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in.elastic
c1aebdd391f3lammm-master-deprecated

in.elastic
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			# Compute elastic constant tensor for a crystal at finite temperature
			#
			# WARNING: This script attempts to measure small differences in
			# statistical averages generated by finite temperature MD simulations.
			# This creates many more opportunities for errors to occur, compared
			# to the zero temperature version provided in examples/ELASTIC.
			# Hence, it is always a good idea to start with the zero temperature
			# calculation, before attempting to use this script.
			#
			# Written by Aidan Thompson (Sandia, athomps@sandia.gov)
			#
			# This script uses the following three include files.
			#
			# init.mod (must be modified for different crystal structures)
			# Define units, MD parameters, deformation parameters,
			# and initial configuration of the atoms and simulation cell.
			#
			#
			# potential.mod (must be modified for different pair styles)
			# Define pair style and other attributes
			# not stored in restart file
			#
			#
			# displace.mod (displace.mod should not need to be modified)
			# Perform positive and negative box displacements
			# in direction ${dir} and size ${up}.
			# It uses the resultant changes
			# in stress to compute one
			# row of the elastic stiffness tensor
			#
			# Inputs variables:
			# dir = the Voigt deformation component
			# (1,2,3,4,5,6)
			# Global constants:
			# up = the deformation magnitude (strain units)
			# cfac = conversion from LAMMPS pressure units to
			# output units for elastic constants
			#
			#
			# To run this on a different system, it should only be necessary to
			# modify the files init.mod and potential.mod. In order to calculate
			# the elastic constants correctly, care must be taken to specify
			# the correct units in init.mod (units, cfac and cunits). It is also
			# important to verify that the MD sampling of stress components
			# is generating accurate statistical averages.
			# One indication of this is that the elastic constants are insensitive
			# to the choice of the variable ${up} in init.mod. Another is to
			# check for finite size effects.
			#

			include init.mod

			# Compute initial state

			variable thermostat equal 1
			include potential.mod
			run ${nequil}

			if "${adiabatic} == 1" &
			then "variable thermostat equal 0" &
			else "variable thermostat equal 1"

			print ${thermostat}

			include potential.mod
			run ${nrun}

			variable pxx0 equal f_avp[1]
			variable pyy0 equal f_avp[2]
			variable pzz0 equal f_avp[3]
			variable pxy0 equal f_avp[4]
			variable pxz0 equal f_avp[5]
			variable pyz0 equal f_avp[6]

			variable tmp equal lx
			variable lx0 equal ${tmp}
			variable tmp equal ly
			variable ly0 equal ${tmp}
			variable tmp equal lz
			variable lz0 equal ${tmp}

			# These formulas define the derivatives w.r.t. strain components
			# Constants uses $, variables use v_
			variable d1 equal -(v_pxx1-${pxx0})/(v_delta/v_len0)*${cfac}
			variable d2 equal -(v_pyy1-${pyy0})/(v_delta/v_len0)*${cfac}
			variable d3 equal -(v_pzz1-${pzz0})/(v_delta/v_len0)*${cfac}
			variable d4 equal -(v_pyz1-${pyz0})/(v_delta/v_len0)*${cfac}
			variable d5 equal -(v_pxz1-${pxz0})/(v_delta/v_len0)*${cfac}
			variable d6 equal -(v_pxy1-${pxy0})/(v_delta/v_len0)*${cfac}

			# Write restart
			write_restart restart.equil

			# uxx Perturbation

			variable dir equal 1
			include displace.mod

			# uyy Perturbation

			variable dir equal 2
			include displace.mod

			# uzz Perturbation

			variable dir equal 3
			include displace.mod

			# uyz Perturbation

			variable dir equal 4
			include displace.mod

			# uxz Perturbation

			variable dir equal 5
			include displace.mod

			# uxy Perturbation

			variable dir equal 6
			include displace.mod

			# Output final values

			variable C11all equal ${C11}
			variable C22all equal ${C22}
			variable C33all equal ${C33}

