#!/bin/bash
#SBATCH --nodes=1               # 1 node is used
#SBATCH --ntasks-per-node=4     # 4 MPI tasks
#SBATCH --cpus-per-task=10      # Number of OpenMP threads per MPI task
#SBATCH --hint=nomultithread    # Disable hyperthreading
#SBATCH --job-name=gromacs      # Jobname
#SBATCH --output=GMX_GenMD.o%j  # Standard output file (%j is the job number)
#SBATCH --error=GMX_GenMD.o%j   # Standard error file
#SBATCH --time=10:00:00         # Expected runtime HH:MM:SS (max 100h)
##
## Please, refer to comments below for
## more information about these 4 last options.
##SBATCH --account=<account>@cpu  # To specify cpu accounting: <account> = echo $IDRPROJ
##SBATCH --partition=<partition>  # To specify partition (see IDRIS web site for more info)
##SBATCH --qos=qos_cpu-dev        # Uncomment for job requiring less than 2 hours
##SBATCH --qos=qos_cpu-t4         # Uncomment for job requiring more than 20h (up to 4 nodes)

# Cleans out the modules loaded in interactive and inherited by default
module purge

# Load needed modules
module load gromacs/2018.7-mpi-cuda

# Run : 4 MPI tasks (--ntasks-per-node=4) and 10 threads/task (--cpus-per-task=10)
# Be aware that Gromacs recommands 2 <= ntomp <= 6.
# Do your own tests
srun gmx_mpi mdrun -v -deffnm md_test -ntomp $SLURM_CPUS_PER_TASK