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cylinder.py
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cylinder.py
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# This Source Code Form is subject to the terms of the Mozilla Public License, v. 2.0. If a copy of the MPL was not distributed with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#!/usr/bin/env python
'''
File: cylinder.py
Created on 21 january 2021
@author: Cedric Content
@contact: [email protected]
@organization: ONERA - DAAA
@summary: This file is the main file of the program. It contains the
routine "main" and other related routines.
'''
import srcfv.f_geom as f_geom
import srcfv.f_bnd as f_bnd
import srcfv.f_sch as f_sch
import srcfv.f_lhs as f_lhs
import srcfv.f_lin as f_lin
import srcfv.f_adj as f_adj
import srcfv.f_norm as f_norm
# FROM A.POULAIN Thesis
import misc.f_misc as f_misc
import misc.PETSc_func as pet
import resolvent_all as resol
# import SIM
# import SIM.BLprofiles_implicit as blsim
import f_init
import meshCyl as mesh
import meshBL as meshBL
import handleBC as handleBC
import numpy as _np
import matplotlib.pyplot as plt
import os
import sys
import timeit
from petsc4py import PETSc
######################### Private functions ####################
def __writestate_node(filename, im, jm, w, x0, y0, gh) :
# print 'write file'
f_out = open(filename , 'w')
f_out.write('TITLE="state"\n')
f_out.write('VARIABLES= "X" "Y" "ro" "rou" "rov" "row" "roe" \n')
f_out.write('ZONE I = ' + str(im) + ', J = ' + str(jm) + '\n')
for j in range(gh,jm+gh):
for i in range(gh,im+gh):
ro = 0.25*(w[i-1,j-1,0] + w[i,j-1,0] + w[i-1,j,0] + w[i,j,0])
rou = 0.25*(w[i-1,j-1,1] + w[i,j-1,1] + w[i-1,j,1] + w[i,j,1])
rov = 0.25*(w[i-1,j-1,2] + w[i,j-1,2] + w[i-1,j,2] + w[i,j,2])
row = 0.25*(w[i-1,j-1,3] + w[i,j-1,3] + w[i-1,j,3] + w[i,j,3])
roe = 0.25*(w[i-1,j-1,4] + w[i,j-1,4] + w[i-1,j,4] + w[i,j,4])
f_out.write(str(x0[i,j]) + ' ' + str(y0[i,j]) + ' ' +
str(ro) + ' ' + str(rou) + ' ' +
str(rov) + ' ' + str(row) + ' ' +
str(roe) + '\n')
f_out.close()
def __writestate_center(filename, im, jm, w, xc, yc, gh) :
# print 'write file'
f_out = open(filename , 'w')
f_out.write('TITLE="state"\n')
f_out.write('VARIABLES= "X" "Y" "ro" "rou" "rov" "row" "roe" \n')
f_out.write('ZONE I = ' + str(im) + ', J = ' + str(jm) + '\n')
for j in range(gh,jm+gh):
for i in range(gh,im+gh):
ro = w[i,j,0]
rou = w[i,j,1]
rov = w[i,j,2]
row = w[i,j,3]
roe = w[i,j,4]
f_out.write(str(xc[i,j]) + ' ' + str(yc[i,j]) + ' ' +
str(ro) + ' ' + str(rou) + ' ' +
str(rov) + ' ' + str(row) + ' ' +
str(roe) + '\n')
f_out.close()
def __writestate_center_gh(filename, imloc, jmloc, w, xc, yc) :
# print 'write file'
f_out = open(filename , 'w')
f_out.write('TITLE="state"\n')
f_out.write('VARIABLES= "X" "Y" "ro" "rou" "rov" "row" "roe" \n')
f_out.write('ZONE I = ' + str(imloc) + ', J = ' + str(jmloc) + '\n')
for j in range(jmloc):
for i in range(imloc):
ro = w[i,j,0]
rou = w[i,j,1]
rov = w[i,j,2]
row = w[i,j,3]
roe = w[i,j,4]
f_out.write(str(xc[i,j]) + ' ' + str(yc[i,j]) + ' ' +
str(ro) + ' ' + str(rou) + ' ' +
str(rov) + ' ' + str(row) + ' ' +
str(roe) + '\n')
f_out.close()
def __writeline(filename, imloc, w, xc,jloc) :
# print 'write file'
f_out = open(filename , 'w')
f_out.write('TITLE="state"\n')
f_out.write('VARIABLES= "X" "ro" "rou" "rov" "row" "roe" \n')
f_out.write('ZONE I = ' + str(imloc) + '\n')
for i in range(imloc):
ro = w[i,0]
rou = w[i,1]
rov = w[i,2]
row = w[i,3]
roe = w[i,4]
f_out.write(str(xc[i,jloc]) + ' ' +
str(ro) + ' ' + str(rou) + ' ' +
str(rov) + ' ' + str(row) + ' ' +
str(roe) + '\n')
f_out.close()
def __writemesh(filename, im, jm, x, y) :
# print 'write file'
f_out = open(filename , 'w')
f_out.write('TITLE="state"\n')
f_out.write('VARIABLES= "X" "Y" \n')
