From 713a032a36d22b96e1a2cae96a3c78fa6b40f3fb Mon Sep 17 00:00:00 2001
From: "Thiseas C. Lamnidis" <thisseass@gmail.com>
Date: Tue, 26 Jan 2021 15:08:21 +0100
Subject: [PATCH] Add debug profile

which deactivates cleanup of workdir after successful run
---
 conf/shh.config | 5 +++++
 1 file changed, 5 insertions(+)

diff --git a/conf/shh.config b/conf/shh.config
index dc51e87..ab3dcca 100644
--- a/conf/shh.config
+++ b/conf/shh.config
@@ -10,6 +10,7 @@ params {
   igenomes_base = "/projects1/public_data/igenomes/"
 }
 
+// Preform work directory cleanup after a successful run
 cleanup = true
 
 singularity {
@@ -46,4 +47,8 @@ profiles {
           queue = { task.memory > 756.GB || task.cpus > 64 ? 'supercruncher': task.time <= 2.h ? 'short' : task.time <= 48.h ? 'medium': 'long' }
      }
   }
+  // Profile to deactivate automatic cleanup of work directory after a successful run. Overwrites cleanup option.
+  debug {
+    cleanup = false
+  }
 }