From 14a2106c63c975eb8798525ed79593f714d00c7a Mon Sep 17 00:00:00 2001
From: Edmund Miller <edmund.a.miller@protonmail.com>
Date: Thu, 17 Jun 2021 08:06:24 -0500
Subject: [PATCH] fix(sysbio): Move rnaseq specific things to pipeline config

---
 conf/pipeline/rnaseq/utd_sysbio.config | 13 +++++++++++++
 conf/utd_sysbio.config                 | 11 -----------
 2 files changed, 13 insertions(+), 11 deletions(-)
 create mode 100644 conf/pipeline/rnaseq/utd_sysbio.config

diff --git a/conf/pipeline/rnaseq/utd_sysbio.config b/conf/pipeline/rnaseq/utd_sysbio.config
new file mode 100644
index 0000000..1af5ed1
--- /dev/null
+++ b/conf/pipeline/rnaseq/utd_sysbio.config
@@ -0,0 +1,13 @@
+process {
+
+  withName : "STAR_ALIGN" {
+    memory = 36.GB
+  }
+
+  withLabel:process_high {
+    cpus = { check_max( 16 * task.attempt, 'cpus' ) }
+    memory = { check_max( 60.GB * task.attempt, 'memory' ) }
+    time = { check_max( 16.h * task.attempt, 'time' ) }
+  }
+
+}
diff --git a/conf/utd_sysbio.config b/conf/utd_sysbio.config
index bd0eda8..5d02901 100644
--- a/conf/utd_sysbio.config
+++ b/conf/utd_sysbio.config
@@ -21,17 +21,6 @@ process {
   beforeScript = 'module load singularity/3.4.1'
   executor = 'slurm'
   queue = { task.memory >= 30.GB && task.cpu <= 16 ? 'normal': 'smallmem' }
-
-
-  withName:STAR_ALIGN {
-    memory = 36.GB
-  }
-
-  withLabel:process_high {
-    cpus = { check_max( 16 * task.attempt, 'cpus' ) }
-    memory = { check_max( 60.GB * task.attempt, 'memory' ) }
-    time = { check_max( 16.h * task.attempt, 'time' ) }
-  }
 }
 
 params {