instance_of | Entity.property.property="" | data type properties go in Coded Entry property section |
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