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="bfd71d72bdba2856-766b4360-4ac64417-b23b979a-93c5d1657edc87e305e465f7"><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="1c35f65d29c5de3e-08b62a0a-40b14387-b152b8c2-cd6b1ee2cbc1d8846baf586f"><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="82506f1b84431605-60acd494-40d74b72-abc4b140-40745b1f5456c41ca14b02a0"><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="5f0f34fb6b6cca79-8057dd59-409f44b7-9962852e-63518961f07ac5e9abf6a784"><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="876a177c605ff326-cfa14b79-480a4437-873a8834-c2c5db890f420d2ff696afe1"><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="2139f4c6c9bae4c5-19286b3f-4a4040f0-98028a1c-decf0308d065d2000794b8a7"><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="6f4feaa75c8a6f37-6e3fdf56-4d5d4ab5-8405953a-747f0905b542b214f0d9c03e"><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="e744cdfb1b350b77-2f7b8bd9-41c14d84-a1fd9ca5-2ed261105b9ca5cdc177b0c2"><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="9b1bb47619a5969e-f2f9daba-457d40e1-aa25b50c-733a393898504ec9a7de7015"><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="7d40a527ae4ef01b-367d0dad-42864921-bd83bb80-6e913be3d9bdee0efeb3ad29"><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="1ee4ecdd6c8ca98c-d50a9719-46ee4ea9-8080b8c3-5ba41763ad5d55c00d87a889"><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="29d5ca332bd2a91c-938c1cbe-439247c1-b6d8a89e-b1a4ef9a4ed553222388bd0c"><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="a7c843b8f618c8c8-e3aeba1b-4bbc4e71-ba98b3ee-6bc69c92dd29e01eb9ad7589"><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="e8bac2d11c718219-352cf7a0-4e434f2e-80668198-c360ea80918073d2284468c5"><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="539f19f6e5bac3d6-238952ae-43d14d39-af1398f9-fb8cbd062c548ccec61ca741"><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="8c24cb13e5aa8ae6-9f36e533-498c4636-bfb1b88f-c84e1462ce7081339de512b8"><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="ba6e17bd1819082c-ac941c34-42ec4517-a14f9072-51ba7f9cd4def08bb6227777"><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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