Gaussian 16 is the latest version of the Gaussian series of electronic structure programs, used by chemists, chemical engineers, biochemists, physicists and other scientists worldwide. Gaussian 16 provides a wide-ranging suite of the most advanced modeling capabilities available. You can use it to investigate the real-world chemical problems that interest you, in all of their complexity, even on modest computer hardware.
Official website : https://gaussian.com/g16main/
update : 21 Feb 2023
Available version
Currently, only Gaussian version 16.C.02 is available on Lanta. This Gaussian module can be used for running on both CPU node and GPU node.
Version | Processing unit | Module name |
|---|---|---|
| CPU |
|
GPU |
1. Input files
The basic input files for running Gaussian on Lanta are gaussian input file (.gjf or .com) and job submission script. The Gaussian input file for CPU and GPU node is slightly different for the Link 0 command section.
1.1 CPU
Example of gaussian input file for running on CPU
%Chk=e3_06_react %Mem = 10GB %CPU = 0-63 # opt freq APFD/6-311+g(2d,p) geom=connectivity Int=(UltraFine,Acc2E=12) (CH3)2CH-N=N=N Reactant Opt Freq 0 1 C -1.83177831 -0.66472886 2.11461257 C -0.34820496 -0.85131460 1.74610765 H -0.27347155 -1.22969857 0.74803927 H -2.28349687 0.02809460 1.43575618 H -2.33612081 -1.60629555 2.05143972 H -1.90651173 -0.28634489 3.11268095 C 0.30193203 -1.84846238 2.72315330 H 1.33272650 -1.97810312 2.46711416 H 0.22719861 -1.47007841 3.72122168 H -0.20241047 -2.79002907 2.65998044 N 0.34467679 0.44223964 1.83289652 N 0.37818431 1.05254766 2.90258123 N 0.41169183 1.66285567 3.97226594 1 2 1.0 4 1.0 5 1.0 6 1.0 2 7 1.0 3 1.0 11 1.0 3 4 5 6 7 8 1.0 9 1.0 10 1.0 8 9 10 11 12 2.0 12 13 2.0 13
Here, %Chk locate and name scratch files, %Mem sets the amount of dynamic memory to use, %CPU contains a list of processor/core numbers for shared memory parallel processing. In this example, the total CPU cores is 64 (CPUs no. 0 to 63). For further information, please visit https://gaussian.com/link0/.
1.2 GPU
Example of gaussian input file for running on GPU. The extra tag is %GPUCPU=gpu-list=core-list. In this example %GPUCPU=0-3=0-3, the job uses 4 GPUs (0-3) and assigns CPU no. 0-3 to control these GPUs, respectively.
%Chk=e3_06_react %Mem = 10GB %CPU = 0-63 %GPUCPU=0-3=0-3 # opt freq APFD/6-311+g(2d,p) geom=connectivity Int=(UltraFine,Acc2E=12) (CH3)2CH-N=N=N Reactant Opt Freq 0 1 C -1.83177831 -0.66472886 2.11461257 C -0.34820496 -0.85131460 1.74610765 H -0.27347155 -1.22969857 0.74803927 H -2.28349687 0.02809460 1.43575618 H -2.33612081 -1.60629555 2.05143972 H -1.90651173 -0.28634489 3.11268095 C 0.30193203 -1.84846238 2.72315330 H 1.33272650 -1.97810312 2.46711416 H 0.22719861 -1.47007841 3.72122168 H -0.20241047 -2.79002907 2.65998044 N 0.34467679 0.44223964 1.83289652 N 0.37818431 1.05254766 2.90258123 N 0.41169183 1.66285567 3.97226594 1 2 1.0 4 1.0 5 1.0 6 1.0 2 7 1.0 3 1.0 11 1.0 3 4 5 6 7 8 1.0 9 1.0 10 1.0 8 9 10 11 12 2.0 12 13 2.0 13
2. Job submission script
create a script using vi submit.sh command and specify the following details depending on computational resources you want to use.
2.1 Run Gaussian on CPU node
#!/bin/bash -l #SBATCH -p compute #specify partition #SBATCH -N 1 #specify number of nodes #SBATCH --cpus-per-task=64 #specify number of cpus #SBATCH -t 2:00:00 #job time limit <hr:min:sec> #SBATCH -J e3_06_react #job name #SBATCH -A thaisc #project account #SBATCH --exclusive #reserving entire node for the job #module load #purge all module module load Gaussian/16.C.02-AVX2 #load gaussian version16 FILENAME=e3_06_react WORKDIR=$SLURM_SUBMIT_DIR ################################# export GAUSS_SCRDIR=/scratch/thaisc/siwakorn g16 < $FILENAME.gjf > $WORKDIR/$FILENAME.log
The script above request for compute partition (-p compute), 1 node (-N 1) with 64 CPU cores per task (--cpus-per-task=64). The wall-time limit is set to 2 hours 2:00:00 (the maximum time limit is 5 days -t 5-00:00:00) . The account is set to thaisc (-A thaisc) that is subjected to change to your own account. The job name is set to e3_06_react (-J e3_06_react ). For Gaussian, it is recommend to reserve an entire node for the job #SBATCH --exclusive since Gaussian is resource intensive, and using Gaussian on a shared compute node could potentially affect other users..
Please change FILENAME to you own input file and change the GAUSS_SCRDIR to your own project scratch directory
Total cores per LANTA Compute node is 128
The resource specified in job submission script must consistent with the resource specified in Gaussian input file.
2.2 Run Gaussian on GPU node
#!/bin/bash -l #SBATCH -p gpu #specify partition #SBATCH -N 1 #specify number of nodes #SBATCH --gpus-per-node=4 #specify number of gpu #SBATCH --cpus-per-task=64 #specify number of cpus #SBATCH -t 2:00:00 #job time limit <hr:min:sec> #SBATCH -J e3_06_react #job name #SBATCH -A thaisc #project account #SBATCH –exclusive #reserving entire node for the job #module load #purge all module module load Gaussian/16.C.02-AVX2 #load gaussian version16 FILENAME=e3_06_react WORKDIR=$SLURM_SUBMIT_DIR ################################ export GAUSS_SCRDIR=/scratch/thaisc/siwakorn g16 < $FILENAME.gjf > $WORKDIR/$FILENAME.log
The script above request for GPU partition (-p gpu), 1 node (-N 1) and 4 GPUs cards --gpus-per-node=4 , and the total CPU cores = 64 (--cpus-per-task=64)
Total cores per LANTA GPU node is 64
3. Job submission
using sbatch submit.sh command to submit the job to the queuing system.