Merge pull request #61 from geneontology/feb_updates

MGI provided by then exclude
geneontology · Mar 19, 2024 · fbd62e7 · fbd62e7
2 parents 212a95b + c74ffe1
commit fbd62e7
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Showing 2 changed files with 4 additions and 2 deletions.
diff --git a/src/gopreprocess/file_processors/gaf_processor.py b/src/gopreprocess/file_processors/gaf_processor.py
@@ -163,7 +163,7 @@ def parse_p2g_gaf(self):
                 for source_assoc in annotation.associations:
                     if isinstance(source_assoc, dict):
                         continue  # skip the header
-                    if self.source == "GOA" and source_assoc.provided_by == self.taxon_to_provider[self.target_taxon]:
+                    if source_assoc.provided_by == "MGI":
                         continue
                     if (
                         self.source == "GOA"

diff --git a/src/gopreprocess/goa_annotation_creation_controller.py b/src/gopreprocess/goa_annotation_creation_controller.py
@@ -108,7 +108,9 @@ def get_source_annotations(isoform: bool, taxon: str) -> tuple[dict, Any, Any, A
     xrefs = gpi_processor.get_xrefs()
 
     # assign the output of processing the source GAF to a source_annotations variable
-    gp = GafProcessor(filepath=p2go_file, source="GOA")
+    gp = GafProcessor(filepath=p2go_file,
+                      source="GOA"
+            )
     source_annotations = gp.parse_p2g_gaf()
 
     if isoform: