fix function

EichlerLab · May 30, 2024 · 3a69e32 · 3a69e32
1 parent a4ddbd2
commit 3a69e32
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/pipelines/summarize_flagger_output/workflow/Snakefile b/pipelines/summarize_flagger_output/workflow/Snakefile
@@ -40,10 +40,10 @@ def find_per_sample_flagger_summaries(wildcards):
 
 def find_converted_pafs(wildcards):
     if wildcards.subgroup == "all":
-        return expand(rules.liftover_coords.output.paf, sample=manifest_df.index)
+        return expand(rules.liftover_coords.output.new_bed, sample=manifest_df.index)
     else:
         return expand(
-            rules.liftover_coords.output.paf,
+            rules.liftover_coords.output.new_bed,
             sample=[x for x in SUBGROUP_DICT[wildcards.subgroup]],
         )