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Commit 84416bfe by Francois Gygi
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Reorganized stress tests as si4stress and si2stress 

Added .gitignore
parent 7e0b69a5
Showing with 215 additions and 6 deletions
test/si2stress/README 0 → 100644
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Test of the accuracy of the stress tensor
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Use:
$ make
The file test.r contains a comparison of stress tensor components computed
by finite difference vs computed by Qbox
Notes:
- To change the choice of xc, ecut, ecuts, edit the file params.i
- In order to test off-diagonal elements of the stress tensor,
the starting unit cell in gs.i is distorted arbitrarily.
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test/si2stress/Si_VBC_LDA-1.0.xml 0 → 120000
../potentials/Si_VBC_LDA-1.0.xml
\ No newline at end of file
test/si2stress/gs.i 0 → 100644
# Si ground state
set cell 5.13 5.13 0 0 5.13 5.13 5.13 0 5.13
set ref_cell 5.5 5.5 0 0 5.5 5.5 5.5 0 5.5
species silicon Si_VBC_LDA-1.0.xml
atom Si1 silicon 1.2825 1.2825 1.2825
atom Si2 silicon -1.2825 -1.2825 -1.2825
# Special point in the FCC Brillouin Zone
# A. Baldereschi, Phys. Rev. B7, 5212 (1973)
# 12-point set
kpoint delete 0 0 0
kpoint add 0.45880 0.14765 0.31115 0.0833333333333333
kpoint add -0.16350 0.14765 -0.31115 0.0833333333333333
kpoint add 0.45880 0.31115 0.14765 0.0833333333333333
kpoint add 0.16350 0.31115 -0.14765 0.0833333333333333
kpoint add 0.31115 0.45880 0.14765 0.0833333333333333
kpoint add -0.31115 -0.16350 0.14765 0.0833333333333333
kpoint add 0.14765 0.45880 0.31115 0.0833333333333333
kpoint add -0.14765 0.16350 0.31115 0.0833333333333333
kpoint add 0.14765 0.31115 0.45880 0.0833333333333333
kpoint add 0.14765 -0.31115 -0.16350 0.0833333333333333
kpoint add 0.31115 0.14765 0.45880 0.0833333333333333
kpoint add 0.31115 -0.14765 0.16350 0.0833333333333333
strain 0.02 0.04 0.06 0.050 0.070 -0.030
params.i
set wf_dyn PSDA
set stress ON
set debug STRESS
randomize_wf
set scf_tol 1.e-9
run 30 10
save gs.xml
test/si2stress/params.i 0 → 100644
set ecut 15
set ecuts 10
set xc PBE
test/si2stress/sample.xsd 0 → 120000
../../xml/sample.xsd
\ No newline at end of file
test/si2stress/species.xsd 0 → 120000
../../xml/species.xsd
\ No newline at end of file
test/si4stress/Makefile 0 → 100644
include ../Makefile.inc
all: test.r
clean:
rm -f gs.r gs.xml gs_diag.r gs_offdiag.r test.r
gs.r: params.i
gs_diag.r: params.i
gs_offdiag.r: params.i
gs.r: gs.i
$(QBOX_CMD) gs.i > gs.r
gs_diag.r: gs_diag.i gs.r
$(QBOX_CMD) gs_diag.i > gs_diag.r
gs_offdiag.r: gs_offdiag.i gs.r
$(QBOX_CMD) gs_offdiag.i > gs_offdiag.r
test.r: gs_diag.r gs_offdiag.r
./check_stress.sh gs_diag.r > test.r
./check_stress.sh gs_offdiag.r >> test.r
test/si4stress/Si_VBC_LDA-1.0.xml 0 → 120000
../potentials/Si_VBC_LDA-1.0.xml
\ No newline at end of file
test/si4stress/check_stress.sh 0 → 100755
#!/bin/bash
#
# Test the accuracy of the computed stress tensor by comparing it with a
# finite difference calculation of dE=tr(u*sigma)
#
# use: ./check_stress.sh [energy_term sigma_name] file.r
# If energy_term and sigma_name are not specified,
# the terms ekin, eps,
# example: ./check_stress.sh ekin sigma_ekin gs.r
#
# The output file file.r must contain the following sequence
# 1) load a sample from a ground state calculation performed
# using stress=ON, ref_cell, ecuts
# 2) the following commands (with arbitrary strain parameters)
# set wf_dyn LOCKED
# strain 0.001 0.001 0.001 0 0 0
# run 0
# strain -inverse 0.001 0.001 0.001 0 0 0
# strain -inverse 0.001 0.001 0.001 0 0 0
# run 0
function check_stress_term
{
