added qc script

adni/submit_qc.sh

@@ -0,0 +1,15 @@
+#!/bin/bash
+#SBATCH --account=def-pbellec
+#SBATCH --job-name=adni_qc
+#SBATCH --output=/lustre04/scratch/nclarke/logs/adni_qc.%a.out
+#SBATCH --error=/lustre04/scratch/nclarke/logs/adni_qc.%a.err
+#SBATCH --time=08:00:00
+#SBATCH --cpus-per-task=1
+#SBATCH --mem=8G
+
+module load apptainer
+
+FMRIPREP_DIR=/lustre04/scratch/${USER}/adni_fmriprep-20.2.7lts_1682352545/adni_bids_output_func/fmriprep-20.2.7lts
+GIGA_AUTO_QC_CONTAINER=/home/${USER}/projects/rrg-pbellec/${USER}/giga_preprocess2/giga_auto_qc-0.3.3.simg
+
+apptainer run --cleanenv -B ${FMRIPREP_DIR}:/inputs -B ${SCRATCH}:/outputs ${GIGA_AUTO_QC_CONTAINER} --reindex-bids /inputs /outputs group