fmt

workflow/rules/common.smk

@@ -257,7 +257,7 @@ def get_benchmark_truth(wildcards):
 def get_stratified_truth(suffix=""):
     def inner(wildcards):
         benchmark = config["variant-calls"][wildcards.callset]["benchmark"]
-        return (f"results/variants/{benchmark}.truth.cov-{{cov}}.vcf.gz{suffix}",)
+        return (f"results/variants/{benchmark}.truth.cov-{cov}.vcf.gz{suffix}",)
 
     return inner
 
@@ -269,7 +269,7 @@ def get_confidence_regions(wildcards):
 
 def get_test_regions(wildcards):
     benchmark = config["variant-calls"][wildcards.callset]["benchmark"]
-    return f"resources/regions/{benchmark}/test-regions.cov-{{cov}}.bed"
+    return f"resources/regions/{benchmark}/test-regions.cov-{cov}.bed"
 
 
 def get_rename_contig_file(wildcards):
@@ -323,7 +323,9 @@ def get_nonempty_coverages(wildcards):
 def get_somatic_flag(wildcards):
     benchmark = config["variant-calls"][wildcards.callset]["benchmark"]
     return (
-        "--squash-ploidy" if genomes[benchmarks[benchmark]["genome"]].get("somatic") else ""
+        "--squash-ploidy"
+        if genomes[benchmarks[benchmark]["genome"]].get("somatic")
+        else ""
     )