			variable C12all equal 0.5*(${C12}+${C21})
			variable C13all equal 0.5*(${C13}+${C31})
			variable C23all equal 0.5*(${C23}+${C32})

			variable C44all equal ${C44}
			variable C55all equal ${C55}
			variable C66all equal ${C66}

			variable C14all equal 0.5*(${C14}+${C41})
			variable C15all equal 0.5*(${C15}+${C51})
			variable C16all equal 0.5*(${C16}+${C61})

			variable C24all equal 0.5*(${C24}+${C42})
			variable C25all equal 0.5*(${C25}+${C52})
			variable C26all equal 0.5*(${C26}+${C62})

			variable C34all equal 0.5*(${C34}+${C43})
			variable C35all equal 0.5*(${C35}+${C53})
			variable C36all equal 0.5*(${C36}+${C63})

			variable C45all equal 0.5*(${C45}+${C54})
			variable C46all equal 0.5*(${C46}+${C64})
			variable C56all equal 0.5*(${C56}+${C65})

			# Average moduli for cubic crystals

			variable C11cubic equal (${C11all}+${C22all}+${C33all})/3.0
			variable C12cubic equal (${C12all}+${C13all}+${C23all})/3.0
			variable C44cubic equal (${C44all}+${C55all}+${C66all})/3.0

			variable bulkmodulus equal (${C11cubic}+2*${C12cubic})/3.0
			variable shearmodulus1 equal ${C44cubic}
			variable shearmodulus2 equal (${C11cubic}-${C12cubic})/2.0
			variable poissonratio equal 1.0/(1.0+${C11cubic}/${C12cubic})

			# For Stillinger-Weber silicon, the analytical results
			# are known to be (E. R. Cowley, 1988):
			# C11 = 151.4 GPa
			# C12 = 76.4 GPa
			# C44 = 56.4 GPa

			print "========================================="
			print "Components of the Elastic Constant Tensor"
			print "========================================="

			print "Elastic Constant C11all = ${C11all} ${cunits}"
			print "Elastic Constant C22all = ${C22all} ${cunits}"
			print "Elastic Constant C33all = ${C33all} ${cunits}"

			print "Elastic Constant C12all = ${C12all} ${cunits}"
			print "Elastic Constant C13all = ${C13all} ${cunits}"
			print "Elastic Constant C23all = ${C23all} ${cunits}"

			print "Elastic Constant C44all = ${C44all} ${cunits}"
			print "Elastic Constant C55all = ${C55all} ${cunits}"
			print "Elastic Constant C66all = ${C66all} ${cunits}"

			print "Elastic Constant C14all = ${C14all} ${cunits}"
			print "Elastic Constant C15all = ${C15all} ${cunits}"
			print "Elastic Constant C16all = ${C16all} ${cunits}"

			print "Elastic Constant C24all = ${C24all} ${cunits}"
			print "Elastic Constant C25all = ${C25all} ${cunits}"
			print "Elastic Constant C26all = ${C26all} ${cunits}"

			print "Elastic Constant C34all = ${C34all} ${cunits}"
			print "Elastic Constant C35all = ${C35all} ${cunits}"
			print "Elastic Constant C36all = ${C36all} ${cunits}"

			print "Elastic Constant C45all = ${C45all} ${cunits}"
			print "Elastic Constant C46all = ${C46all} ${cunits}"
			print "Elastic Constant C56all = ${C56all} ${cunits}"

			print "========================================="
			print "Average properties for a cubic crystal"
			print "========================================="

			print "Bulk Modulus = ${bulkmodulus} ${cunits}"
			print "Shear Modulus 1 = ${shearmodulus1} ${cunits}"
			print "Shear Modulus 2 = ${shearmodulus2} ${cunits}"
			print "Poisson Ratio = ${poissonratio}"

lammps/examples/ELASTIC_T/in.elasticc1aebdd391f3lammm-master-deprecated

in.elasticView Options

lammps/examples/ELASTIC_T/in.elastic
c1aebdd391f3lammm-master-deprecated

in.elastic
View Options