def test_pfv(self):
"""check the computation of p from a given v
"""
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem='cylinderwake', N=self.N,
Re=self.Re, scheme=self.scheme, mergerhs=True)
Mc, Ac = stokesmatsc['M'], stokesmatsc['A']
BTc, Bc = stokesmatsc['JT'], stokesmatsc['J']
print(Bc.shape)
invinds = femp['invinds']
fv, fp = rhsd['fv'], rhsd['fp']
print(np.linalg.norm(fv), np.linalg.norm(fp))
inivdict = dict(A=Ac, J=Bc, JT=BTc, M=Mc, ppin=self.ppin, fv=fv, fp=fp,
return_vp=True, V=femp['V'], clearprvdata=True,
invinds=invinds, diribcs=femp['diribcs'])
vp_init = snu.solve_steadystate_nse(**inivdict)
NV = Bc.shape[1]
pfv = snu.get_pfromv(v=vp_init[0], V=femp['V'],
M=Mc, A=Ac, J=Bc, fv=fv,
invinds=femp['invinds'], diribcs=femp['diribcs'])
self.assertTrue(np.allclose(pfv, vp_init[1]))
def getthecoeffs(N=None, Re=None, scheme='CR',
inivp='Stokes', inifemp=None):
femp, stokesmatsc, rhsmomcont \
= dnsps.get_sysmats(problem='cylinderwake', N=N, Re=Re,
scheme=scheme, mergerhs=True)
fp = rhsmomcont['fp']
fv = rhsmomcont['fv']
# stokesmatsc.update(rhsmomcont)
J, MP = stokesmatsc['J'], stokesmatsc['MP']
NV, NP = J.T.shape
# Nv = J.shape[1]
# Mpfac = spsla.splu(MP)
if inivp is 'Stokes':
inivp = lau.solve_sadpnt_smw(amat=stokesmatsc['A'], jmat=J,
jmatT=-J.T, rhsv=fv, rhsp=fp)
iniv = inivp[:NV]
inip = snu.get_pfromv(v=iniv, V=femp['V'], M=stokesmatsc['M'],
A=stokesmatsc['A'], J=J, fv=fv, fp=fp,
diribcs=femp['diribcs'], invinds=femp['invinds'])
else:
inv, inp = dts.expand_vp_dolfunc(vp=inivp, **inifemp)
# interpolate on new mesh and extract the invinds
getconvvec = getconvvecfun(**femp)
return dict(A=stokesmatsc['A'], M=stokesmatsc['M'], J=J, JT=J.T, MP=MP,
fp=fp, fv=fv, getconvvec=getconvvec,
iniv=iniv, inip=inip,
V=femp['V'], Q=femp['Q'], invinds=femp['invinds'],
diribcs=femp['diribcs'], ppin=femp['ppin'], femp=femp)
def testit(problem='drivencavity', N=None, nu=None, Re=None, Nts=1e3,
ParaviewOutput=False, tE=1.0, scheme=None):
nnewtsteps = 9 # n nwtn stps for vel comp
vel_nwtn_tol = 1e-14
tips = dict(t0=0.0, tE=tE, Nts=Nts)
femp, stokesmatsc, rhsd = dnsps.get_sysmats(problem=problem, N=N, Re=Re,
nu=nu, scheme=scheme,
mergerhs=True)
proutdir = 'results/'
ddir = 'data/'
data_prfx = problem + '_N{0}_Re{1}_Nts{2}_tE{3}'.\
format(N, femp['Re'], Nts, tE)
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(tips) # adding time integration params
soldict.update(rhsd)
soldict.update(N=N, nu=nu,
vel_nwtn_stps=nnewtsteps,
vel_nwtn_tol=vel_nwtn_tol,
start_ssstokes=True,
get_datastring=None,
data_prfx=ddir+data_prfx,
paraviewoutput=ParaviewOutput,
vel_pcrd_stps=1,
clearprvdata=True,
vfileprfx=proutdir+'vel_{0}_'.format(scheme),
pfileprfx=proutdir+'p_{0}_'.format(scheme))
soldict.update(krylovdict) # if we wanna use an iterative solver
snu.solve_nse(**soldict)
def testit(problem='drivencavity',
N=None,
nu=1e-2,
Re=None,
Nts=1e3,
ParaviewOutput=False,
tE=1.0):
vel_nwtn_tol = 1e-14
tips = dict(t0=0.0, tE=tE, Nts=Nts)
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem='cylinderwake', N=N, Re=Re,
mergerhs=True)
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(rhsd) # adding fvc, fpr
soldict.update(tips) # adding time integration params
nnewtsteps = 8 # n nwtn stps for vel comp
soldict.update(N=N,
nu=nu,
vel_nwtn_stps=nnewtsteps,
vel_nwtn_tol=vel_nwtn_tol,
start_ssstokes=True,
data_prfx=ddir + problem,
paraviewoutput=False,
clearprvdata=True)
snu.solve_nse(**soldict)
nnewtsteps = 1 # n nwtn stps for vel comp
soldict.update(N=N,
nu=nu,
vel_nwtn_stps=nnewtsteps,
vel_nwtn_tol=vel_nwtn_tol,
start_ssstokes=True,
data_prfx=ddir + problem,
clearprvdata=True,
return_dictofvelstrs=True)
csd = snu.solve_nse(**soldict)
print('1, 2, check, check')
nnewtsteps = 7 # n nwtn stps for vel comp
soldict.update(N=N,
nu=nu,
vel_nwtn_stps=nnewtsteps,
vel_nwtn_tol=vel_nwtn_tol,
start_ssstokes=True,
data_prfx=ddir + problem,
clearprvdata=False,
lin_vel_point=csd,
vel_pcrd_stps=0,
return_dictofvelstrs=True)
soldict.update(krylovdict) # if we wanna use an iterative solver
snu.solve_nse(**soldict)
def testit(problem='cylinderwake',
N=2,
nu=None,
Re=1e2,
Nts=1e3 + 1,
ParaviewOutput=False,
tE=1.0,
scheme=None,
zerocontrol=False):
nnewtsteps = 9 # n nwtn stps for vel comp
vel_nwtn_tol = 1e-14
tips = dict(t0=0.0, tE=tE, Nts=Nts)
femp, stokesmatsc, rhsd_vfrc, rhsd_stbc \
= dnsps.get_sysmats(problem=problem, Re=Re,
meshparams=dict(refinement_level=N),
bccontrol=True, nu=nu, scheme=scheme)
proutdir = 'results/'
ddir = 'data/'
data_prfx = problem + '_N{0}_Re{1}_Nts{2}_tE{3}'.\
format(N, femp['Re'], Nts, tE)
dolfin.plot(femp['mesh'])
palpha = 1e-5
stokesmatsc['A'] = stokesmatsc['A'] + 1. / palpha * stokesmatsc['Arob']
if zerocontrol:
Brob = 0. * 1. / palpha * stokesmatsc['Brob']
else:
Brob = 1. / palpha * stokesmatsc['Brob']
def fv_tmdp(time=0, v=None, **kw):
return np.sin(time) * (Brob[:, :1] - Brob[:, 1:]), None
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(tips) # adding time integration params
soldict.update(
fv=rhsd_stbc['fv'] + rhsd_vfrc['fvc'],
fp=rhsd_stbc['fp'] + rhsd_vfrc['fpr'],
N=N,
nu=nu,
vel_nwtn_stps=nnewtsteps,
# comp_nonl_semexp=True,
treat_nonl_explct=False,
vel_nwtn_tol=vel_nwtn_tol,
fv_tmdp=fv_tmdp,
start_ssstokes=True,
get_datastring=None,
data_prfx=ddir + data_prfx,
paraviewoutput=ParaviewOutput,
vel_pcrd_stps=1,
clearprvdata=True,
vfileprfx=proutdir + 'vel_{0}_'.format(scheme),
pfileprfx=proutdir + 'p_{0}_'.format(scheme))
snu.solve_nse(**soldict)
def testit(problem='drivencavity', N=None, nu=1e-2, Re=None, Nts=1e3,
ParaviewOutput=False, tE=1.0):
vel_nwtn_tol = 1e-14
tips = dict(t0=0.0, tE=tE, Nts=Nts)
femp, stokesmatsc, rhsd_vfrc, \
rhsd_stbc, data_prfx, ddir, proutdir \
= dnsps.get_sysmats(problem=problem, N=N, nu=nu)
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(rhsd_vfrc) # adding fvc, fpr
soldict.update(tips) # adding time integration params
nnewtsteps = 8 # n nwtn stps for vel comp
soldict.update(fv_stbc=rhsd_stbc['fv'], fp_stbc=rhsd_stbc['fp'],
N=N, nu=nu,
vel_nwtn_stps=nnewtsteps,
vel_nwtn_tol=vel_nwtn_tol,
start_ssstokes=True,
data_prfx=ddir+data_prfx,
paraviewoutput=False,
clearprvdata=True)
snu.solve_nse(**soldict)
nnewtsteps = 1 # n nwtn stps for vel comp
soldict.update(fv_stbc=rhsd_stbc['fv'],
fp_stbc=rhsd_stbc['fp'],
N=N, nu=nu,
vel_nwtn_stps=nnewtsteps,
vel_nwtn_tol=vel_nwtn_tol,
start_ssstokes=True,
data_prfx=ddir+data_prfx,
clearprvdata=True,
return_dictofvelstrs=True)
csd = snu.solve_nse(**soldict)
print '1, 2, check, check'
nnewtsteps = 7 # n nwtn stps for vel comp
csd = soldict.update(fv_stbc=rhsd_stbc['fv'],
fp_stbc=rhsd_stbc['fp'],
N=N, nu=nu,
vel_nwtn_stps=nnewtsteps,
vel_nwtn_tol=vel_nwtn_tol,
start_ssstokes=True,
data_prfx=ddir+data_prfx,
clearprvdata=False,
lin_vel_point=csd,
vel_pcrd_stps=0,
return_dictofvelstrs=True)
soldict.update(krylovdict) # if we wanna use an iterative solver
snu.solve_nse(**soldict)
def testit(problem='drivencavity',
N=None,
nu=1e-2,
Re=None,
t0=0.0,
tE=1.0,
Nts=1e2 + 1,
ParaviewOutput=False,
scheme='TH'):
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem='gen_bccont', Re=Re, bccontrol=False,
scheme=scheme, mergerhs=True,
meshparams=dict(strtomeshfile=meshfile,
strtophysicalregions=physregs,
strtobcsobs=geodata))
ddir = 'data/'
data_prfx = problem + '{4}_N{0}_Re{1}_Nts{2}_tE{3}'.\
format(N, femp['Re'], Nts, tE, scheme)
# setting some parameters
if Re is not None:
nu = femp['charlen'] / Re
tips = dict(t0=t0, tE=tE, Nts=Nts)
try:
os.chdir(ddir)
except OSError:
raise Warning('need "' + ddir + '" subdir for storing the data')
os.chdir('..')
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(tips) # adding time integration params
soldict.update(fv=rhsd['fv'],
fp=rhsd['fp'],
N=N,
nu=nu,
start_ssstokes=True,
get_datastring=None,
treat_nonl_explct=True,
dbcinds=femp['dbcinds'],
dbcvals=femp['dbcvals'],
data_prfx=ddir + data_prfx,
paraviewoutput=ParaviewOutput,
vfileprfx=proutdir + 'vel_',
pfileprfx=proutdir + 'p_')
#
# compute the uncontrolled steady state Navier-Stokes solution
#
# v_ss_nse, list_norm_nwtnupd = snu.solve_steadystate_nse(**soldict)
snu.solve_nse(**soldict)
print('for plots check \nparaview ' + proutdir + 'vel___timestep.pvd')
print('or \nparaview ' + proutdir + 'p___timestep.pvd')
def comptorque(rotval, thingdict=None, returnitall=False):
def rotcont(t, vel=None, p=None, memory={}):
return rotval, memory
rotcondict = {}
dircntdict = dict(diricontbcinds=[femp['mvwbcinds']],
diricontbcvals=[femp['mvwbcvals']],
diricontfuncs=[rotcont],
diricontfuncmems=[rotcondict])
soldict.update(dircntdict)
soldict.update(dict(vel_start_nwtn=thingdict['vel_start_nwtn']))
if ininu is not None and thingdict['vel_start_nwtn'] is None:
inifemp, inistokesmatsc, inirhsd = \
dnsps.get_sysmats(problem=problem, nu=ininu, bccontrol=False,
charvel=charvel, scheme=scheme,
mergerhs=True, meshparams=meshparams)
soldict.update(inistokesmatsc)
soldict.update(inifemp)
soldict.update(fv=inirhsd['fv'], fp=inirhsd['fp'])
vp_ss_nse = snu.solve_steadystate_nse(**soldict)
soldict.update(dict(vel_start_nwtn=vp_ss_nse[0]))
soldict.update(stokesmatsc)
soldict.update(femp)
soldict.update(fv=rhsd['fv'], fp=rhsd['fp'])
vp_ss_nse = snu.solve_steadystate_nse(**soldict)
thingdict.update(dict(vel_start_nwtn=vp_ss_nse[0]))
if returnitall:
vfun, pfun = dts.\
expand_vp_dolfunc(vc=vp_ss_nse[0], pc=vp_ss_nse[1],
V=femp['V'], Q=femp['Q'])
# lift, drag = getld.evaliftdragforce(u=vfun, p=pfun)
drag = steady_state_res(vfun, pfun, phi=pox)
lift = steady_state_res(vfun, pfun, phi=poy)
# phionex = phione.sub(0)
trqe = steady_state_res(vfun, pfun, phi=phitwo)
# trqe = getld.evatorqueSphere2D(u=vfun, p=pfun)
a_1 = dolfin.Point(0.15, 0.2)
a_2 = dolfin.Point(0.25, 0.2)
pdiff = rho * pfun(a_2) - rho * pfun(a_1)
return trqe, lift, drag, pdiff
else:
vfun, pfun = dts.\
expand_vp_dolfunc(vc=vp_ss_nse[0], pc=vp_ss_nse[1],
V=femp['V'], Q=femp['Q'])
# trqe = getld.evatorqueSphere2D(u=vfun, p=pfun)
trqe = steady_state_res(vfun, pfun, phi=phitwo)
print('omeg: {0:.3e} -- trqe: {1:.3e}'.format(rotval, trqe))
return np.abs(trqe)
def testit(problem='cylinderwake', N=2, nu=None, Re=1e2, Nts=1e3+1,
ParaviewOutput=False, tE=1.0, scheme=None, zerocontrol=False):
nnewtsteps = 9 # n nwtn stps for vel comp
vel_nwtn_tol = 1e-14
tips = dict(t0=0.0, tE=tE, Nts=Nts)
femp, stokesmatsc, rhsd_vfrc, rhsd_stbc \
= dnsps.get_sysmats(problem=problem, Re=Re,
meshparams=dict(refinement_level=N),
bccontrol=True, nu=nu, scheme=scheme)
proutdir = 'results/'
ddir = 'data/'
data_prfx = problem + '_N{0}_Re{1}_Nts{2}_tE{3}'.\
format(N, femp['Re'], Nts, tE)
dolfin.plot(femp['mesh'])
palpha = 1e-5
stokesmatsc['A'] = stokesmatsc['A'] + 1./palpha*stokesmatsc['Arob']
if zerocontrol:
Brob = 0.*1./palpha*stokesmatsc['Brob']
else:
Brob = 1./palpha*stokesmatsc['Brob']
def fv_tmdp(time=0, v=None, **kw):
return np.sin(time)*(Brob[:, :1] - Brob[:, 1:]), None
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(tips) # adding time integration params
soldict.update(fv=rhsd_stbc['fv']+rhsd_vfrc['fvc'],
fp=rhsd_stbc['fp']+rhsd_vfrc['fpr'],
N=N, nu=nu,
vel_nwtn_stps=nnewtsteps,
# comp_nonl_semexp=True,
treat_nonl_explct=True,
vel_nwtn_tol=vel_nwtn_tol,
fv_tmdp=fv_tmdp,
start_ssstokes=True,
get_datastring=None,
data_prfx=ddir+data_prfx,
paraviewoutput=ParaviewOutput,
vel_pcrd_stps=1,
clearprvdata=True,
vfileprfx=proutdir+'vel_{0}_'.format(scheme),
pfileprfx=proutdir+'p_{0}_'.format(scheme))
snu.solve_nse(**soldict)
def testit(problem='drivencavity',
N=None,
nu=1e-2,
Re=None,
nonltrt=None,
t0=0.0,
tE=1.0,
Nts=1e2 + 1,
ParaviewOutput=False,
scheme='TH'):
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem=problem, Re=Re, nu=nu, scheme=scheme,
meshparams=dict(refinement_level=N), mergerhs=True)
proutdir = 'results/'
dolfin.plot(femp['V'].mesh())
# setting some parameters
if Re is not None:
nu = femp['charlen'] / Re
tips = dict(t0=t0, tE=tE, Nts=Nts)
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(tips) # adding time integration params
soldict.update(fv=rhsd['fv'],
fp=rhsd['fp'],
N=N,
nu=nu,
start_ssstokes=True,
treat_nonl_explct=nonltrt,
no_data_caching=True,
paraviewoutput=ParaviewOutput,
vfileprfx=proutdir + 'vel_expnl_',
pfileprfx=proutdir + 'p_expnl')
soldict.update(krylovdict) # if we wanna use an iterative solver
#
# compute the uncontrolled steady state Navier-Stokes solution
#
# vp_ss_nse = snu.solve_steadystate_nse(**soldict)
# soldict.update(dict(start_ssstokes=True))
snu.solve_nse(**soldict)
def testit(problem='cylinderwake', N=None, nu=None, Re=None,
nnwtnstps=9, npcrdstps=5, palpha=1e-5):
vel_nwtn_tol = 1e-14
# prefix for data files
data_prfx = problem
# dir to store data
ddir = 'data/'
# paraview output
ParaviewOutput = True
proutdir = 'results/'
femp, stokesmatsc, rhsd = dnsps.get_sysmats(problem=problem, N=N, Re=Re,
nu=nu, scheme='TH',
mergerhs=True, bccontrol=True)
proutdir = 'results/'
ddir = 'data/'
import scipy.sparse.linalg as spsla
print 'get expmats: ||A|| = {0}'.format(spsla.norm(stokesmatsc['A']))
print 'get expmats: ||Arob|| = {0}'.format(spsla.norm(stokesmatsc['Arob']))
stokesmatsc['A'] = stokesmatsc['A'] + 1./palpha*stokesmatsc['Arob']
b_mat = 0.*1./palpha*stokesmatsc['Brob']
brhs = 1.5*b_mat[:, :1] - 1.5*b_mat[:, 1:]
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(fv=rhsd['fv']+brhs, fp=rhsd['fp'],
N=N, nu=nu,
vel_nwtn_stps=nnwtnstps,
vel_pcrd_stps=npcrdstps,
vel_nwtn_tol=vel_nwtn_tol,
ddir=ddir, get_datastring=None,
clearprvdata=True,
data_prfx=data_prfx,
paraviewoutput=ParaviewOutput,
vfileprfx=proutdir+'vel_',
pfileprfx=proutdir+'p_')
#
# compute the uncontrolled steady state Navier-Stokes solution
#
v_ss_nse, list_norm_nwtnupd = snu.solve_steadystate_nse(**soldict)
def testit(problem='drivencavity', N=None, nu=1e-2, Re=None, nonltrt=None,
t0=0.0, tE=1.0, Nts=1e2+1, ParaviewOutput=False, scheme='TH'):
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem=problem, Re=Re, nu=nu, scheme=scheme,
meshparams=dict(refinement_level=N), mergerhs=True)
proutdir = 'results/'
ddir = 'data/'
data_prfx = problem + '{4}_N{0}_Re{1}_Nts{2}_tE{3}'.\
format(N, femp['Re'], Nts, tE, scheme)
dolfin.plot(femp['V'].mesh())
# setting some parameters
if Re is not None:
nu = femp['charlen']/Re
tips = dict(t0=t0, tE=tE, Nts=Nts)
try:
os.chdir(ddir)
except OSError:
raise Warning('need "' + ddir + '" subdir for storing the data')
os.chdir('..')
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(tips) # adding time integration params
soldict.update(fv=rhsd['fv'], fp=rhsd['fp'],
N=N, nu=nu,
start_ssstokes=True,
get_datastring=None,
treat_nonl_explct=nonltrt,
data_prfx=ddir+data_prfx,
paraviewoutput=ParaviewOutput,
vfileprfx=proutdir+'vel_expnl_',
pfileprfx=proutdir+'p_expnl')
soldict.update(krylovdict) # if we wanna use an iterative solver
#
# compute the uncontrolled steady state Navier-Stokes solution
#
# v_ss_nse, list_norm_nwtnupd = snu.solve_steadystate_nse(**soldict)
snu.solve_nse(**soldict)
def test_pfv(self):
"""check the computation of p from a given v
"""
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem='cylinderwake',
meshparams=dict(refinement_level=self.N),
Re=self.Re, scheme=self.scheme, mergerhs=True)
Mc, Ac = stokesmatsc['M'], stokesmatsc['A']
BTc, Bc = stokesmatsc['JT'], stokesmatsc['J']
print(Bc.shape)
invinds = femp['invinds']
fv, fp = rhsd['fv'], rhsd['fp']
print(np.linalg.norm(fv), np.linalg.norm(fp))
inivdict = dict(A=Ac,
J=Bc,
JT=BTc,
M=Mc,
ppin=self.ppin,
fv=fv,
fp=fp,
return_vp=True,
V=femp['V'],
clearprvdata=True,
invinds=invinds,
diribcs=femp['diribcs'])
vp_init = snu.solve_steadystate_nse(**inivdict)
dbcinds, dbcvals = dts.unroll_dlfn_dbcs(femp['diribcs'])
pfv = snu.get_pfromv(v=vp_init[0][invinds],
V=femp['V'],
M=Mc,
A=Ac,
J=Bc,
fv=fv,
invinds=femp['invinds'],
dbcinds=dbcinds,
dbcvals=dbcvals)
self.assertTrue(np.allclose(pfv, vp_init[1]))
def testit(problem='drivencavity', N=None, nu=1e-2, Re=None, Nts=1e3,
ParaviewOutput=False, tE=1.0):
nnewtsteps = 4 # n nwtn stps for vel comp
npcrdsteps = 0 # n picard steps
vel_nwtn_tol = 1e-14
tips = dict(t0=0.0, tE=tE, Nts=Nts)
femp, stokesmatsc, rhsd_vfrc, rhsd_stbc \
= dnsps.get_sysmats(problem=problem, N=N, nu=nu)
proutdir = 'results/'
ddir = 'data/'
data_prfx = problem + '_N{0}_Re{1}_Nts{2}_tE{3}'.\
format(N, femp['Re'], Nts, tE)
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(tips) # adding time integration params
soldict.update(fv=rhsd_stbc['fv']+rhsd_vfrc['fvc'],
fp=rhsd_stbc['fp']+rhsd_vfrc['fpr'],
N=N, nu=nu,
vel_nwtn_stps=nnewtsteps,
vel_pcrd_stps=npcrdsteps,
vel_nwtn_tol=vel_nwtn_tol,
start_ssstokes=True,
get_datastring=None,
data_prfx=ddir+data_prfx,
paraviewoutput=ParaviewOutput,
clearprvdata=True,
comp_nonl_semexp=True,
vfileprfx=proutdir+'vel_',
pfileprfx=proutdir+'p_')
soldict.update(krylovdict) # if we wanna use an iterative solver
snu.solve_nse(**soldict)
print(len(krylovdict['krpslvprms']['convstatsl']))
def testit(problem=None,
nu=None,
ininu=None,
charvel=None,
meshlvl=1,
rho=1.,
ParaviewOutput=False,
scheme='TH'):
meshfile = 'mesh/karman2D-rotcyl_lvl{0}.xml.gz'.format(meshlvl)
physregs = 'mesh/karman2D-rotcyl_lvl{0}_facet_region.xml.gz'.\
format(meshlvl)
meshparams = dict(strtomeshfile=meshfile,
strtophysicalregions=physregs,
strtobcsobs=geodata)
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem=problem, nu=nu, bccontrol=False,
charvel=charvel, scheme=scheme, mergerhs=True,
meshparams=meshparams)
soldict = {}
soldict.update(stokesmatsc) # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
ddir = 'data/'
data_prfx = problem + '{2}_mesh{0}_Re{1}'.\
format(meshlvl, femp['Re'], scheme)
soldict.update(fv=rhsd['fv'],
fp=rhsd['fp'],
N=meshlvl,
nu=nu,
verbose=True,
vel_pcrd_stps=0,
vel_nwtn_tol=1e-10,
vel_nwtn_stps=10,
return_vp=True,
get_datastring=None,
dbcinds=femp['dbcinds'],
dbcvals=femp['dbcvals'],
data_prfx=ddir + data_prfx,
paraviewoutput=ParaviewOutput,
vfileprfx=proutdir + 'vel_',
pfileprfx=proutdir + 'p_')
L = femp['charlen'] # characteristic length
phionevec = np.zeros((femp['V'].dim(), 1))
phionevec[femp['mvwbcinds'], :] = 1.
phione = dolfin.Function(femp['V'])
phione.vector().set_local(phionevec)
pickx = dolfin.as_matrix([[1., 0.], [0., 0.]])
picky = dolfin.as_matrix([[0., 0.], [0., 1.]])
pox = pickx * phione
poy = picky * phione
phitwovec = np.zeros((femp['V'].dim(), 1))
phitwovec[femp['mvwbcinds'], 0] = femp['mvwbcvals']
phitwo = dolfin.Function(femp['V'])
phitwo.vector().set_local(phitwovec)
if ParaviewOutput:
phifile = dolfin.File('results/phione.pvd')
phifile << phitwo
# getld = dnsps.LiftDragSurfForce(V=femp['V'], nu=nu,
# phione=phione, phitwo=phitwo,
# outflowds=femp['outflowds'],
# ldds=femp['liftdragds'])
steady_state_res = \
get_steady_state_res(V=femp['V'], gradvsymmtrc=True,
outflowds=femp['outflowds'], nu=nu)
def comptorque(rotval, thingdict=None, returnitall=False):
def rotcont(t, vel=None, p=None, memory={}):
return rotval, memory
rotcondict = {}
dircntdict = dict(diricontbcinds=[femp['mvwbcinds']],
diricontbcvals=[femp['mvwbcvals']],
diricontfuncs=[rotcont],
diricontfuncmems=[rotcondict])
soldict.update(dircntdict)
soldict.update(dict(vel_start_nwtn=thingdict['vel_start_nwtn']))
if ininu is not None and thingdict['vel_start_nwtn'] is None:
inifemp, inistokesmatsc, inirhsd = \
dnsps.get_sysmats(problem=problem, nu=ininu, bccontrol=False,
charvel=charvel, scheme=scheme,
mergerhs=True, meshparams=meshparams)
soldict.update(inistokesmatsc)
soldict.update(inifemp)
soldict.update(fv=inirhsd['fv'], fp=inirhsd['fp'])
vp_ss_nse = snu.solve_steadystate_nse(**soldict)
soldict.update(dict(vel_start_nwtn=vp_ss_nse[0]))
soldict.update(stokesmatsc)
soldict.update(femp)
soldict.update(fv=rhsd['fv'], fp=rhsd['fp'])
vp_ss_nse = snu.solve_steadystate_nse(**soldict)
thingdict.update(dict(vel_start_nwtn=vp_ss_nse[0]))
if returnitall:
vfun, pfun = dts.\
expand_vp_dolfunc(vc=vp_ss_nse[0], pc=vp_ss_nse[1],
V=femp['V'], Q=femp['Q'])
# lift, drag = getld.evaliftdragforce(u=vfun, p=pfun)
drag = steady_state_res(vfun, pfun, phi=pox)
lift = steady_state_res(vfun, pfun, phi=poy)
# phionex = phione.sub(0)
trqe = steady_state_res(vfun, pfun, phi=phitwo)
# trqe = getld.evatorqueSphere2D(u=vfun, p=pfun)
a_1 = dolfin.Point(0.15, 0.2)
a_2 = dolfin.Point(0.25, 0.2)
pdiff = rho * pfun(a_2) - rho * pfun(a_1)
return trqe, lift, drag, pdiff
else:
vfun, pfun = dts.\
expand_vp_dolfunc(vc=vp_ss_nse[0], pc=vp_ss_nse[1],
V=femp['V'], Q=femp['Q'])
# trqe = getld.evatorqueSphere2D(u=vfun, p=pfun)
trqe = steady_state_res(vfun, pfun, phi=phitwo)
print('omeg: {0:.3e} -- trqe: {1:.3e}'.format(rotval, trqe))
return np.abs(trqe)
Um = charvel
thingdict = dict(vel_start_nwtn=None)
testrot = 0.
trqe, lift, drag, pdif = comptorque(testrot, thingdict, returnitall=True)
print('\n\n# ## Nonrotating Cylinder ')
cdclfac = 2. / (rho * L * Um**2)
trqefac = 4 / (Um**2 * rho * L**2)
print('Cl: {0:.9f}'.format(cdclfac * lift))
print('Cd: {0:.9f}'.format(cdclfac * drag))
print('Ct: {0:.5e}'.format(trqefac * trqe))
print('Delta P: {0:.9f}'.format(pdif))
if charvel == 0.2:
print('\n cp. values from Schaefer/Turek as in')
print('www.featflow.de/en/benchmarks/cfdbenchmarking/flow/' +
'dfg_benchmark1_re20.html:')
print('Cl: {0:.8f}'.format(0.010618948146))
print('Cd: {0:.8f}'.format(5.57953523384))
print('Delta P: {0:.8f}'.format(0.11752016697))
print('\n\n# ## Rotating Cylinder -- optimizing rotation for zero torque')
tinfo = {}
with dou.Timer(timerinfo=tinfo):
res = sco.minimize_scalar(comptorque,
args=(thingdict),
options={'maxiter': 80},
tol=1e-13)
trqe, lift, drag, pdiff = comptorque(res['x'], thingdict, returnitall=True)
print('\n# ## Rotating Cylinder -- optimized rotation for zero torque')
print('omega*: {0:.8f}'.format(res['x'] * L / (2 * Um)))
print('Cl: {0:.8f}'.format(cdclfac * lift))
print('Cd: {0:.8f}'.format(cdclfac * drag))
print('Ct: {0:.4e}'.format(trqefac * trqe))
print('Delta P: {0:.8f}'.format(pdif))
if charvel == 0.2:
print('\n cp. values from Richter et. al')
print('omega*: {0}'.format(0.00126293))
print('Cl: {0}'.format(0.0047141))
print('Cd: {0}'.format(5.579558))
print('Delta P: {0}'.format(0.117520))
def comp_exp_nsmats(
problemname="drivencavity",
N=10,
Re=1e2,
nu=None,
linear_system=False,
refree=False,
bccontrol=False,
palpha=None,
use_old_data=False,
mddir="pathtodatastorage",
):
"""compute and export the system matrices for Navier-Stokes equations
Parameters
---
refree : boolean, optional
whether to use `Re=1` (so that the `Re` number can be applied later by
scaling the corresponding matrices, defaults to `False`
linear_system : boolean, optional
whether to compute/return the linearized system, defaults to `False`
bccontrol : boolean, optional
whether to model boundary control at the cylinder via penalized robin
boundary conditions, defaults to `False`
palpha : float, optional
penalization parameter for the boundary control, defaults to `None`,
`palpha` is mandatory for `linear_system`
"""
if refree:
Re = 1
print "For the Reynoldsnumber free mats, we set Re=1"
if problemname == "drivencavity" and bccontrol:
raise NotImplementedError("boundary control for the driven cavity" + " is not implemented yet")
if linear_system and bccontrol and palpha is None:
raise UserWarning("For the linear system a" + " value for `palpha` is needed")
if not linear_system and bccontrol:
raise NotImplementedError("Nonlinear system with boundary control" + " is not implemented yet")
femp, stokesmatsc, rhsd_vfrc, rhsd_stbc = dnsps.get_sysmats(problem=problemname, bccontrol=bccontrol, N=N, Re=Re)
if linear_system and bccontrol:
Arob = stokesmatsc["A"] + 1.0 / palpha * stokesmatsc["Arob"]
Brob = 1.0 / palpha * stokesmatsc["Brob"]
elif linear_system:
Brob = 0
invinds = femp["invinds"]
A, J = stokesmatsc["A"], stokesmatsc["J"]
fvc, fpc = rhsd_vfrc["fvc"], rhsd_vfrc["fpr"]
fv_stbc, fp_stbc = rhsd_stbc["fv"], rhsd_stbc["fp"]
invinds = femp["invinds"]
NV = invinds.shape[0]
data_prfx = problemname + "__N{0}Re{1}".format(N, Re)
if bccontrol:
data_prfx = data_prfx + "_penarob"
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(rhsd_vfrc) # adding fvc, fpr
fv = rhsd_vfrc["fvc"] + rhsd_stbc["fv"]
fp = rhsd_vfrc["fpr"] + rhsd_stbc["fp"]
# print 'get expmats: ||fv|| = {0}'.format(np.linalg.norm(fv))
# print 'get expmats: ||fp|| = {0}'.format(np.linalg.norm(fp))
# import scipy.sparse.linalg as spsla
# print 'get expmats: ||A|| = {0}'.format(spsla.norm(A))
# print 'get expmats: ||Arob|| = {0}'.format(spsla.norm(Arob))
# print 'get expmats: ||A|| = {0}'.format(spsla.norm(stokesmatsc['A']))
# raise Warning('TODO: debug')
soldict.update(
fv=fv,
fp=fp,
N=N,
nu=nu,
clearprvdata=~use_old_data,
get_datastring=None,
data_prfx=ddir + data_prfx + "_stst",
paraviewoutput=False,
)
if bccontrol and linear_system:
soldict.update(A=Arob)
# compute the uncontrolled steady state Navier-Stokes solution
vp_ss_nse, list_norm_nwtnupd = snu.solve_steadystate_nse(return_vp=True, **soldict)
v_ss_nse, p_ss_nse = vp_ss_nse[:NV], vp_ss_nse[NV:]
# specify in what spatial direction Bu changes. The remaining is constant
if problemname == "drivencavity":
uspacedep = 0
elif problemname == "cylinderwake":
uspacedep = 1
#
# Control mats
#
contsetupstr = problemname + "__NV{0}NU{1}NY{2}".format(NV, NU, NY)
# get the control and observation operators
try:
b_mat = dou.load_spa(ddir + contsetupstr + "__b_mat")
u_masmat = dou.load_spa(ddir + contsetupstr + "__u_masmat")
print "loaded `b_mat`"
except IOError:
print "computing `b_mat`..."
b_mat, u_masmat = cou.get_inp_opa(cdcoo=femp["cdcoo"], V=femp["V"], NU=NU, xcomp=uspacedep)
dou.save_spa(b_mat, ddir + contsetupstr + "__b_mat")
dou.save_spa(u_masmat, ddir + contsetupstr + "__u_masmat")
try:
mc_mat = dou.load_spa(ddir + contsetupstr + "__mc_mat")
y_masmat = dou.load_spa(ddir + contsetupstr + "__y_masmat")
print "loaded `c_mat`"
except IOError:
print "computing `c_mat`..."
mc_mat, y_masmat = cou.get_mout_opa(odcoo=femp["odcoo"], V=femp["V"], NY=NY)
dou.save_spa(mc_mat, ddir + contsetupstr + "__mc_mat")
dou.save_spa(y_masmat, ddir + contsetupstr + "__y_masmat")
# restrict the operators to the inner nodes
mc_mat = mc_mat[:, invinds][:, :]
b_mat = b_mat[invinds, :][:, :]
c_mat = lau.apply_massinv(y_masmat, mc_mat, output="sparse")
# TODO: right choice of norms for y
# and necessity of regularization here
# by now, we go on number save
# the pressure observation mean over a small domain
if problemname == "cylinderwake":
podcoo = dict(xmin=0.6, xmax=0.64, ymin=0.18, ymax=0.22)
elif problemname == "drivencavity":
podcoo = dict(xmin=0.45, xmax=0.55, ymin=0.7, ymax=0.8)
else:
podcoo = femp["odcoo"]
# description of the control and observation domains
dmd = femp["cdcoo"]
xmin, xmax, ymin, ymax = dmd["xmin"], dmd["xmax"], dmd["ymin"], dmd["ymax"]
velcondomstr = "vel control domain: [{0}, {1}]x[{2}, {3}]\n".format(xmin, xmax, ymin, ymax)
dmd = femp["odcoo"]
xmin, xmax, ymin, ymax = dmd["xmin"], dmd["xmax"], dmd["ymin"], dmd["ymax"]
velobsdomstr = "vel observation domain: [{0}, {1}]x[{2}, {3}]\n".format(xmin, xmax, ymin, ymax)
dmd = podcoo
xmin, xmax, ymin, ymax = dmd["xmin"], dmd["xmax"], dmd["ymin"], dmd["ymax"]
pobsdomstr = "pressure observation domain: [{0}, {1}]x[{2}, {3}]\n".format(xmin, xmax, ymin, ymax)
pcmat = cou.get_pavrg_onsubd(odcoo=podcoo, Q=femp["Q"], ppin=None)
cdatstr = snu.get_datastr_snu(time=None, meshp=N, nu=nu, Nts=None)
(coors, xinds, yinds, corfunvec) = dts.get_dof_coors(femp["V"], invinds=invinds)
ctrl_visu_str = (
" the (distributed) control setup is as follows \n"
+ " B maps into the domain of control -"
+ velcondomstr
+ " the first half of the columns"
+ "actuate in x-direction, the second in y direction \n"
+ " Cv measures averaged velocities in the domain of observation"
+ velobsdomstr
+ " Cp measures the averaged pressure"
+ " in the domain of pressure observation: "
+ pobsdomstr
+ " the first components are in x, the last in y-direction \n\n"
+ " Visualization: \n\n"
+ " `coors` -- array of (x,y) coordinates in "
+ " the same order as v[xinds] or v[yinds] \n"
+ " `xinds`, `yinds` -- indices of x and y components"
+ " of v = [vx, vy] -- note that indexing starts with 0\n"
+ " for testing use corfunvec wich is the interpolant of\n"
+ " f(x,y) = [x, y] on the grid \n\n"
+ "Created in `get_exp_nsmats.py` "
+ "(see https://github.com/highlando/dolfin_navier_scipy) at\n"
+ datetime.datetime.now().strftime("%I:%M%p on %B %d, %Y")
)
if bccontrol and problemname == "cylinderwake" and linear_system:
ctrl_visu_str = (
"the boundary control is realized via penalized robin \n"
+ "boundary conditions, cf. e.g. [Hou/Ravindran `98], \n"
+ "with predefined shape functions for the cylinder wake \n"
+ "and the penalization parameter `palpha`={0}."
).format(palpha) + ctrl_visu_str
if linear_system:
convc_mat, rhs_con, rhsv_conbc = snu.get_v_conv_conts(
prev_v=v_ss_nse, invinds=invinds, V=femp["V"], diribcs=femp["diribcs"]
)
# TODO: omg
if bccontrol:
f_mat = -Arob - convc_mat
else:
f_mat = -stokesmatsc["A"] - convc_mat
infostr = (
"These are the coefficient matrices of the linearized "
+ "Navier-Stokes Equations \n for the "
+ problemname
+ " to be used as \n\n"
+ " $M \\dot v = Av + J^Tp + Bu$ and $Jv = 0$ \n\n"
+ " the Reynoldsnumber is computed as L/nu \n"
+ " Note this is the reduced system for the velocity update\n"
+ " caused by the control, i.e., no boundary conditions\n"
+ " or inhomogeneities here. To get the actual flow, superpose \n"
+ " the steadystate velocity solution `v_ss_nse` \n\n"
+ ctrl_visu_str
)
matstr = (mddir + problemname + "__mats_N{0}_Re{1}").format(NV, Re)
if bccontrol:
matstr = matstr + "__penarob_palpha{0}".format(palpha)
scipy.io.savemat(
matstr,
dict(
A=f_mat,
M=stokesmatsc["M"],
nu=femp["nu"],
Re=femp["Re"],
J=stokesmatsc["J"],
B=b_mat,
C=c_mat,
Cp=pcmat,
Brob=Brob,
v_ss_nse=v_ss_nse,
info=infostr,
contsetupstr=contsetupstr,
datastr=cdatstr,
coors=coors,
xinds=xinds,
yinds=yinds,
corfunvec=corfunvec,
),
)
print ("matrices saved to " + matstr)
elif refree:
hstr = ddir + problemname + "_N{0}_hmat".format(N)
try:
hmat = dou.load_spa(hstr)
print "loaded `hmat`"
except IOError:
print "assembling hmat ..."
hmat = dts.ass_convmat_asmatquad(W=femp["V"], invindsw=invinds)
dou.save_spa(hmat, hstr)
zerv = np.zeros((NV, 1))
bc_conv, bc_rhs_conv, rhsbc_convbc = snu.get_v_conv_conts(
prev_v=zerv, V=femp["V"], invinds=invinds, diribcs=femp["diribcs"], Picard=False
)
# diff_mat = stokesmatsc['A']
# bcconv_mat = bc_conv
# fv_bcdiff = fv_stbc
# fv_bcconv = - bc_rhs_conv
fv = fvc
fp = fpc
# fp_bc = fp_stbc
infostr = (
"These are the coefficient matrices of the quadratic "
+ "formulation of the Navier-Stokes Equations \n for the "
+ problemname
+ " to be used as \n\n"
+ " $M \\dot v + Av + H*kron(v,v) + J^Tp = Bu + fv$ \n"
+ " and $Jv = fp$ \n\n"
+ " the Reynoldsnumber is computed as L/nu \n"
+ " note that `A` contains the diffusion and the linear term \n"
+ " that comes from the dirichlet boundary values \n"
+ " as initial value one can use the provided steady state \n"
+ " Stokes solution \n"
+ " see https://github.com/highlando/dolfin_navier_scipy/blob/"
+ " master/tests/solve_nse_quadraticterm.py for appl example\n"
+ ctrl_visu_str
)
scipy.io.savemat(
mddir + problemname + "quadform__mats_N{0}_Re{1}".format(NV, Re),
dict(
A=f_mat,
M=stokesmatsc["M"],
H=-hmat,
fv=fv,
fp=fp,
nu=femp["nu"],
Re=femp["Re"],
J=stokesmatsc["J"],
B=b_mat,
Cv=c_mat,
Cp=pcmat,
info=infostr,
# ss_stokes=old_v,
contsetupstr=contsetupstr,
datastr=cdatstr,
coors=coors,
xinds=xinds,
yinds=yinds,
corfunvec=corfunvec,
),
)
else:
hstr = ddir + problemname + "_N{0}_hmat".format(N)
try:
hmat = dou.load_spa(hstr)
print "loaded `hmat`"
except IOError:
print "assembling hmat ..."
hmat = dts.ass_convmat_asmatquad(W=femp["V"], invindsw=invinds)
dou.save_spa(hmat, hstr)
zerv = np.zeros((NV, 1))
bc_conv, bc_rhs_conv, rhsbc_convbc = snu.get_v_conv_conts(
prev_v=zerv, V=femp["V"], invinds=invinds, diribcs=femp["diribcs"], Picard=False
)
f_mat = -stokesmatsc["A"] - bc_conv
l_mat = -bc_conv
fv = fv_stbc + fvc - bc_rhs_conv
fp = fp_stbc + fpc
vp_stokes = lau.solve_sadpnt_smw(amat=A, jmat=J, rhsv=fv_stbc + fvc, rhsp=fp_stbc + fpc)
old_v = vp_stokes[:NV]
p_stokes = -vp_stokes[NV:] # the pressure was flipped for symmetry
infostr = (
"These are the coefficient matrices of the quadratic "
+ "formulation of the Navier-Stokes Equations \n for the "
+ problemname
+ " to be used as \n\n"
+ " $M \\dot v = Av + H*kron(v,v) + J^Tp + Bu + fv$ \n"
+ " and $Jv = fp$ \n\n"
+ " the Reynoldsnumber is computed as L/nu \n"
+ " note that `A` contains the diffusion and the linear term `L`\n"
+ " that comes from the dirichlet boundary values \n"
+ " for linearizations it might be necessary to consider `A-L` \n"
+ " as initial value one can use the provided steady state \n"
+ " Stokes solution \n"
+ " see https://github.com/highlando/dolfin_navier_scipy/blob/"
+ " master/tests/solve_nse_quadraticterm.py for appl example\n"
+ ctrl_visu_str
)
scipy.io.savemat(
mddir + problemname + "quadform__mats_N{0}_Re{1}".format(NV, Re),
dict(
A=f_mat,
M=stokesmatsc["M"],
H=-hmat,
fv=fv,
fp=fp,
L=l_mat,
nu=femp["nu"],
Re=femp["Re"],
J=stokesmatsc["J"],
B=b_mat,
Cv=c_mat,
Cp=pcmat,
info=infostr,
p_ss_stokes=p_stokes,
p_ss_nse=p_ss_nse,
v_ss_stokes=old_v,
v_ss_nse=v_ss_nse,
contsetupstr=contsetupstr,
datastr=cdatstr,
coors=coors,
xinds=xinds,
yinds=yinds,
corfunvec=corfunvec,
),
)
nwtn_myadi_dict = dict(adi_max_steps=350,
adi_newZ_reltol=1e-7,
nwtn_max_steps=30,
nwtn_upd_reltol=1e-9,
nwtn_upd_abstol=1e-7,
ms=[-30.0, -20.0, -10.0, -5.0, -3.0, -1.0],
verbose=True,
full_upd_norm_check=False,
check_lyap_res=False)
nwtn_pyadi_dict = dict(verbose=True, maxit=45, aditol=1e-8,
nwtn_res2_tol=4e-8, linesearch=True)
femp, stokesmatsc, rhsd_vfrc, rhsd_stbc \
= dnsps.get_sysmats(problem=problemname, N=N, Re=Re,
bccontrol=bccontrol, scheme='TH')
invinds, NV = femp['invinds'], len(femp['invinds'])
stokesmatsc['A'] = stokesmatsc['A'] + 1./palpha*stokesmatsc['Arob']
b_mat = 1./palpha*stokesmatsc['Brob']
b_mat_reg = lau.app_prj_via_sadpnt(amat=stokesmatsc['M'],
jmat=stokesmatsc['J'],
rhsv=b_mat,
transposedprj=True)
contsetupstr = 'NV{0}_bcc_NY{1}_palpha{2}'.format(NV, NY, palpha)
shortcontsetupstr = '{0}{1}{2}'.format(NV, NY, np.int(np.log2(palpha)))
fdstr = ddir + problemname + '_Re{0}_gamma{1}_'.format(Re, gamma) + \
contsetupstr + prbstr
def testit(problem=None, nu=None, charvel=None, Re=None,
meshlvl=1,
rho=1.,
t0=0.0, tE=1.0, Nts=1e2+1, ParaviewOutput=False, scheme='TH'):
meshfile = 'mesh/karman2D-rotcyl_lvl{0}.xml.gz'.format(meshlvl)
physregs = 'mesh/karman2D-rotcyl_lvl{0}_facet_region.xml.gz'.\
format(meshlvl)
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem='cylinder_rot', nu=nu, bccontrol=False,
charvel=charvel,
scheme=scheme, mergerhs=True,
meshparams=dict(strtomeshfile=meshfile,
strtophysicalregions=physregs,
strtobcsobs=geodata))
ddir = 'data/'
data_prfx = problem + '{4}_mesh{0}_Re{1}_Nts{2}_tE{3}'.\
format(meshlvl, femp['Re'], Nts, tE, scheme)
tips = dict(t0=t0, tE=tE, Nts=Nts)
# ## Parameters for the benchmark values
Um = charvel # (we alread scale the inflow parabola accordingly)
L = femp['charlen'] # characteristic length
NP, NV = stokesmatsc['J'].shape
print('NV + NP : {0} + {1} = {2}'.format(NV, NP, NV+NP))
def rotcont(t, vel):
return 0.
