Add explicit GO relation

src/pyobo/sources/rhea.py

@@ -18,6 +18,7 @@
     has_output,
     has_participant,
     has_right_to_left_reaction,
+    reaction_enabled_by_molecular_function,
 )
 from pyobo.utils.path import ensure_df
 
@@ -45,6 +46,7 @@ class RheaGetter(Obo):
         has_input,
         has_output,
         has_participant,
+        reaction_enabled_by_molecular_function,
     ]
 
     def iter_terms(self, force: bool = False) -> Iterable[Term]:
@@ -180,7 +182,7 @@ def iter_terms(version: str, force: bool = False) -> Iterable[Term]:
         ("reactome", "rhea2reactome", None),
         ("macie", "rhea2macie", None),
         ("metacyc", "rhea2metacyc", None),
-        ("go", "rhea2go", None),  # TODO what is the relationship?
+        ("go", "rhea2go", reaction_enabled_by_molecular_function),
         ("uniprot", "rhea2uniprot", enabled_by),
     ]:
         xref_df = ensure_df(

src/pyobo/struct/typedef.py

@@ -48,6 +48,10 @@
 ]
 
 
+def _bool_to_obo(v: bool) -> str:
+    return "true" if v else "false"
+
+
 @dataclass
 class TypeDef(Referenced):
     """A type definition in OBO.
@@ -88,7 +92,7 @@ def iterate_obo_lines(self) -> Iterable[str]:
             yield f'def: "{self.definition}"'
 
         if self.is_metadata_tag is not None:
-            yield f'is_metadata_tag: {"true" if self.is_metadata_tag else "false"}'
+            yield f"is_metadata_tag: {_bool_to_obo(self.is_metadata_tag)}"
 
         if self.namespace:
             yield f"namespace: {self.namespace}"
@@ -113,6 +117,10 @@ def iterate_obo_lines(self) -> Iterable[str]:
             yield f"holds_over_chain: {_chain} ! {_names}"
         if self.inverse:
             yield f"inverse_of: {self.inverse}"
+        if self.domain:
+            yield f"domain: {self.domain}"
+        if self.range:
+            yield f"range: {self.range}"
 
     @classmethod
     def from_triple(cls, prefix: str, identifier: str, name: Optional[str] = None) -> "TypeDef":
@@ -161,13 +169,19 @@ def get_reference_tuple(relation: RelationHint) -> Tuple[str, str]:
     "species with RO:0002162 (in taxon)",
 )
 has_left_to_right_reaction = TypeDef(
-    Reference(prefix="debio", identifier="0000007", name="has left-to-right reaction")
+    Reference(prefix="debio", identifier="0000007", name="has left-to-right reaction"),
+    is_metadata_tag=True,
 )
 has_right_to_left_reaction = TypeDef(
-    Reference(prefix="debio", identifier="0000008", name="has right-to-left reaction")
+    Reference(prefix="debio", identifier="0000008", name="has right-to-left reaction"),
+    is_metadata_tag=True,
 )
 has_bidirectional_reaction = TypeDef(
-    Reference(prefix="debio", identifier="0000009", name="has bi-directional reaction")
+    Reference(prefix="debio", identifier="0000009", name="has bi-directional reaction"),
+    is_metadata_tag=True,
+)
+reaction_enabled_by_molecular_function = TypeDef(
+    Reference(prefix="debio", identifier="0000047", name="reaction enabled by molecular function")
 )