stash formatting changes

biolink · May 13, 2024 · 7a08057 · 7a08057
1 parent 267e48c
commit 7a08057
Showing 1 changed file with 15 additions and 16 deletions.
diff --git a/bin/validate.py b/bin/validate.py
@@ -227,7 +227,6 @@ def produce_gaf(dataset, source_gaf, ontology_graph, gpipaths=None, paint=False,
                 format="gaf", suppress_rule_reporting_tags=[], annotation_inferences=None, group_metadata=None,
                 extensions_constraints=None, rule_contexts=[], gaf_output_version="2.2",
                 rule_set=assocparser.RuleSet.ALL) -> list[str]:
-
     filtered_associations = open(os.path.join(os.path.split(source_gaf)[0], "{}_noiea.gaf".format(dataset)), "w")
     config = assocparser.AssocParserConfig(
         ontology=ontology_graph,
@@ -667,21 +666,21 @@ def produce(ctx, group, metadata_dir, gpad, ttl, target, ontology, exclude, base
         # like for paint_other.
         click.echo("source_gaf: {}".format(source_gaf))
         valid_gaf = produce_gaf(dataset, source_gaf, ontology_graph,
-            paint=(group=="paint"),
-            group=group,
-            rule_metadata=rule_metadata,
-            goref_metadata=goref_metadata,
-            ref_species_metadata=ref_species_metadata,
-            db_entities=db_entities,
-            group_idspace=group_ids,
-            suppress_rule_reporting_tags=suppress_rule_reporting_tag,
-            annotation_inferences=gaferences,
-            group_metadata=group_metadata,
-            extensions_constraints=extensions_constraints,
-            rule_contexts=["import"] if dataset_metadata.get("import", False) else [],
-            gaf_output_version=gaf_output_version,
-            rule_set=rule_set
-            )[0]
+                                paint=(group == "paint"),
+                                group=group,
+                                rule_metadata=rule_metadata,
+                                goref_metadata=goref_metadata,
+                                ref_species_metadata=ref_species_metadata,
+                                db_entities=db_entities,
+                                group_idspace=group_ids,
+                                suppress_rule_reporting_tags=suppress_rule_reporting_tag,
+                                annotation_inferences=gaferences,
+                                group_metadata=group_metadata,
+                                extensions_constraints=extensions_constraints,
+                                rule_contexts=["import"] if dataset_metadata.get("import", False) else [],
+                                gaf_output_version=gaf_output_version,
+                                rule_set=rule_set
+                                )[0]
 
         gpi = produce_gpi(dataset, absolute_target, valid_gaf, ontology_graph)