Page History
...
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="aabd805d8d2aab64-11947f5f-4c8e4b64-9b24af4c-03f1c9ddc7c726b191e17f7d"><ac:plain-text-body><![CDATA[ |
|
| 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="399bb765b9bdff71-e0c27fc3-4c5a48d3-ae469fa8-7e7e9463b3399f9b487b1324"><ac:plain-text-body><![CDATA[ |
|
| 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="30b17793b3d35d05-da9e62e2-44fb44d0-96a395cd-fae73c620bf62d06021570a8"><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="5217fb5dff70a1c1-2e205090-4f794f73-baec8b25-3037950a257f4ab6e04e28a6"><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="0f3b4b1adfbca29b-65644449-4c954337-bbb5b2a9-90c20c7c7baa5834f4ce09f3"><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="72961bb04811311d-f8ef23fd-4690434a-aa8ea0c7-657d6a42984ac2528c7f0c20"><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="a2759f60e412cd75-86b474da-42e741af-a8f28dd0-6cb1f72e073f922bc7126ca7"><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="1aed56a35334b641-2b2bfb5c-4ffd48ca-85ed8692-7293ad25c7eea6cb8efa382d"><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="597f740a7441a60a-6137376f-40ed42a7-b75fafb6-89516030da73df8183b57235"><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="ff3712cfa68e8799-b7185c74-47194b31-a8cf8158-e912b92d2ed9997f60a63fee"><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="8133b93c027f840a-be6a3c59-440144c6-9f63a724-3201986934f199638cad9802"><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="b1fab2b5f7800021-1238f25c-4b6b44d6-be9a98e1-281aa430306716891059dc71"><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="ade47bb8e76915ff-abb4879c-43654ae6-a3adb5b8-778edf877069085bbd99c67e"><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="32e3764993894584-026beb68-462748b2-8da7a4b9-921de03776c2485697ac3500"><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="21a080a42a37bc66-1e77ab0e-46c344ba-a67e985d-d5bfa7d0d9c549bc248d9bf5"><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="1fbe9d6a066a7d37-37e0d7c8-41f4458b-94bb9223-a8dc2968b0ad469744e571c3"><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="498e97b7aff02d23-67957164-46fa4abd-83ac993c-96b683fd635a82b15fdb201e"><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 |
...