f_out.write('ZONE I = ' + str(im) + ', J = ' + str(jm) + '\n')
for j in range(jm):
for i in range(im):
f_out.write(str(x[i,j]) + ' ' + str(y[i,j]) + '\n')
f_out.close()
def __writenormals_node(filename, imloc, jmloc, nx, ny, x0, y0) :
# print 'write file'
f_out = open(filename , 'w')
f_out.write('TITLE="state"\n')
f_out.write('VARIABLES= "X" "Y" "nx_i" "nx_j" "ny_i" "ny_j" \n')
f_out.write('ZONE I = ' + str(imloc) + ', J = ' + str(jmloc) + '\n')
for j in range(jmloc):
for i in range(imloc):
nx_i = nx[i,j,0]
nx_j = nx[i,j,1]
ny_i = ny[i,j,0]
ny_j = ny[i,j,1]
f_out.write(str(x0[i,j]) + ' ' + str(y0[i,j]) + ' ' +
str(nx_i) + ' ' + str(nx_j) + ' ' +
str(ny_i) + ' ' + str(ny_j) + '\n')
f_out.close()
def __writenormals_nodebis(filename, im, jm, nx, ny, x0, y0, gh) :
# print 'write file'
f_out = open(filename , 'w')
f_out.write('TITLE="state"\n')
f_out.write('VARIABLES= "X" "Y" "nx_i" "nx_j" "ny_i" "ny_j" \n')
f_out.write('ZONE I = ' + str(im) + ', J = ' + str(jm) + '\n')
for j in range(gh, gh+jm):
for i in range(gh, gh+im):
nx_i = nx[i,j,0]
nx_j = nx[i,j,1]
ny_i = ny[i,j,0]
ny_j = ny[i,j,1]
f_out.write(str(x0[i,j]) + ' ' + str(y0[i,j]) + ' ' +
str(nx_i) + ' ' + str(nx_j) + ' ' +
str(ny_i) + ' ' + str(ny_j) + '\n')
f_out.close()
def __writevolume(filename, im, jm, vol, volf, xc, yc, gh) :
# print 'write file'
f_out = open(filename , 'w')
f_out.write('TITLE="state"\n')
f_out.write('VARIABLES= "X" "Y" "vol" "volf_i" "volf_j" \n')
f_out.write('ZONE I = ' + str(im) + ', J = ' + str(jm+gh) + '\n')
for j in range(gh, gh+jm+gh):
for i in range(gh, gh+im):
volfi = volf[i,j,0]
volfj = volf[i,j,1]
f_out.write(str(xc[i,j]) + ' ' + str(yc[i,j]) + ' ' +
str(vol[i,j]) + ' ' + str(volfi) + ' ' +
str(volfj) + '\n')
f_out.close()
def __writevolumegh(filename, imloc, jmloc, vol, volf, xc, yc) :
# print 'write file'
f_out = open(filename , 'w')
f_out.write('TITLE="state"\n')
f_out.write('VARIABLES= "X" "Y" "vol" "volf_i" "volf_j" \n')
f_out.write('ZONE I = ' + str(imloc) + ', J = ' + str(jmloc) + '\n')
for j in range(jmloc):
for i in range(imloc):
volfi = volf[i,j,0]
volfj = volf[i,j,1]
f_out.write(str(xc[i,j]) + ' ' + str(yc[i,j]) + ' ' +
str(vol[i,j]) + ' ' + str(volfi) + ' ' +
str(volfj) + '\n')
f_out.close()
def __comp_Sutherland(propref, Ts, Cs, T):
'''Dynamical viscosity / thermal conductivity from sutherland law'''
return propref*_np.sqrt(T/Ts)*((1.+Cs/Ts)/(1.+Cs/T))
def __compute_tot_energy_inf(R_pg, gamma, t_inf, v_inf):
'''Total energy E = R/(gamma-1)*Tinf+(uinf**2)/2'''
return R_pg/(gamma-1.)*t_inf+0.5*v_inf*v_inf
def remove_zero_jac(IA, JA, Jac, mini=1.e-15):
''' Remove the zero components from the Jac list in order not to store any zero in the sparse matrix '''
to_keep = _np.absolute(Jac) > mini
Jac = Jac[to_keep,...]
IA = IA[to_keep,...]
JA = JA[to_keep,...]
return IA, JA, Jac
def centers_array(A):
''' Compute the values of an array A at the centers'''
return 0.25 * ( A[:-1,:-1] + A[1:,:-1] + A[:-1,1:] + A[1:,1:] )
######################### Private functions ####################
# solve monoblock cylinder
def cyl2d(dgeom = dict(), dphys = dict(), dnum = dict(), compmode = 'direct', lf = list(), lflin = list(), out_dir = 'totodir', isresol= False):
'''
exemple of monoblock use of 2DTOY
to simulate 2D circular cylinder
'''
os.system('mkdir -p %s' % out_dir)
# get functions
routinein = lf[0]
routineout = lf[1]
routinenr = lf[2]
routinew = lf[3]
routinesch = lf[4]
routinebw = lf[5]
routinejn = lf[6]
libbnd = lf[7]
libsch = lf[8]
finflow = eval("%s.%s" % (libbnd, routinein))
foutflow = eval("%s.%s" % (libbnd, routineout))
fnoref = eval("%s.%s" % (libbnd, routinenr ))
fwall = eval("%s.%s" % (libbnd, routinew ))
fsym = eval("%s.%s" % (libbnd, routinebw ))
fjn = eval("%s.%s" % (libbnd, routinejn ))
fsch = eval("%s.%s" % (libsch, routinesch))
# Create mesh
im = dgeom['im']
jm = dgeom['jm']
rint = dgeom['ri']
rext = dgeom['rf']
ite = dnum['ite']
cfl = dnum['cfl']
k2 = dnum['k2']
k4 = dnum['k4']
# alpha = dnum['alpha']
sch = dnum['sch']
order = dnum['order']
freqres = dnum['freqres']
freqsort = dnum['freqsort']
gh = dnum['gh']
if compmode == 'direct':
rkcoefs = dnum['rkcoefs']
elif compmode == 'fixed_point':
lasolver = dnum['lasolver']
if lasolver == 'gmres':
tol = dnum['tol']
## MESH v2
Ny_in = jm-15 #90% #85% #100% #jm-4
deltaBL = 50.-rint #12.-rint #10.-rint #rext-rint #50.-rint
percent = 0.016 #0.01 #0.01 #0.016 #0.016
Ny_out = jm - Ny_in
high = rext - rint
Nend = high/deltaBL
r_int = meshBL.bigeom_stretch_in(Ny_in, deltaBL, percent)
r_out = meshBL.exp_stretch_out(Ny_out, deltaBL, percent, Nend)
r = _np.concatenate((r_int, r_out)) + rint
# r = meshBL.bigeom_stretch_in(Ny_in, deltaBL, percent) + rint
x,y = mesh.cylinder2d_bisfull(r, 0., 0., im+1, jm+1)
# Initialize all cfd fields
x0 = _np.zeros((im + 2*gh + 1, jm + 2*gh + 1 ), order='F')
y0 = _np.zeros((im + 2*gh + 1, jm + 2*gh + 1 ), order='F')
xc = _np.zeros((im + 2*gh , jm + 2*gh ), order='F')
yc = _np.zeros((im + 2*gh , jm + 2*gh ), order='F')
nx = _np.zeros((im + 2*gh + 1, jm + 2*gh + 1, 2), order='F')
ny = _np.zeros((im + 2*gh + 1, jm + 2*gh + 1, 2), order='F')
vol = _np.zeros((im + 2*gh , jm + 2*gh ), order='F')
volf= _np.zeros((im + 2*gh , jm + 2*gh , 2), order='F')
w = _np.zeros((im + 2*gh , jm + 2*gh , 5), order='F')
res = _np.zeros((im + 2*gh , jm + 2*gh , 5), order='F')
# get physical constants
gam = dphys['gam']
cs = dphys['cs']
tref = dphys['Ts']
muref = dphys['musuth']
rgaz = dphys['rgaz']
prandtl = dphys['Prandtl']
mach = dphys['Mach']
tinf = dphys['T0']
Lref = dphys['Lref']
StateRef = dphys['stateref']
muinf = __comp_Sutherland(muref, tref, cs, tinf)
sound = _np.sqrt(gam*rgaz*tinf)
uinf = mach * sound
einf = __compute_tot_energy_inf(rgaz, gam, tinf, uinf)
dx = _np.abs(x[0,1]-x[0,0])/Lref # adim done after muinf A.Poulain
sound = 1./dphys['Mach']
dt = cfl * dx / (sound+1.)
dtm1 = 1./dt
print("============setup===============")
print('scheme = ', sch)
print('order(or nb pts) = ', order)
print('dt = ', dt)
print('StateRef = ', StateRef)
print("gam = ", dphys['gam'])
print("Ts = ", dphys['Ts'])
print("cs = ", dphys['cs'])
print("musuth = ", dphys['musuth'])
print("rgaz = ", dphys['rgaz'])
print("Prandtl = ", dphys['Prandtl'])
print("Mach = ", dphys['Mach'])
print("T0 = ", dphys['T0'])
print("Runit = ", dphys['Runit'])
print("Lref = ", dphys['Lref'])
print("============setup===============")
print(" ")
print(" ")
#for similitude sol
dphys['mu0'] = muinf
if StateRef == 'm0_p0_t0':
pinf = dphys['P0']
rhoinf = pinf/(rgaz*tinf)
runit = rhoinf * uinf/muinf
dphys['Runit'] = runit
elif StateRef == 'm0_runit_t0':
runit = dphys['Runit']
rhoinf = runit*muinf/uinf
pinf = rhoinf*rgaz*tinf
print('mu_inf = ', muinf)
print('u_inf = ', uinf)
print('nu_inf = ', muinf/rhoinf)
# Reynolds ------------------------------------------------------------
rey = runit * rint * 2
print('Re_d =', rey)
cp = gam * rgaz /(gam-1.)
cv = rgaz /(gam-1.)
# StateRef
stateref = _np.zeros(5)
stateref[0] = rhoinf
stateref[1] = rhoinf * uinf
stateref[2] = 0.
stateref[3] = 0.
stateref[4] = rhoinf * einf
# Adim (by RVT = rho, velo et temperature)
Roref = rhoinf
Vref = uinf
Tref = tinf
Pref = Roref*Vref**2
Cvref = Vref**2/Tref
Eref = Vref**2
Rgpref = Cvref
Lref = 1.
Muref = Roref*Vref*Lref
uinf = uinf/Vref
tinf = tinf/Tref
rhoinf = rhoinf/Roref
# sound = sound/Vref
pinf = pinf/Pref
cp = cp/Cvref
cv = cv/Cvref
rgaz = rgaz/Rgpref
einf = einf/Eref
# sutherland
tref = tref/Tref
muref = muref/Muref
cs = cs/Tref
muinf = muinf/Muref
# StateAdim
state_adim = _np.zeros(5)
state_adim[0] = rhoinf
state_adim[1] = rhoinf * uinf
state_adim[2] = 0.
state_adim[3] = 0.
