From 589d2e538b82f1c61c54959c37d502c9cf3e4b9f Mon Sep 17 00:00:00 2001
From: Pavel Dimens <pdimens@live.com>
Date: Wed, 16 Feb 2022 22:36:12 -0500
Subject: [PATCH] missed one

---
 rules/LepAnchor/place_orient3.smk | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/rules/LepAnchor/place_orient3.smk b/rules/LepAnchor/place_orient3.smk
index 90cd234..342eeb1 100644
--- a/rules/LepAnchor/place_orient3.smk
+++ b/rules/LepAnchor/place_orient3.smk
@@ -30,7 +30,7 @@ rule prune_contigblocks:
   message: "Pruning contig blocks without map support and removing overlaps"
   params:
     chrom = lg
-  shell: "awk -f prune.awk {input} > {output.chrom} 2> {output.err}"
+  shell: "awk -f $CONDA_PREFIX/bin/prune.awk {input} > {output.chrom} 2> {output.err}"
 
 rule prune_post:
   input: