DL POLY

General

• Project web site: DL_POLY4
• Documentation: PDF manual.
• Mailing list.

DL_POLY is a general purpose classical molecular dynamics (MD) simulation software. It provides scalable performance from a single processor workstation to a high performance parallel computer. DL_POLY_4 offers fully parallel I/O as well as a NetCDF alternative to the default ASCII trajectory file.

For more on the capabilities, design, and history of DL_POLY, please see the project's web site.

License limitations

DL_POLY is now open source and it does not require registration. A new module dl_poly4/5.1.0 is already installed under StdEnv/2023 and it is accessible for all users. However, if you would like to use the previous versions (dl_poly4/4.10.0 and/or dl_poly4/4.08), you should contact support and ask to be added to the POSIX group that controls access to DL_POLY4. There is no need to register on DL_POLY website.

Modules

To see which versions of DL_POLY are installed on our systems, run module spider dl_poly4. See Using modules for more about module subcommands.

To load the version 5.x, use:

module load StdEnv/2023 intel/2023.2.1 openmpi/4.1.5 dl_poly4/5.1.0

To load the previous version 4.10.0, use:

module load StdEnv/2023 intel/2020.1.217 openmpi/4.0.3 dl_poly4/4.10.0

Note that this version requires to be added to a POSIX group as explained above in License limitations.

We do not currently provide a module for the Java GUI interface.

Getting started

• DL_POLY tutorial and exercises
• DL_POLY4 examples
• DL_POLY FAQs
• DL_Software User Community
• Useful Resources for DL_POLY Users

Scripts and examples

The input files shown below (CONTROL and FIELD) were taken from example TEST01 that can be downloaded from the page of DL_POLY examples.

To start a simulation, one must have at least three files:

• CONFIG: simulation box (atomic coordinates)
• FIELD: force field parameters
• CONTROL: simulation parameters (time step, number of MD steps, simulation ensemble, ...etc.)

CONTROLFIELDSerial jobMPI job

File : CONTROL

SODIUM CHLORIDE WITH (27000 IONS)

restart scale
temperature           500.0
equilibration steps   20
steps                 20
timestep              0.001

cutoff                12.0
rvdw                  12.0
ewald precision       1d-6  

ensemble nvt berendsen 0.01

print every           2
stats every           2
collect
job time              100
close time            10

finish

File : FIELD

SODIUM CHLORIDE WITH EWALD SUM (27000 IONS)
units internal
molecular types 1
SODIUM CHLORIDE
nummols 27
atoms 1000
Na+          22.9898         1.0  500
Cl-           35.453        -1.0  500
finish
vdw    3 
Na+     Na+     bhm      2544.35      3.1545      2.3400   1.0117e+4   4.8177e+3
Na+     Cl-     bhm      2035.48      3.1545      2.7550   6.7448e+4   8.3708e+4
Cl-     Cl-     bhm      1526.61      3.1545      3.1700   6.9857e+5   1.4032e+6
close

File : run_serial_dlp.sh

#!/bin/bash

#SBATCH --account=def-someuser
#SBATCH --ntasks=1
#SBATCH --mem-per-cpu=2500M      # memory; default unit is megabytes.
#SBATCH --time=0-00:30           # time (DD-HH:MM).

# Load the module:

module load StdEnv/2023  
module load intel/2023.2.1  openmpi/4.1.5 dl_poly4/5.1.0

echo "Starting run at: `date`"

dlp_exec=DLPOLY.Z

${dlp_exec}

echo "Program finished with exit code $? at: `date`"

File : run_mpi_dlp.sh

#!/bin/bash

#SBATCH --account=def-someuser
#SBATCH --nodes=1
#SBATCH --ntasks-per-node=4
#SBATCH --mem-per-cpu=2500M      # memory; default unit is megabytes.
#SBATCH --time=0-00:30           # time (DD-HH:MM).

# Load the module:

module load StdEnv/2023  
module load intel/2023.2.1  openmpi/4.1.5 dl_poly4/5.1.0

echo "Starting run at: `date`"

dlp_exec=DLPOLY.Z

srun ${dlp_exec}

echo "Program finished with exit code $? at: `date`"

Related software

• VMD
• LAMMPS

Message Passing Interface