VASP Computing Elastic Constants of Au
VASP: Computing Elastic Constants of Au
Input files
Here we give an example of how to use VASP to compute the elastic constants C11, C12 and C44 of Au. We performed this calculation on MC2 in PARALLEL mode in ~/Codes/VASP/runs/Au_bulk_C11 and ~/Codes/VASP/runs/Au_bulk_C44 two directories. Each directory contains the following files.
INCAR
PREC = High ISTART = 0 ICHARG = 2 ISMEAR = 1 SIGMA = 0.1 EDIFF = 1E-09 NELM = 40 ENMAX = 500 ENCUT = 500 ISIF = 2 NSW = 100 IBRION = 2
KPOINTS
21x21x21 0 0 = automatic generation of k-points Monkhorst 21 21 21 0 0 0
POSCAR
Here's an example for Au C11 and C12 calculation, which will be changed later in PBS script every iteration.
POSCAR for FCC Au (created manually) POSCAR for FCC Au 4.067877 from acurate VASP lattice calculation 1.000 0.0 0.0 first Bravais lattice vector 0.0 1.0 0.0 second Bravais lattice vector 0.0 0.0 1.0 third Bravais lattice vector 4 number of atoms per species selective dynamics direct direct or cart (only first letter is significant) 0.0000 0.0000 0.0000 T T T 0.5000 0.5000 0.0000 T T T 0.0000 0.5000 0.5000 T T T 0.5000 0.0000 0.5000 T T T
Here's an example for Si C44 calculation, which will be changed later in PBS script every iteration.
POSCAR for FCC Au 4.067877 universal scaling factor 1.000 1.000 0.0 first lattice vector -1.0 1.0 0.0 second lattice vector 0.0 0.0 1.0 third lattice vector 8 number of atoms per species selective dynamics direct direct or cart (only first letter is significant) 0.0000 0.5000 0.0000 T T T 0.2500 0.7500 0.5000 T T T 0.0000 0.0000 0.0000 T T T 0.5000 0.0000 0.0000 T T T 0.2500 0.2500 0.5000 T T T 0.5000 0.5000 0.0000 T T T 0.7500 0.7500 0.5000 T T T 0.7500 0.2500 0.5000 T T T
POTCAR
In this example, we currently choose the US-LDA PP of Au provided by VASP. We will provide results of simulations with Au PAW-LDA PP in the later section.
Run VASP
To compute the elastic constants we use the following script auto.B.serial to run vasp repeated with different values for the first C11 component of the first Bravais lattice vector, $a. Make sure you have previously calculated the equilibrium lattice constant for this supercell with 4 atoms, otherwise errors in the calculations could arise. The script creates automatically the POSCAR file as in the example above for every a especified in the script in the range from 0.997 to 1.003. For C44 script the $a value is changed for the first and the second components of the first Bravais lattice vector.
Script for C11
#!/bin/bash rm WAVECAR for a in 0.997 0.998 0.999 1.000 1.001 1.002 1.003 do cat > POSCAR << FIN POSCAR for FCC Au 4.062241 accurate equilibrium lattice constant $a 0.0 0.0 first Bravais lattice vector 0.0 1.0 0.0 second Bravais lattice vector 0.0 0.0 1.0 third Bravais lattice vector 4 number of atoms per species selective dynamics direct direct or cart (only first letter is significant) 0.0000 0.0000 0.0000 T T T 0.5000 0.5000 0.0000 T T T 0.0000 0.5000 0.5000 T T T 0.5000 0.0000 0.5000 T T T FIN echo "a=$a" ./vasp E=`tail -1 OSZICAR` echo $a $E | sed -s 's/F=//; s/E0=//; s/d E =//;' >> Elatt.C11.dat p=`grep pressure OUTCAR | cut -b 25-34` echo $a $p >> platt.C11.dat done
Script for C44
#!/bin/bash rm WAVECAR for a in 0.997 0.998 0.999 1.000 1.001 1.002 1.003 do cat > POSCAR << FIN POSCAR for FCC Au 4.062241 accurate equilibrium lattice constant $a $a 0.0 first lattice vector -1.0 1.0 0.0 second lattice vector 0.0 0.0 1.0 third lattice vector 8 number of atoms per species selective dynamics direct direct or cart (only first letter is significant) 0.0000 0.5000 0.0000 T T T 0.2500 0.7500 0.5000 T T T 0.0000 0.0000 0.0000 T T T 0.5000 0.0000 0.0000 T T T 0.2500 0.2500 0.5000 T T T 0.5000 0.5000 0.0000 T T T 0.7500 0.7500 0.5000 T T T 0.7500 0.2500 0.5000 T T T FIN echo "a=$a" ./vasp E=`tail -1 OSZICAR` echo $a $E | sed -s 's/F=//; s/E0=//; s/d E =//;' >> Elatt.C44.dat p=`grep pressure OUTCAR | cut -b 25-34` echo $a $p >> platt.C44.dat done
Analyze data
After running the two scripts above for C11 and C44, ./auto.B.serial it will create the data files: Elatt.C11.dat,platt.C11.dat, Elatt.C44.dat, and platt.C44.dat.
Launch octave and run the following functions fit_a0EB.m and fit_a0B.m, cal_VASP.m
fit_a0EB('Elatt.B.dat',4,4);
fit_C11EB('Elatt.C11.dat',a0,B);
fit_C44EB('Elatt.C44.dat',a0,C11,C12);
In MATLAB click "change folder" when you open the file and remove the semicolon to run it from the command line. The first line fits the energy data to a quadratic curve and computes the equilibrium lattice constant, cohesive energy and bulk modulus([a0, Ecoh, B]) respectively. Refer to previous calculation?!) The second lines computes the C11 and C12 elastic constants and the third line calculates C44. You should obtain C11= 213.0 GPa, C12= 179.2 GPa and C44= 40.4 GPa.
Parallel computation
To run vasp in parallel, you need to submit vasp.pbs as
qsub vasp.pbs
You will need the following two files to do this calculation in parallel on SU-AHPCRC:
auto.B.par and
B.pbs.