From 6a97f6923c8e33903313b96255c8dd9f6b6ac63c Mon Sep 17 00:00:00 2001
From: Marta2906 <163407447+Marta2906@users.noreply.github.com>
Date: Mon, 11 Nov 2024 16:33:30 +0100
Subject: [PATCH] Add scicore profile config

---
 conf/scicore.config | 43 +++++++++++++++++++++++++++++++++++++++++++
 1 file changed, 43 insertions(+)
 create mode 100644 conf/scicore.config

diff --git a/conf/scicore.config b/conf/scicore.config
new file mode 100644
index 000000000..9aaa05276
--- /dev/null
+++ b/conf/scicore.config
@@ -0,0 +1,43 @@
+params {
+    config_profile_description = 'Generic profile for sciCORE provided by nf-core/configs'
+    config_profile_contact     = 'Marta Pla Díaz (@Marta2906)'
+    config_profile_url         = 'https://scicore.unibas.ch/'
+    max_memory = 2.TB
+    max_cpus   = 128
+    max_time   = 14.d
+    igenomes_base = '/scicore/data/managed/igenomes/latest'
+}
+
+// Perform work directory cleanup after successful run
+cleanup = true
+
+process {
+    resourceLimits = [
+        memory: 2.TB,
+        cpus: 128,
+        time : 14.d
+    ]
+    executor = 'slurm'
+    queue = { task.memory > 1.TB ? 'bigmem' : 'scicore' }
+    clusterOptions = { task.time <= 30.m ? '--qos=30min' : task.time <= 6.h ? '--qos=6hours' : task.time <= 1.d ? '--qos=1day' : task.time <= 7.d ? '--qos=1week' : '--qos=2week' }
+    maxRetries = 2
+    scratch = '$TMPDIR'
+}
+
+singularity {
+    enabled = true
+    autoMounts = true
+}
+
+executor {
+     queueSize = 64
+}
+
+profiles {
+    debug {
+        cleanup = false
+    }
+    schuen0002 {
+        cacheDir = '/scicore/home/schuen0002/GROUP/NEXTFLOW_SINGULARITY'
+    }
+}