run_predict_nuclei_multiple.sh

#!/bin/bash -l

############# SLURM SETTINGS #############
#SBATCH --account=none   # account name (mandatory), if the job runs under a project then it'll be the project name, if not then it should =none
#SBATCH --job-name=predict_nuclei_multiple   # some descriptive job name of your choice
#SBATCH --output=%x-%j_out.txt      # output file name will contain job name + job ID
#SBATCH --error=%x-%j_err.txt      # error file name will contain job name + job ID
#SBATCH --partition=nodes        # which partition to use, default on MARS is “nodes"
#SBATCH --time=0-06:00:00       # time limit for the whole run, in the form of d-hh:mm:ss, also accepts mm, mm:ss, hh:mm:ss, d-hh, d-hh:mm
#SBATCH --mem=24G                # memory required per node, in the form of [num][M|G|T]
#SBATCH --nodes=1               # number of nodes to allocate, default is 1
#SBATCH --ntasks=10              # number of Slurm tasks to be launched, increase for multi-process runs ex. MPI
#SBATCH --cpus-per-task=2       # number of processor cores to be assigned for each task, default is 1, increase for multi-threaded runs
#SBATCH --ntasks-per-node=10     # number of tasks to be launched on each allocated node

############# LOADING MODULES (optional) #############
module purge
module load libs/stardist/0.9.1
sleep 2
############# MY CODE #############
echo "Hello from $SLURM_JOB_NODELIST"
# python3 /users/ad394h/Documents/nuclei_segment/scripts/predict_nuclei_multiple.py

# python3 /users/ad394h/Documents/nuclei_segment/scripts/predict_nuclei_multiple_BASIC.py
python3 /users/ad394h/Documents/nuclei_segment/scripts/predict_nuclei_multiple_Confirm_Tumor.py
echo "over with job"
############# CHANGE #############
# module purge
# module load libs/histomicstk
# sleep 2
# ############# MY CODE #############
echo "Hello from $SLURM_JOB_NODELIST"
# python3 /users/ad394h/Documents/nuclei_segment/scripts/extract_nuclei_features.py
echo "over with job"
############# CHANGE #############
# module purge
# module load apps/anaconda3
sleep 2
# ############# MY CODE #############
echo "Hello from $SLURM_JOB_NODELIST"
# python3 /users/ad394h/Documents/nuclei_segment/scripts/train_classifier_and_classify_nuclei.py
echo "over with job"