state_adim[4] = rhoinf * einf
print('======StateAdim=========')
print(' ')
print('state_adim uinf = ', uinf)
print('state_adim tinf = ', tinf)
print('state_adim rhoinf = ', rhoinf)
print('state_adim sound = ', sound)
print('state_adim pinf = ', pinf)
print('state_adim cp = ', cp)
print('state_adim cv = ', cv)
print('state_adim rgaz = ', rgaz)
print('state_adim einf = ', einf)
print('state_adim tref = ', tref)
print('state_adim muref = ', muref)
print('state_adim cs = ', cs)
print('state_adim muinf = ', muinf)
print('state_adim runit = ', runit)
print('======StateAdim=========')
print(' ')
#interfaces definitions (may be done at the begining)
interfl = []
interfdic = dict()
interfloc = dict()
BCdict = dict()
# Jlo Wall
interf1 = _np.zeros((2,2), order='F')
interf1[0,0] = 1 # imin
interf1[0,1] = 1 # jmin
interf1[1,0] = im # imax
interf1[1,1] = 1 # jmax
interfl.append('interf1')
interfdic['interf1'] = interf1
interfloc['interf1'] = 'Jlo'
# Jhi Noref
interf2 = _np.zeros((2,2), order='F')
interf2[0,0] = 1 # imin
interf2[0,1] = jm # jmin
interf2[1,0] = im # imax
interf2[1,1] = jm # jmax
interfl.append('interf2')
interfdic['interf2'] = interf2
interfloc['interf2'] = 'Jhi'
# Ilo
interf3 = _np.zeros((2,2), order='F')
interf3[0,0] = 1 # imin
interf3[0,1] = 1-gh # jmin
interf3[1,0] = 1 # imax
interf3[1,1] = jm+gh # jmax
interfl.append('interf3')
interfdic['interf3'] = interf3
interfloc['interf3'] = 'Ilo'
# Ihi
interf4 = _np.zeros((2,2), order='F')
interf4[0,0] = im # imin
interf4[0,1] = 1-gh # jmin
interf4[1,0] = im # imax
interf4[1,1] = jm+gh # jmax
interfl.append('interf4')
interfdic['interf4'] = interf4
interfloc['interf4'] = 'Ihi'
jmin = 1-gh
jmax = jm+gh
# pr = [[imin,jmin],[imax,jmax]]
prr1 = _np.array([[im+1 , jmin], [im+gh , jmax]], order='F')
prd1 = _np.array([[im-gh+1 , jmin], [im , jmax]], order='F')
prr2 = _np.array([[ 1-gh , jmin], [ 0 , jmax]], order='F')
prd2 = _np.array([[ 1 , jmin], [ gh , jmax]], order='F')
tr1 = _np.array([1,2], order='F')
tr2 = _np.array([1,2], order='F')
prl = _np.array([[prr1, prd1],[prr2, prd2]])
trl = _np.array([[tr1],[tr2]])
# Compute Geometry
for j in range(jm+1):
for i in range(im+1):
x0[i+gh,j+gh] = x[i,j]
y0[i+gh,j+gh] = y[i,j]
f_geom.computegeom_2d(x0,y0,nx,ny,xc,yc,vol,volf,im,jm,gh)
f_bnd.jn_match_geom_2d(xc,prr1,gh,gh,gh,gh,im,jm,xc,prd2,gh,gh,gh,gh,im,jm,tr1)
f_bnd.jn_match_geom_2d(xc,prr2,gh,gh,gh,gh,im,jm,xc,prd1,gh,gh,gh,gh,im,jm,tr2)
f_bnd.jn_match_geom_2d(yc,prr1,gh,gh,gh,gh,im,jm,yc,prd2,gh,gh,gh,gh,im,jm,tr1)
f_bnd.jn_match_geom_2d(yc,prr2,gh,gh,gh,gh,im,jm,yc,prd1,gh,gh,gh,gh,im,jm,tr2)
f_bnd.jn_match_geom_2d(vol,prr1,gh,gh,gh,gh,im,jm,vol,prd2,gh,gh,gh,gh,im,jm,tr1)
f_bnd.jn_match_geom_2d(vol,prr2,gh,gh,gh,gh,im,jm,vol,prd1,gh,gh,gh,gh,im,jm,tr2)
## WRONG for an ODD number of points in x-direction
# nx[im+gh,:,1] = nx[gh,:,1]
# ny[im+gh,:,1] = ny[gh,:,1]
# nx[im+gh,:,0] = nx[gh,:,0]
# ny[im+gh,:,0] = ny[gh,:,0]
prr1g = _np.array([[im+1+1 , jmin], [im+1+gh , jmax+1]], order='F')
prd1g = _np.array([[im+1-gh , jmin], [im , jmax+1]], order='F')
prr2g = _np.array([[ 1-gh , jmin], [ 0 , jmax+1]], order='F')
prd2g = _np.array([[ 2 , jmin], [ 1+gh , jmax+1]], order='F')
fjn(nx,prr1g,gh,gh,gh,gh,im+1,jm+1,nx,prd2g,gh,gh,gh,gh,im+1,jm+1,tr1)
fjn(nx,prr2g,gh,gh,gh,gh,im+1,jm+1,nx,prd1g,gh,gh,gh,gh,im+1,jm+1,tr2)
fjn(ny,prr1g,gh,gh,gh,gh,im+1,jm+1,ny,prd2g,gh,gh,gh,gh,im+1,jm+1,tr1)
fjn(ny,prr2g,gh,gh,gh,gh,im+1,jm+1,ny,prd1g,gh,gh,gh,gh,im+1,jm+1,tr2)
for j in range(gh,jm+1+gh):
for i in range(gh,im+1+gh):
volf[i,j,0] = 2./(vol[i,j]+vol[i-1,j])
volf[i,j,1] = 2./(vol[i,j]+vol[i,j-1])
### O mesh for the cylinder: #UNNECESSARY EXCEPT FOR PLOT
x0[:gh, :] = x0[im+1:im+1+gh,:]
y0[:gh, :] = y0[im+1:im+1+gh,:]
x0[im+1+gh:, :] = x0[gh:2*gh,:]
y0[im+1+gh:, :] = y0[gh:2*gh,:]
wbd = _np.zeros((im , 5), order = 'F') # dummy zeros in place of top domain state vector
field = _np.zeros((im, gh, 5), order = 'F')
# Initialization
wbd[:, 0] = state_adim[0]
wbd[:, 1] = state_adim[1]
wbd[:, 2] = state_adim[2]
wbd[:, 3] = state_adim[3]
wbd[:, 4] = state_adim[4]
field[:, :, 0] = state_adim[0]
field[:, :, 1] = state_adim[1]
field[:, :, 2] = state_adim[2]
field[:, :, 3] = state_adim[3]
field[:, :, 4] = state_adim[4]
# Initialize(field, w, )
w[:, :, 0] = state_adim[0]
w[:, :, 1] = state_adim[1]
w[:, :, 2] = state_adim[2]
w[:, :, 3] = state_adim[3]
w[:, :, 4] = state_adim[4]
######## Restart from a previous solution with exactly the same mesh
