Merge pull request #4240 from monarch-initiative/release_2021-1230

release_2021-12-30

src/ontology/components/mondo-tags.owl

@@ -23879,14 +23879,6 @@
 
 
 
-    <!-- http://purl.obolibrary.org/obo/MONDO_0008698 -->
-
-    <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0008698">
-        <mondo:excluded_from_qc_check rdf:resource="http://purl.obolibrary.org/obo/mondo/sparql/qc/general/qc-single-child.sparql"/>
-    </owl:Class>
-
-
-
     <!-- http://purl.obolibrary.org/obo/MONDO_0008710 -->
 
     <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0008710">
@@ -27286,14 +27278,6 @@
 
 
 
-    <!-- http://purl.obolibrary.org/obo/MONDO_0010674 -->
-
-    <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0010674">
-        <mondo:excluded_from_qc_check rdf:resource="http://purl.obolibrary.org/obo/mondo/sparql/qc/general/qc-single-child.sparql"/>
-    </owl:Class>
-
-
-
     <!-- http://purl.obolibrary.org/obo/MONDO_0010679 -->
 
     <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0010679">
@@ -31667,7 +31651,6 @@
     <!-- http://purl.obolibrary.org/obo/MONDO_0012414 -->
 
     <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0012414">
-        <mondo:excluded_from_qc_check rdf:resource="http://purl.obolibrary.org/obo/mondo/sparql/qc/general/qc-single-child.sparql"/>
         <terms:conformsTo rdf:resource="http://purl.obolibrary.org/obo/mondo/patterns/specific_disease_by_dysfunctional_structure.yaml"/>
     </owl:Class>
 
@@ -41322,8 +41305,6 @@
     <!-- http://purl.obolibrary.org/obo/MONDO_0014718 -->
 
     <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0014718">
-        <mondo:excluded_from_qc_check rdf:resource="http://purl.obolibrary.org/obo/mondo/sparql/qc/general/qc-single-child.sparql"/>
-        <mondo:excluded_from_qc_check rdf:resource="http://purl.obolibrary.org/obo/mondo/sparql/qc/mondo/qc-omim-subsumption.sparql"/>
         <terms:conformsTo rdf:resource="http://purl.obolibrary.org/obo/mondo/patterns/specific_disease_by_dysfunctional_structure.yaml"/>
     </owl:Class>
 
@@ -46801,14 +46782,6 @@
 
 
 
-    <!-- http://purl.obolibrary.org/obo/MONDO_0018348 -->
-
-    <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0018348">
-        <mondo:excluded_from_qc_check rdf:resource="http://purl.obolibrary.org/obo/mondo/sparql/qc/general/qc-single-child.sparql"/>
-    </owl:Class>
-
-
-
     <!-- http://purl.obolibrary.org/obo/MONDO_0018351 -->
 
     <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0018351">
@@ -46938,14 +46911,6 @@
 
 
 
-    <!-- http://purl.obolibrary.org/obo/MONDO_0018466 -->
-
-    <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0018466">
-        <mondo:excluded_from_qc_check rdf:resource="http://purl.obolibrary.org/obo/mondo/sparql/qc/general/qc-single-child.sparql"/>
-    </owl:Class>
-
-
-
     <!-- http://purl.obolibrary.org/obo/MONDO_0018467 -->
 
     <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0018467">
@@ -48550,14 +48515,6 @@
 
 
 
-    <!-- http://purl.obolibrary.org/obo/MONDO_0019443 -->
-
-    <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0019443">
-        <mondo:should_conform_to rdf:resource="http://purl.obolibrary.org/obo/mondo/patterns/OMIM_phenotypic_series.yaml"/>
-    </owl:Class>
-
-
-
     <!-- http://purl.obolibrary.org/obo/MONDO_0019444 -->
 
     <owl:Class rdf:about="http://purl.obolibrary.org/obo/MONDO_0019444">

src/ontology/debug_inference_check.owl

@@ -216,6 +216,7 @@
         <obo:IAO_0000112 xml:lang="en">my brain is part of my body (continuant parthood, two material entities)</obo:IAO_0000112>
         <obo:IAO_0000112 xml:lang="en">my stomach cavity is part of my stomach (continuant parthood, immaterial entity is part of material entity)</obo:IAO_0000112>
         <obo:IAO_0000112 xml:lang="en">this day is part of this year (occurrent parthood)</obo:IAO_0000112>
+        <obo:IAO_0000115>For continuants: C part_of C&apos; if and only if: given any c that instantiates C at a time t, there is some c&apos; such that c&apos; instantiates C&apos; at time t, and c *part_of* c&apos; at t. For processes: P part_of P&apos; if and only if: given any p that instantiates P at a time t, there is some p&apos; such that p&apos; instantiates P&apos; at time t, and p *part_of* p&apos; at t. (Here *part_of* is the instance-level part-relation.)</obo:IAO_0000115>
         <obo:IAO_0000115>a core relation that holds between a part and its whole</obo:IAO_0000115>
         <obo:IAO_0000115 xml:lang="en">a core relation that holds between a part and its whole</obo:IAO_0000115>
         <obo:IAO_0000116 xml:lang="en">Everything is part of itself. Any part of any part of a thing is itself part of that thing. Two distinct things cannot be part of each other.</obo:IAO_0000116>
@@ -1862,15 +1863,6 @@ For example, A and B may be gene products and binding of B by A positively regul
 
 
 
-    <!-- http://purl.obolibrary.org/obo/part_of -->
-
-    <ObjectProperty rdf:about="http://purl.obolibrary.org/obo/part_of">
-        <rdf:type rdf:resource="http://www.w3.org/2002/07/owl#TransitiveProperty"/>
-        <rdf:type rdf:resource="http://www.w3.org/2002/07/owl#ReflexiveProperty"/>
-    </ObjectProperty>
-
-
-
     <!-- 
     ///////////////////////////////////////////////////////////////////////////////////////
     //

src/ontology/imports/so_terms.txt

@@ -83,6 +83,7 @@ http://purl.obolibrary.org/obo/SO_1000037
 http://purl.obolibrary.org/obo/SO_1000045
 http://purl.obolibrary.org/obo/SO_1000182
 http://purl.obolibrary.org/obo/SO_1000183
+http://purl.obolibrary.org/obo/exo#interacts_with_an_exposure_stressor_via
 http://purl.obolibrary.org/obo/exo.obo#interacts_with_an_exposure_stressor_via
 http://purl.obolibrary.org/obo/so#derives_from
 http://purl.obolibrary.org/obo/so#has_part