Hotfix for wrong GT in vcf2vcf

mskcc · Apr 8, 2016 · 885de9b · 885de9b
1 parent a4ffc68
commit 885de9b
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/vcf2vcf.pl b/vcf2vcf.pl
@@ -148,7 +148,7 @@
 
         # Standardize AD and DP based on data in the genotype fields
         FixAlleleDepths( \@alleles, $var_allele_idx, \%nrm_info );
-        $tum_info{GT} = "./." unless( defined $tum_info{GT} and $tum_info{GT} ne '.' );
+        $nrm_info{GT} = "./." unless( defined $nrm_info{GT} and $nrm_info{GT} ne '.' );
     }
 
     # Add more filter tags to the FILTER field, if --add-filters was specified