From dd2f1444047375412225b66900edbb1f91958568 Mon Sep 17 00:00:00 2001
From: Jeremi Levesque <jeremilevesque@hotmail.com>
Date: Mon, 14 Jul 2025 16:08:05 -0400
Subject: [PATCH] cp to use user permissions instead of root

---
 nextflow.config | 1 +
 1 file changed, 1 insertion(+)

diff --git a/nextflow.config b/nextflow.config
index dcf6efb..bc1b97b 100644
--- a/nextflow.config
+++ b/nextflow.config
@@ -5,6 +5,7 @@ process {
     stageOutMode = 'rsync'
     tag = { "$sid" }
     afterScript = 'sleep 1'
+    containerOptions = "--user \$(id -u):\$(id -g)"
 }
 
 params {