remove duplicated thing

theiagen · Dec 11, 2024 · cdcf302 · cdcf302
1 parent e8087e7
commit cdcf302
Showing 1 changed file with 0 additions and 7 deletions.
diff --git a/tbp_parser/Variant.py b/tbp_parser/Variant.py
@@ -112,13 +112,6 @@ def extract_annotations(self):
         self.logger.debug("VAR:The drug ({}) was not found in the annotation dictionary; adding it with a WHO confidence of 'No WHO annotation'".format(drug))
         self.annotation_dictionary[drug] = Row(self.logger, self, "No WHO annotation", drug)
 
-      if self.gene_name in globals.GENE_TO_ANTIMICROBIAL_DRUG_NAME.keys():
-        for antimicrobial in globals.GENE_TO_ANTIMICROBIAL_DRUG_NAME[self.gene_name]:
-          if antimicrobial not in self.annotation_dictionary.keys():
-            self.logger.debug("VAR: The drug ({}) was not found in the gene associated drug list; adding it with a WHO confidence of 'No WHO annotation'".format(antimicrobial))
-            self.annotation_dictionary[antimicrobial] = Row(self.logger, self, "No WHO annotation", antimicrobial, source="Mutation effect for given drug is not in TBDB")
-
-
       if self.gene_name in globals.GENE_TO_ANTIMICROBIAL_DRUG_NAME.keys():
         for antimicrobial in globals.GENE_TO_ANTIMICROBIAL_DRUG_NAME[self.gene_name]:
           if antimicrobial not in self.annotation_dictionary.keys():