# import restart_init as ri
# filet = './Wksp/Cylinder/dnc_5/state_atcenter_ite10.dat'
# imold = 630 #630
# jmold = 300 #300
# # Xin, Yin, roin, rouin, rovin, rowin, roein = ri.read_init(filet)
# BLprof = _np.loadtxt(filet,comments=('#','ZONE'),skiprows=3)
# Xin = _np.reshape(BLprof[:,0],(imold,jmold), order='F')
# Yin = _np.reshape(BLprof[:,1],(imold,jmold), order='F')
# roin = _np.reshape(BLprof[:,2],(imold,jmold), order='F')
# rouin = _np.reshape(BLprof[:,3],(imold,jmold), order='F')
# rovin = _np.reshape(BLprof[:,4],(imold,jmold), order='F')
# rowin = _np.reshape(BLprof[:,5],(imold,jmold), order='F')
# roein = _np.reshape(BLprof[:,6],(imold,jmold), order='F')
# import scipy.interpolate as sci
# finterp = sci.NearestNDInterpolator(_np.concatenate((_np.reshape(_np.ravel(Xin), (imold*jmold,1)), _np.reshape(_np.ravel(Yin), (imold*jmold,1))), axis=1), _np.ravel(roin))
# roint = finterp(xc[gh:-gh,gh:-gh], yc[gh:-gh,gh:-gh])
# finterp = sci.NearestNDInterpolator(_np.concatenate((_np.reshape(_np.ravel(Xin), (imold*jmold,1)), _np.reshape(_np.ravel(Yin), (imold*jmold,1))), axis=1), _np.ravel(rouin))
# rouint = finterp(xc[gh:-gh,gh:-gh], yc[gh:-gh,gh:-gh])
# finterp = sci.NearestNDInterpolator(_np.concatenate((_np.reshape(_np.ravel(Xin), (imold*jmold,1)), _np.reshape(_np.ravel(Yin), (imold*jmold,1))), axis=1), _np.ravel(rovin))
# rovint = finterp(xc[gh:-gh,gh:-gh], yc[gh:-gh,gh:-gh])
# finterp = sci.NearestNDInterpolator(_np.concatenate((_np.reshape(_np.ravel(Xin), (imold*jmold,1)), _np.reshape(_np.ravel(Yin), (imold*jmold,1))), axis=1), _np.ravel(rowin))
# rowint = finterp(xc[gh:-gh,gh:-gh], yc[gh:-gh,gh:-gh])
# finterp = sci.NearestNDInterpolator(_np.concatenate((_np.reshape(_np.ravel(Xin), (imold*jmold,1)), _np.reshape(_np.ravel(Yin), (imold*jmold,1))), axis=1), _np.ravel(roein))
# roeint = finterp(xc[gh:-gh,gh:-gh], yc[gh:-gh,gh:-gh])
# # w[gh:-gh, gh:-gh, 0] = _np.reshape(roint, (im,jm), order='C')
# w[gh:-gh, gh:-gh, 1] = _np.reshape(rouint, (im,jm), order='C')
# w[gh:-gh, gh:-gh, 2] = _np.reshape(rovint, (im,jm), order='C')
# w[gh:-gh, gh:-gh, 3] = _np.reshape(rowint, (im,jm), order='C')
# # w[gh:-gh, gh:-gh, 4] = _np.reshape(roeint, (im,jm), order='C')
wlist = [w]
BCtypel = [lf, lflin]
wbddic = dict()
fielddic = dict()
twalldic = dict()
prldic = dict()
trldic = dict()
BCdict['interf1'] = 'fwall'
BCdict['interf2'] = 'fnoref'
BCdict['interf3'] = 'fjn'
BCdict['interf4'] = 'fjn'
wbddic['interf2'] = wbd
prldic['interf3'] = prl
trldic['interf3'] = trl
prldic['interf4'] = prl
trldic['interf4'] = trl
checkint = handleBC.checkinterf(interfl, interfdic, interfloc, im, jm, gh)
if checkint != 'GoodJob':
print(checkint)
exit()
interfl = handleBC.sortBC(interfl, interfdic, interfloc, im, jm)
# print interfl
filename = out_dir + '/initialisation.dat'
# __writestate_center(filename, im, jm, w, xc, yc, gh)
__writestate_node(filename, im+1, jm+1, w, x0, y0, gh)
# filename = out_dir + '/mesh9_atnode.dat'
# __writestate_node(filename, im+1, jm+1, w, x0, y0, gh)
# Time Marching Loop
if compmode == 'direct':
freq = freqsort
time = 0.
wreal = w*1.
denom = im*jm*freq*len(rkcoefs)
timein0 = timeit.time.time()
lm = max(im,jm)
for it in range(1,ite+1):
## print "iteration : ", it
for rk in rkcoefs:
# print " rkstep = ", rk
# Boundary on state vector
fnoref(w,wbd,'Jhi',interf2,nx,ny,gam,gh,im,jm)
fwall(w,'Jlo', gam, interf1, gh, im, jm)
fjn(w,prr1,gh,gh,gh,gh,im,jm,w,prd2,gh,gh,gh,gh,im,jm,tr1)
fjn(w,prr2,gh,gh,gh,gh,im,jm,w,prd1,gh,gh,gh,gh,im,jm,tr2)
# filename = out_dir + '/initialisation_gh.dat'
# __writestate_center_gh(filename, im+2*gh, jm+2*gh, w, xc, yc)
# Compute spatial discretization
if sch in ['dnc', 'dnc_hll', 'dnc_hllc', 'rbc']:
# fwall needed for dissipation near bnd_wall
fsch(res, w, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, k4, im, jm)
elif 'ausm' in sch:
# fwall needed for dissipation near bnd_wall
fsch(res, w, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, k4, tRef,pRef,machRef, im, jm)
elif sch == 'cdt':
fsch(res, w, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, k4, alpha, lm, im, jm)
else:
fsch(res, w, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, im, jm)
# advance rk
w[gh:-gh,gh:-gh,0] = wreal[gh:-gh,gh:-gh,0] + rk * dt * res[gh:-gh,gh:-gh,0] / vol[gh:-gh,gh:-gh]
w[gh:-gh,gh:-gh,1] = wreal[gh:-gh,gh:-gh,1] + rk * dt * res[gh:-gh,gh:-gh,1] / vol[gh:-gh,gh:-gh]
w[gh:-gh,gh:-gh,2] = wreal[gh:-gh,gh:-gh,2] + rk * dt * res[gh:-gh,gh:-gh,2] / vol[gh:-gh,gh:-gh]
w[gh:-gh,gh:-gh,3] = wreal[gh:-gh,gh:-gh,3] + rk * dt * res[gh:-gh,gh:-gh,3] / vol[gh:-gh,gh:-gh]
w[gh:-gh,gh:-gh,4] = wreal[gh:-gh,gh:-gh,4] + rk * dt * res[gh:-gh,gh:-gh,4] / vol[gh:-gh,gh:-gh]
#Finalize time step
if it == 1:
norm0, nmoy0 = f_norm.compute_norml2(res ,im, jm, gh)
for lala in range(5):
if (norm0[lala] <=3.e-16): norm0[lala] = 1.
