deduplicate AMRfinder phenotypes

SMD-Bioinformatics-Lund · Dec 12, 2023 · d4273d4 · d4273d4
1 parent af20d4e
commit d4273d4
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/prp/parse/phenotype/amrfinder.py b/prp/parse/phenotype/amrfinder.py
@@ -63,7 +63,7 @@ def _parse_amrfinder_amr_results(predictions: dict) -> Tuple[ResistanceGene, ...
     # concat resistance profile
     sr_profile = {
         "susceptible": [],
-        "resistant": [pheno.name for gene in genes for pheno in gene.phenotypes]
+        "resistant": list({ pheno.name for gene in genes for pheno in gene.phenotypes })
     }
     return ElementTypeResult(phenotypes=sr_profile, genes=genes, mutations=[])