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#############################################################
## ##
## Copyright (c) 2003-2017 by The University of Queensland ##
## Centre for Geoscience Computing ##
## http://earth.uq.edu.au/centre-geoscience-computing ##
## ##
## Primary Business: Brisbane, Queensland, Australia ##
## Licensed under the Open Software License version 3.0 ##
## http://www.apache.org/licenses/LICENSE-2.0 ##
## ##
#############################################################
from __future__ import division
from esys.finley import ReadMesh
from esys.linearPDEs import LinearPDE
from numarray import identity
from esys.escript import *
from LsmEscriptPy import *
from esys.lsm.util import Vec3
import re
import os
import logging
logger = logging.getLogger("esys.lsm.sim.coupled.SimpleGouge")
def getLogger():
return logger
class NeighbourListPrms:
def __init__(
self,
gridSpacing,
updateDisplDist
):
self.gridSpacing = gridSpacing
self.updateDisplDist = updateDisplDist
class LsmGougePrms:
def __init__(
self,
numWorkerProcesses,
mpiDimList,
lsmGeomFileName,
meshFileName,
timeStepSize,
neighbourListPrms,
bondPrms,
frictionPrms,
dampingPrms,
bondedMeshPrms,
chkptPrms,
bBox = None
):
self.numWorkerProcesses = numWorkerProcesses
self.mpiDimList = mpiDimList
self.lsmGeomFileName = lsmGeomFileName
self.meshFileName = meshFileName
self.timeStepSize = timeStepSize
self.neighbourListPrms = neighbourListPrms
self.bondPrms = bondPrms
self.frictionPrms = frictionPrms
self.dampingPrms = dampingPrms
self.bondedMeshPrms = bondedMeshPrms
self.chkptPrms = chkptPrms
self.dim = None
self.bBox = bBox
def getNumWorkerProcesses(self):
return self.numWorkerProcesses
def getMpiDimList(self):
return self.mpiDimList
def getMeshFileName(self):
return self.meshFileName
def getMeshName(self):
return self.bondedMeshPrms.getMeshName()
def getDim(self):
if (self.dim == None):
regex = re.compile("^Dimension\s+(\d)D")
f = file(self.lsmGeomFileName, "r")
line = f.readline()
match = regex.match(line)
while (len(line) > 0) and (match == None):
line = f.readline()
match = regex.match(line)
f.close()
if (match != None):
self.dim = int(match.group(1))
else:
raise Exception(
"Could not locate dimension info in file " \
+ \
str(self.lsmGeomFileName)
)
return self.dim
def is2d(self):
return (self.getDim() == 2)
def initialise(self, lsm):
lsm.initVerletModel(
self.getParticleType(),
self.neighbourListPrms.gridSpacing,
self.neighbourListPrms.updateDisplDist,
)
lsm.setTimeStepSize(self.timeStepSize)
if (self.bBox != None):
lsm.setSpatialDomain(self.bBox.getMinPt(), self.bBox.getMaxPt())
lsm.readGeometry(self.lsmGeomFileName)
if (self.is2d()):
lsm.force2dComputations()
lsm.createInteractionGroup(self.bondPrms)
lsm.createInteractionGroup(self.frictionPrms)
lsm.createExclusion(self.bondPrms.getName(), self.frictionPrms.getName())
lsm.createDamping(self.dampingPrms)
if (self.is2d()):
lsm.readMesh2D(self.meshFileName, self.getMeshName(), 20)
else:
lsm.readMesh(self.meshFileName, self.getMeshName())
lsm.createInteractionGroup(self.bondedMeshPrms)
lsm.createCheckPointer(self.chkptPrms)
class LsmSimpleGouge(LsmMpiEscript):
def __init__(self, gougePrms):
self.gougePrms = gougePrms
LsmMpiEscript.__init__(
self,
self.gougePrms.getNumWorkerProcesses(),
self.gougePrms.getMpiDimList()
)
self.initialise()
def initialise(self):
self.gougePrms.initialise(self)
def is2d(self):
return self.gougePrms.is2d()
def getDim(self):
return self.gougePrms.getDim()
def getMeshFileName(self):
return self.gougePrms.getMeshFileName()
def getMeshName(self):
return self.gougePrms.getMeshName()
def visitRefStressPairs(self, visitor):
if (self.is2d):
LsmMpiEscript.visitRefStressPairs2d(self, self.getMeshName(), visitor)
else:
LsmMpiEscript.visitRefStressPairs(self, self.getMeshName(), visitor)
def visitNodeRefs(self, visitor):
if (self.is2d):
LsmMpiEscript.visitNodeRefs2d(self, self.getMeshName(), visitor)
else:
LsmMpiEscript.visitNodeRefs(self, self.getMeshName(), visitor)
def moveNodeBy(self, nodeRef, displacement):
self.moveSingleMeshNodeBy(self.getMeshName(), nodeRef, displacement)
class EscriptGougePrms:
def __init__(
self,
lameLambda, # Lame coeff
lameMu, # Lame coeff
density = 1.0,
viscosity = 0.0,
pressure = 0.001,
shearForce = 0.005,
maxTime = 1000,
timeStepSize = 0.05,
saveDxIncr = 10,
outputDir = "."