dircntdict = dict(diricontbcinds=[femp['mvwbcinds']],
diricontbcvals=[femp['mvwbcvals']],
diricontfuncs=[rotcont])
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(tips) # adding time integration params
soldict.update(dircntdict)
soldict.update(fv=rhsd['fv'], fp=rhsd['fp'],
N=meshlvl, nu=nu,
# start_ssstokes=True,
verbose=True,
return_vp=True,
iniv=0*rhsd['fv'],
get_datastring=None,
comp_nonl_semexp=True,
dbcinds=femp['dbcinds'], dbcvals=femp['dbcvals'],
data_prfx=ddir+data_prfx,
paraviewoutput=ParaviewOutput,
vfileprfx=proutdir+'vel_',
pfileprfx=proutdir+'p_')
#
# compute the uncontrolled steady state Navier-Stokes solution
#
vp_ss_nse = snu.solve_steadystate_nse(**soldict)
vss, dynpss = dts.expand_vp_dolfunc(vc=vp_ss_nse[0], pc=vp_ss_nse[1],
**femp)
realpss = rho*dynpss # Um**2*rho*dynpss
realvss = vss # Um*vss
getld = dnsps.LiftDragSurfForce(V=femp['V'], nu=nu,
ldds=femp['liftdragds'])
clift, cdrag = getld.evaliftdragforce(u=realvss, p=realpss)
cdclfac = 2./(rho*L*Um**2)
print('Cl: {0}'.format(cdclfac*clift))
print('Cd: {0}'.format(cdclfac*cdrag))
import dolfin
a_1 = dolfin.Point(0.15, 0.2)
a_2 = dolfin.Point(0.25, 0.2)
pdiff = realpss(a_1) - realpss(a_2)
print('Delta P: {0}'.format(pdiff))
print('\n values from Schaefer/Turek as in')
print('www.featflow.de/en/benchmarks/cfdbenchmarking/flow/' +
'dfg_benchmark1_re20.html:')
print('Cl: {0}'.format(0.010618948146))
print('Cd: {0}'.format(5.57953523384))
print('Delta P: {0}'.format(0.11752016697))
def solve_euler_timedep(method=1, Omega=8, tE=None, Prec=None,
N=40, NtsList=None, LinaTol=None, MaxIter=None,
UsePreTStps=None, SaveTStps=None, SaveIniVal=None,
scheme='TH', nu=0, Re=None, inikryupd=None,
tolcor=False, prob=None):
"""system to solve
du\dt + (u*D)u + grad p = fv
div u = fp
"""
methdict = {
1: 'HalfExpEulSmaMin',
2: 'HalfExpEulInd2'}
# instantiate object containing mesh, V, Q, rhs, velbcs, invinds
# set nu=0 for Euler flow
if prob == 'cyl':
femp, stokesmatsc, rhsd_vfrc, rhsd_stbc \
= dnsps.get_sysmats(problem='cylinderwake', N=N, Re=Re,
scheme=scheme)
Mc, Ac = stokesmatsc['M'], stokesmatsc['A']
MPa = stokesmatsc['MP']
BTc, Bc = stokesmatsc['JT'], stokesmatsc['J']
Ba = stokesmatsc['Jfull']
# bcinds, bcvals = femp['bcinds'], femp['bcvals']
fvbc, fpbc = rhsd_stbc['fv'], rhsd_stbc['fp']
inivdict = dict(A=Ac, J=Bc, JT=BTc, M=Mc,
ppin=None, V=femp['V'], Q=femp['Q'],
fv=fvbc, fp=fpbc, vel_pcrd_stps=0, vel_nwtn_stps=0,
return_vp=True, diribcs=femp['diribcs'],
invinds=femp['invinds'])
dimredsys = Bc.shape[1] + Bc.shape[0]
vp_init = snu.solve_steadystate_nse(**inivdict)[0]
PrP = FempToProbParams(N, omega=Omega, femp=femp, pdof=None)
PrP.Pdof = None # No p pinning for outflow flow
print 'Nv, Np -- w/o boundary nodes', BTc.shape
else:
if Re is not None:
nu = 1./Re
PrP = ProbParams(N, omega=Omega, nu=nu, scheme=scheme)
# get system matrices as np.arrays
smts = dts.get_stokessysmats(PrP.V, PrP.Q, nu=nu)
rhsvecs = dts.setget_rhs(PrP.V, PrP.Q, PrP.fv, PrP.fp)
# Ma, Aa, BTa, Ba = smts['A'], smts['JT'], smts['J']
# MPa = smts['MP']
# Ma, Aa, BTa, Ba, MPa = dtn.get_sysNSmats(PrP.V, PrP.Q, nu=nu)
# fv, fp = rhsvecs['fv'], rhsvecs['fp']
# fv, fp = dtn.setget_rhs(PrP.V, PrP.Q, PrP.fv, PrP.fp)
print 'Nv, Np -- w/ boundary nodes', smts['BTa'].shape
# condense the system by resolving the boundary values
# (Mc, Ac, BTc, Bc, fvbc, fpbc, bcinds, bcvals,
# invinds) = dtn.condense_sysmatsbybcs(Ma, Aa, BTa, Ba,
smts.update(rhsvecs)
smtsc = dts.condense_sysmatsbybcs(smts, PrP.velbcs)
Mc, Ac, BTc, Bc = smtsc['Mc'], smtsc['Ac'], smtsc['BTc'], smtsc['Bc']
fvbc, fpbc = smtsc['fvbc'], smtsc['fpbc']
# invinds
print 'Nv, Np -- w/o boundary nodes', BTc.shape
PrP.Pdof = 0 # Thats how the smamin is constructed
dimredsys = Bc.shape[0] + Bc.shape[1]
# TODO: this should sol(0)
vp_init = np.zeros((dimredsys, 1))
# instantiate the Time Int Parameters
TsP = TimestepParams(methdict[method], N, scheme=scheme)
if NtsList is not None:
TsP.Ntslist = NtsList
if LinaTol is not None:
TsP.linatol = LinaTol
if MaxIter is not None:
TsP.MaxIter = MaxIter
if tE is not None:
TsP.tE = tE
if Omega is not None:
TsP.Omega = Omega
if SaveTStps is not None:
TsP.SaveTStps = SaveTStps
if UsePreTStps is not None:
TsP.UsePreTStps = UsePreTStps
if SaveIniVal is not None:
TsP.SaveIniVal = SaveIniVal
if inikryupd is not None:
TsP.inikryupd = inikryupd
TsP.TolCorB = tolcor
print 'Mesh parameter N = %d' % N
print 'Time interval [%d,%1.2f]' % (TsP.t0, TsP.tE)
print 'Omega = %d' % TsP.Omega
print 'You have chosen %s for time integration' % methdict[method]
print 'The tolerance for the linear solver is %e' % TsP.linatol
print 'tolcor -- controlling the abs residuals -- is ', tolcor
if method == 1:
# Rearrange the matrices and rhs
# from smamin_utils import col_columns_atend
from scipy.io import loadmat
if prob == 'cyl' and scheme == 'CR':
if N == 0:
cricell = 758
elif N == 1:
cricell = 1498
elif N == 2:
cricell = 2386
elif N == 3:
cricell = 4843
else:
raise NotImplementedError()
# TODO: this is hard coded...
# dptatnb = dolfin.Point(2.2, 0.2)
# cricell = smt.get_cellid_nexttopoint(PrP.mesh, dptatnb)
elif prob == 'cyl':
raise NotImplementedError()
else:
cricell = None
MSmeCL, ASmeCL, BSme, B2Inds, B2BoolInv, B2BI = smt.\
get_smamin_rearrangement(N, PrP, M=Mc, A=Ac, B=Bc,
crinicell=cricell, addnedgeat=cricell,
scheme=scheme, fullB=Ba)
FvbcSme = np.vstack([fvbc[~B2BoolInv, ], fvbc[B2BoolInv, ]])
FpbcSme = fpbc
# inivalue
dname = 'IniValSmaMinN%s' % N
try:
IniV = loadmat(dname)
qqpq_init = IniV['qqpq_old']
vp_init = None
except IOError:
qqpq_init = None
# Output
try:
os.chdir('json')
except OSError:
raise Warning('need "json" subdirectory for storing the data')
os.chdir('..')
if TsP.ParaviewOutput:
os.chdir('results/')
for fname in glob.glob(TsP.method + scheme + '*'):
os.remove(fname)
os.chdir('..')
# ## Time stepping ## #
for i, CurNTs in enumerate(TsP.Ntslist):
TsP.Nts = CurNTs
if method == 2:
tis.halfexp_euler_nseind2(Mc, MPa, Ac, BTc, Bc, fvbc, fpbc,
PrP, TsP, vp_init=vp_init)
elif method == 1:
tis.halfexp_euler_smarminex(MSmeCL, ASmeCL, BSme,
MPa, FvbcSme, FpbcSme,
B2BoolInv, PrP, TsP,
qqpq_init=qqpq_init, vp_init=vp_init)
# Output only in first iteration!
TsP.ParaviewOutput = False
save_simu(TsP, PrP)
return
fh = logging.FileHandler('log.interpoltest')
fh.setLevel(logging.DEBUG)
formatter = \
logging.Formatter('%(name)s - %(levelname)s - %(message)s')
# logging.Formatter('%(asctime)s - %(name)s - %(levelname)s - %(message)s')
fh.setFormatter(formatter)
logger.addHandler(fh)
problemname = 'cylinderwake'
N = 2
Nref = 3
Re = 10
femp, stokesmatsc, rhsd = dnsps.get_sysmats(problem=problemname, N=N, Re=Re,
mergerhs=True)
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(rhsd) # adding the discrete rhs
v_ss_nse, list_norm_nwtnupd = snu.solve_steadystate_nse(N=N, **soldict)
vwbc = dts.append_bcs_vec(v_ss_nse, **femp)
vwbcf, _ = dts.expand_vp_dolfunc(vc=vwbc, V=femp['V'])
fempref, stokesmatsc, rhsd = dnsps.get_sysmats(problem=problemname, N=Nref,
Re=Re, mergerhs=True)
Vref = fempref['V']
class ExtFunZero(dolfin.Expression):
def get_curmeshdict(problem=None, N=None, Re=None, nu=None, scheme=None,
onlymesh=False, smaminex=False):
"""
Parameters
---
smaminex : boolean, optional
whether compute return the rearranged matrices needed for the
index-1 formulation with minimal extension [Altmann, Heiland 2015],
defaults to `False`
"""
if onlymesh:
femp = dnsps.get_sysmats(problem=problem, N=N, scheme=scheme,
onlymesh=True)
return femp
else:
femp, stokesmatsc, rhsd = dnsps.\
get_sysmats(problem=problem, N=N, Re=Re, nu=nu,
scheme=scheme, mergerhs=True)
M, A, J = stokesmatsc['M'], stokesmatsc['A'], stokesmatsc['J']
V, Q = femp['V'], femp['Q']
invinds, diribcs = femp['invinds'], femp['diribcs']
nu = femp['nu'] if nu is None else nu
fv, fp = rhsd['fv'], rhsd['fp']
cmd = dict(M=M, A=A, J=J, V=V, Q=Q, invinds=invinds, diribcs=diribcs,
fv=fv, fp=fp, N=N, Re=femp['Re'])
logger.debug('in `get_curmeshdict`: ' +
'problem={0}, scheme={1}, Re={2}, nu={3}, ppin={4}'.
format(problem, scheme, Re, nu, femp['ppin']))
if smaminex:
cricelldict = {0: 758, 1: 1498, 2: 2386, 3: 4843, 4: 6993}
# TODO: this is hardcoded for the FEniCS cylinder meshes
if problem == 'cylinderwake' and scheme == 'CR':
try:
cricell = cricelldict[N]
except KeyError():
raise NotImplementedError()
else:
raise NotImplementedError()
MSmeCL, ASmeCL, BSme, B2Inds, B2BoolInv, B2BI = smt.\
get_smamin_rearrangement(N, None, M=M, A=A, B=J,
V=V, Q=Q, nu=nu, mesh=femp['mesh'],
crinicell=cricell, addnedgeat=cricell,
Pdof=femp['ppin'],
scheme=scheme, invinds=invinds,
fullB=stokesmatsc['Jfull'])
FvbcSme = np.vstack([fv[~B2BoolInv, ], fv[B2BoolInv, ]])
def sortitback(q1=None, q2=None):
vc = np.zeros((fv.size, 1))
vc[~B2BoolInv, ] = q1.reshape((q1.size, 1))
vc[B2BoolInv, ] = q2.reshape((q2.size, 1))
return vc
def sortitthere(vc, getitstacked=False):
q1 = vc[~B2BoolInv, ]
q2 = vc[B2BoolInv, ]
if getitstacked:
return np.vstack([q1, q2])
else:
return q1, q2
cmd.update(dict(ASme=ASmeCL, JSme=BSme,
MSme=MSmeCL, fvSme=FvbcSme,
smmxqq2vel=sortitback, npc=BSme.shape[0],
vel2smmxqq=sortitthere))
return cmd
def testit(problem=None,
nu=None,
charvel=None,
Re=None,
meshlvl=1,
gradvsymmtrc=True,
rho=1.,
ParaviewOutput=False,
scheme='TH'):
meshfile = 'mesh/karman2D-rotcyl_lvl{0}.xml.gz'.format(meshlvl)
physregs = 'mesh/karman2D-rotcyl_lvl{0}_facet_region.xml.gz'.\
format(meshlvl)
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem=problem, nu=nu,
charvel=charvel, gradvsymmtrc=gradvsymmtrc,
scheme=scheme, mergerhs=True,
meshparams=dict(strtomeshfile=meshfile,
movingwallcntrl=False,
strtophysicalregions=physregs,
strtobcsobs=geodata))
ddir = 'data/'
data_prfx = problem + '{2}_mesh{0}_Re{1}'.format(meshlvl, femp['Re'],
scheme)
# ## Parameters for the benchmark values
Um = charvel # (we alread scale the inflow parabola accordingly)
L = femp['charlen'] # characteristic length
NP, NV = stokesmatsc['J'].shape
print('NV + NP : {0} + {1} = {2}'.format(NV, NP, NV + NP))
soldict = stokesmatsc # containing A, J, JT
# soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(invinds=femp['invinds'], V=femp['V'], Q=femp['Q'])
soldict.update(fv=rhsd['fv'],
fp=rhsd['fp'],
N=meshlvl,
nu=nu,
verbose=True,
return_vp=True,
get_datastring=None,
dbcinds=femp['dbcinds'],
dbcvals=femp['dbcvals'],
data_prfx=ddir + data_prfx,
paraviewoutput=ParaviewOutput,
vfileprfx=proutdir + 'vel_',
pfileprfx=proutdir + 'p_')
#
# compute the uncontrolled steady state Navier-Stokes solution
#
vp_ss_nse = snu.solve_steadystate_nse(**soldict)
vss, dynpss = dts.expand_vp_dolfunc(vc=vp_ss_nse[0],
pc=vp_ss_nse[1],
**femp)
steady_state_res = \
get_steady_state_res(V=femp['V'], gradvsymmtrc=True,
outflowds=femp['outflowds'], nu=nu)
res = steady_state_res(vss, rho * dynpss)
auxvec = np.zeros((femp['V'].dim(), ))
invinds = femp['invinds']
auxvec[invinds] = res.get_local()[invinds]
print('two norm of the res: {0}'.format(np.linalg.norm(auxvec)))
phionevec = np.zeros((femp['V'].dim(), 1))
phionevec[femp['ldsbcinds'], :] = 1.