# check the accuracy of a single term of the energy and stress tensor
eterm=$1
etag='<'$eterm'>'
sigma_name=$2
file=$3
echo $eterm $sigma_name
# read volume
volume=$(grep '<unit_cell_volume>' $file | awk '{print $2}')
echo volume: $volume
# compute energy difference E(+u)-E(-u)
ep=$(grep '<'$eterm'>' $file | awk 'NR==2 {print $2}')
em=$(grep '<'$eterm'>' $file | awk 'NR==3 {print $2}')
echo ep: $ep
echo em: $em
de=$(echo "$ep - $em" | bc -l)
echo de: $de
# read strain
u=$(grep '<cmd>' $file | grep strain | head -1 | \
sed "s/<cmd>//" | sed "s/<\/cmd>//" | sed "s/\[qbox\]//" | sed "s/strain//")
# echo $u
strain=($u)
uxx=$(echo ${strain[0]})
uyy=$(echo ${strain[1]})
uzz=$(echo ${strain[2]})
uxy=$(echo ${strain[3]})
uyz=$(echo ${strain[4]})
uxz=$(echo ${strain[5]})
echo strain: $uxx $uyy $uzz $uxy $uyz $uxz
# read computed stress tensor
sxx=$(grep '<'${sigma_name}_xx'>' $file |head -1| awk '{print $2}')
syy=$(grep '<'${sigma_name}_yy'>' $file |head -1| awk '{print $2}')
szz=$(grep '<'${sigma_name}_zz'>' $file |head -1| awk '{print $2}')
sxy=$(grep '<'${sigma_name}_xy'>' $file |head -1| awk '{print $2}')
syz=$(grep '<'${sigma_name}_yz'>' $file |head -1| awk '{print $2}')
sxz=$(grep '<'${sigma_name}_xz'>' $file |head -1| awk '{print $2}')
echo stress: $sxx $syy $szz $sxy $syz $sxz
# compute energy change from 2 * volume * tr(sigma*u)
de_comp=$(echo "-2.0 * $volume * ($uxx * $sxx + $uyy * $syy + $uzz * $szz + \
2.0 * ( $uxy * $sxy + $uyz * $syz + $uxz * $sxz) )" | bc -l)
printf "E(+u)-E(-u): %15.6e\n" $de
printf "2*v*tr(sigma*u): %15.6e\n" $de_comp
# compute absolute error
abs_err=$(echo "$de - $de_comp" | bc -l)
printf "abs error: %15.6e\n" $abs_err
rel_err=$(echo "$abs_err / $de" | bc -l)
printf "rel error: %15.6e\n" $rel_err
echo "==============================================================="
}
if (( $# == 3 ))
then
# check_stress.sh term sigma_name file.r
echo "==============================================================="
echo " check_stress.sh" ${*}
echo "==============================================================="
check_stress_term $1 $2 $3
exit
fi
if (( $# == 1 ))
then
# check_stress.sh file.r
echo "==============================================================="
echo " check_stress.sh" ${*}
echo "==============================================================="
check_stress_term "ekin" "sigma_ekin" $1
check_stress_term "eps" "sigma_eps" $1
check_stress_term "econf" "sigma_econf" $1
check_stress_term "enl" "sigma_enl" $1
check_stress_term "exc" "sigma_exc" $1
check_stress_term "esr" "sigma_esr" $1
check_stress_term "etotal" "sigma_eks" $1
exit
fi
# incorrect number of arguments. Print usage.
echo " use: $0 [energy_term sigma_name] file.r"
test/si4stress/gs_diag.i 0 → 100644
load gs.xml
params.i
set wf_dyn PSDA
set stress ON
set debug STRESS
run 0
set wf_dyn LOCKED
strain 0.0001 0.0002 0.0003 0 0 0
run 0
strain -inverse 0.0001 0.0002 0.0003 0 0 0
strain -inverse 0.0001 0.0002 0.0003 0 0 0
run 0
test/si4stress/gs_offdiag.i 0 → 100644
load gs.xml
params.i
set wf_dyn PSDA
set stress ON
set debug STRESS
run 0
set wf_dyn LOCKED
strain 0 0 0 0.0005 0.0002 -0.0003
run 0
strain -inverse 0 0 0 0.0005 0.0002 -0.0003
strain -inverse 0 0 0 0.0005 0.0002 -0.0003
run 0
test/si4stress/sample.xsd 0 → 120000
../../xml/sample.xsd
\ No newline at end of file
test/si4stress/species.xsd 0 → 120000
../../xml/species.xsd
\ No newline at end of file
test/stress/Si_VBC_LDA-1.0.xml deleted 120000 → 0
../potentials/Si_VBC_LDA-1.0.xml
\ No newline at end of file
test/stress/sample.xsd deleted 120000 → 0
../../xml/sample.xsd
\ No newline at end of file
test/stress/species.xsd deleted 120000 → 0
../../xml/species.xsd
\ No newline at end of file
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