From 44805126055ccc1f7ed0fe63c48be1f388a89e5f Mon Sep 17 00:00:00 2001
From: Austin Gillen <4809242+agillen@users.noreply.github.com>
Date: Thu, 29 Aug 2024 10:17:31 -0600
Subject: [PATCH] Allow bc_cut to be defined at the sample level

---
 rules/cutadapt_star.snake | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/rules/cutadapt_star.snake b/rules/cutadapt_star.snake
index 53d6992..44956f8 100644
--- a/rules/cutadapt_star.snake
+++ b/rules/cutadapt_star.snake
@@ -16,7 +16,7 @@ def _get_fq_paths(wildcards):
 """ Process complex barcodes into simple, if needed"""
 def _get_bc_cut(wildcards):
     try:
-      return CHEMISTRY[_get_config(wildcards.sample, "chemistry")]["bc_cut"]
+      return _get_config(wildcards.sample, "bc_cut")
     except KeyError:
       return ""