time += dt
wreal = w * 1.
if it%freqres == 0:
norm, nmoy = f_norm.compute_norml2(res ,im, jm, gh)
print('ite = %i , norm2(res) = %s' % (it, norm/norm0))
if it%freq == 0:
timetosort = timeit.time.time()
print('Time in function = ', (timetosort- timein0) / denom)
norm, nmoy = f_norm.compute_norml2(res ,im, jm, gh)
print('ite = %i , norm2(res) = %s' % (it, norm/norm0))
# print 'write file'
# usefull for plotting result
fwall(w,'Jlo', gam, interf1, gh, im, jm)
filename = out_dir + '/state_at_ite%i.dat' % it
__writestate_node(filename, im, jm, w, x0, y0, gh)
filename = out_dir + '/state_atcenter_ite%i.dat' % it
__writestate_center(filename, im, jm, w, xc, yc, gh)
timein0 = timeit.time.time()
if it == ite:
filename = out_dir + '/state_atcentergh_ite%i.dat' % it
__writestate_center_gh(filename, im, jm, w, xc, yc)
elif compmode == 'impli':
fimpli = lf[-1]
time = 0.
dtcoef = 1.
# wreal = w*1.
dw = _np.zeros((im + 2*gh , jm + 2*gh , 5), order='F')
# Boundary on state vector
fnoref(w,wbd,'Jhi',interf2,nx,ny,gam,gh,im,jm)
fwall(w,'Jlo', gam, interf1, gh, im, jm)
fjn(w,prr1,gh,gh,gh,gh,im,jm,w,prd2,gh,gh,gh,gh,im,jm,tr1)
fjn(w,prr2,gh,gh,gh,gh,im,jm,w,prd1,gh,gh,gh,gh,im,jm,tr2)
filename = out_dir + '/initialisation_gh.dat'
__writestate_center_gh(filename, im+2*gh, jm+2*gh, w, xc, yc)
lm = max(im,jm)
# ffiltilo(w,coef,coefbnd,im,jm,gh,cl)
# TODO : Add time step computation!!
lmax = 10 #8
for it in range(1,ite+1):
# if it > 4000: cfl = min(0.1 + (it-4000)*0.001 ,2.)
# if it > 8000: cfl = min(3. + (it-8000)*0.001 ,10.)
# Compute spatial discretization
if sch in ['dnc', 'dnc_hll', 'dnc_hllc', 'rbc']:
# fwall needed for dissipation near bnd_wall
fsch(res, w, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, k4, im, jm)
elif sch == 'cdt':
fsch(res, w, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, k4, alpha, lm, im, jm)
elif 'ausm' in sch:
# fwall needed for dissipation near bnd_wall
fsch(res, w, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, k4, tRef,pRef,machRef, im, jm)
else:
fsch(res, w, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, im, jm)
# implicit (MF)
fimpli(dw,nx,ny,w,res,vol,volf,dtcoef,cfl,gam,rgaz,prandtl,lmax,gh,cv,cs,muref,tref,cs,im,jm)
# advance BDF1
w[gh:-gh,gh:-gh,0] += dw[gh:-gh,gh:-gh,0]
w[gh:-gh,gh:-gh,1] += dw[gh:-gh,gh:-gh,1]
w[gh:-gh,gh:-gh,2] += dw[gh:-gh,gh:-gh,2]
w[gh:-gh,gh:-gh,3] += dw[gh:-gh,gh:-gh,3]
w[gh:-gh,gh:-gh,4] += dw[gh:-gh,gh:-gh,4]
# Boundary on state vector
fnoref(w,wbd,'Jhi',interf2,nx,ny,gam,gh,im,jm)
fwall(w,'Jlo', gam, interf1, gh, im, jm)
fjn(w,prr1,gh,gh,gh,gh,im,jm,w,prd2,gh,gh,gh,gh,im,jm,tr1)
fjn(w,prr2,gh,gh,gh,gh,im,jm,w,prd1,gh,gh,gh,gh,im,jm,tr2)
#Finalize time step
if it == 1:
norm0, nmoy0 = f_norm.compute_norml2(res ,im, jm, gh)
for lala in range(5):
if (norm0[lala] <=3.e-16): norm0[lala] = 1.