phione = dolfin.Function(femp['V'])
phione.vector().set_local(phionevec)
pickx = dolfin.as_matrix([[1., 0.], [0., 0.]])
picky = dolfin.as_matrix([[0., 0.], [0., 1.]])
pox = pickx * phione
poy = picky * phione
drag = steady_state_res(vss, rho * dynpss, phi=pox)
lift = steady_state_res(vss, rho * dynpss, phi=poy)
cdclfac = 2. / (rho * L * Um**2)
print('Computed via testing the residual: ')
print('Cl: {0}'.format(cdclfac * lift))
print('Cd: {0}'.format(cdclfac * drag))
phionevec = np.zeros((femp['V'].dim(), 1))
phionevec[femp['ldsbcinds'], :] = 1.
phione = dolfin.Function(femp['V'])
phione.vector().set_local(phionevec)
# phionex = phione.sub(0)
print('Computed via `dnsps.LiftDragSurfForce`:')
realpss = rho * dynpss # Um**2*rho*dynpss
realvss = vss # Um*vss
getld = dnsps.LiftDragSurfForce(V=femp['V'],
nu=nu,
ldds=femp['liftdragds'],
outflowds=femp['outflowds'],
phione=phione)
clift, cdrag = getld.evaliftdragforce(u=realvss, p=realpss)
print('Cl: {0}'.format(cdclfac * clift))
print('Cd: {0}'.format(cdclfac * cdrag))
a_1 = dolfin.Point(0.15, 0.2)
a_2 = dolfin.Point(0.25, 0.2)
pdiff = realpss(a_1) - realpss(a_2)
print('Delta P: {0}'.format(pdiff))
print('\n values from Schaefer/Turek as in')
print('www.featflow.de/en/benchmarks/cfdbenchmarking/flow/' +
'dfg_benchmark1_re20.html:')
print('Cl: {0}'.format(0.010618948146))
print('Cd: {0}'.format(5.57953523384))
print('Delta P: {0}'.format(0.11752016697))
def gopod(problemname='drivencavity',
N=10, Re=1e2, t0=0.0, tE=1.0, Nts=11, NU=3, NY=3,
paraoutput=True, multiproc=False,
krylov=None, krpslvprms={}, krplsprms={}):
"""Main routine for LQGBT
Parameters
----------
problemname : string, optional
what problem to be solved, 'cylinderwake' or 'drivencavity'
N : int, optional
parameter for the dimension of the space discretization
Re : real, optional
Reynolds number, defaults to `1e2`
t0, tE, Nts : real, real, int, optional
starting and endpoint of the considered time interval, number of
time instancses, default to `0.0, 1.0, 11`
NU, NY : int, optional
dimensions of components of in and output space (will double because
there are two components), default to `3, 3`
krylov : {None, 'gmres'}, optional
whether or not to use an iterative solver, defaults to `None`
krpslvprms : dictionary, optional
to specify parameters of the linear solver for use in Krypy, e.g.,
* initial guess
* tolerance
* number of iterations
defaults to `None`
krplsprms : dictionary, optional
parameters to define the linear system like
*preconditioner
"""
femp, stokesmatsc, rhsd_vfrc, rhsd_stbc, data_prfx, ddir, proutdir = \
dnsps.get_sysmats(problem=problemname, N=N, Re=Re)
# specify in what spatial direction Bu changes. The remaining is constant
uspacedep = femp['uspacedep']
# output
ddir = 'data/'
try:
os.chdir(ddir)
except OSError:
raise Warning('need "' + ddir + '" subdir for storing the data')
os.chdir('..')
data_prfx = ddir + data_prfx
# casting some parameters
NV = len(femp['invinds'])
# contsetupstr = 'NV{0}NU{1}NY{2}alphau{3}'.format(NV, NU, NY, alphau)
contsetupstr = 'NV{0}NU{1}NY{2}Re{3}'.format(NV, NU, NY, Re)
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(rhsd_vfrc) # adding fvc, fpr
soldict.update(fv_stbc=rhsd_stbc['fv'], fp_stbc=rhsd_stbc['fp'],
N=N, nu=femp['nu'], data_prfx=data_prfx)
soldict.update(paraviewoutput=paraoutput)
soldict.update(krylov=krylov, krplsprms=krplsprms, krpslvprms=krpslvprms)
#
# Prepare for control
#
# get the control and observation operators
try:
b_mat = dou.load_spa(ddir + contsetupstr + '__b_mat')
u_masmat = dou.load_spa(ddir + contsetupstr + '__u_masmat')
print 'loaded `b_mat`'
except IOError:
print 'computing `b_mat`...'
b_mat, u_masmat = cou.get_inp_opa(cdcoo=femp['cdcoo'], V=femp['V'],
NU=NU, xcomp=uspacedep)
dou.save_spa(b_mat, ddir + contsetupstr + '__b_mat')
dou.save_spa(u_masmat, ddir + contsetupstr + '__u_masmat')
try:
mc_mat = dou.load_spa(ddir + contsetupstr + '__mc_mat')
y_masmat = dou.load_spa(ddir + contsetupstr + '__y_masmat')
print 'loaded `c_mat`'
except IOError:
print 'computing `c_mat`...'
mc_mat, y_masmat = cou.get_mout_opa(odcoo=femp['odcoo'],
V=femp['V'], NY=NY)
dou.save_spa(mc_mat, ddir + contsetupstr + '__mc_mat')
dou.save_spa(y_masmat, ddir + contsetupstr + '__y_masmat')
# restrict the operators to the inner nodes
invinds = femp['invinds']
mc_mat = mc_mat[:, invinds][:, :]
b_mat = b_mat[invinds, :][:, :]
# tb_mat = 1./np.sqrt(alphau)
# setup the system for the correction
#
# # compute the uncontrolled steady state Stokes solution
#
v_ss_stokes, list_norm_nwtnupd = \
snu.solve_steadystate_nse(vel_pcrd_stps=0, vel_nwtn_stps=0,
clearprvdata=True, **soldict)
tmesh = np.linspace(t0, tE, Nts)
soldict.update(trange=tmesh,
iniv=v_ss_stokes,
lin_vel_point=v_ss_stokes,
clearprvdata=True,
vel_nwtn_stps=1,
return_dictofvelstrs=False,
paraviewoutput=True,
vfileprfx='results/fullvel',
pfileprfx='results/fullp')
convc_mat_n, rhs_con_n, rhsv_conbc_n = \
snu.get_v_conv_conts(prev_v=v_ss_stokes, invinds=invinds,
V=femp['V'], diribcs=femp['diribcs'],
Picard=False)
convc_mat_z, rhs_con_z, rhsv_conbc_z = \
snu.get_v_conv_conts(prev_v=0*v_ss_stokes, invinds=invinds,
V=femp['V'], diribcs=femp['diribcs'],
Picard=False)
vellist = snu.solve_nse(return_as_list=True, **soldict)
velar = np.array(vellist)[:, :, 0].T
rhsv = soldict['fv_stbc'] + soldict['fvc'] + rhsv_conbc_n + rhs_con_n
rhsp = soldict['fp_stbc'] + soldict['fpr']
# print 'fvstbc', np.linalg.norm(soldict['fv_stbc'])
# print 'fvc', np.linalg.norm(soldict['fvc'])
# print 'rhsvconbc', np.linalg.norm(rhsv_conbc_n)
# print 'rhscon', np.linalg.norm(rhs_con_n)
print 'velarshape :', velar.shape
checkreturns = False
if checkreturns:
inivel = velar[:, 0:1]
ylist = snu.solve_nse(A=soldict['A']+convc_mat_n-convc_mat_z,
M=soldict['M'],
J=soldict['J'], fvc=rhsv, fpr=rhsp,
iniv=inivel,
fv_stbc=0*rhsv - rhsv_conbc_z - rhs_con_z,
fp_stbc=0*rhsp,
lin_vel_point=0*inivel, trange=tmesh,
V=femp['V'], Q=femp['Q'],
invinds=femp['invinds'],
diribcs=femp['diribcs'], N=soldict['N'],
nu=soldict['nu'],
vel_nwtn_stps=1,
return_as_list=True)
velarcheck = np.array(ylist)[:, :, 0].T
print np.linalg.norm(velarcheck - velar)
# print np.linalg.norm(velarcheck[:, 1] - velar[:, 1])
return (soldict['M'], soldict['A']+convc_mat_n, velar,
rhsv, b_mat, tmesh, soldict['J'])
import dolfin_navier_scipy.problem_setups as dnsps
import dolfin_navier_scipy.stokes_navier_utils as snu
import numpy as np
N, Re, scheme, ppin = 2, 50, 'TH', None
femp, stokesmatsc, rhsd_vfrc, \
rhsd_stbc, data_prfx, ddir, proutdir \
= dnsps.get_sysmats(problem='cylinderwake', N=N, Re=Re,
scheme=scheme)
Mc, Ac = stokesmatsc['M'], stokesmatsc['A']
BTc, Bc = stokesmatsc['JT'], stokesmatsc['J']
print Bc.shape
invinds = femp['invinds']
fv, fp = rhsd_stbc['fv'], rhsd_stbc['fp']
inivdict = dict(A=Ac, J=Bc, JT=BTc, M=Mc, ppin=ppin, fv=fv, fp=fp,
return_vp=True, V=femp['V'],
invinds=invinds, diribcs=femp['diribcs'])
vp_init = snu.solve_steadystate_nse(**inivdict)[0]
NV = Bc.shape[1]
pfv = snu.get_pfromv(v=vp_init[:NV, :], V=femp['V'], M=Mc, A=Ac, J=Bc, fv=fv,
invinds=femp['invinds'], diribcs=femp['diribcs'])
print invinds.shape
print Bc.shape
print pfv.shape
print vp_init.shape
def twod_simu(nu=None, charvel=None, rho=1., rhosolid=10., meshparams=None,
inirot=None, inivfun=None,
t0=0.0, tE=.1, Nts=1e2+1,
start_steadystate=False, ininu=None,
plotplease=False, proutdir='paraviewplots/',
return_final_vp=False, ParaviewOutput=False, scheme='TH'):
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem='gen_bccont', nu=nu, bccontrol=False,
charvel=charvel, scheme=scheme, mergerhs=True,
meshparams=meshparams)
# dnsps.get_sysmats(problem='cylinder_rot', nu=nu, bccontrol=False,
# charvel=charvel, scheme=scheme, mergerhs=True,
# meshparams=meshparams)
tips = dict(t0=t0, tE=tE, Nts=Nts)
NP, NV = stokesmatsc['J'].shape
print('NV + NP : {0} + {1} = {2}'.format(NV, NP, NV+NP))
# function of ones at the lift/drag boundary
phionevec = np.zeros((femp['V'].dim(), 1))
phionevec[femp['mvwbcinds'], :] = 1.
phione = dolfin.Function(femp['V'])
phione.vector().set_local(phionevec)
pickx = dolfin.as_matrix([[1., 0.], [0., 0.]])
picky = dolfin.as_matrix([[0., 0.], [0., 1.]])
pox = pickx*phione
poy = picky*phione
# function of the tangential vector at the lift/drag boundary
phitwovec = np.zeros((femp['V'].dim(), 1))
phitwovec[femp['mvwbcinds'], 0] = femp['mvwbcvals']
phitwo = dolfin.Function(femp['V'])
phitwo.vector().set_local(phitwovec)
# getld = dnsps.LiftDragSurfForce(V=femp['V'], nu=nu,
# phione=phione, phitwo=phitwo,
# outflowds=femp['outflowds'],
# ldds=femp['liftdragds'])
# L = femp['charlen'] # characteristic length = 2*Radius
a_1 = dolfin.Point(0.15, 0.2)
a_2 = dolfin.Point(0.25, 0.2)
reschkdict = dict(V=femp['V'], gradvsymmtrc=True,
outflowds=femp['outflowds'], nu=nu)
euleres = get_imex_res(explscheme='eule', **reschkdict)
heunres = get_imex_res(explscheme='heun', **reschkdict)
abtwres = get_imex_res(explscheme='abtw', **reschkdict)
# ststres = get_steady_state_res(**reschkdict)
def record_ldt(t, vel=None, p=None, memory={}, mode='abtwo'):
rotval = 0.
