Changes between Version 4 and Version 5 of DespoinaLog/2010/10/6

Timestamp:

2010-10-06T16:06:26+02:00 (14 years ago)

Author:

antonak

Comment:

--

DespoinaLog/2010/10/6

@@ -4 +4 @@
      * added in molgenis_db.xml : 
 {{{
-<entity name="OntologyTerm" extends="Trait" implements="Locus">
-        <description>
-        The ontology term field. Should this be extending or implement smthg?
-        </description>
-</entity>
+
+    <entity name="OntologyTerm">
+            <description>
+                The OntologyTerm class defines references to a single entry from an ontology or a controlled vocabulary. Other classes can reference to
+                this OntologyTerm to harmonize naming of concepts. Each term should have a local, unique label. Good practice is to label it 'sourceid:term', e.g.
+                'MO:cell' If no suitable ontology term exists one can define new terms locally in which case there is no formal accession for the term. In those
+                cases the local name should be repeated in both term and termAccession. Maps to FuGE::OntologyIndividual; in MAGE-TAB there is no separate entity to
+                model terms.
+        Should this be extending or implement smthg?
+    
+            </description>
+                <field name="id" type="autoid"/>
+            <field nillable="false" auto="false" name="term" type="varchar"
+             description="The ontology term itself, also known as the 'local name' in some ontologies."/>
+            <field name="description" type="text"
+             description="Definition of the term." nillable="true"/>
+                        <field nillable="true" auto="false" name="termAccession" type="varchar"
+             description="The accession number assigned to the ontology term in the source ontology. If empty it is assumed to be a locally defined term. "/>
+            <field auto="false" name="termSource" type="xref"
+             description="The source ontology or controlled vocabulary list that ontology terms have been obtained from. One can define a local ontology if needed."
+             xref_field="OntologySource.id" xref_label="name"/>
+            <unique fields="termSource,term"
+             description="the local label of the OntologyTerm is unique within a data set."/>
+        </entity>       
+    
 }}}