impl, impl0 = f_norm.compute_norml2(dw ,im, jm, gh)
print('ite = %i , norm2(res) = %s' % (it, norm0))
print('ite = %i , norm2(imp) = %s' % (it, impl))
if it%freqres == 0:
print('cfl = ', cfl)
norm, nmoy = f_norm.compute_norml2(res ,im, jm, gh)
nn = norm/norm0
print(" ")
print("="*80)
print('ite = %i , norm2(res) = %s' % (it, nn))
print("="*80)
# print nn
filename = out_dir + '/residual.dat'
fout = open(filename , 'a')
fout.write(str(it) + ' ' )
for i in range(5):
fout.write(str(nn[i]) + ' ')
fout.write('\n')
fout.close()
maxnorm,imaxn,jmaxn = f_norm.compute_maxnorm(res ,im, jm, gh)
print(" ")
print("="*80)
print("maxnorm = ", maxnorm)
print("imax = ", imaxn)
print("jmax = ", jmaxn)
print("="*80)
print(" ")
if it%freqsort == 0:
norm, nmoy = f_norm.compute_norml2(res ,im, jm, gh)
print('ite = %i , norm2(res) = %s' % (it, norm/norm0))
filename = out_dir + '/state_at_ite%i.dat' % it
__writestate_node(filename, im+1, jm+1, w, x0, y0, gh)
filename = out_dir + '/state_atcentergh_ite%i.dat' % it
__writestate_center_gh(filename, im+2*gh, jm+2*gh, w, xc, yc)
# import sys
# sys.exit(2)
filename = out_dir + '/state_atcenter_ite%i.dat' % it
__writestate_center(filename, im, jm, w, xc, yc, gh)
filename = out_dir + '/residual_at_ite%i.dat' % it
# __writestate_node(filename, im+1, jm+1, res, x0, y0, gh)
__writestate_center(filename, im, jm, res, xc, yc, gh)
filename = out_dir + '/residualdbyvol_at_ite%i.dat' % it
resdbyvol = _np.zeros((im + 2*gh , jm + 2*gh , 5), order='F')
resdbyvol[:,:,0] = res[:,:,0]/vol
resdbyvol[:,:,1] = res[:,:,1]/vol
resdbyvol[:,:,2] = res[:,:,2]/vol
resdbyvol[:,:,3] = res[:,:,3]/vol
resdbyvol[:,:,4] = res[:,:,4]/vol
# __writestate_node(filename, im+1, jm+1, resdbyvol, x0, y0, gh)
__writestate_center(filename, im, jm, resdbyvol, xc, yc, gh)
timein0 = timeit.time.time()
if it == ite:
filename = out_dir + '/state_atcentergh_ite%i.dat' % it
__writestate_center_gh(filename, im+2*gh, jm+2*gh, w, xc, yc)
elif compmode == 'fixed_point':
# get functions
routinein = lflin[0]
routineout = lflin[1]
routinenr = lflin[2]
routinew = lflin[3]
routinesch = lflin[4]
routinebw = lflin[5]
routinejn = lflin[6]
libbnd = lflin[7]
libsch = lflin[8]
flinoutflow = eval("%s.%s" % (libbnd, routineout))
flininflow = eval("%s.%s" % (libbnd, routinein))
flinnoref = eval("%s.%s" % (libbnd, routinenr ))
flinwall = eval("%s.%s" % (libbnd, routinew ))
flinsym = eval("%s.%s" % (libbnd, routinebw ))
flinjn = eval("%s.%s" % (libbnd, routinejn ))
flinsch = eval("%s.%s" % (libsch, routinesch))
timeconstructjac = 0.
timeremove = 0.
timecoefdiag = 0.
timejaccsc = 0.
timejacinv = 0.
wd = _np.zeros((im+2*gh, jm+2*gh, 5), order='F')
wlist.append(wd)
cfl = 1.e21
# for standard output:
# dt *= 1./cfl
lm = max(im,jm)
for it in range(1,ite+1):
dt = cfl * _np.abs(xc[gh,gh] - xc[gh,gh+1]) / (1./mach + 1.)
dtm1 = 1./dt
# For AD
wd = _np.zeros((im+2*gh, jm+2*gh,5), order='F')
resd = _np.zeros((im+2*gh, jm+2*gh,5), order='F')
# Boundary on state vector
# fnoref(w,wbd,'Jhi',interf2,nx,ny,gam,gh,im,jm)
# fwall(w,'Jlo', gam, interf1, gh, im, jm)
# fjn(w,prr1,gh,gh,gh,gh,im,jm,w,prd2,gh,gh,gh,gh,im,jm,tr1)
# fjn(w,prr2,gh,gh,gh,gh,im,jm,w,prd1,gh,gh,gh,gh,im,jm,tr2)
modeBC = 0 #apply BC on w
wlist[0] = w
wlist = handleBC.applyBC(interfl, interfdic, interfloc, BCdict, modeBC, wlist, BCtypel, nx, ny, gam, rgaz, im, jm, gh, wbddic, fielddic, twalldic, prldic, trldic)
w = wlist[0]
filename = out_dir + '/initialisation_gh.dat'
__writestate_center_gh(filename, im+2*gh, jm+2*gh, w, xc, yc)
# __writestate_node(filename, im+1, jm+1, w, x0, y0, gh)
# Compute spatial discretization
if sch in 'dnc':
fsch(res, w, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, k4, im, jm)
else:
fsch(res, w, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, im, jm)
# Newton residual:
norm, ninf = f_norm.compute_norml2inf(res ,im, jm, gh)
if it == 1:
for i in range(5):
norm[i] = max(norm[i],1.e-15)
ninf[i] = max(ninf[i],1.e-15)
norm0m1 = 1./norm
ninf0m1 = 1./ninf
# construct Jacobian
nbentry = im*jm * (2*gh+1)*(2*gh+1) * 5*5
Jac = _np.zeros((nbentry), order='F')
IA = _np.zeros((nbentry), dtype=_np.int32, order='F')
JA = _np.zeros((nbentry), dtype=_np.int32, order='F')
timeinjac = timeit.time.time()
## relaxed on diag:
r = _np.max([norm[:3]*norm0m1[:3], ninf[:3]*ninf0m1[:3]])
# r = _np.max([norm*norm0m1, ninf*ninf0m1])
cflm1 = r*dtm1
print('iter = ', it)
print("1/cfl = ", cflm1)
print(norm)
coefdiag = cflm1 * vol[gh:-gh,gh:-gh]
Nzones = _np.array([])
if im%(2*gh+1) != 0:
Nzones = _np.array([[0,0],[im/2/(2*gh+1)*(2*gh+1)-1,jm-1],[im/2/(2*gh+1)*(2*gh+1),0],[im-1,jm-1]])
# Nzones = _np.array([[0,0],[im/2/(2*gh+1)*(2*gh+1)-1,jm-1],[im/2/(2*gh+1)*(2*gh+1),0],[im-1,jm-1]])
print(Nzones)
if _np.shape(Nzones)[0] > 0:
nbentry = (im*jm * (2*gh+1)*(2*gh+1) * 5*5)*_np.shape(Nzones)[0]/2
Jac = _np.zeros((nbentry), order='F')
IA = _np.zeros((nbentry), dtype=_np.int32, order='F')
JA = _np.zeros((nbentry), dtype=_np.int32, order='F')
for n in range(_np.shape(Nzones)[0]/2):
mini = 2.e-16
istart = Nzones[2*n,0]
iend = Nzones[2*n+1,0]
jstart = Nzones[2*n,1]
jend = Nzones[2*n+1,1]
for m in range(5):
for l in range(1 + 2*gh):
for k in range(1 + 2*gh):
wd *= 0.
