fix: use container for deseq rule

accidentally got switched back to envmodule during a merge
CCBR · Apr 18, 2024 · 3cba50d · 3cba50d
1 parent 3d44d1a
commit 3cba50d
Showing 1 changed file with 1 addition and 2 deletions.
diff --git a/workflow/rules/diff.smk b/workflow/rules/diff.smk
@@ -167,8 +167,7 @@ rule DESeq:
         spiked = NORM_METHOD,
         species = config["genome"],
         gtf=config["reference"][config["genome"]]["gtf"]
-    envmodules:
-        TOOLS["R"]
+    container: config['containers']['carlisle_r']
     shell:
         """
         set -exo pipefail