):
self.lameLambda = lameLambda
self.lameMu = lameMu
self.density = density
self.viscosity = viscosity
self.pressure = pressure
self.shearForce = shearForce
self.maxTime = maxTime
self.timeStepSize = timeStepSize
self.outputDir = outputDir
self.saveDxIncr = saveDxIncr
class NodeRefVisitor:
def __init__(self, data, lsm):
self.data = data
self.lsm = lsm
def visitNodeRef(self, nodeRef):
displArray = numarray.array([0.0]*self.lsm.getDim())
self.data.getRefValue(nodeRef, displArray)
displVec = Vec3()
for i in range(0, self.lsm.getDim()):
displVec[i] = displArray[i]
getLogger().debug("Moving node " + str(nodeRef) + " by " + str(displVec))
self.lsm.moveNodeBy(nodeRef, displVec)
class RefStressVisitor:
def __init__(self, data, dim):
self.data = data
self.dim = dim
def visitRefStressPair(self, ref, stressVec):
getLogger().debug("Setting stress on boundary element " + str(ref) + " to " + str(stressVec))
self.data.setRefValue(
ref,
numarray.array(stressVec.toList()[0:self.dim])
)
class EscriptSimpleGouge:
def __init__(self, lsm, prms=None):
self.lsm = lsm
self.prms = prms
if (self.prms == None):
self.initialisePrmsFromLsm()
def initialisePrmsFromLsm(self):
pass
def getDim(self):
return self.lsm.getDim()
def getMeshFileName(self):
return self.lsm.getMeshFileName()
def updateImpactStresses(self, stressData):
if (self.lsm != None):
self.lsm.visitRefStressPairs(
RefStressVisitor(data=stressData, dim=self.lsm.getDim())
)
def updateLsmMeshPosn(self, displacementData):
if (self.lsm != None):
self.lsm.visitNodeRefs(NodeRefVisitor(displacementData, self.lsm))
def run(self):
# material parameter
lam = self.prms.lameLambda
mu = self.prms.lameMu
rho = self.prms.density
nu = self.prms.viscosity
# set up boundary conditions
pres = self.prms.pressure
shear = self.prms.shearForce
getLogger().info("Reading mesh from " + self.getMeshFileName())
domain=ReadMesh(self.getMeshFileName())
impact_forces=escript.Vector(0,FunctionOnBoundary(domain))
impact_forces.expand()
getLogger().info("Shape = " + str(impact_forces.getShape()))
x=FunctionOnBoundary(domain).getX()
getLogger().info("Initialising pressure and shearing boundary conditions...")
snapDist = 0.001
external_forces = \
(abs(x[1]-sup(x[1]))-snapDist).whereNegative()*[-shear,-pres] \
+ \
(abs(x[1]-inf(x[1]))-snapDist).whereNegative()*[shear,pres]
getLogger().info("Setting up PDE...")
mypde = LinearPDE(domain)
mypde.setLumpingOn()
mypde.setValue(D=rho*identity(mypde.getDim()))
getLogger().info("Initialising solution at t=0...")
u = Vector(0,ContinuousFunction(domain))
u_last = Vector(0,ContinuousFunction(domain))
v = Vector(0,ContinuousFunction(domain))
v_last = Vector(0,ContinuousFunction(domain))
a = Vector(0,ContinuousFunction(domain))
a_last = Vector(0,ContinuousFunction(domain))
# initialise iteration prms
tend = self.prms.maxTime
dt = self.prms.timeStepSize
# dt=1./5.*sqrt(rho/(lam+2*mu))*Lsup(domain.getSize())
getLogger().info("time step size = " + str(dt))
n=0
t=0
getLogger().info("Beginning iteration...")
while (t < tend):
getLogger().info("Running LSM time step...");
self.lsm.runTimeStep()
getLogger().info("Updating impact forces from LSM...");
self.updateImpactStresses(impact_forces)
getLogger().info(
"(inf(impactForces), sup(impact_forces)) = (" + \
str(inf(impact_forces)) + ", " + str(sup(impact_forces)) + ")"
)
# ... update FEM ...
getLogger().info("Initialising PDE coefficients...")
g=grad(u)
stress=(lam*trace(g))*identity(mypde.getDim())+mu*(g+transpose(g))
mypde.setValue(
X = -(1.0/(1.0+(nu*dt/2.0)))*stress,
Y = - nu*v_last-(nu*dt/2.0)*a_last,
y=external_forces+impact_forces
)
getLogger().info("Solving PDE...")
a=mypde.getSolution()
getLogger().info("Updating displacements...")
# u_new=2*u-u_last+dt**2*a
# u_last=u
# u=u_new
v_new = v_last + (dt/2.0)*(a + a_last)
v_last = v
v = v_new
u_new = u_last + dt*v + ((dt**2)/2.0)*a
u_last = u
u = u_new
a_last = a
getLogger().info("Updating LSM mesh node positions...")
displacement = u - u_last
self.updateLsmMeshPosn(displacement)
t+=dt
n+=1
getLogger().info(str(n) + "-th time step, t=" + str(t))
getLogger().info("a=" + str(inf(a)) + ", " + str(sup(a)))
getLogger().info("u=" + str(inf(u)) + ", " + str(sup(u)))
getLogger().info("inf(u-u_last) = " + str(inf(displacement)))
getLogger().info("sup(u-u_last) = " + str(sup(displacement)))
# ... save current acceleration and displacement
if ((self.prms.saveDxIncr > 0) and ((n%self.prms.saveDxIncr) == 0)):
u.saveDX(os.path.join(self.prms.outputDir, "displ.{0:d}.dx".format(n//self.prms.saveDxIncr)))
class SimpleGouge:
def __init__(
self,
lsmGougePrms,
escriptPrms
):
self.lsmPrms = lsmGougePrms
self.escriptPrms = escriptPrms
def run(self):
lsm = LsmSimpleGouge(self.lsmPrms)
escriptSim = EscriptSimpleGouge(lsm, self.escriptPrms)
escriptSim.run()
|