f_misc.testvector_partial(wd,m,l,k,gh,im,jm,istart,iend,jstart,jend)
# flinnoref(w,wd,wbd,'Jhi',interf2,nx,ny,gam,gh,im,jm)
# flinwall(w,wd,'Jlo', gam, interf1, gh, im, jm)
# wdr = _np.copy(wd, order='F')
# flinjn(w, wdr, prr1, gh, gh, gh, gh, im, jm, w, wd, prd2, gh, gh, gh, gh, im, jm, tr1)
# wd[-gh:,:,:] = wdr[-gh:,:,:]
# wdr = _np.copy(wd, order='F')
# flinjn(w, wdr, prr2, gh, gh, gh, gh, im, jm, w, wd, prd1, gh, gh, gh, gh, im, jm, tr2)
# wd[:gh,:,:] = wdr[:gh,:,:]
modeBC = 1 #apply BC on wd
wlist[0] = w
wlist[1] = wd
wlist = handleBC.applyBC(interfl, interfdic, interfloc, BCdict, modeBC, wlist, BCtypel, nx, ny, gam, rgaz, im, jm, gh, wbddic, fielddic, twalldic, prldic, trldic)
w = wlist[0]
wd = wlist[1]
if sch in 'dnc':
flinsch(res, resd, w, wd, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, k4, im, jm)
else:
flinsch(res, resd, w, wd, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, im, jm)
f_misc.computejacobianfromjv_relaxed_withjnandcheck(Jac,IA,JA,resd,m,l,k,gh,coefdiag,mini,n)
else:
for m in range(5):
for l in range(1 + 2*gh):
for k in range(1 + 2*gh):
wd *= 0.
f_misc.testvector(wd,m,l,k,gh,im,jm)
# f_misc.testvector_partial(wd,m,l,k,gh,im,jm,0,im-1,0,jm-1)
# w[ :gh, : ,:] = 0.
# w[-gh: , : ,:] = 0.
# w[ : , :gh,:] = 0.
# w[ : ,-gh: ,:] = 0.
# flinnoref(w,wd,wbd,'Jhi',interf2,nx,ny,gam,gh,im,jm)
# # fnoref(w,wbd,'Jhi',interf2,nx,ny,gam,gh,im,jm)
# flinwall(w,wd,'Jlo', gam, interf1, gh, im, jm)
# # fwall(w,'Jlo', gam, interf1, gh, im, jm)
# wdr = _np.copy(wd, order='F')
# flinjn(w, wdr, prr1, gh, gh, gh, gh, im, jm, w, wd, prd2, gh, gh, gh, gh, im, jm, tr1)
# wd[-gh:,:,:] = wdr[-gh:,:,:]
# wdr = _np.copy(wd, order='F')
# flinjn(w, wdr, prr2, gh, gh, gh, gh, im, jm, w, wd, prd1, gh, gh, gh, gh, im, jm, tr2)
# wd[:gh,:,:] = wdr[:gh,:,:]
# fjn(w,prr1,gh,gh,gh,gh,im,jm,w,prd2,gh,gh,gh,gh,im,jm,tr1)
# fjn(w,prr2,gh,gh,gh,gh,im,jm,w,prd1,gh,gh,gh,gh,im,jm,tr2)
modeBC = 1 #apply BC on wd
wlist[0] = w
wlist[1] = wd
wlist = handleBC.applyBC(interfl, interfdic, interfloc, BCdict, modeBC, wlist, BCtypel, nx, ny, gam, rgaz, im, jm, gh, wbddic, fielddic, twalldic, prldic, trldic)
w = wlist[0]
wd = wlist[1]
if sch in 'dnc':
flinsch(res, resd, w, wd, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, k4, im, jm)
else:
flinsch(res, resd, w, wd, x0, y0, nx, ny, xc, yc, vol, volf, gh, cp, cv, prandtl, gam, rgaz, cs, muref, tref, cs, k2, im, jm)
f_misc.computejacobianfromjv_relaxed_withjn(Jac,IA,JA,resd,m,l,k,gh,coefdiag)
# f_misc.computejacobianfromjv_relaxed_withjnandcheck(Jac,IA,JA,resd,m,l,k,gh,coefdiag,2.e-16,0)
## Remove the zero stored
timeinremove = timeit.time.time()
timeconstructjac += (timeinremove - timeinjac)/ite
mini = 2.e-16
IA, JA, Jac = remove_zero_jac(IA, JA, Jac, mini)
# print nbentry
nbentry = _np.shape(Jac)[0]
print(nbentry)
timeoutremove = timeit.time.time()
timeremove += (timeoutremove - timeinremove)/ite
Jacs = pet.createMatPetscCSR(IA, JA, Jac, im*jm*5, im*jm*5, 5*(2*gh+1)**2)
timeoutjaccsc = timeit.time.time()
timejaccsc += (timeoutjaccsc - timeoutremove)/ite
# plt.figure()
# import scipy.sparse as sp
# Jacs = sp.csc_matrix((Jac,(IA,JA)), shape=(im*jm*5,im*jm*5))
# plt.spy(Jacs)