if mode == 'stokes':
memory.update(dict(lastt=t))
return rotval, memory
if mode == 'init':
memory.update(dict(lastt=t))
return rotval, memory
vfun, pfun = dts.expand_vp_dolfunc(vc=vel, pc=p, **femp)
if mode == 'heunpred' or mode == 'heuncorr':
curdt = t - memory['lastt']
if mode == 'heunpred':
memory.update(dict(lastv=vel))
pass
elif mode == 'heuncorr':
lvfun = dts.expand_vp_dolfunc(vc=memory['lastv'],
**femp)[0]
trqe = euleres(vfun, pfun, curdt, lastvel=lvfun, phi=phitwo)
lift = euleres(vfun, pfun, curdt, lastvel=lvfun, phi=poy)
drag = euleres(vfun, pfun, curdt, lastvel=lvfun, phi=pox)
memory.update(dict(lastt=t, lastdt=curdt, heunpred=vel))
memory['trqs'].append(trqe)
memory['lfts'].append(lift)
memory['drgs'].append(drag)
memory['tims'].append(t)
elif mode == 'abtwo':
lvfun = dts.expand_vp_dolfunc(vc=memory['lastv'], **femp)[0]
curdt = t - memory['lastt']
try:
ovfn = dts.expand_vp_dolfunc(vc=memory['lastlastv'], **femp)[0]
modres = abtwres
except KeyError: # no lastlastv yet -- we can check the Heun res
ovfn = dts.expand_vp_dolfunc(vc=memory['heunpred'], **femp)[0]
modres = heunres
trqe = modres(vfun, pfun, curdt, lastvel=lvfun, othervel=ovfn,
phi=phitwo)
lift = modres(vfun, pfun, curdt, lastvel=lvfun, othervel=ovfn,
phi=poy)
drag = modres(vfun, pfun, curdt, lastvel=lvfun, othervel=ovfn,
phi=pox)
memory.update(dict(lastlastv=np.copy(memory['lastv'])))
memory.update(dict(lastv=vel))
memory['trqs'].append(trqe)
memory['lfts'].append(lift)
memory['drgs'].append(drag)
memory['tims'].append(t)
memory.update(dict(lastt=t, lastdt=curdt))
deltap = pfun(a_1) - pfun(a_2)
memory['dtps'].append(deltap)
return rotval, memory
rotcondict = dict(lastt=None,
trqs=[], omegs=[], lfts=[], drgs=[], dtps=[], tims=[],
lastdt=None)
dircntdict = dict(diricontbcinds=[femp['mvwbcinds']],
diricontbcvals=[femp['mvwbcvals']],
diricontfuncs=[record_ldt],
diricontfuncmems=[rotcondict])
soldict = {}
soldict.update(stokesmatsc) # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(tips) # adding time integration params
soldict.update(dircntdict)
soldict.update(fv=rhsd['fv'], fp=rhsd['fp'],
verbose=True,
vel_pcrd_stps=5,
return_vp=True,
treat_nonl_explct=True,
no_data_caching=True,
return_final_vp=return_final_vp,
dbcinds=femp['dbcinds'], dbcvals=femp['dbcvals'],
paraviewoutput=ParaviewOutput,
vfileprfx=proutdir+'vel_',
pfileprfx=proutdir+'p_')
#
if inivfun is None:
if start_steadystate:
if ininu is not None:
inifemp, inistokesmatsc, inirhsd = \
dnsps.get_sysmats(problem='cylinder_rot', nu=ininu,
bccontrol=False,
charvel=charvel, scheme=scheme,
mergerhs=True, meshparams=meshparams)
soldict.update(inistokesmatsc)
soldict.update(inifemp)
soldict.update(fv=inirhsd['fv'], fp=inirhsd['fp'])
vp_ss_nse = snu.solve_steadystate_nse(**soldict)
soldict.update(dict(vel_start_nwtn=vp_ss_nse[0]))
soldict.update(stokesmatsc)
soldict.update(femp)
soldict.update(fv=rhsd['fv'], fp=rhsd['fp'])
soldict.update(vel_nwtn_tol=1e-3)
vp_ss_nse = snu.solve_steadystate_nse(**soldict)
soldict.update(dict(iniv=vp_ss_nse[0]))
else:
soldict.update(start_ssstokes=True)
else:
inivvec = (inivfun.vector().get_local()).reshape((femp['V'].dim(), 1))
soldict.update(dict(iniv=inivvec))
finalvp = snu.solve_nse(**soldict)
if ParaviewOutput:
print('for plots check \nparaview ' + proutdir + 'vel___timestep.pvd')
print('or \nparaview ' + proutdir + 'p___timestep.pvd')
resdict = rotcondict
nnz = 2*stokesmatsc['J'].nnz + stokesmatsc['A'].nnz
resdict.update(dict(nvnp=[NV, NP], nnz=nnz))
if return_final_vp:
return rotcondict, finalvp
return rotcondict
import dolfin_navier_scipy.problem_setups as dnsps
import dolfin_navier_scipy.stokes_navier_utils as snu
import numpy as np
N, Re, scheme, ppin = 2, 50, 'TH', None
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem='cylinderwake', Re=Re,
scheme=scheme, mergerhs=True,
meshparams=dict(refinement_level=N))
Mc, Ac = stokesmatsc['M'], stokesmatsc['A']
BTc, Bc = stokesmatsc['JT'], stokesmatsc['J']
invinds = femp['invinds']
fv, fp = rhsd['fv'], rhsd['fp']
inivdict = dict(A=Ac, J=Bc, JT=BTc, M=Mc, ppin=ppin, fv=fv, fp=fp,
return_vp=True, V=femp['V'],
invinds=invinds, diribcs=femp['diribcs'])
# ## Solve the steady-state NSE
vp_steadystate = snu.solve_steadystate_nse(**inivdict)
NV = Bc.shape[1]
# ## Test: recompute the p from the v
pfv = snu.get_pfromv(v=vp_steadystate[0],
V=femp['V'], M=Mc, A=Ac, J=Bc, fv=fv,
invinds=femp['invinds'], diribcs=femp['diribcs'])
print('Number of inner velocity nodes: {0}'.format(invinds.shape))
import dolfin
import dolfin_navier_scipy.problem_setups as dnsps
N = 10
mesh = dolfin.UnitSquareMesh(N, N)
edgepoint = dolfin.Point(1., 1.)
aaa = mesh.bounding_box_tree().compute_first_entity_collision(edgepoint)
femp, stokesmatsc, rhsd_vfrc, rhsd_stbc \
= dnsps.get_sysmats(problem='cylinderwake', N=4, Re=2, scheme='CR')
mesh = femp['mesh']
edgepoint = dolfin.Point(2.5, .2)
aaac = mesh.bounding_box_tree().compute_first_entity_collision(edgepoint)
print 'Cell id at boundary: ', aaac
dolfin.plot(mesh)
dolfin.interactive(True)
def comp_exp_nsmats(problemname='drivencavity',
N=10,
Re=1e2,
nu=None,
linear_system=False,
refree=False,
bccontrol=False,
palpha=None,
use_old_data=False,
mddir='pathtodatastorage'):
"""compute and export the system matrices for Navier-Stokes equations
Parameters
---
refree : boolean, optional
whether to use `Re=1` (so that the `Re` number can be applied later by
scaling the corresponding matrices, defaults to `False`
linear_system : boolean, optional
whether to compute/return the linearized system, defaults to `False`
bccontrol : boolean, optional
whether to model boundary control at the cylinder via penalized robin
boundary conditions, defaults to `False`
palpha : float, optional
penalization parameter for the boundary control, defaults to `None`,
`palpha` is mandatory for `linear_system`
"""
if refree:
Re = 1
print 'For the Reynoldsnumber free mats, we set Re=1'
if problemname == 'drivencavity' and bccontrol:
raise NotImplementedError('boundary control for the driven cavity' +
' is not implemented yet')
if linear_system and bccontrol and palpha is None:
raise UserWarning('For the linear system a' +
' value for `palpha` is needed')
if not linear_system and bccontrol:
raise NotImplementedError('Nonlinear system with boundary control' +
' is not implemented yet')
femp, stokesmatsc, rhsd_vfrc, rhsd_stbc = \
dnsps.get_sysmats(problem=problemname, bccontrol=bccontrol, N=N, Re=Re)
if linear_system and bccontrol:
Arob = stokesmatsc['A'] + 1. / palpha * stokesmatsc['Arob']
Brob = 1. / palpha * stokesmatsc['Brob']
elif linear_system:
Brob = 0
invinds = femp['invinds']
A, J = stokesmatsc['A'], stokesmatsc['J']
fvc, fpc = rhsd_vfrc['fvc'], rhsd_vfrc['fpr']
fv_stbc, fp_stbc = rhsd_stbc['fv'], rhsd_stbc['fp']
invinds = femp['invinds']
NV = invinds.shape[0]
data_prfx = problemname + '__N{0}Re{1}'.format(N, Re)
if bccontrol:
data_prfx = data_prfx + '_penarob'
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(rhsd_vfrc) # adding fvc, fpr
fv = rhsd_vfrc['fvc'] + rhsd_stbc['fv']
fp = rhsd_vfrc['fpr'] + rhsd_stbc['fp']
# print 'get expmats: ||fv|| = {0}'.format(np.linalg.norm(fv))
# print 'get expmats: ||fp|| = {0}'.format(np.linalg.norm(fp))
# import scipy.sparse.linalg as spsla
# print 'get expmats: ||A|| = {0}'.format(spsla.norm(A))
# print 'get expmats: ||Arob|| = {0}'.format(spsla.norm(Arob))
# print 'get expmats: ||A|| = {0}'.format(spsla.norm(stokesmatsc['A']))
# raise Warning('TODO: debug')
soldict.update(fv=fv,
fp=fp,
N=N,
nu=nu,
clearprvdata=~use_old_data,
get_datastring=None,
data_prfx=ddir + data_prfx + '_stst',
paraviewoutput=False)
if bccontrol and linear_system:
soldict.update(A=Arob)
# compute the uncontrolled steady state Navier-Stokes solution
vp_ss_nse, list_norm_nwtnupd = snu.solve_steadystate_nse(return_vp=True,
**soldict)
v_ss_nse, p_ss_nse = vp_ss_nse[:NV], vp_ss_nse[NV:]
# specify in what spatial direction Bu changes. The remaining is constant
if problemname == 'drivencavity':
uspacedep = 0
elif problemname == 'cylinderwake':
uspacedep = 1
#
# Control mats
#
contsetupstr = problemname + '__NV{0}NU{1}NY{2}'.format(NV, NU, NY)
# get the control and observation operators
try:
b_mat = dou.load_spa(ddir + contsetupstr + '__b_mat')
u_masmat = dou.load_spa(ddir + contsetupstr + '__u_masmat')
print 'loaded `b_mat`'
except IOError:
print 'computing `b_mat`...'
b_mat, u_masmat = cou.get_inp_opa(cdcoo=femp['cdcoo'],
V=femp['V'],
NU=NU,
xcomp=uspacedep)
dou.save_spa(b_mat, ddir + contsetupstr + '__b_mat')
dou.save_spa(u_masmat, ddir + contsetupstr + '__u_masmat')
try:
mc_mat = dou.load_spa(ddir + contsetupstr + '__mc_mat')
y_masmat = dou.load_spa(ddir + contsetupstr + '__y_masmat')
print 'loaded `c_mat`'
except IOError:
print 'computing `c_mat`...'
mc_mat, y_masmat = cou.get_mout_opa(odcoo=femp['odcoo'],
V=femp['V'],
NY=NY)
dou.save_spa(mc_mat, ddir + contsetupstr + '__mc_mat')
dou.save_spa(y_masmat, ddir + contsetupstr + '__y_masmat')
# restrict the operators to the inner nodes
mc_mat = mc_mat[:, invinds][:, :]
b_mat = b_mat[invinds, :][:, :]
c_mat = lau.apply_massinv(y_masmat, mc_mat, output='sparse')
# TODO: right choice of norms for y
# and necessity of regularization here
# by now, we go on number save
# the pressure observation mean over a small domain
if problemname == 'cylinderwake':
podcoo = dict(xmin=0.6, xmax=0.64, ymin=0.18, ymax=0.22)
elif problemname == 'drivencavity':
podcoo = dict(xmin=0.45, xmax=0.55, ymin=0.7, ymax=0.8)
else:
podcoo = femp['odcoo']
# description of the control and observation domains
dmd = femp['cdcoo']
xmin, xmax, ymin, ymax = dmd['xmin'], dmd['xmax'], dmd['ymin'], dmd['ymax']
velcondomstr = 'vel control domain: [{0}, {1}]x[{2}, {3}]\n'.\
format(xmin, xmax, ymin, ymax)
dmd = femp['odcoo']
xmin, xmax, ymin, ymax = dmd['xmin'], dmd['xmax'], dmd['ymin'], dmd['ymax']
velobsdomstr = 'vel observation domain: [{0}, {1}]x[{2}, {3}]\n'.\
format(xmin, xmax, ymin, ymax)
dmd = podcoo
xmin, xmax, ymin, ymax = dmd['xmin'], dmd['xmax'], dmd['ymin'], dmd['ymax']
pobsdomstr = 'pressure observation domain: [{0}, {1}]x[{2}, {3}]\n'.\
format(xmin, xmax, ymin, ymax)
pcmat = cou.get_pavrg_onsubd(odcoo=podcoo, Q=femp['Q'], ppin=None)
cdatstr = snu.get_datastr_snu(time=None, meshp=N, nu=nu, Nts=None)
(coors, xinds, yinds, corfunvec) = dts.get_dof_coors(femp['V'],
invinds=invinds)
ctrl_visu_str = \
' the (distributed) control setup is as follows \n' +\
' B maps into the domain of control -' +\
velcondomstr +\
' the first half of the columns' +\
'actuate in x-direction, the second in y direction \n' +\
' Cv measures averaged velocities in the domain of observation' +\
velobsdomstr +\
' Cp measures the averaged pressure' +\
' in the domain of pressure observation: ' +\
pobsdomstr +\
' the first components are in x, the last in y-direction \n\n' +\
' Visualization: \n\n' +\
' `coors` -- array of (x,y) coordinates in ' +\
' the same order as v[xinds] or v[yinds] \n' +\
' `xinds`, `yinds` -- indices of x and y components' +\
' of v = [vx, vy] -- note that indexing starts with 0\n' +\
' for testing use corfunvec wich is the interpolant of\n' +\
' f(x,y) = [x, y] on the grid \n\n' +\
'Created in `get_exp_nsmats.py` ' +\
'(see https://github.com/highlando/dolfin_navier_scipy) at\n' +\
datetime.datetime.now().strftime("%I:%M%p on %B %d, %Y")
if bccontrol and problemname == 'cylinderwake' and linear_system:
ctrl_visu_str = \
('the boundary control is realized via penalized robin \n' +
'boundary conditions, cf. e.g. [Hou/Ravindran `98], \n' +
'with predefined shape functions for the cylinder wake \n' +
'and the penalization parameter `palpha`={0}.').format(palpha) +\
ctrl_visu_str
if linear_system:
convc_mat, rhs_con, rhsv_conbc = \
snu.get_v_conv_conts(prev_v=v_ss_nse, invinds=invinds,
V=femp['V'], diribcs=femp['diribcs'])
# TODO: omg
if bccontrol:
f_mat = -Arob - convc_mat
else:
f_mat = -stokesmatsc['A'] - convc_mat
infostr = 'These are the coefficient matrices of the linearized ' +\
'Navier-Stokes Equations \n for the ' +\
problemname + ' to be used as \n\n' +\
' $M \\dot v = Av + J^Tp + Bu$ and $Jv = 0$ \n\n' +\
' the Reynoldsnumber is computed as L/nu \n' +\
' Note this is the reduced system for the velocity update\n' +\
' caused by the control, i.e., no boundary conditions\n' +\
' or inhomogeneities here. To get the actual flow, superpose \n' +\
' the steadystate velocity solution `v_ss_nse` \n\n' +\
ctrl_visu_str
matstr = (mddir + problemname + '__mats_N{0}_Re{1}').format(NV, Re)
if bccontrol:
matstr = matstr + '__penarob_palpha{0}'.format(palpha)
scipy.io.savemat(
matstr,
dict(A=f_mat,
M=stokesmatsc['M'],
nu=femp['nu'],
Re=femp['Re'],
J=stokesmatsc['J'],
B=b_mat,
C=c_mat,
Cp=pcmat,
Brob=Brob,
v_ss_nse=v_ss_nse,
info=infostr,
contsetupstr=contsetupstr,
datastr=cdatstr,
coors=coors,
xinds=xinds,
yinds=yinds,
corfunvec=corfunvec))
print('matrices saved to ' + matstr)
elif refree:
hstr = ddir + problemname + '_N{0}_hmat'.format(N)
try:
hmat = dou.load_spa(hstr)
print 'loaded `hmat`'
except IOError:
print 'assembling hmat ...'
hmat = dts.ass_convmat_asmatquad(W=femp['V'], invindsw=invinds)
dou.save_spa(hmat, hstr)
zerv = np.zeros((NV, 1))
bc_conv, bc_rhs_conv, rhsbc_convbc = \
snu.get_v_conv_conts(prev_v=zerv, V=femp['V'], invinds=invinds,
diribcs=femp['diribcs'], Picard=False)
# diff_mat = stokesmatsc['A']
# bcconv_mat = bc_conv
# fv_bcdiff = fv_stbc
# fv_bcconv = - bc_rhs_conv
fv = fvc
fp = fpc
# fp_bc = fp_stbc
infostr = 'These are the coefficient matrices of the quadratic ' +\
'formulation of the Navier-Stokes Equations \n for the ' +\
problemname + ' to be used as \n\n' +\
' $M \\dot v + Av + H*kron(v,v) + J^Tp = Bu + fv$ \n' +\
' and $Jv = fp$ \n\n' +\
' the Reynoldsnumber is computed as L/nu \n' +\
' note that `A` contains the diffusion and the linear term \n' +\
' that comes from the dirichlet boundary values \n' +\
' as initial value one can use the provided steady state \n' +\
' Stokes solution \n' +\
' see https://github.com/highlando/dolfin_navier_scipy/blob/' +\
' master/tests/solve_nse_quadraticterm.py for appl example\n' +\
ctrl_visu_str
scipy.io.savemat(
mddir + problemname + 'quadform__mats_N{0}_Re{1}'.format(NV, Re),
dict(
A=f_mat,
M=stokesmatsc['M'],
H=-hmat,
fv=fv,
fp=fp,
nu=femp['nu'],
Re=femp['Re'],
J=stokesmatsc['J'],
B=b_mat,
Cv=c_mat,
Cp=pcmat,
info=infostr,
# ss_stokes=old_v,
contsetupstr=contsetupstr,
datastr=cdatstr,
coors=coors,
xinds=xinds,
yinds=yinds,
corfunvec=corfunvec))
else:
hstr = ddir + problemname + '_N{0}_hmat'.format(N)
try:
hmat = dou.load_spa(hstr)
print 'loaded `hmat`'
except IOError:
print 'assembling hmat ...'
hmat = dts.ass_convmat_asmatquad(W=femp['V'], invindsw=invinds)
dou.save_spa(hmat, hstr)
zerv = np.zeros((NV, 1))
bc_conv, bc_rhs_conv, rhsbc_convbc = \
snu.get_v_conv_conts(prev_v=zerv, V=femp['V'], invinds=invinds,
diribcs=femp['diribcs'], Picard=False)
f_mat = -stokesmatsc['A'] - bc_conv
l_mat = -bc_conv
fv = fv_stbc + fvc - bc_rhs_conv
fp = fp_stbc + fpc
vp_stokes = lau.solve_sadpnt_smw(amat=A,
jmat=J,
rhsv=fv_stbc + fvc,
rhsp=fp_stbc + fpc)
old_v = vp_stokes[:NV]
p_stokes = -vp_stokes[NV:] # the pressure was flipped for symmetry
infostr = 'These are the coefficient matrices of the quadratic ' +\
'formulation of the Navier-Stokes Equations \n for the ' +\
problemname + ' to be used as \n\n' +\
' $M \\dot v = Av + H*kron(v,v) + J^Tp + Bu + fv$ \n' +\
' and $Jv = fp$ \n\n' +\
' the Reynoldsnumber is computed as L/nu \n' +\
' note that `A` contains the diffusion and the linear term `L`\n' +\
' that comes from the dirichlet boundary values \n' +\
' for linearizations it might be necessary to consider `A-L` \n' +\
' as initial value one can use the provided steady state \n' +\
' Stokes solution \n' +\
' see https://github.com/highlando/dolfin_navier_scipy/blob/' +\
' master/tests/solve_nse_quadraticterm.py for appl example\n' +\
ctrl_visu_str
scipy.io.savemat(
mddir + problemname + 'quadform__mats_N{0}_Re{1}'.format(NV, Re),
dict(A=f_mat,
M=stokesmatsc['M'],
H=-hmat,
fv=fv,
fp=fp,
L=l_mat,
nu=femp['nu'],
Re=femp['Re'],
J=stokesmatsc['J'],
B=b_mat,
Cv=c_mat,
Cp=pcmat,
info=infostr,
p_ss_stokes=p_stokes,
p_ss_nse=p_ss_nse,
v_ss_stokes=old_v,
v_ss_nse=v_ss_nse,
contsetupstr=contsetupstr,
datastr=cdatstr,
coors=coors,
xinds=xinds,
yinds=yinds,
corfunvec=corfunvec))
def test_residuals(self):
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem=self.problem, nu=self.nu,
bccontrol=False, charvel=self.charvel,
scheme=self.scheme, mergerhs=True,
meshparams=self.meshparams)
# setting some parameters
t0 = 0.0
tE = .1
Nts = 2
tips = dict(t0=t0, tE=tE, Nts=Nts)
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
soldict.update(tips) # adding time integration params
soldict.update(fv=rhsd['fv'],
fp=rhsd['fp'],
treat_nonl_explct=True,
return_vp_dict=True,
no_data_caching=True,
start_ssstokes=True)
vpdct = snu.solve_nse(**soldict)
M, A, JT = stokesmatsc['M'], stokesmatsc['A'], stokesmatsc['JT']
fv = rhsd['fv']
V, invinds = femp['V'], femp['invinds']
dt = (tE - t0) / Nts
tm = (tE - t0) / 2
reschkdict = dict(V=V,
nu=self.nu,
gradvsymmtrc=True,
outflowds=femp['outflowds'])
euleres = get_imex_res(explscheme='eule', **reschkdict)
heunres = get_imex_res(explscheme='heun', **reschkdict)
crnires = get_imex_res(explscheme='abtw', **reschkdict)
# the initial value
inivwbcs = vpdct[t0]['v']
iniv = inivwbcs[invinds]
iniconvvec = dts.get_convvec(V=V, u0_vec=inivwbcs, invinds=invinds)
inivelfun = dts.expand_vp_dolfunc(vc=inivwbcs, **femp)[0]
# the Heun prediction step
cneevwbcs = vpdct[(tm, 'heunpred')]['v']
cneev = cneevwbcs[invinds]
cneep = vpdct[(tm, 'heunpred')]['p']
# the Heun step
cnhevwbcs = vpdct[tm]['v']
cnhev = cnhevwbcs[invinds]
cnhep = vpdct[tm]['p']
hpconvvec = dts.get_convvec(V=V, u0_vec=cneevwbcs, invinds=invinds)
hpvelfun = dts.expand_vp_dolfunc(vc=cneevwbcs, **femp)[0]
# the AB2 step
cnabvwbcs = vpdct[tE]['v']
cnabv = cnabvwbcs[invinds]
cnabp = vpdct[tE]['p']
hcconvvec = dts.get_convvec(V=V, u0_vec=cnhevwbcs, invinds=invinds)
hcvelfun = dts.expand_vp_dolfunc(vc=cnhevwbcs, **femp)[0]
print('Heun-Prediction: one step of Euler')
resvec = (1. / dt * M * (cneev - iniv) + .5 * A * (iniv + cneev) +
iniconvvec - JT * cneep - fv)
hpscres = np.linalg.norm(resvec)
print('Scipy residual: ', hpscres)
curv, curp = dts.expand_vp_dolfunc(vc=cneevwbcs, pc=cneep, **femp)
res = euleres(curv, curp, dt, lastvel=inivelfun)
hpfnres = np.linalg.norm(res.get_local()[invinds])
print('dolfin residua: ', hpfnres)
self.assertTrue(np.allclose(hpfnres, 0.))
self.assertTrue(np.allclose(hpscres, 0.))
print('\nHeun-Step:')
heunrhs = M * iniv - .5 * dt * \
(A * iniv + iniconvvec + hpconvvec) + dt * fv
matvp = M * cnhev + .5 * dt * A * cnhev - dt * JT * cnhep
hcscres = np.linalg.norm(matvp - heunrhs)
print('Scipy residual: ', hcscres)
# import ipdb; ipdb.set_trace()
curv, curp = dts.expand_vp_dolfunc(vc=cnhevwbcs, pc=cnhep, **femp)
heunres = heunres(curv, curp, dt, lastvel=inivelfun, othervel=hpvelfun)
hcfnres = np.linalg.norm(heunres.get_local()[invinds])
print('dolfin residua: ', hcfnres)
self.assertTrue(np.allclose(hcfnres, 0.))
self.assertTrue(np.allclose(hcscres, 0.))
print('\nAB2-Step:')
abtrhs = M * cnhev - .5 * dt * \
(A * cnhev + -iniconvvec + 3. * hcconvvec) + dt * fv
matvp = M * cnabv + .5 * dt * A * cnabv - dt * JT * cnabp
abscres = np.linalg.norm(matvp - abtrhs)
print('Scipy residual: ', abscres)
# import ipdb; ipdb.set_trace()
curv, curp = dts.expand_vp_dolfunc(vc=cnabvwbcs, pc=cnabp, **femp)
crnires = crnires(curv, curp, dt, lastvel=hcvelfun, othervel=inivelfun)
abfnres = np.linalg.norm(crnires.get_local()[invinds])
print('dolfin residua: ', abfnres)
self.assertTrue(np.allclose(abfnres, 0.))
self.assertTrue(np.allclose(abscres, 0.))
def lqgbt(problemname='drivencavity',
N=10, Re=1e2, plain_bt=False,
use_ric_ini=None, t0=0.0, tE=1.0, Nts=11,
NU=3, NY=3,
bccontrol=True, palpha=1e-5,
paraoutput=True,
trunc_lqgbtcv=1e-6,
nwtn_adi_dict=None,
comp_freqresp=False, comp_stepresp='nonlinear',
closed_loop=False, multiproc=False,
perturbpara=1e-3):
"""Main routine for LQGBT
Parameters
----------
problemname : string, optional
what problem to be solved, 'cylinderwake' or 'drivencavity'
N : int, optional
parameter for the dimension of the space discretization
Re : real, optional
Reynolds number, defaults to `1e2`
plain_bt : boolean, optional
whether to try simple *balanced truncation*, defaults to False
use_ric_ini : real, optional
use the solution with this Re number as stabilizing initial guess,
defaults to `None`
t0, tE, Nts : real, real, int, optional
starting and endpoint of the considered time interval, number of
time instancses, default to `0.0, 1.0, 11`
bccontrol : boolean, optional
whether to apply boundary control via penalized robin conditions,
defaults to `False`
NU, NY : int, optional
dimensions of components of in and output space (will double because
there are two components), default to `3, 3`
comp_freqresp : boolean, optional
whether to compute and compare the frequency responses,
defaults to `False`
comp_stepresp : {'nonlinear', False, None}
whether to compute and compare the step responses
| if False -> no step response
| if == 'nonlinear' -> compare linear reduced to nonlinear full model
| else -> linear reduced versus linear full model
defaults to `False`
trunc_lqgbtcv : real, optional
threshold at what the lqgbt characteristiv values are truncated,
defaults to `1e-6`
closed_loop : {'full_state_fb', 'red_output_fb', False, None}
how to do the closed loop simulation:
| if False -> no simulation
| if == 'full_state_fb' -> full state feedback
| if == 'red_output_fb' -> reduced output feedback
| else -> no control is applied
defaults to `False`
"""
typprb = 'BT' if plain_bt else 'LQG-BT'
print '\n ### We solve the {0} problem for the {1} at Re={2} ###\n'.\
format(typprb, problemname, Re)
if nwtn_adi_dict is not None:
nap = nwtn_adi_dict
else:
nap = nwtn_adi_params()['nwtn_adi_dict']
# output
ddir = 'data/'
try:
os.chdir(ddir)
except OSError:
raise Warning('need "' + ddir + '" subdir for storing the data')
os.chdir('..')
# stokesmats = dts.get_stokessysmats(femp['V'], femp['Q'], nu)
# rhsd_vf = dts.setget_rhs(femp['V'], femp['Q'],
# femp['fv'], femp['fp'], t=0)
# # remove the freedom in the pressure
# stokesmats['J'] = stokesmats['J'][:-1, :][:, :]
# stokesmats['JT'] = stokesmats['JT'][:, :-1][:, :]
# rhsd_vf['fp'] = rhsd_vf['fp'][:-1, :]
# # reduce the matrices by resolving the BCs
# (stokesmatsc,
# rhsd_stbc,
# invinds,
# bcinds,
# bcvals) = dts.condense_sysmatsbybcs(stokesmats,
# femp['diribcs'])
# # pressure freedom and dirichlet reduced rhs
# rhsd_vfrc = dict(fpr=rhsd_vf['fp'], fvc=rhsd_vf['fv'][invinds, ])
# # add the info on boundary and inner nodes
# bcdata = {'bcinds': bcinds,
# 'bcvals': bcvals,
# 'invinds': invinds}
# femp.update(bcdata)
femp, stokesmatsc, rhsd_vfrc, rhsd_stbc \
= dnsps.get_sysmats(problem=problemname, N=N, Re=Re,
bccontrol=bccontrol, scheme='TH')
nu = femp['charlen']/Re
# specify in what spatial direction Bu changes. The remaining is constant
uspacedep = femp['uspacedep']
# casting some parameters
invinds, NV = femp['invinds'], len(femp['invinds'])
prbstr = '_bt' if plain_bt else '_lqgbt'
# contsetupstr = 'NV{0}NU{1}NY{2}alphau{3}'.format(NV, NU, NY, alphau)
if bccontrol:
import scipy.sparse as sps
contsetupstr = 'NV{0}_bcc_NY{1}'.format(NV, NY)
stokesmatsc['A'] = stokesmatsc['A'] + 1./palpha*stokesmatsc['Arob']
b_mat = 1./palpha*stokesmatsc['Brob']
u_masmat = sps.eye(b_mat.shape[1], format='csr')
else:
contsetupstr = 'NV{0}NU{1}NY{2}'.format(NV, NU, NY)
def get_fdstr(Re):
return ddir + problemname + '_Re{0}_'.format(Re) + \
contsetupstr + prbstr
fdstr = get_fdstr(Re)
soldict = stokesmatsc # containing A, J, JT
soldict.update(femp) # adding V, Q, invinds, diribcs
# soldict.update(rhsd_vfrc) # adding fvc, fpr
soldict.update(fv=rhsd_stbc['fv']+rhsd_vfrc['fvc'],
fp=rhsd_stbc['fp']+rhsd_vfrc['fpr'],
N=N, nu=nu, data_prfx=fdstr)
#
# Prepare for control
#
# get the control and observation operators
if not bccontrol:
try:
b_mat = dou.load_spa(ddir + contsetupstr + '__b_mat')
u_masmat = dou.load_spa(ddir + contsetupstr + '__u_masmat')
print 'loaded `b_mat`'
except IOError:
print 'computing `b_mat`...'
b_mat, u_masmat = cou.get_inp_opa(cdcoo=femp['cdcoo'], V=femp['V'],
NU=NU, xcomp=uspacedep)
dou.save_spa(b_mat, ddir + contsetupstr + '__b_mat')
dou.save_spa(u_masmat, ddir + contsetupstr + '__u_masmat')
b_mat = b_mat[invinds, :][:, :]
# tb_mat = 1./np.sqrt(alphau)
try:
mc_mat = dou.load_spa(ddir + contsetupstr + '__mc_mat')
y_masmat = dou.load_spa(ddir + contsetupstr + '__y_masmat')
print 'loaded `c_mat`'
except IOError:
print 'computing `c_mat`...'
