From c1b89707024aa0b9f6e41d9051b542c37a8f2dd2 Mon Sep 17 00:00:00 2001
From: Antonio Gonzalez <antgonza@gmail.com>
Date: Mon, 26 Feb 2024 15:13:28 -0700
Subject: [PATCH] readd /dev/shm and rm SLURM_ARRAY_TASK_MIN check

---
 sequence_processing_pipeline/templates/nuqc_job.sh | 13 ++-----------
 1 file changed, 2 insertions(+), 11 deletions(-)

diff --git a/sequence_processing_pipeline/templates/nuqc_job.sh b/sequence_processing_pipeline/templates/nuqc_job.sh
index 3561f67c..9451956f 100644
--- a/sequence_processing_pipeline/templates/nuqc_job.sh
+++ b/sequence_processing_pipeline/templates/nuqc_job.sh
@@ -12,18 +12,13 @@
 
 echo "---------------"
 echo "Run details:"
-echo "$SLURM_JOB_NAME $SLURM_JOB_ID $SLURMD_NODENAME"
+echo "$SLURM_JOB_NAME $SLURM_JOB_ID $SLURMD_NODENAME $SLURM_ARRAY_TASK_ID"
 echo "---------------"
 
 if [[ -z "${SLURM_ARRAY_TASK_ID}" ]]; then
     echo "Not operating within an array"
     exit 1
 fi
-
-if [[ "${SLURM_ARRAY_TASK_MIN}" -ne 1 ]]; then
-    echo "Min array ID is not 1"
-    exit 1
-fi
 if [[ -z ${MMI} ]]; then
     echo "MMI is not set"
     exit 1
@@ -56,11 +51,7 @@ fi
 # DO NOT do this casually. Only do a clean up like this if
 # you know for sure TMPDIR is what you want.
 
-# we might got back to this TMPDIR once the slurm scheduler controls it
-#    TMPDIR=/dev/shm
-# right now, let's use ${OUTPUT}, note that each worker will create a new tmp
-# folder two lines below
-TMPDIR=${OUTPUT}
+TMPDIR=/dev/shm
 export TMPDIR=${TMPDIR}
 export TMPDIR=$(mktemp -d)
 echo $TMPDIR