diff --git a/workflow/rules/common.smk b/workflow/rules/common.smk index 8c95ac5..9456594 100644 --- a/workflow/rules/common.smk +++ b/workflow/rules/common.smk @@ -569,7 +569,9 @@ def get_filter_mutect_calls_input( intervals: str | None = get_intervals(wildcards) if intervals: filter_mutect_calls_input["intervals"] = intervals - filter_mutect_calls_input["contamination_table"] = "tmp/fair_gatk_mutect2_gatk_calculate_contamination/{wildcards.species}.{wildcards.build}.{wildcards.release}.{wildcards.datatype}/{wildcards.sample}.pileups.table".format( + filter_mutect_calls_input[ + "contamination_table" + ] = "tmp/fair_gatk_mutect2_gatk_calculate_contamination/{wildcards.species}.{wildcards.build}.{wildcards.release}.{wildcards.datatype}/{wildcards.sample}.pileups.table".format( wildcards=wildcards )