mc_mat, y_masmat = cou.get_mout_opa(odcoo=femp['odcoo'],
V=femp['V'], NY=NY)
dou.save_spa(mc_mat, ddir + contsetupstr + '__mc_mat')
dou.save_spa(y_masmat, ddir + contsetupstr + '__y_masmat')
c_mat = lau.apply_massinv(y_masmat, mc_mat, output='sparse')
# restrict the operators to the inner nodes
mc_mat = mc_mat[:, invinds][:, :]
c_mat = c_mat[:, invinds][:, :]
c_mat_reg = lau.app_prj_via_sadpnt(amat=stokesmatsc['M'],
jmat=stokesmatsc['J'],
rhsv=c_mat.T,
transposedprj=True).T
# c_mat_reg = np.array(c_mat.todense())
# TODO: right choice of norms for y
# and necessity of regularization here
# by now, we go on number save
#
# setup the system for the correction
#
#
# compute the uncontrolled steady state Stokes solution
#
v_ss_nse, list_norm_nwtnupd = snu.solve_steadystate_nse(**soldict)
(convc_mat, rhs_con,
rhsv_conbc) = snu.get_v_conv_conts(prev_v=v_ss_nse, invinds=invinds,
V=femp['V'], diribcs=femp['diribcs'])
f_mat = - stokesmatsc['A'] - convc_mat
mmat = stokesmatsc['M']
# ssv_rhs = rhsv_conbc + rhsv_conbc + rhsd_vfrc['fvc'] + rhsd_stbc['fv']
if plain_bt:
get_gramians = pru.solve_proj_lyap_stein
else:
get_gramians = pru.proj_alg_ric_newtonadi
truncstr = '__lqgbtcv{0}'.format(trunc_lqgbtcv)
try:
tl = dou.load_npa(fdstr + '__tl' + truncstr)
tr = dou.load_npa(fdstr + '__tr' + truncstr)
print 'loaded the left and right transformations: \n' + \
fdstr + '__tl/__tr' + truncstr
except IOError:
print 'computing the left and right transformations' + \
' and saving to: \n' + fdstr + '__tl/__tr' + truncstr
try:
zwc = dou.load_npa(fdstr + '__zwc')
zwo = dou.load_npa(fdstr + '__zwo')
print 'loaded factor of the Gramians: \n\t' + \
fdstr + '__zwc/__zwo'
except IOError:
zinic, zinio = None, None
if use_ric_ini is not None:
fdstr = get_fdstr(use_ric_ini)
try:
zinic = dou.load_npa(fdstr + '__zwc')
zinio = dou.load_npa(fdstr + '__zwo')
print 'Initialize Newton ADI by zwc/zwo from ' + fdstr
except IOError:
raise UserWarning('No initial guess with Re={0}'.
format(use_ric_ini))
fdstr = get_fdstr(Re)
print 'computing factors of Gramians: \n\t' + \
fdstr + '__zwc/__zwo'
def compobsg():
try:
zwo = dou.load_npa(fdstr + '__zwo')
print 'at least __zwo is there'
except IOError:
zwo = get_gramians(mmat=mmat.T, amat=f_mat.T,
jmat=stokesmatsc['J'],
bmat=c_mat_reg.T, wmat=b_mat,
nwtn_adi_dict=nap,
z0=zinio)['zfac']
dou.save_npa(zwo, fdstr + '__zwo')
def compcong():
try:
zwc = dou.load_npa(fdstr + '__zwc')
print 'at least __zwc is there'
except IOError:
zwc = get_gramians(mmat=mmat, amat=f_mat,
jmat=stokesmatsc['J'],
bmat=b_mat, wmat=c_mat_reg.T,
nwtn_adi_dict=nap,
z0=zinic)['zfac']
dou.save_npa(zwc, fdstr + '__zwc')
if multiproc:
print '\n ### multithread start - ' +\
'output might be intermangled'
p1 = multiprocessing.Process(target=compobsg)
p2 = multiprocessing.Process(target=compcong)
p1.start()
p2.start()
p1.join()
p2.join()
print '### multithread end'
else:
compobsg()
compcong()
zwc = dou.load_npa(fdstr + '__zwc')
zwo = dou.load_npa(fdstr + '__zwo')
print 'computing the left and right transformations' + \
' and saving to:\n' + fdstr + '__tr/__tl' + truncstr
tl, tr = btu.\
compute_lrbt_transfos(zfc=zwc, zfo=zwo,
mmat=stokesmatsc['M'],
trunck={'threshh': trunc_lqgbtcv})
dou.save_npa(tl, fdstr + '__tl' + truncstr)
dou.save_npa(tr, fdstr + '__tr' + truncstr)
print 'NV = {0}, NP = {2}, k = {1}'.\
format(tl.shape[0], tl.shape[1], stokesmatsc['J'].shape[0])
if comp_freqresp:
btu.compare_freqresp(mmat=stokesmatsc['M'], amat=f_mat,
jmat=stokesmatsc['J'], bmat=b_mat,
cmat=c_mat, tr=tr, tl=tl,
plot=True, datastr=fdstr + '__tl' + truncstr)
if comp_stepresp is not False:
if comp_stepresp == 'nonlinear':
stp_rsp_nwtn = 3
stp_rsp_dtpr = 'nonl_stepresp_'
else:
stp_rsp_nwtn = 1
stp_rsp_dtpr = 'stepresp_'
def fullstepresp_lnse(bcol=None, trange=None, ini_vel=None,
cmat=None, soldict=None):
soldict.update(fv_stbc=rhsd_stbc['fv']+bcol,
vel_nwtn_stps=stp_rsp_nwtn, trange=trange,
iniv=ini_vel, lin_vel_point=ini_vel,
clearprvdata=True, data_prfx=stp_rsp_dtpr,
return_dictofvelstrs=True)
dictofvelstrs = snu.solve_nse(**soldict)
return cou.extract_output(strdict=dictofvelstrs, tmesh=trange,
c_mat=cmat, load_data=dou.load_npa)
# differences in the initial vector
# print np.dot(c_mat_reg, v_ss_nse)
# print np.dot(np.dot(c_mat_reg, tr),
# np.dot(tl.T, stokesmatsc['M']*v_ss_nse))
jsonstr = fdstr + stp_rsp_dtpr + '_Nred{0}_t0tENts{1}{2}{3}.json'.\
format(tl.shape[1], t0, tE, Nts)
btu.compare_stepresp(tmesh=np.linspace(t0, tE, Nts),
a_mat=f_mat, c_mat=c_mat_reg, b_mat=b_mat,
m_mat=stokesmatsc['M'],
tr=tr, tl=tl, iniv=v_ss_nse,
# ss_rhs=ssv_rhs,
fullresp=fullstepresp_lnse, fsr_soldict=soldict,
plot=True, jsonstr=jsonstr)
# compute the regulated system
trange = np.linspace(t0, tE, Nts)
if closed_loop is False:
return
elif closed_loop == 'full_state_fb':
zwc = dou.load_npa(fdstr + '__zwc')
zwo = dou.load_npa(fdstr + '__zwo')
mtxtb = pru.get_mTzzTtb(stokesmatsc['M'].T, zwc, b_mat)
def fv_tmdp_fullstatefb(time=None, curvel=None,
linv=None, tb_mat=None, tbxm_mat=None, **kw):
"""realizes a full state static feedback as a function
that can be passed to a solution routine for the
unsteady Navier-Stokes equations
Parameters
----------
time : real
current time
curvel : (N,1) nparray
current velocity
linv : (N,1) nparray
linearization point for the linear model
tb_mat : (N,K) nparray
input matrix containing the input weighting
tbxm_mat : (N,K) nparray
`tb_mat * gain * mass`
Returns
-------
actua : (N,1) nparray
current contribution to the right-hand side
, : dictionary
dummy `{}` for consistency
"""
actua = -lau.comp_uvz_spdns(tb_mat, tbxm_mat, curvel-linv)
# actua = 0*curvel
print '\nnorm of deviation', np.linalg.norm(curvel-linv)
# print 'norm of actuation {0}'.format(np.linalg.norm(actua))
return actua, {}
tmdp_fsfb_dict = dict(linv=v_ss_nse, tb_mat=b_mat, tbxm_mat=mtxtb.T)
fv_tmdp = fv_tmdp_fullstatefb
fv_tmdp_params = tmdp_fsfb_dict
fv_tmdp_memory = None
elif closed_loop == 'red_output_fb':
try:
xok = dou.load_npa(fdstr+truncstr+'__xok')
xck = dou.load_npa(fdstr+truncstr+'__xck')
ak_mat = dou.load_npa(fdstr+truncstr+'__ak_mat')
ck_mat = dou.load_npa(fdstr+truncstr+'__ck_mat')
bk_mat = dou.load_npa(fdstr+truncstr+'__bk_mat')
except IOError:
print 'couldn"t load the red system - compute it'
zwc = dou.load_npa(fdstr + '__zwc')
zwo = dou.load_npa(fdstr + '__zwo')
ak_mat = np.dot(tl.T, f_mat*tr)
ck_mat = lau.mm_dnssps(c_mat_reg, tr)
bk_mat = lau.mm_dnssps(tl.T, b_mat)
tltm, trtm = tl.T*stokesmatsc['M'], tr.T*stokesmatsc['M']
xok = np.dot(np.dot(tltm, zwo), np.dot(zwo.T, tltm.T))
xck = np.dot(np.dot(trtm, zwc), np.dot(zwc.T, trtm.T))
dou.save_npa(xok, fdstr+truncstr+'__xok')
dou.save_npa(xck, fdstr+truncstr+'__xck')
dou.save_npa(ak_mat, fdstr+truncstr+'__ak_mat')
dou.save_npa(ck_mat, fdstr+truncstr+'__ck_mat')
dou.save_npa(bk_mat, fdstr+truncstr+'__bk_mat')
obs_bk = np.dot(xok, ck_mat.T)
DT = (tE - t0)/(Nts-1)
sysmatk_inv = np.linalg.inv(np.eye(ak_mat.shape[1]) - DT*(ak_mat -
np.dot(np.dot(xok, ck_mat.T), ck_mat) -
np.dot(bk_mat, np.dot(bk_mat.T, xck))))
def fv_tmdp_redoutpfb(time=None, curvel=None, memory=None,
linvel=None,
ipsysk_mat_inv=None,
obs_bk=None, cts=None,
b_mat=None, c_mat=None,
xck=None, bk_mat=None,
**kw):
"""realizes a reduced static output feedback as a function
that can be passed to a solution routine for the
unsteady Navier-Stokes equations
For convinience the
Parameters
----------
time : real
current time
curvel : (N,1) nparray
current velocity. For consistency, the full state is taken
as input. However, internally, we only use the observation
`y = c_mat*curvel`
memory : dictionary
contains values from previous call, in particular the
previous state estimate
linvel : (N,1) nparray
linearization point for the linear model
ipsysk_mat_inv : (K,K) nparray
inverse of the system matrix that defines the update
of the state estimate
obs_bk : (K,NU) nparray
input matrix in the observer
cts : real
time step length
b_mat : (N,NU) sparse matrix
input matrix of the full system
c_mat=None,
c_mat : (NY,N) sparse matrix
output matrix of the full system
xck : (K,K) nparray
reduced solution of the CARE
bk_mat : (K,NU) nparray
reduced input matrix
Returns
-------
actua : (N,1) nparray
the current actuation
memory : dictionary
to be passed back in the next timestep
"""
xk_old = memory['xk_old']
buk = cts*np.dot(obs_bk,
lau.mm_dnssps(c_mat, (curvel-linvel)))
xk_old = np.dot(ipsysk_mat_inv, xk_old + buk)
# cts*np.dot(obs_bk,
# lau.mm_dnssps(c_mat, (curvel-linvel))))
memory['xk_old'] = xk_old
actua = -lau.mm_dnssps(b_mat,
np.dot(bk_mat.T, np.dot(xck, xk_old)))
print '\nnorm of deviation', np.linalg.norm(curvel-linvel)
print 'norm of actuation {0}'.format(np.linalg.norm(actua))
return actua, memory
fv_rofb_dict = dict(cts=DT, linvel=v_ss_nse, b_mat=b_mat,
c_mat=c_mat_reg, obs_bk=obs_bk, bk_mat=bk_mat,
ipsysk_mat_inv=sysmatk_inv, xck=xck)
fv_tmdp = fv_tmdp_redoutpfb
fv_tmdp_params = fv_rofb_dict
fv_tmdp_memory = dict(xk_old=np.zeros((tl.shape[1], 1)))
else:
fv_tmdp = None
fv_tmdp_params = {}
fv_tmdp_memory = {}
perturbini = perturbpara*np.ones((NV, 1))
reg_pertubini = lau.app_prj_via_sadpnt(amat=stokesmatsc['M'],
jmat=stokesmatsc['J'],
rhsv=perturbini)
soldict.update(fv_stbc=rhsd_stbc['fv'],
trange=trange,
iniv=v_ss_nse + reg_pertubini,
lin_vel_point=None,
clearprvdata=True, data_prfx=fdstr + truncstr,
fv_tmdp=fv_tmdp,
comp_nonl_semexp=True,
fv_tmdp_params=fv_tmdp_params,
fv_tmdp_memory=fv_tmdp_memory,
return_dictofvelstrs=True)
outstr = truncstr + '{0}'.format(closed_loop) \
+ 't0{0}tE{1}Nts{2}N{3}Re{4}'.format(t0, tE, Nts, N, Re)
if paraoutput:
soldict.update(paraviewoutput=True,
vfileprfx='results/vel_'+outstr,
pfileprfx='results/p_'+outstr)
dictofvelstrs = snu.solve_nse(**soldict)
yscomplist = cou.extract_output(strdict=dictofvelstrs, tmesh=trange,
c_mat=c_mat, load_data=dou.load_npa)
dou.save_output_json(dict(tmesh=trange.tolist(), outsig=yscomplist),
fstring=fdstr + truncstr + '{0}'.format(closed_loop) +
't0{0}tE{1}Nts{2}'.format(t0, tE, Nts) +
'inipert{0}'.format(perturbpara))
dou.plot_outp_sig(tmesh=trange, outsig=yscomplist)
import dolfin_navier_scipy.problem_setups as dnsps
import dolfin_navier_scipy.stokes_navier_utils as snu
import dolfin_navier_scipy.dolfin_to_sparrays as dts
import numpy as np
N, Re, scheme, ppin = 2, 50, 'TH', None
femp, stokesmatsc, rhsd = \
dnsps.get_sysmats(problem='cylinderwake', Re=Re,
scheme=scheme, mergerhs=True,
meshparams=dict(refinement_level=N))
Mc, Ac = stokesmatsc['M'], stokesmatsc['A']
BTc, Bc = stokesmatsc['JT'], stokesmatsc['J']
invinds = femp['invinds']
fv, fp = rhsd['fv'], rhsd['fp']
inivdict = dict(A=Ac,
J=Bc,
JT=BTc,
M=Mc,
ppin=ppin,
fv=fv,
fp=fp,
return_vp=True,
V=femp['V'],
invinds=invinds,
diribcs=femp['diribcs'])
# ## Solve the steady-state NSE
vp_steadystate = snu.solve_steadystate_nse(**inivdict)