Correction to Clinvar-by-codon keys (#6)

.bumpversion.cfg

@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 1.2.0
+current_version = 1.3.0
 commit = True
 tag = False
 

clinvarbitration/clinvar_by_codon.py

@@ -88,12 +88,12 @@ def main(input_vcf: str, output_root: str):
         # extract the clinvar details (added in previous script)
         clinvar_allele = variant.INFO['allele_id']
         clinvar_stars = variant.INFO['gold_stars']
-        clinvar_key = f'{clinvar_allele}:{clinvar_stars}'
+        clinvar_key = f'{clinvar_allele}::{clinvar_stars}'
 
         # iterate over all missense consequences
         for csq_dict in variant_consequences(variant, header_csq):
             # add this clinvar entry in relation to the protein consequence
-            protein_key = f"{csq_dict['ensp']}:{csq_dict['protein_position']}"
+            protein_key = f"{csq_dict['ensp']}::{csq_dict['protein_position']}"
             clinvar_dict[protein_key].add(clinvar_key)
 
     # save the dictionary locally

setup.py

@@ -26,7 +26,7 @@ def read_reqs(filename: str) -> list[str]:
     name='clinvarbitration',
     description='CPG ClinVar Re-interpretation',
     long_description=readme,
-    version='1.2.0',
+    version='1.3.0',
     author='Matthew Welland, CPG',
     author_email='[email protected], [email protected]',
     url='https://github.com/populationgenomics/ClinvArbitration',