promoterTable2 is skipped when no contrasts

OpenOmics · Sep 13, 2023 · 465da6a · 465da6a
1 parent cd3391b
commit 465da6a
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/workflow/Snakefile b/workflow/Snakefile
@@ -211,7 +211,7 @@ if assay == "cfchip":
             provided(expand(join(workpath,uropa_dir,diffbind_dir,'{name}_{PeakTool}_uropa_{type}_allhits.txt'), 
                 PeakTool=['DiffbindEdgeR','DiffbindDeseq2'],name=contrasts,type=["protTSS"]), reps == "yes"),
             provided(expand(join(workpath,uropa_dir,"promoterTable2",'DiffbindDeseq2_{PeakTool}_promoter_overlap_summaryTable.txt'), 
-                PeakTool=PeakTools),reps == "yes")
+                PeakTool=PeakTools),reps == "yes" and contrast)
 
 elif assay in ["atac", "chip"]:
     rule all: