mirror of
https://github.com/wassname/simpeg.git
synced 2026-09-13 13:03:14 +08:00
Compare commits
4
Commits
| Author | SHA1 | Date | |
|---|---|---|---|
 Lindsey Heagy
|
b0ca7959ab | ||
|
Lindsey Heagy
|
13c5857cda | ||
|
Lindsey Heagy
|
abcd1c9b7b | ||
|
Lindsey
|
e189ca4462 |
+1
-1
@@ -1,4 +1,4 @@
|
||||
[bumpversion]
|
||||
current_version = 0.1.10
|
||||
current_version = 0.1.9
|
||||
files = setup.py SimPEG/__init__.py docs/conf.py
|
||||
|
||||
|
||||
@@ -18,9 +18,7 @@ env:
|
||||
- TEST_DIR="tests/mesh tests/base tests/utils"
|
||||
- TEST_DIR=tests/em/fdem/inverse/derivs
|
||||
- TEST_DIR=tests/em/tdem
|
||||
- TEST_DIR=tests/dcip
|
||||
- TEST_DIR=tests/flow
|
||||
- TEST_DIR=tests/mt
|
||||
- TEST_DIR=tests/examples
|
||||
- TEST_DIR=tests/em/fdem/inverse/adjoint
|
||||
- TEST_DIR=tests/em/fdem/forward
|
||||
@@ -56,5 +54,3 @@ notifications:
|
||||
email:
|
||||
- rowanc1@gmail.com
|
||||
- lindseyheagy@gmail.com
|
||||
- gkrosen@gmail.com
|
||||
- sgkang09@gmail.com
|
||||
|
||||
@@ -25,10 +25,6 @@ SimPEG
|
||||
:target: https://coveralls.io/r/simpeg/simpeg?branch=master
|
||||
:alt: Coverage status
|
||||
|
||||
.. image:: http://img.shields.io/badge/GITTER-JOIN_CHAT-brightgreen.svg?style=flat-square
|
||||
:alt: gitter chat room at https://gitter.im/simpeg/simpeg
|
||||
:target: https://gitter.im/simpeg/simpeg
|
||||
|
||||
Simulation and Parameter Estimation in Geophysics - A python package for simulation and gradient based parameter estimation in the context of geophysical applications.
|
||||
|
||||
The vision is to create a package for finite volume simulation with applications to geophysical imaging and subsurface flow. To enable the understanding of the many different components, this package has the following features:
|
||||
|
||||
@@ -1,292 +0,0 @@
|
||||
from SimPEG import *
|
||||
|
||||
class FieldsDC_CC(Problem.Fields):
|
||||
knownFields = {'phi_sol':'CC'}
|
||||
aliasFields = {
|
||||
'phi' : ['phi_sol','CC','_phi'],
|
||||
'e' : ['phi_sol','F','_e'],
|
||||
'j' : ['phi_sol','F','_j']
|
||||
}
|
||||
|
||||
def __init__(self,mesh,survey,**kwargs):
|
||||
super(FieldsDC_CC, self).__init__(mesh, survey, **kwargs)
|
||||
|
||||
def startup(self):
|
||||
self._cellGrad = self.survey.prob.mesh.cellGrad
|
||||
self._Mfinv = self.survey.prob.mesh.getFaceInnerProduct(invMat=True)
|
||||
|
||||
def _phi(self, phi_sol, srcList):
|
||||
phi = phi_sol
|
||||
# for i, src in enumerate(srcList):
|
||||
# phi_p = src.phi_p(self.survey.prob)
|
||||
# if phi_p is not None:
|
||||
# phi[:,i] += phi_p
|
||||
return phi
|
||||
|
||||
def _e(self, phi_sol, srcList):
|
||||
e = -self._cellGrad*phi_sol
|
||||
# for i, src in enumerate(srcList):
|
||||
# e_p = src.e_p(self.survey.prob)
|
||||
# if e_p is not None:
|
||||
# e[:,i] += e_p
|
||||
return e
|
||||
|
||||
def _j(self, phi_sol, srcList):
|
||||
|
||||
j = -self._Mfinv*self.survey.prob.Msig*self._cellGrad*phi_sol
|
||||
# for i, src in enumerate(srcList):
|
||||
# j_p = src.j_p(self.survey.prob)
|
||||
# if j_p is not None:
|
||||
# j[:,i] += j_p
|
||||
return j
|
||||
|
||||
|
||||
|
||||
class SrcDipole(Survey.BaseSrc):
|
||||
"""A dipole source, locA and locB are moved to the closest cell-centers"""
|
||||
|
||||
current = 1
|
||||
loc = None
|
||||
# _rhsDict = None
|
||||
|
||||
def __init__(self, rxList, locA, locB, **kwargs):
|
||||
self.loc = (locA, locB)
|
||||
super(SrcDipole, self).__init__(rxList, **kwargs)
|
||||
|
||||
def eval(self, prob):
|
||||
# Recompute rhs
|
||||
# if getattr(self, '_rhsDict', None) is None:
|
||||
# self._rhsDict = {}
|
||||
# if mesh not in self._rhsDict:
|
||||
pts = [self.loc[0], self.loc[1]]
|
||||
inds = Utils.closestPoints(prob.mesh, pts)
|
||||
q = np.zeros(prob.mesh.nC)
|
||||
q[inds] = - self.current * ( np.r_[1., -1.] / prob.mesh.vol[inds] )
|
||||
# self._rhsDict[mesh] = q
|
||||
# return self._rhsDict[mesh]
|
||||
return q
|
||||
|
||||
|
||||
class RxDipole(Survey.BaseRx):
|
||||
"""A dipole source, locA and locB are moved to the closest cell-centers"""
|
||||
def __init__(self, locsM, locsN, **kwargs):
|
||||
locs = (locsM, locsN)
|
||||
assert locsM.shape == locsN.shape, 'locs must be the same shape.'
|
||||
super(RxDipole, self).__init__(locs, 'dipole', storeProjections=False, **kwargs)
|
||||
|
||||
@property
|
||||
def nD(self):
|
||||
"""Number of data in the receiver."""
|
||||
return self.locs[0].shape[0]
|
||||
|
||||
def getP(self, mesh):
|
||||
P0 = mesh.getInterpolationMat(self.locs[0], self.projGLoc)
|
||||
P1 = mesh.getInterpolationMat(self.locs[1], self.projGLoc)
|
||||
return P0 - P1
|
||||
|
||||
|
||||
class SurveyDC(Survey.BaseSurvey):
|
||||
"""
|
||||
**SurveyDC**
|
||||
|
||||
Geophysical DC resistivity data.
|
||||
|
||||
"""
|
||||
uncert = None
|
||||
def __init__(self, srcList, **kwargs):
|
||||
self.srcList = srcList
|
||||
Survey.BaseSurvey.__init__(self, **kwargs)
|
||||
# self._rhsDict = {}
|
||||
self._Ps = {}
|
||||
|
||||
def eval(self, u):
|
||||
"""
|
||||
Predicted data.
|
||||
|
||||
.. math::
|
||||
d_\\text{pred} = Pu(m)
|
||||
"""
|
||||
P = self.getP(self.prob.mesh)
|
||||
return P*mkvc(u[self.srcList, 'phi_sol'])
|
||||
|
||||
def getP(self, mesh):
|
||||
if mesh in self._Ps:
|
||||
return self._Ps[mesh]
|
||||
|
||||
P_src = [sp.vstack([rx.getP(mesh) for rx in src.rxList]) for src in self.srcList]
|
||||
|
||||
self._Ps[mesh] = sp.block_diag(P_src)
|
||||
return self._Ps[mesh]
|
||||
|
||||
|
||||
class ProblemDC_CC(Problem.BaseProblem):
|
||||
"""
|
||||
**ProblemDC**
|
||||
|
||||
Geophysical DC resistivity problem.
|
||||
|
||||
"""
|
||||
|
||||
surveyPair = SurveyDC
|
||||
Solver = Solver
|
||||
fieldsPair = FieldsDC_CC
|
||||
Ainv = None
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
Problem.BaseProblem.__init__(self, mesh)
|
||||
self.mesh.setCellGradBC('neumann')
|
||||
Utils.setKwargs(self, **kwargs)
|
||||
|
||||
|
||||
deleteTheseOnModelUpdate = ['_A', '_Msig', '_dMdsig']
|
||||
|
||||
@property
|
||||
def Msig(self):
|
||||
if getattr(self, '_Msig', None) is None:
|
||||
sigma = self.curModel.transform
|
||||
Av = self.mesh.aveF2CC
|
||||
self._Msig = Utils.sdiag(1/(self.mesh.dim * Av.T * (1/sigma)))
|
||||
return self._Msig
|
||||
|
||||
@property
|
||||
def dMdsig(self):
|
||||
if getattr(self, '_dMdsig', None) is None:
|
||||
sigma = self.curModel.transform
|
||||
Av = self.mesh.aveF2CC
|
||||
dMdprop = self.mesh.dim * Utils.sdiag(self.Msig.diagonal()**2) * Av.T * Utils.sdiag(1./sigma**2)
|
||||
self._dMdsig = lambda Gu: Utils.sdiag(Gu) * dMdprop
|
||||
return self._dMdsig
|
||||
|
||||
@property
|
||||
def A(self):
|
||||
"""
|
||||
Makes the matrix A(m) for the DC resistivity problem.
|
||||
|
||||
:param numpy.array m: model
|
||||
:rtype: scipy.csc_matrix
|
||||
:return: A(m)
|
||||
|
||||
.. math::
|
||||
c(m,u) = A(m)u - q = G\\text{sdiag}(M(mT(m)))Du - q = 0
|
||||
|
||||
Where M() is the mass matrix and mT is the model transform.
|
||||
"""
|
||||
if getattr(self, '_A', None) is None:
|
||||
D = self.mesh.faceDiv
|
||||
G = self.mesh.cellGrad
|
||||
self._A = D*self.Msig*G
|
||||
# Remove the null space from the matrix.
|
||||
self._A[0,0] /= self.mesh.vol[0]
|
||||
self._A = self._A.tocsc()
|
||||
return self._A
|
||||
|
||||
def getRHS(self):
|
||||
# if self.mesh not in self._rhsDict:
|
||||
RHS = np.array([src.eval(self) for src in self.survey.srcList]).T
|
||||
# self._rhsDict[mesh] = RHS
|
||||
# return self._rhsDict[mesh]
|
||||
return RHS
|
||||
|
||||
def fields(self, m):
|
||||
|
||||
F = self.fieldsPair(self.mesh, self.survey)
|
||||
self.curModel = m
|
||||
A = self.A
|
||||
self.Ainv = self.Solver(A, **self.solverOpts)
|
||||
RHS = self.getRHS()
|
||||
Phi = self.Ainv * RHS
|
||||
Srcs = self.survey.srcList
|
||||
F[Srcs, 'phi_sol'] = Phi
|
||||
|
||||
return F
|
||||
|
||||
def Jvec(self, m, v, f=None):
|
||||
"""
|
||||
:param numpy.array m: model
|
||||
:param numpy.array v: vector to multiply
|
||||
:param Fields f: fields
|
||||
:rtype: numpy.array
|
||||
:return: Jv
|
||||
|
||||
.. math::
|
||||
c(m,u) = A(m)u - q = G\\text{sdiag}(M(mT(m)))Du - q = 0
|
||||
|
||||
\\nabla_u (A(m)u - q) = A(m)
|
||||
|
||||
\\nabla_m (A(m)u - q) = G\\text{sdiag}(Du)\\nabla_m(M(mT(m)))
|
||||
|
||||
Where M() is the mass matrix and mT is the model transform.
|
||||
|
||||
.. math::
|
||||
J = - P \left( \\nabla_u c(m, u) \\right)^{-1} \\nabla_m c(m, u)
|
||||
|
||||
J(v) = - P ( A(m)^{-1} ( G\\text{sdiag}(Du)\\nabla_m(M(mT(m))) v ) )
|
||||
"""
|
||||
# Set current model; clear dependent property $\mathbf{A(m)}$
|
||||
self.curModel = m
|
||||
sigma = self.curModel.transform # $\sigma = \mathcal{M}(\m)$
|
||||
if f is None:
|
||||
# Run forward simulation if $u$ not provided
|
||||
f = self.fields(self.curModel)
|
||||
u = f[self.survey.srcList, 'phi_sol']
|
||||
|
||||
D = self.mesh.faceDiv
|
||||
G = self.mesh.cellGrad
|
||||
# Derivative of model transform, $\deriv{\sigma}{\m}$
|
||||
dsigdm_x_v = self.curModel.transformDeriv * v
|
||||
|
||||
# Take derivative of $C(m,u)$ w.r.t. $m$
|
||||
dCdm_x_v = np.empty_like(u)
|
||||
# loop over fields for each source
|
||||
for i in range(self.survey.nSrc):
|
||||
# Derivative of inner product, $\left(\mathbf{M}_{1/\sigma}^f\right)^{-1}$
|
||||
dAdsig = D * self.dMdsig( G * u[:,i] )
|
||||
dCdm_x_v[:, i] = dAdsig * dsigdm_x_v
|
||||
|
||||
# Take derivative of $C(m,u)$ w.r.t. $u$
|
||||
dA_du = self.A
|
||||
# Solve for $\deriv{u}{m}$
|
||||
# dCdu_inv = self.Solver(dCdu, **self.solverOpts)
|
||||
if self.Ainv is None:
|
||||
self.Ainv = self.Solver(dA_du, **self.solverOpts)
|
||||
|
||||
P = self.survey.getP(self.mesh)
|
||||
Jv = - P * mkvc( self.Ainv * dCdm_x_v )
|
||||
return Jv
|
||||
|
||||
def Jtvec(self, m, v, f=None):
|
||||
|
||||
self.curModel = m
|
||||
sigma = self.curModel.transform # $\sigma = \mathcal{M}(\m)$
|
||||
if f is None:
|
||||
# Run forward simulation if $f$ not provided
|
||||
f = self.fields(self.curModel)
|
||||
u = f[self.survey.srcList, 'phi_sol']
|
||||
|
||||
shp = u.shape
|
||||
P = self.survey.getP(self.mesh)
|
||||
PT_x_v = (P.T*v).reshape(shp, order='F')
|
||||
|
||||
D = self.mesh.faceDiv
|
||||
G = self.mesh.cellGrad
|
||||
dA_du = self.A
|
||||
mT_dm = self.mapping.deriv(m)
|
||||
|
||||
# We probably always need this due to the linesearch .. (?)
|
||||
self.Ainv = self.Solver(dA_du.T, **self.solverOpts)
|
||||
# if self.Ainv is None:
|
||||
# self.Ainv = self.Solver(dCdu, **self.solverOpts)
|
||||
|
||||
w = self.Ainv * PT_x_v
|
||||
|
||||
Jtv = 0
|
||||
for i, ui in enumerate(u.T): # loop over each column
|
||||
Jtv += self.dMdsig( G * ui ).T * ( D.T * w[:,i] )
|
||||
|
||||
Jtv = - mT_dm.T * ( Jtv )
|
||||
return Jtv
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
@@ -1,182 +0,0 @@
|
||||
from SimPEG import *
|
||||
from BaseDC import SurveyDC, FieldsDC_CC
|
||||
|
||||
class SurveyIP(SurveyDC):
|
||||
"""
|
||||
**SurveyDC**
|
||||
|
||||
Geophysical DC resistivity data.
|
||||
|
||||
"""
|
||||
|
||||
def __init__(self, srcList, **kwargs):
|
||||
self.srcList = srcList
|
||||
Survey.BaseSurvey.__init__(self, **kwargs)
|
||||
self._Ps = {}
|
||||
|
||||
def dpred(self, m, f=None):
|
||||
"""
|
||||
Predicted data.
|
||||
|
||||
.. math::
|
||||
d_\\text{pred} = Pf(m)
|
||||
"""
|
||||
|
||||
return self.prob.forward(m)
|
||||
|
||||
|
||||
class ProblemIP(Problem.BaseProblem):
|
||||
"""
|
||||
**ProblemIP**
|
||||
|
||||
Geophysical IP resistivity problem.
|
||||
|
||||
"""
|
||||
|
||||
surveyPair = SurveyDC
|
||||
Solver = Solver
|
||||
sigma = None
|
||||
Ainv = None
|
||||
u = None
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
Problem.BaseProblem.__init__(self, mesh)
|
||||
self.mesh.setCellGradBC('neumann')
|
||||
Utils.setKwargs(self, **kwargs)
|
||||
|
||||
# deleteTheseOnModelUpdate = ['_A', '_Msig', '_dMdsig']
|
||||
|
||||
@property
|
||||
def Msig(self):
|
||||
if getattr(self, '_Msig', None) is None:
|
||||
# sigma = self.curModel.transform
|
||||
sigma = self.sigma
|
||||
Av = self.mesh.aveF2CC
|
||||
self._Msig = Utils.sdiag(1/(self.mesh.dim * Av.T * (1/sigma)))
|
||||
return self._Msig
|
||||
|
||||
@property
|
||||
def dMdsig(self):
|
||||
if getattr(self, '_dMdsig', None) is None:
|
||||
# sigma = self.curModel.transform
|
||||
sigma = self.sigma
|
||||
Av = self.mesh.aveF2CC
|
||||
dMdprop = self.mesh.dim * Utils.sdiag(self.Msig.diagonal()**2) * Av.T * Utils.sdiag(1./sigma**2)
|
||||
self._dMdsig = lambda Gu: Utils.sdiag(Gu) * dMdprop
|
||||
return self._dMdsig
|
||||
|
||||
@property
|
||||
def A(self):
|
||||
"""
|
||||
Makes the matrix A(m) for the DC resistivity problem.
|
||||
|
||||
:param numpy.array m: model
|
||||
:rtype: scipy.csc_matrix
|
||||
:return: A(m)
|
||||
|
||||
.. math::
|
||||
c(m,u) = A(m)u - q = G\\text{sdiag}(M(mT(m)))Du - q = 0
|
||||
|
||||
Where M() is the mass matrix and mT is the model transform.
|
||||
"""
|
||||
if getattr(self, '_A', None) is None:
|
||||
D = self.mesh.faceDiv
|
||||
G = self.mesh.cellGrad
|
||||
self._A = D*self.Msig*G
|
||||
# Remove the null space from the matrix.
|
||||
self._A[-1,-1] /= self.mesh.vol[-1]
|
||||
self._A = self._A.tocsc()
|
||||
return self._A
|
||||
|
||||
def getRHS(self):
|
||||
# if self.mesh not in self._rhsDict:
|
||||
RHS = np.array([src.eval(self) for src in self.survey.srcList]).T
|
||||
# self._rhsDict[mesh] = RHS
|
||||
# return self._rhsDict[mesh]
|
||||
return RHS
|
||||
|
||||
def fields(self, m):
|
||||
if self.u is None:
|
||||
A = self.A
|
||||
if self.Ainv == None:
|
||||
self.Ainv = self.Solver(A, **self.solverOpts)
|
||||
Q = self.getRHS()
|
||||
self.u = self.Ainv * Q
|
||||
return self.u
|
||||
|
||||
def forward(self, m, u=None):
|
||||
# Set current model; clear dependent property $\mathbf{A(m)}$
|
||||
self.curModel = m
|
||||
# sigma = self.curModel.transform # $\sigma = \mathcal{M}(\m)$
|
||||
sigma = self.sigma
|
||||
if self.u is None:
|
||||
# Run forward simulation if $u$ not provided
|
||||
u = self.fields(sigma)
|
||||
|
||||
shp = (self.mesh.nC, self.survey.nSrc)
|
||||
u = self.u.reshape(shp, order='F')
|
||||
|
||||
D = self.mesh.faceDiv
|
||||
G = self.mesh.cellGrad
|
||||
# Derivative of model transform, $\deriv{\sigma}{\m}$
|
||||
# dsigdm_x_v = self.curModel.transformDeriv * v
|
||||
|
||||
dsigdm_x_v = Utils.sdiag(sigma) * self.curModel.transformDeriv * m
|
||||
|
||||
# Take derivative of $C(m,u)$ w.r.t. $m$
|
||||
dCdm_x_v = np.empty_like(u)
|
||||
# loop over fields for each source
|
||||
for i in range(self.survey.nSrc):
|
||||
# Derivative of inner product, $\left(\mathbf{M}_{1/\sigma}^f\right)^{-1}$
|
||||
dAdsig = D * self.dMdsig( G * u[:,i] )
|
||||
dCdm_x_v[:, i] = dAdsig * dsigdm_x_v
|
||||
|
||||
# Take derivative of $C(m,u)$ w.r.t. $u$
|
||||
|
||||
if self.Ainv == None:
|
||||
self.Ainv = self.Solver(A, **self.solverOpts)
|
||||
|
||||
# dCdu = self.A
|
||||
# Solve for $\deriv{u}{m}$
|
||||
# dCdu_inv = self.Solver(dCdu, **self.solverOpts)
|
||||
P = self.survey.getP(self.mesh)
|
||||
J_x_v = - P * mkvc( self.Ainv * dCdm_x_v )
|
||||
return -J_x_v
|
||||
|
||||
def Jvec(self, m, v, f=None):
|
||||
return self.forward(v)
|
||||
|
||||
def Jtvec(self, m, v, f=None):
|
||||
|
||||
self.curModel = m
|
||||
# sigma = self.curModel.transform # $\sigma = \mathcal{M}(\m)$
|
||||
sigma = self.sigma
|
||||
if self.u is None:
|
||||
u = self.fields(sigma)
|
||||
else:
|
||||
u = self.u
|
||||
shp = (self.mesh.nC, self.survey.nSrc)
|
||||
u = u.reshape(shp, order='F')
|
||||
P = self.survey.getP(self.mesh)
|
||||
PT_x_v = (P.T*v).reshape(shp, order='F')
|
||||
|
||||
D = self.mesh.faceDiv
|
||||
G = self.mesh.cellGrad
|
||||
A = self.A
|
||||
mT_dm = Utils.sdiag(sigma)*self.mapping.deriv(m)
|
||||
# mT_dm = self.mapping.deriv(m)
|
||||
|
||||
# dCdu = A.T
|
||||
# Ainv = self.Solver(dCdu, **self.solverOpts)
|
||||
# if self.Ainv == None:
|
||||
self.Ainv = self.Solver(A.T, **self.solverOpts)
|
||||
|
||||
w = self.Ainv * PT_x_v
|
||||
|
||||
Jtv = 0
|
||||
for i, ui in enumerate(u.T): # loop over each column
|
||||
Jtv += self.dMdsig( G * ui ).T * ( D.T * w[:,i] )
|
||||
|
||||
Jtv = - mT_dm.T * ( Jtv )
|
||||
return -Jtv
|
||||
|
||||
File diff suppressed because it is too large
Load Diff
@@ -1,38 +0,0 @@
|
||||
import numpy as np
|
||||
|
||||
def WennerSrcList(nElecs, aSpacing, in2D=False, plotIt=False):
|
||||
|
||||
import SimPEG.DCIP as DC
|
||||
|
||||
elocs = np.arange(0,aSpacing*nElecs,aSpacing)
|
||||
elocs -= (nElecs*aSpacing - aSpacing)/2
|
||||
space = 1
|
||||
WENNER = np.zeros((0,),dtype=int)
|
||||
for ii in range(nElecs):
|
||||
for jj in range(nElecs):
|
||||
test = np.r_[jj,jj+space,jj+space*2,jj+space*3]
|
||||
if np.any(test >= nElecs):
|
||||
break
|
||||
WENNER = np.r_[WENNER, test]
|
||||
space += 1
|
||||
WENNER = WENNER.reshape((-1,4))
|
||||
|
||||
|
||||
if plotIt:
|
||||
for i, s in enumerate('rbkg'):
|
||||
plt.plot(elocs[WENNER[:,i]],s+'.')
|
||||
plt.show()
|
||||
|
||||
# Create sources and receivers
|
||||
i = 0
|
||||
if in2D:
|
||||
getLoc = lambda ii, abmn: np.r_[elocs[WENNER[ii,abmn]],0]
|
||||
else:
|
||||
getLoc = lambda ii, abmn: np.r_[elocs[WENNER[ii,abmn]],0, 0]
|
||||
srcList = []
|
||||
for i in range(WENNER.shape[0]):
|
||||
rx = DC.RxDipole(getLoc(i,1),getLoc(i,2))
|
||||
src = DC.SrcDipole([rx], getLoc(i,0),getLoc(i,3))
|
||||
srcList += [src]
|
||||
|
||||
return srcList
|
||||
@@ -1,4 +0,0 @@
|
||||
from BaseDC import *
|
||||
from BaseIP import *
|
||||
from DCIPUtils import *
|
||||
import Utils
|
||||
+26
-22
@@ -22,11 +22,11 @@ class BaseDataMisfit(object):
|
||||
Utils.setKwargs(self,**kwargs)
|
||||
|
||||
@Utils.timeIt
|
||||
def eval(self, m, f=None):
|
||||
"""eval(m, f=None)
|
||||
def eval(self, m, u=None):
|
||||
"""eval(m, u=None)
|
||||
|
||||
:param numpy.array m: geophysical model
|
||||
:param Fields f: fields
|
||||
:param numpy.array u: fields
|
||||
:rtype: float
|
||||
:return: data misfit
|
||||
|
||||
@@ -34,11 +34,11 @@ class BaseDataMisfit(object):
|
||||
raise NotImplementedError('This method should be overwritten.')
|
||||
|
||||
@Utils.timeIt
|
||||
def evalDeriv(self, m, f=None):
|
||||
"""evalDeriv(m, f=None)
|
||||
def evalDeriv(self, m, u=None):
|
||||
"""evalDeriv(m, u=None)
|
||||
|
||||
:param numpy.array m: geophysical model
|
||||
:param Fields f: fields
|
||||
:param numpy.array u: fields
|
||||
:rtype: numpy.array
|
||||
:return: data misfit derivative
|
||||
|
||||
@@ -47,12 +47,12 @@ class BaseDataMisfit(object):
|
||||
|
||||
|
||||
@Utils.timeIt
|
||||
def eval2Deriv(self, m, v, f=None):
|
||||
"""eval2Deriv(m, v, f=None)
|
||||
def eval2Deriv(self, m, v, u=None):
|
||||
"""eval2Deriv(m, v, u=None)
|
||||
|
||||
:param numpy.array m: geophysical model
|
||||
:param numpy.array v: vector to multiply
|
||||
:param Fields f: fields
|
||||
:param numpy.array u: fields
|
||||
:rtype: numpy.array
|
||||
:return: data misfit derivative
|
||||
|
||||
@@ -89,7 +89,7 @@ class l2_DataMisfit(BaseDataMisfit):
|
||||
"""
|
||||
|
||||
if getattr(self, '_Wd', None) is None:
|
||||
|
||||
|
||||
survey = self.survey
|
||||
|
||||
if getattr(survey,'std', None) is None:
|
||||
@@ -108,20 +108,24 @@ class l2_DataMisfit(BaseDataMisfit):
|
||||
self._Wd = value
|
||||
|
||||
@Utils.timeIt
|
||||
def eval(self, m, f=None):
|
||||
"eval(m, f=None)"
|
||||
if f is None: f = self.prob.fields(m)
|
||||
R = self.Wd * self.survey.residual(m, f)
|
||||
def eval(self, m, u=None):
|
||||
"eval(m, u=None)"
|
||||
prob = self.prob
|
||||
survey = self.survey
|
||||
R = self.Wd * survey.residual(m, u=u)
|
||||
return 0.5*np.vdot(R, R)
|
||||
|
||||
@Utils.timeIt
|
||||
def evalDeriv(self, m, f=None):
|
||||
"evalDeriv(m, f=None)"
|
||||
if f is None: f = self.prob.fields(m)
|
||||
return self.prob.Jtvec(m, self.Wd * (self.Wd * self.survey.residual(m, f=f)), f=f)
|
||||
def evalDeriv(self, m, u=None):
|
||||
"evalDeriv(m, u=None)"
|
||||
prob = self.prob
|
||||
survey = self.survey
|
||||
if u is None: u = prob.fields(m)
|
||||
return prob.Jtvec(m, self.Wd * (self.Wd * survey.residual(m, u=u)), u=u)
|
||||
|
||||
@Utils.timeIt
|
||||
def eval2Deriv(self, m, v, f=None):
|
||||
"eval2Deriv(m, v, f=None)"
|
||||
if f is None: f = self.prob.fields(m)
|
||||
return self.prob.Jtvec_approx(m, self.Wd * (self.Wd * self.prob.Jvec_approx(m, v, f=f)), f=f)
|
||||
def eval2Deriv(self, m, v, u=None):
|
||||
"eval2Deriv(m, v, u=None)"
|
||||
prob = self.prob
|
||||
if u is None: u = prob.fields(m)
|
||||
return prob.Jtvec_approx(m, self.Wd * (self.Wd * prob.Jvec_approx(m, v, u=u)), u=u)
|
||||
|
||||
+12
-199
@@ -123,10 +123,10 @@ class BetaEstimate_ByEig(InversionDirective):
|
||||
if self.debug: print 'Calculating the beta0 parameter.'
|
||||
|
||||
m = self.invProb.curModel
|
||||
f = self.invProb.getFields(m, store=True, deleteWarmstart=False)
|
||||
u = self.invProb.getFields(m, store=True, deleteWarmstart=False)
|
||||
|
||||
x0 = np.random.rand(*m.shape)
|
||||
t = x0.dot(self.dmisfit.eval2Deriv(m,x0,f=f))
|
||||
t = x0.dot(self.dmisfit.eval2Deriv(m,x0,u=u))
|
||||
b = x0.dot(self.reg.eval2Deriv(m, v=x0))
|
||||
self.beta0 = self.beta0_ratio*(t/b)
|
||||
|
||||
@@ -144,18 +144,12 @@ class BetaSchedule(InversionDirective):
|
||||
if self.debug: print 'BetaSchedule is cooling Beta. Iteration: %d' % self.opt.iter
|
||||
self.invProb.beta /= self.coolingFactor
|
||||
|
||||
|
||||
class TargetMisfit(InversionDirective):
|
||||
|
||||
chifact = 1.
|
||||
phi_d_star = None
|
||||
|
||||
@property
|
||||
def target(self):
|
||||
if getattr(self, '_target', None) is None:
|
||||
if self.phi_d_star is None:
|
||||
self.phi_d_star = 0.5 * self.survey.nD
|
||||
self._target = self.chifact * self.phi_d_star # the factor of 0.5 is because we do phid = 0.5*|| dpred - dobs||^2
|
||||
self._target = self.survey.nD*0.5
|
||||
return self._target
|
||||
@target.setter
|
||||
def target(self, val):
|
||||
@@ -222,13 +216,13 @@ class SaveOutputDictEveryIteration(_SaveEveryIteration):
|
||||
# Save the data.
|
||||
ms = self.reg.Ws * ( self.reg.mapping * (self.invProb.curModel - self.reg.mref) )
|
||||
phi_ms = 0.5*ms.dot(ms)
|
||||
if self.reg.mrefInSmooth == True:
|
||||
if self.reg.smoothModel == True:
|
||||
mref = self.reg.mref
|
||||
else:
|
||||
mref = 0
|
||||
mx = self.reg.Wx * ( self.reg.mapping * (self.invProb.curModel - mref) )
|
||||
phi_mx = 0.5 * mx.dot(mx)
|
||||
if self.prob.mesh.dim >= 2:
|
||||
if self.prob.mesh.dim==2:
|
||||
my = self.reg.Wy * ( self.reg.mapping * (self.invProb.curModel - mref) )
|
||||
phi_my = 0.5 * my.dot(my)
|
||||
else:
|
||||
@@ -243,197 +237,16 @@ class SaveOutputDictEveryIteration(_SaveEveryIteration):
|
||||
# Save the file as a npz
|
||||
np.savez('{:03d}-{:s}'.format(self.opt.iter,self.fileName), iter=self.opt.iter, beta=self.invProb.beta, phi_d=self.invProb.phi_d, phi_m=self.invProb.phi_m, phi_ms=phi_ms, phi_mx=phi_mx, phi_my=phi_my, phi_mz=phi_mz,f=self.opt.f, m=self.invProb.curModel,dpred=self.invProb.dpred)
|
||||
|
||||
|
||||
|
||||
# class UpdateReferenceModel(Parameter):
|
||||
|
||||
# mref0 = None
|
||||
|
||||
# def nextIter(self):
|
||||
# mref = getattr(self, 'm_prev', None)
|
||||
# if mref is None:
|
||||
# if self.debug: print 'UpdateReferenceModel is using mref0'
|
||||
# mref = self.mref0
|
||||
# self.m_prev = self.invProb.m_current
|
||||
# return mref
|
||||
|
||||
class Update_IRLS(InversionDirective):
|
||||
|
||||
eps_min = None
|
||||
eps_p = None
|
||||
eps_q = None
|
||||
norms = [2.,2.,2.,2.]
|
||||
factor = None
|
||||
gamma = None
|
||||
phi_m_last = None
|
||||
phi_d_last = None
|
||||
f_old = None
|
||||
f_min_change = 1e-2
|
||||
beta_tol = 5e-2
|
||||
|
||||
# Solving parameter for IRLS (mode:2)
|
||||
IRLSiter = 0
|
||||
minGNiter = 5
|
||||
maxIRLSiter = 10
|
||||
iterStart = 0
|
||||
|
||||
# Beta schedule
|
||||
coolingFactor = 2.
|
||||
coolingRate = 1
|
||||
|
||||
mode = 1
|
||||
|
||||
@property
|
||||
def target(self):
|
||||
if getattr(self, '_target', None) is None:
|
||||
self._target = self.survey.nD*0.5
|
||||
return self._target
|
||||
@target.setter
|
||||
def target(self, val):
|
||||
self._target = val
|
||||
|
||||
def initialize(self):
|
||||
|
||||
if self.mode == 1:
|
||||
self.reg.norms = [2., 2., 2., 2.]
|
||||
|
||||
def endIter(self):
|
||||
|
||||
# After reaching target misfit with l2-norm, switch to IRLS (mode:2)
|
||||
if self.invProb.phi_d < self.target and self.mode == 1:
|
||||
print "Convergence with smooth l2-norm regularization: Start IRLS steps..."
|
||||
|
||||
self.mode = 2
|
||||
print self.eps_p, self.eps_q, self.norms
|
||||
self.reg.eps_p = self.eps_p
|
||||
self.reg.eps_q = self.eps_q
|
||||
self.reg.norms = self.norms
|
||||
self.coolingFactor = 1.
|
||||
self.coolingRate = 1
|
||||
self.iterStart = self.opt.iter
|
||||
self.phi_d_last = self.invProb.phi_d
|
||||
self.phi_m_last = self.invProb.phi_m_last
|
||||
|
||||
self.reg.l2model = self.invProb.curModel
|
||||
self.reg.curModel = self.invProb.curModel
|
||||
|
||||
if getattr(self, 'f_old', None) is None:
|
||||
self.f_old = self.reg.eval(self.invProb.curModel)#self.invProb.evalFunction(self.invProb.curModel, return_g=False, return_H=False)
|
||||
|
||||
# Beta Schedule
|
||||
if self.opt.iter > 0 and self.opt.iter % self.coolingRate == 0:
|
||||
if self.debug: print 'BetaSchedule is cooling Beta. Iteration: %d' % self.opt.iter
|
||||
self.invProb.beta /= self.coolingFactor
|
||||
|
||||
|
||||
# Only update after GN iterations
|
||||
if (self.opt.iter-self.iterStart) % self.minGNiter == 0 and self.mode==2:
|
||||
|
||||
self.IRLSiter += 1
|
||||
|
||||
phim_new = self.reg.eval(self.invProb.curModel)
|
||||
self.f_change = np.abs(self.f_old - phim_new) / self.f_old
|
||||
|
||||
print "Regularization decrease: %6.3e" % (self.f_change)
|
||||
|
||||
# Check for maximum number of IRLS cycles
|
||||
if self.IRLSiter == self.maxIRLSiter:
|
||||
print "Reach maximum number of IRLS cycles: %i" % self.maxIRLSiter
|
||||
self.opt.stopNextIteration = True
|
||||
return
|
||||
|
||||
# Check if the function has changed enough
|
||||
if self.f_change < self.f_min_change and self.IRLSiter > 1:
|
||||
print "Minimum decrease in regularization. End of IRLS"
|
||||
self.opt.stopNextIteration = True
|
||||
return
|
||||
else:
|
||||
self.f_old = phim_new
|
||||
|
||||
# Cool the threshold parameter if required
|
||||
if getattr(self, 'factor', None) is not None:
|
||||
eps = self.reg.eps / self.factor
|
||||
|
||||
if getattr(self, 'eps_min', None) is not None:
|
||||
self.reg.eps = np.max([self.eps_min,eps])
|
||||
else:
|
||||
self.reg.eps = eps
|
||||
|
||||
# Get phi_m at the end of current iteration
|
||||
self.phi_m_last = self.invProb.phi_m_last
|
||||
|
||||
# Reset the regularization matrices so that it is
|
||||
# recalculated for current model
|
||||
self.reg._Wsmall = None
|
||||
self.reg._Wx = None
|
||||
self.reg._Wy = None
|
||||
self.reg._Wz = None
|
||||
|
||||
# Update the model used for the IRLS weights
|
||||
self.reg.curModel = self.invProb.curModel
|
||||
|
||||
# Temporarely set gamma to 1. to get raw phi_m
|
||||
self.reg.gamma = 1.
|
||||
|
||||
# Compute new model objective function value
|
||||
phim_new = self.reg.eval(self.invProb.curModel)
|
||||
|
||||
# Update gamma to scale the regularization between IRLS iterations
|
||||
self.reg.gamma = self.phi_m_last / phim_new
|
||||
|
||||
# Reset the regularization matrices again for new gamma
|
||||
self.reg._Wsmall = None
|
||||
self.reg._Wx = None
|
||||
self.reg._Wy = None
|
||||
self.reg._Wz = None
|
||||
|
||||
# Check if misfit is within the tolerance, otherwise scale beta
|
||||
val = self.invProb.phi_d / (self.survey.nD*0.5)
|
||||
|
||||
if np.abs(1.-val) > self.beta_tol:
|
||||
self.invProb.beta = self.invProb.beta * self.survey.nD*0.5 / self.invProb.phi_d
|
||||
|
||||
class Update_lin_PreCond(InversionDirective):
|
||||
"""
|
||||
Create a Jacobi preconditioner for the linear problem
|
||||
"""
|
||||
onlyOnStart=False
|
||||
|
||||
def initialize(self):
|
||||
|
||||
if getattr(self.opt, 'approxHinv', None) is None:
|
||||
# Update the pre-conditioner
|
||||
diagA = np.sum(self.prob.G**2.,axis=0) + self.invProb.beta*(self.reg.W.T*self.reg.W).diagonal() #* (self.reg.mapping * np.ones(self.reg.curModel.size))**2.
|
||||
PC = Utils.sdiag((self.prob.mapping.deriv(None).T *diagA)**-1.)
|
||||
self.opt.approxHinv = PC
|
||||
|
||||
def endIter(self):
|
||||
# Cool the threshold parameter
|
||||
if self.onlyOnStart==True:
|
||||
return
|
||||
|
||||
if getattr(self.opt, 'approxHinv', None) is not None:
|
||||
# Update the pre-conditioner
|
||||
diagA = np.sum(self.prob.G**2.,axis=0) + self.invProb.beta*(self.reg.W.T*self.reg.W).diagonal() #* (self.reg.mapping * np.ones(self.reg.curModel.size))**2.
|
||||
PC = Utils.sdiag((self.prob.mapping.deriv(None).T *diagA)**-1.)
|
||||
self.opt.approxHinv = PC
|
||||
|
||||
|
||||
class Update_Wj(InversionDirective):
|
||||
"""
|
||||
Create approx-sensitivity base weighting using the probing method
|
||||
"""
|
||||
k = None # Number of probing cycles
|
||||
itr = None # Iteration number to update Wj, or always update if None
|
||||
|
||||
def endIter(self):
|
||||
|
||||
if self.itr is None or self.itr == self.opt.iter:
|
||||
|
||||
m = self.invProb.curModel
|
||||
if self.k is None:
|
||||
self.k = int(self.survey.nD/10)
|
||||
|
||||
def JtJv(v):
|
||||
|
||||
Jv = self.prob.Jvec(m, v)
|
||||
|
||||
return self.prob.Jtvec(m,Jv)
|
||||
|
||||
JtJdiag = Utils.diagEst(JtJv,len(m),k=self.k)
|
||||
JtJdiag = JtJdiag / max(JtJdiag)
|
||||
|
||||
self.reg.wght = JtJdiag
|
||||
|
||||
@@ -1,118 +0,0 @@
|
||||
import numpy as np
|
||||
from scipy.constants import mu_0, pi
|
||||
from scipy import special
|
||||
|
||||
def DCAnalyticHalf(txloc, rxlocs, sigma, earth_type="wholespace"):
|
||||
"""
|
||||
Analytic solution for electric potential from a postive pole
|
||||
|
||||
:param array txloc: a xyz location of A (+) electrode (np.r_[xa, ya, za])
|
||||
:param list rxlocs: xyz locations of M (+) and N (-) electrodes [M, N]
|
||||
|
||||
e.g.
|
||||
rxlocs = [M, N]
|
||||
M: xyz locations of M (+) electrode (np.c_[xmlocs, ymlocs, zmlocs])
|
||||
N: xyz locations of N (-) electrode (np.c_[xnlocs, ynlocs, znlocs])
|
||||
|
||||
:param float or complex sigma: values of conductivity
|
||||
:param string earth_type: values of conductivity ("wholsespace" or "halfspace")
|
||||
|
||||
"""
|
||||
M = rxlocs[0]
|
||||
N = rxlocs[1]
|
||||
|
||||
rM = np.sqrt( (M[:,0]-txloc[0])**2 + (M[:,1]-txloc[1])**2 + (M[:,2]-txloc[1])**2 )
|
||||
rN = np.sqrt( (N[:,0]-txloc[0])**2 + (N[:,1]-txloc[1])**2 + (N[:,2]-txloc[1])**2 )
|
||||
|
||||
phiM = 1./(4*np.pi*rM*sigma)
|
||||
phiN = 1./(4*np.pi*rN*sigma)
|
||||
phi = phiM - phiN
|
||||
|
||||
if earth_type == "halfspace":
|
||||
phi *= 2
|
||||
|
||||
return phi
|
||||
|
||||
deg2rad = lambda deg: deg/180.*np.pi
|
||||
rad2deg = lambda rad: rad*180./np.pi
|
||||
|
||||
def DCAnalyticSphere(txloc, rxloc, xc, radius, sigma, sigma1, \
|
||||
field_type = "secondary", order=12, halfspace=False):
|
||||
# def DCSpherePointCurrent(txloc, rxloc, xc, radius, rho, rho1, \
|
||||
# field_type = "secondary", order=12):
|
||||
"""
|
||||
|
||||
Parameters:
|
||||
|
||||
:param array txloc: A (+) current electrode location (x,y,z)
|
||||
:param array xc: x center of depressed sphere
|
||||
:param array rxloc: M(+) electrode locations / (Nx3 array, # of electrodes)
|
||||
|
||||
:param float radius: radius (float): radius of the sphere (m)
|
||||
:param float rho: resistivity of the background (ohm-m)
|
||||
:param float rho1: resistivity of the sphere
|
||||
:param string field_type: : "secondary", "total", "primary"
|
||||
(default="secondary")
|
||||
"secondary": secondary potential only due to sphere
|
||||
"primary": primary potential from the point source
|
||||
"total": "secondary"+"primary"
|
||||
:param float order: maximum order of Legendre polynomial (default=12)
|
||||
|
||||
Written by Seogi Kang (skang@eos.ubc.ca)
|
||||
Ph.D. Candidate of University of British Columbia, Canada
|
||||
|
||||
"""
|
||||
|
||||
Pleg = []
|
||||
# Compute Legendre Polynomial
|
||||
for i in range(order):
|
||||
Pleg.append(special.legendre(i, monic=0))
|
||||
|
||||
|
||||
rho = 1./sigma
|
||||
rho1 = 1./sigma1
|
||||
|
||||
# Center of the sphere should be aligned in txloc in y-direction
|
||||
yc = txloc[1]
|
||||
xyz = np.c_[rxloc[:,0]-xc, rxloc[:,1]-yc, rxloc[:,2]]
|
||||
r = np.sqrt( (xyz**2).sum(axis=1) )
|
||||
|
||||
x0 = abs(txloc[0]-xc)
|
||||
|
||||
costheta = xyz[:,0]/r * (txloc[0]-xc)/x0
|
||||
phi = np.zeros_like(r)
|
||||
R = (r**2+x0**2.-2.*r*x0*costheta)**0.5
|
||||
# primary potential in a whole space
|
||||
prim = rho*1./(4*np.pi*R)
|
||||
|
||||
if field_type =="primary":
|
||||
return prim
|
||||
|
||||
sphind = r < radius
|
||||
out = np.zeros_like(r)
|
||||
for n in range(order):
|
||||
An, Bn = AnBnfun(n, radius, x0, rho, rho1)
|
||||
dumout = An*r[~sphind]**(-n-1.)*Pleg[n](costheta[~sphind])
|
||||
out[~sphind] += dumout
|
||||
dumin = Bn*r[sphind]**(n)*Pleg[n](costheta[sphind])
|
||||
out[sphind] += dumin
|
||||
|
||||
out[~sphind] += prim[~sphind]
|
||||
|
||||
if halfspace:
|
||||
scale = 2
|
||||
else:
|
||||
scale = 1
|
||||
|
||||
if field_type == "secondary":
|
||||
return scale*(out-prim)
|
||||
elif field_type == "total":
|
||||
return scale*out
|
||||
|
||||
def AnBnfun(n, radius, x0, rho, rho1, I=1.):
|
||||
const = I*rho/(4*np.pi)
|
||||
bunmo = n*rho + (n+1)*rho1
|
||||
An = const * radius**(2*n+1) / x0 ** (n+1.) * n * \
|
||||
(rho1-rho) / bunmo
|
||||
Bn = const * 1. / x0 ** (n+1.) * (2*n+1) * (rho1) / bunmo
|
||||
return An, Bn
|
||||
@@ -1,4 +1,3 @@
|
||||
from TDEM import hzAnalyticDipoleT
|
||||
from FDEM import hzAnalyticDipoleF
|
||||
from FDEMcasing import *
|
||||
from DC import DCAnalyticHalf, DCAnalyticSphere
|
||||
|
||||
+21
-66
@@ -1,16 +1,15 @@
|
||||
from SimPEG import Survey, Problem, Utils, Models, Maps, PropMaps, np, sp, Solver as SimpegSolver
|
||||
from scipy.constants import mu_0
|
||||
|
||||
|
||||
class EMPropMap(Maps.PropMap):
|
||||
"""
|
||||
"""
|
||||
Property Map for EM Problems. The electrical conductivity (\\(\\sigma\\)) is the default inversion property, and the default value of the magnetic permeability is that of free space (\\(\\mu = 4\\pi\\times 10^{-7} \\) H/m)
|
||||
"""
|
||||
|
||||
sigma = Maps.Property("Electrical Conductivity", defaultInvProp = True, propertyLink=('rho',Maps.ReciprocalMap))
|
||||
mu = Maps.Property("Inverse Magnetic Permeability", defaultVal = mu_0, propertyLink=('mui',Maps.ReciprocalMap))
|
||||
|
||||
rho = Maps.Property("Electrical Resistivity", propertyLink=('sigma', Maps.ReciprocalMap))
|
||||
rho = Maps.Property("Electrical Resistivity", propertyLink=('sigma', Maps.ReciprocalMap))
|
||||
mui = Maps.Property("Inverse Magnetic Permeability", defaultVal = 1./mu_0, propertyLink=('mu', Maps.ReciprocalMap))
|
||||
|
||||
|
||||
@@ -22,7 +21,7 @@ class BaseEMProblem(Problem.BaseProblem):
|
||||
|
||||
surveyPair = Survey.BaseSurvey
|
||||
dataPair = Survey.Data
|
||||
|
||||
|
||||
PropMap = EMPropMap
|
||||
|
||||
Solver = SimpegSolver
|
||||
@@ -52,7 +51,7 @@ class BaseEMProblem(Problem.BaseProblem):
|
||||
if self.mapping.muMap is not None or self.mapping.muiMap is not None:
|
||||
toDelete += ['_MeMu', '_MeMuI','_MfMui','_MfMuiI']
|
||||
return toDelete
|
||||
|
||||
|
||||
@property
|
||||
def Me(self):
|
||||
"""
|
||||
@@ -62,15 +61,6 @@ class BaseEMProblem(Problem.BaseProblem):
|
||||
self._Me = self.mesh.getEdgeInnerProduct()
|
||||
return self._Me
|
||||
|
||||
@property
|
||||
def MeI(self):
|
||||
"""
|
||||
Edge inner product matrix
|
||||
"""
|
||||
if getattr(self, '_MeI', None) is None:
|
||||
self._MeI = self.mesh.getEdgeInnerProduct(invMat=True)
|
||||
return self._MeI
|
||||
|
||||
@property
|
||||
def Mf(self):
|
||||
"""
|
||||
@@ -80,22 +70,8 @@ class BaseEMProblem(Problem.BaseProblem):
|
||||
self._Mf = self.mesh.getFaceInnerProduct()
|
||||
return self._Mf
|
||||
|
||||
@property
|
||||
def MfI(self):
|
||||
"""
|
||||
Face inner product matrix
|
||||
"""
|
||||
if getattr(self, '_MfI', None) is None:
|
||||
self._MfI = self.mesh.getFaceInnerProduct(invMat=True)
|
||||
return self._MfI
|
||||
|
||||
@property
|
||||
def Vol(self):
|
||||
if getattr(self, '_Vol', None) is None:
|
||||
self._Vol = Utils.sdiag(self.mesh.vol)
|
||||
return self._Vol
|
||||
|
||||
# ----- Magnetic Permeability ----- #
|
||||
# ----- Magnetic Permeability ----- #
|
||||
@property
|
||||
def MfMui(self):
|
||||
"""
|
||||
@@ -133,7 +109,7 @@ class BaseEMProblem(Problem.BaseProblem):
|
||||
return self._MeMuI
|
||||
|
||||
|
||||
# ----- Electrical Conductivity ----- #
|
||||
# ----- Electrical Conductivity ----- #
|
||||
#TODO: hardcoded to sigma as the model
|
||||
@property
|
||||
def MeSigma(self):
|
||||
@@ -144,17 +120,18 @@ class BaseEMProblem(Problem.BaseProblem):
|
||||
self._MeSigma = self.mesh.getEdgeInnerProduct(self.curModel.sigma)
|
||||
return self._MeSigma
|
||||
|
||||
# TODO: This should take a vector
|
||||
# TODO: This should take a vector
|
||||
def MeSigmaDeriv(self, u):
|
||||
"""
|
||||
Derivative of MeSigma with respect to the model
|
||||
"""
|
||||
"""
|
||||
return self.mesh.getEdgeInnerProductDeriv(self.curModel.sigma)(u) * self.curModel.sigmaDeriv
|
||||
|
||||
|
||||
@property
|
||||
def MeSigmaI(self):
|
||||
"""
|
||||
Inverse of the edge inner product matrix for \\(\\sigma\\).
|
||||
Inverse of the edge inner product matrix for \\(\\sigma\\).
|
||||
"""
|
||||
if getattr(self, '_MeSigmaI', None) is None:
|
||||
self._MeSigmaI = self.mesh.getEdgeInnerProduct(self.curModel.sigma, invMat=True)
|
||||
@@ -163,13 +140,16 @@ class BaseEMProblem(Problem.BaseProblem):
|
||||
# TODO: This should take a vector
|
||||
def MeSigmaIDeriv(self, u):
|
||||
"""
|
||||
Derivative of :code:`MeSigma` with respect to the model
|
||||
"""
|
||||
Derivative of :code:`MeSigma` with respect to the model
|
||||
"""
|
||||
# TODO: only works for diagonal tensors. getEdgeInnerProductDeriv, invMat=True should be implemented in SimPEG
|
||||
|
||||
dMeSigmaI_dI = -self.MeSigmaI**2
|
||||
dMe_dsig = self.mesh.getEdgeInnerProductDeriv(self.curModel.sigma)(u)
|
||||
return dMeSigmaI_dI * ( dMe_dsig * self.curModel.sigmaDeriv )
|
||||
dsig_dm = self.curModel.sigmaDeriv
|
||||
return dMeSigmaI_dI * ( dMe_dsig * ( dsig_dm))
|
||||
# return self.mesh.getEdgeInnerProductDeriv(self.curModel.sigma, invMat=True)(u)
|
||||
|
||||
|
||||
@property
|
||||
def MfRho(self):
|
||||
@@ -183,9 +163,10 @@ class BaseEMProblem(Problem.BaseProblem):
|
||||
# TODO: This should take a vector
|
||||
def MfRhoDeriv(self,u):
|
||||
"""
|
||||
Derivative of :code:`MfRho` with respect to the model.
|
||||
Derivative of :code:`MfRho` with respect to the model.
|
||||
"""
|
||||
return self.mesh.getFaceInnerProductDeriv(self.curModel.rho)(u) * self.curModel.rhoDeriv
|
||||
return self.mesh.getFaceInnerProductDeriv(self.curModel.rho)(u) * (-Utils.sdiag(self.curModel.rho**2) * self.curModel.sigmaDeriv)
|
||||
# self.curModel.rhoDeriv
|
||||
|
||||
@property
|
||||
def MfRhoI(self):
|
||||
@@ -200,32 +181,6 @@ class BaseEMProblem(Problem.BaseProblem):
|
||||
# TODO: This should take a vector
|
||||
def MfRhoIDeriv(self,u):
|
||||
"""
|
||||
Derivative of :code:`MfRhoI` with respect to the model.
|
||||
Derivative of :code:`MfRhoI` with respect to the model.
|
||||
"""
|
||||
|
||||
dMfRhoI_dI = -self.MfRhoI**2
|
||||
dMf_drho = self.mesh.getFaceInnerProductDeriv(self.curModel.rho)(u)
|
||||
return dMfRhoI_dI * ( dMf_drho * self.curModel.rhoDeriv )
|
||||
|
||||
class BaseEMSurvey(Survey.BaseSurvey):
|
||||
|
||||
def __init__(self, srcList, **kwargs):
|
||||
# Sort these by frequency
|
||||
self.srcList = srcList
|
||||
Survey.BaseSurvey.__init__(self, **kwargs)
|
||||
|
||||
def eval(self, f):
|
||||
"""
|
||||
Project fields to receiver locations
|
||||
:param Fields u: fields object
|
||||
:rtype: numpy.ndarray
|
||||
:return: data
|
||||
"""
|
||||
data = Survey.Data(self)
|
||||
for src in self.srcList:
|
||||
for rx in src.rxList:
|
||||
data[src, rx] = rx.eval(src, self.mesh, f)
|
||||
return data
|
||||
|
||||
def evalDeriv(self, f):
|
||||
raise Exception('Use Receivers to project fields deriv.')
|
||||
return self.mesh.getFaceInnerProductDeriv(self.curModel.rho, invMat=True)(u) * self.curModel.rhoDeriv
|
||||
|
||||
@@ -1,7 +1,7 @@
|
||||
from SimPEG import Problem, Utils, np, sp, Solver as SimpegSolver
|
||||
from scipy.constants import mu_0
|
||||
from SurveyFDEM import Survey as SurveyFDEM
|
||||
from FieldsFDEM import Fields, Fields3D_e, Fields3D_b, Fields3D_h, Fields3D_j
|
||||
from FieldsFDEM import Fields, Fields_e, Fields_b, Fields_h, Fields_j
|
||||
from SimPEG.EM.Base import BaseEMProblem
|
||||
from SimPEG.EM.Utils import omega
|
||||
|
||||
@@ -17,10 +17,10 @@ class BaseFDEMProblem(BaseEMProblem):
|
||||
\mathbf{C} \mathbf{e} + i \omega \mathbf{b} = \mathbf{s_m} \\\\
|
||||
{\mathbf{C}^{\\top} \mathbf{M_{\mu^{-1}}^f} \mathbf{b} - \mathbf{M_{\sigma}^e} \mathbf{e} = \mathbf{s_e}}
|
||||
|
||||
if using the E-B formulation (:code:`Problem3D_e`
|
||||
or :code:`Problem3D_b`). Note that in this case, :math:`\mathbf{s_e}` is an integrated quantity.
|
||||
if using the E-B formulation (:code:`Problem_e`
|
||||
or :code:`Problem_b`). Note that in this case, :math:`\mathbf{s_e}` is an integrated quantity.
|
||||
|
||||
If we write Maxwell's equations in terms of
|
||||
If we write Maxwell's equations in terms of
|
||||
\\\(\\\mathbf{h}\\\) and current density \\\(\\\mathbf{j}\\\)
|
||||
|
||||
.. math ::
|
||||
@@ -28,7 +28,7 @@ class BaseFDEMProblem(BaseEMProblem):
|
||||
\mathbf{C}^{\\top} \mathbf{M_{\\rho}^f} \mathbf{j} + i \omega \mathbf{M_{\mu}^e} \mathbf{h} = \mathbf{s_m} \\\\
|
||||
\mathbf{C} \mathbf{h} - \mathbf{j} = \mathbf{s_e}
|
||||
|
||||
if using the H-J formulation (:code:`Problem3D_j` or :code:`Problem3D_h`). Note that here, :math:`\mathbf{s_m}` is an integrated quantity.
|
||||
if using the H-J formulation (:code:`Problem_j` or :code:`Problem_h`). Note that here, :math:`\mathbf{s_m}` is an integrated quantity.
|
||||
|
||||
The problem performs the elimination so that we are solving the system for \\\(\\\mathbf{e},\\\mathbf{b},\\\mathbf{j} \\\) or \\\(\\\mathbf{h}\\\)
|
||||
"""
|
||||
@@ -36,76 +36,88 @@ class BaseFDEMProblem(BaseEMProblem):
|
||||
surveyPair = SurveyFDEM
|
||||
fieldsPair = Fields
|
||||
|
||||
def fields(self, m):
|
||||
def fields(self, m=None):
|
||||
"""
|
||||
Solve the forward problem for the fields.
|
||||
|
||||
|
||||
:param numpy.array m: inversion model (nP,)
|
||||
:rtype numpy.array:
|
||||
:return f: forward solution
|
||||
:return F: forward solution
|
||||
"""
|
||||
|
||||
self.curModel = m
|
||||
f = self.fieldsPair(self.mesh, self.survey)
|
||||
F = self.fieldsPair(self.mesh, self.survey)
|
||||
|
||||
for freq in self.survey.freqs:
|
||||
A = self.getA(freq)
|
||||
rhs = self.getRHS(freq)
|
||||
Ainv = self.Solver(A, **self.solverOpts)
|
||||
u = Ainv * rhs
|
||||
sol = Ainv * rhs
|
||||
Srcs = self.survey.getSrcByFreq(freq)
|
||||
f[Srcs, self._solutionType] = u
|
||||
ftype = self._fieldType + 'Solution'
|
||||
F[Srcs, ftype] = sol
|
||||
Ainv.clean()
|
||||
return f
|
||||
return F
|
||||
|
||||
def Jvec(self, m, v, f=None):
|
||||
def Jvec(self, m, v, u=None):
|
||||
"""
|
||||
Sensitivity times a vector.
|
||||
|
||||
:param numpy.array m: inversion model (nP,)
|
||||
:param numpy.array v: vector which we take sensitivity product with (nP,)
|
||||
:param SimPEG.EM.FDEM.Fields u: fields object
|
||||
:param SimPEG.EM.FDEM.Fields u: fields object
|
||||
:rtype numpy.array:
|
||||
:return: Jv (ndata,)
|
||||
:return: Jv (ndata,)
|
||||
"""
|
||||
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
if u is None:
|
||||
u = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
|
||||
Jv = self.dataPair(self.survey)
|
||||
|
||||
for freq in self.survey.freqs:
|
||||
A = self.getA(freq)
|
||||
Ainv = self.Solver(A, **self.solverOpts) # create the concept of Ainv (actually a solve)
|
||||
A = self.getA(freq) #
|
||||
Ainv = self.Solver(A, **self.solverOpts)
|
||||
|
||||
for src in self.survey.getSrcByFreq(freq):
|
||||
u_src = f[src, self._solutionType]
|
||||
dA_dm_v = self.getADeriv(freq, u_src, v)
|
||||
dRHS_dm_v = self.getRHSDeriv(freq, src, v)
|
||||
du_dm_v = Ainv * ( - dA_dm_v + dRHS_dm_v )
|
||||
|
||||
ftype = self._fieldType + 'Solution'
|
||||
u_src = u[src, ftype]
|
||||
dA_dm = self.getADeriv_m(freq, u_src, v)
|
||||
dRHS_dm = self.getRHSDeriv_m(freq, src, v)
|
||||
du_dm = Ainv * ( - dA_dm + dRHS_dm )
|
||||
|
||||
for rx in src.rxList:
|
||||
df_dmFun = getattr(f, '_{0}Deriv'.format(rx.projField), None)
|
||||
df_dm_v = df_dmFun(src, du_dm_v, v, adjoint=False)
|
||||
Jv[src, rx] = rx.evalDeriv(src, self.mesh, f, df_dm_v)
|
||||
df_duFun = getattr(u, '_%sDeriv_u'%rx.projField, None)
|
||||
df_dudu_dm = df_duFun(src, du_dm, adjoint=False)
|
||||
|
||||
df_dmFun = getattr(u, '_%sDeriv_m'%rx.projField, None)
|
||||
df_dm = df_dmFun(src, v, adjoint=False)
|
||||
|
||||
|
||||
Df_Dm = np.array(df_dudu_dm + df_dm,dtype=complex)
|
||||
|
||||
P = lambda v: rx.projectFieldsDeriv(src, self.mesh, u, v) # wrt u, also have wrt m
|
||||
|
||||
Jv[src, rx] = P(Df_Dm)
|
||||
|
||||
Ainv.clean()
|
||||
return Utils.mkvc(Jv)
|
||||
|
||||
def Jtvec(self, m, v, f=None):
|
||||
def Jtvec(self, m, v, u=None):
|
||||
"""
|
||||
Sensitivity transpose times a vector
|
||||
|
||||
:param numpy.array m: inversion model (nP,)
|
||||
:param numpy.array v: vector which we take adjoint product with (nP,)
|
||||
:param SimPEG.EM.FDEM.Fields u: fields object
|
||||
:param SimPEG.EM.FDEM.Fields u: fields object
|
||||
:rtype numpy.array:
|
||||
:return: Jv (ndata,)
|
||||
:return: Jv (ndata,)
|
||||
"""
|
||||
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
if u is None:
|
||||
u = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
|
||||
@@ -120,30 +132,35 @@ class BaseFDEMProblem(BaseEMProblem):
|
||||
ATinv = self.Solver(AT, **self.solverOpts)
|
||||
|
||||
for src in self.survey.getSrcByFreq(freq):
|
||||
u_src = f[src, self._solutionType]
|
||||
ftype = self._fieldType + 'Solution'
|
||||
u_src = u[src, ftype]
|
||||
|
||||
for rx in src.rxList:
|
||||
PTv = rx.evalDeriv(src, self.mesh, f, v[src, rx], adjoint=True) # wrt f, need possibility wrt m
|
||||
|
||||
df_duTFun = getattr(f, '_{0}Deriv'.format(rx.projField), None)
|
||||
df_duT, df_dmT = df_duTFun(src, None, PTv, adjoint=True)
|
||||
PTv = rx.projectFieldsDeriv(src, self.mesh, u, v[src, rx], adjoint=True) # wrt u, need possibility wrt m
|
||||
|
||||
df_duTFun = getattr(u, '_%sDeriv_u'%rx.projField, None)
|
||||
df_duT = df_duTFun(src, PTv, adjoint=True)
|
||||
|
||||
ATinvdf_duT = ATinv * df_duT
|
||||
|
||||
dA_dmT = self.getADeriv(freq, u_src, ATinvdf_duT, adjoint=True)
|
||||
dRHS_dmT = self.getRHSDeriv(freq, src, ATinvdf_duT, adjoint=True)
|
||||
dA_dmT = self.getADeriv_m(freq, u_src, ATinvdf_duT, adjoint=True)
|
||||
dRHS_dmT = self.getRHSDeriv_m(freq,src, ATinvdf_duT, adjoint=True)
|
||||
du_dmT = -dA_dmT + dRHS_dmT
|
||||
|
||||
df_dmT = df_dmT + du_dmT
|
||||
df_dmFun = getattr(u, '_%sDeriv_m'%rx.projField, None)
|
||||
dfT_dm = df_dmFun(src, PTv, adjoint=True)
|
||||
|
||||
# TODO: this should be taken care of by the reciever?
|
||||
if rx.component is 'real':
|
||||
Jtv += np.array(df_dmT, dtype=complex).real
|
||||
elif rx.component is 'imag':
|
||||
Jtv += - np.array(df_dmT, dtype=complex).real
|
||||
du_dmT += dfT_dm
|
||||
|
||||
# TODO: this should be taken care of by the reciever
|
||||
real_or_imag = rx.projComp
|
||||
if real_or_imag is 'real':
|
||||
Jtv += np.array(du_dmT,dtype=complex).real
|
||||
elif real_or_imag is 'imag':
|
||||
Jtv += - np.array(du_dmT,dtype=complex).real
|
||||
else:
|
||||
raise Exception('Must be real or imag')
|
||||
|
||||
|
||||
ATinv.clean()
|
||||
|
||||
return Utils.mkvc(Jtv)
|
||||
@@ -153,31 +170,30 @@ class BaseFDEMProblem(BaseEMProblem):
|
||||
Evaluates the sources for a given frequency and puts them in matrix form
|
||||
|
||||
:param float freq: Frequency
|
||||
:rtype: (numpy.ndarray, numpy.ndarray)
|
||||
:return: s_m, s_e (nE or nF, nSrc)
|
||||
:rtype: (numpy.ndarray, numpy.ndarray)
|
||||
:return: S_m, S_e (nE or nF, nSrc)
|
||||
"""
|
||||
Srcs = self.survey.getSrcByFreq(freq)
|
||||
if self._formulation is 'EB':
|
||||
s_m = np.zeros((self.mesh.nF,len(Srcs)), dtype=complex)
|
||||
s_e = np.zeros((self.mesh.nE,len(Srcs)), dtype=complex)
|
||||
elif self._formulation is 'HJ':
|
||||
s_m = np.zeros((self.mesh.nE,len(Srcs)), dtype=complex)
|
||||
s_e = np.zeros((self.mesh.nF,len(Srcs)), dtype=complex)
|
||||
if self._eqLocs is 'FE':
|
||||
S_m = np.zeros((self.mesh.nF,len(Srcs)), dtype=complex)
|
||||
S_e = np.zeros((self.mesh.nE,len(Srcs)), dtype=complex)
|
||||
elif self._eqLocs is 'EF':
|
||||
S_m = np.zeros((self.mesh.nE,len(Srcs)), dtype=complex)
|
||||
S_e = np.zeros((self.mesh.nF,len(Srcs)), dtype=complex)
|
||||
|
||||
for i, src in enumerate(Srcs):
|
||||
smi, sei = src.eval(self)
|
||||
#Why are you adding?
|
||||
s_m[:,i] = s_m[:,i] + smi
|
||||
s_e[:,i] = s_e[:,i] + sei
|
||||
S_m[:,i] = S_m[:,i] + smi
|
||||
S_e[:,i] = S_e[:,i] + sei
|
||||
|
||||
return s_m, s_e
|
||||
return S_m, S_e
|
||||
|
||||
|
||||
##########################################################################################
|
||||
################################ E-B Formulation #########################################
|
||||
##########################################################################################
|
||||
|
||||
class Problem3D_e(BaseFDEMProblem):
|
||||
class Problem_e(BaseFDEMProblem):
|
||||
"""
|
||||
By eliminating the magnetic flux density using
|
||||
|
||||
@@ -197,9 +213,9 @@ class Problem3D_e(BaseFDEMProblem):
|
||||
:param SimPEG.Mesh mesh: mesh
|
||||
"""
|
||||
|
||||
_solutionType = 'eSolution'
|
||||
_formulation = 'EB'
|
||||
fieldsPair = Fields3D_e
|
||||
_fieldType = 'e'
|
||||
_eqLocs = 'FE'
|
||||
fieldsPair = Fields_e
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseFDEMProblem.__init__(self, mesh, **kwargs)
|
||||
@@ -207,7 +223,7 @@ class Problem3D_e(BaseFDEMProblem):
|
||||
def getA(self, freq):
|
||||
"""
|
||||
System matrix
|
||||
|
||||
|
||||
.. math ::
|
||||
\mathbf{A} = \mathbf{C}^{\\top} \mathbf{M_{\mu^{-1}}^f} \mathbf{C} + i \omega \mathbf{M^e_{\sigma}}
|
||||
|
||||
@@ -223,19 +239,19 @@ class Problem3D_e(BaseFDEMProblem):
|
||||
return C.T*MfMui*C + 1j*omega(freq)*MeSigma
|
||||
|
||||
|
||||
def getADeriv(self, freq, u, v, adjoint=False):
|
||||
def getADeriv_m(self, freq, u, v, adjoint=False):
|
||||
"""
|
||||
Product of the derivative of our system matrix with respect to the model and a vector
|
||||
|
||||
.. math ::
|
||||
\\frac{\mathbf{A}(\mathbf{m}) \mathbf{v}}{d \mathbf{m}} = i \omega \\frac{d \mathbf{M^e_{\sigma}}\mathbf{v} }{d\mathbf{m}}
|
||||
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray u: solution vector (nE,)
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray u: solution vector (nE,)
|
||||
:param numpy.ndarray v: vector to take prodct with (nP,) or (nD,) for adjoint
|
||||
:param bool adjoint: adjoint?
|
||||
:rtype: numpy.ndarray
|
||||
:return: derivative of the system matrix times a vector (nP,) or adjoint (nD,)
|
||||
:return: derivative of the system matrix times a vector (nP,) or adjoint (nD,)
|
||||
"""
|
||||
|
||||
dsig_dm = self.curModel.sigmaDeriv
|
||||
@@ -248,25 +264,25 @@ class Problem3D_e(BaseFDEMProblem):
|
||||
|
||||
def getRHS(self, freq):
|
||||
"""
|
||||
Right hand side for the system
|
||||
Right hand side for the system
|
||||
|
||||
.. math ::
|
||||
\mathbf{RHS} = \mathbf{C}^{\\top} \mathbf{M_{\mu^{-1}}^f}\mathbf{s_m} -i\omega\mathbf{M_e}\mathbf{s_e}
|
||||
|
||||
:param float freq: Frequency
|
||||
:rtype: numpy.ndarray
|
||||
:rtype: numpy.ndarray
|
||||
:return: RHS (nE, nSrc)
|
||||
"""
|
||||
|
||||
s_m, s_e = self.getSourceTerm(freq)
|
||||
S_m, S_e = self.getSourceTerm(freq)
|
||||
C = self.mesh.edgeCurl
|
||||
MfMui = self.MfMui
|
||||
|
||||
return C.T * (MfMui * s_m) -1j * omega(freq) * s_e
|
||||
return C.T * (MfMui * S_m) -1j * omega(freq) * S_e
|
||||
|
||||
def getRHSDeriv(self, freq, src, v, adjoint=False):
|
||||
def getRHSDeriv_m(self, freq, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
Derivative of the right hand side with respect to the model
|
||||
|
||||
:param float freq: frequency
|
||||
:param SimPEG.EM.FDEM.Src src: FDEM source
|
||||
@@ -278,17 +294,17 @@ class Problem3D_e(BaseFDEMProblem):
|
||||
|
||||
C = self.mesh.edgeCurl
|
||||
MfMui = self.MfMui
|
||||
s_mDeriv, s_eDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
S_mDeriv, S_eDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
|
||||
if adjoint:
|
||||
dRHS = MfMui * (C * v)
|
||||
return s_mDeriv(dRHS) - 1j * omega(freq) * s_eDeriv(v)
|
||||
return S_mDeriv(dRHS) - 1j * omega(freq) * S_eDeriv(v)
|
||||
|
||||
else:
|
||||
return C.T * (MfMui * s_mDeriv(v)) -1j * omega(freq) * s_eDeriv(v)
|
||||
return C.T * (MfMui * S_mDeriv(v)) -1j * omega(freq) * S_eDeriv(v)
|
||||
|
||||
|
||||
class Problem3D_b(BaseFDEMProblem):
|
||||
class Problem_b(BaseFDEMProblem):
|
||||
"""
|
||||
We eliminate :math:`\mathbf{e}` using
|
||||
|
||||
@@ -308,9 +324,9 @@ class Problem3D_b(BaseFDEMProblem):
|
||||
:param SimPEG.Mesh mesh: mesh
|
||||
"""
|
||||
|
||||
_solutionType = 'bSolution'
|
||||
_formulation = 'EB'
|
||||
fieldsPair = Fields3D_b
|
||||
_fieldType = 'b'
|
||||
_eqLocs = 'FE'
|
||||
fieldsPair = Fields_b
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseFDEMProblem.__init__(self, mesh, **kwargs)
|
||||
@@ -338,7 +354,7 @@ class Problem3D_b(BaseFDEMProblem):
|
||||
return MfMui.T*A
|
||||
return A
|
||||
|
||||
def getADeriv(self, freq, u, v, adjoint=False):
|
||||
def getADeriv_m(self, freq, u, v, adjoint=False):
|
||||
|
||||
"""
|
||||
Product of the derivative of our system matrix with respect to the model and a vector
|
||||
@@ -346,12 +362,12 @@ class Problem3D_b(BaseFDEMProblem):
|
||||
.. math ::
|
||||
\\frac{\mathbf{A}(\mathbf{m}) \mathbf{v}}{d \mathbf{m}} = \mathbf{C} \\frac{\mathbf{M^e_{\sigma}} \mathbf{v}}{d\mathbf{m}}
|
||||
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray u: solution vector (nF,)
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray u: solution vector (nF,)
|
||||
:param numpy.ndarray v: vector to take prodct with (nP,) or (nD,) for adjoint
|
||||
:param bool adjoint: adjoint?
|
||||
:rtype: numpy.ndarray
|
||||
:return: derivative of the system matrix times a vector (nP,) or adjoint (nD,)
|
||||
:return: derivative of the system matrix times a vector (nP,) or adjoint (nD,)
|
||||
"""
|
||||
|
||||
MfMui = self.MfMui
|
||||
@@ -373,21 +389,21 @@ class Problem3D_b(BaseFDEMProblem):
|
||||
|
||||
def getRHS(self, freq):
|
||||
"""
|
||||
Right hand side for the system
|
||||
Right hand side for the system
|
||||
|
||||
.. math ::
|
||||
\mathbf{RHS} = \mathbf{s_m} + \mathbf{M^e_{\sigma}}^{-1}\mathbf{s_e}
|
||||
|
||||
:param float freq: Frequency
|
||||
:rtype: numpy.ndarray
|
||||
:rtype: numpy.ndarray
|
||||
:return: RHS (nE, nSrc)
|
||||
"""
|
||||
|
||||
s_m, s_e = self.getSourceTerm(freq)
|
||||
S_m, S_e = self.getSourceTerm(freq)
|
||||
C = self.mesh.edgeCurl
|
||||
MeSigmaI = self.MeSigmaI
|
||||
|
||||
RHS = s_m + C * ( MeSigmaI * s_e )
|
||||
RHS = S_m + C * ( MeSigmaI * S_e )
|
||||
|
||||
if self._makeASymmetric is True:
|
||||
MfMui = self.MfMui
|
||||
@@ -395,7 +411,7 @@ class Problem3D_b(BaseFDEMProblem):
|
||||
|
||||
return RHS
|
||||
|
||||
def getRHSDeriv(self, freq, src, v, adjoint=False):
|
||||
def getRHSDeriv_m(self, freq, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
|
||||
@@ -408,21 +424,21 @@ class Problem3D_b(BaseFDEMProblem):
|
||||
"""
|
||||
|
||||
C = self.mesh.edgeCurl
|
||||
s_m, s_e = src.eval(self)
|
||||
S_m, S_e = src.eval(self)
|
||||
MfMui = self.MfMui
|
||||
|
||||
if self._makeASymmetric and adjoint:
|
||||
v = self.MfMui * v
|
||||
|
||||
MeSigmaIDeriv = self.MeSigmaIDeriv(s_e)
|
||||
s_mDeriv, s_eDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
MeSigmaIDeriv = self.MeSigmaIDeriv(S_e)
|
||||
S_mDeriv, S_eDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
|
||||
if not adjoint:
|
||||
RHSderiv = C * (MeSigmaIDeriv * v)
|
||||
SrcDeriv = s_mDeriv(v) + C * (self.MeSigmaI * s_eDeriv(v))
|
||||
SrcDeriv = S_mDeriv(v) + C * (self.MeSigmaI * S_eDeriv(v))
|
||||
elif adjoint:
|
||||
RHSderiv = MeSigmaIDeriv.T * (C.T * v)
|
||||
SrcDeriv = s_mDeriv(v) + self.MeSigmaI.T * (C.T * s_eDeriv(v))
|
||||
SrcDeriv = S_mDeriv(v) + self.MeSigmaI.T * (C.T * S_eDeriv(v))
|
||||
|
||||
if self._makeASymmetric is True and not adjoint:
|
||||
return MfMui.T * (SrcDeriv + RHSderiv)
|
||||
@@ -436,7 +452,7 @@ class Problem3D_b(BaseFDEMProblem):
|
||||
##########################################################################################
|
||||
|
||||
|
||||
class Problem3D_j(BaseFDEMProblem):
|
||||
class Problem_j(BaseFDEMProblem):
|
||||
"""
|
||||
We eliminate \\\(\\\mathbf{h}\\\) using
|
||||
|
||||
@@ -456,9 +472,9 @@ class Problem3D_j(BaseFDEMProblem):
|
||||
:param SimPEG.Mesh mesh: mesh
|
||||
"""
|
||||
|
||||
_solutionType = 'jSolution'
|
||||
_formulation = 'HJ'
|
||||
fieldsPair = Fields3D_j
|
||||
_fieldType = 'j'
|
||||
_eqLocs = 'EF'
|
||||
fieldsPair = Fields_j
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseFDEMProblem.__init__(self, mesh, **kwargs)
|
||||
@@ -487,7 +503,7 @@ class Problem3D_j(BaseFDEMProblem):
|
||||
return A
|
||||
|
||||
|
||||
def getADeriv(self, freq, u, v, adjoint=False):
|
||||
def getADeriv_m(self, freq, u, v, adjoint=False):
|
||||
"""
|
||||
Product of the derivative of our system matrix with respect to the model and a vector
|
||||
|
||||
@@ -497,32 +513,32 @@ class Problem3D_j(BaseFDEMProblem):
|
||||
|
||||
\\frac{\mathbf{A(\sigma)} \mathbf{v}}{d \mathbf{m}} = \mathbf{C} \mathbf{M^e_{mu^{-1}}} \mathbf{C^{\\top}} \\frac{d \mathbf{M^f_{\sigma^{-1}}}\mathbf{v} }{d \mathbf{m}}
|
||||
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray u: solution vector (nF,)
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray u: solution vector (nF,)
|
||||
:param numpy.ndarray v: vector to take prodct with (nP,) or (nD,) for adjoint
|
||||
:param bool adjoint: adjoint?
|
||||
:rtype: numpy.ndarray
|
||||
:return: derivative of the system matrix times a vector (nP,) or adjoint (nD,)
|
||||
:return: derivative of the system matrix times a vector (nP,) or adjoint (nD,)
|
||||
"""
|
||||
|
||||
MeMuI = self.MeMuI
|
||||
MfRho = self.MfRho
|
||||
C = self.mesh.edgeCurl
|
||||
MfRhoDeriv = self.MfRhoDeriv(u)
|
||||
MfRhoDeriv_m = self.MfRhoDeriv(u)
|
||||
|
||||
if adjoint:
|
||||
if self._makeASymmetric is True:
|
||||
v = MfRho * v
|
||||
return MfRhoDeriv.T * (C * (MeMuI.T * (C.T * v)))
|
||||
return MfRhoDeriv_m.T * (C * (MeMuI.T * (C.T * v)))
|
||||
|
||||
if self._makeASymmetric is True:
|
||||
return MfRho.T * (C * ( MeMuI * (C.T * (MfRhoDeriv * v) )))
|
||||
return C * (MeMuI * (C.T * (MfRhoDeriv * v)))
|
||||
return MfRho.T * (C * ( MeMuI * (C.T * (MfRhoDeriv_m * v) )))
|
||||
return C * (MeMuI * (C.T * (MfRhoDeriv_m * v)))
|
||||
|
||||
|
||||
def getRHS(self, freq):
|
||||
"""
|
||||
Right hand side for the system
|
||||
Right hand side for the system
|
||||
|
||||
.. math ::
|
||||
|
||||
@@ -533,20 +549,20 @@ class Problem3D_j(BaseFDEMProblem):
|
||||
:return: RHS
|
||||
"""
|
||||
|
||||
s_m, s_e = self.getSourceTerm(freq)
|
||||
S_m, S_e = self.getSourceTerm(freq)
|
||||
C = self.mesh.edgeCurl
|
||||
MeMuI = self.MeMuI
|
||||
|
||||
RHS = C * (MeMuI * s_m) - 1j * omega(freq) * s_e
|
||||
RHS = C * (MeMuI * S_m) - 1j * omega(freq) * S_e
|
||||
if self._makeASymmetric is True:
|
||||
MfRho = self.MfRho
|
||||
return MfRho.T*RHS
|
||||
|
||||
return RHS
|
||||
|
||||
def getRHSDeriv(self, freq, src, v, adjoint=False):
|
||||
def getRHSDeriv_m(self, freq, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
Derivative of the right hand side with respect to the model
|
||||
|
||||
:param float freq: frequency
|
||||
:param SimPEG.EM.FDEM.Src src: FDEM source
|
||||
@@ -558,16 +574,16 @@ class Problem3D_j(BaseFDEMProblem):
|
||||
|
||||
C = self.mesh.edgeCurl
|
||||
MeMuI = self.MeMuI
|
||||
s_mDeriv, s_eDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
S_mDeriv, S_eDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
|
||||
if adjoint:
|
||||
if self._makeASymmetric:
|
||||
MfRho = self.MfRho
|
||||
v = MfRho*v
|
||||
return s_mDeriv(MeMuI.T * (C.T * v)) - 1j * omega(freq) * s_eDeriv(v)
|
||||
return S_mDeriv(MeMuI.T * (C.T * v)) - 1j * omega(freq) * S_eDeriv(v)
|
||||
|
||||
else:
|
||||
RHSDeriv = C * (MeMuI * s_mDeriv(v)) - 1j * omega(freq) * s_eDeriv(v)
|
||||
RHSDeriv = C * (MeMuI * S_mDeriv(v)) - 1j * omega(freq) * S_eDeriv(v)
|
||||
|
||||
if self._makeASymmetric:
|
||||
MfRho = self.MfRho
|
||||
@@ -577,7 +593,7 @@ class Problem3D_j(BaseFDEMProblem):
|
||||
|
||||
|
||||
|
||||
class Problem3D_h(BaseFDEMProblem):
|
||||
class Problem_h(BaseFDEMProblem):
|
||||
"""
|
||||
We eliminate \\\(\\\mathbf{j}\\\) using
|
||||
|
||||
@@ -594,9 +610,9 @@ class Problem3D_h(BaseFDEMProblem):
|
||||
:param SimPEG.Mesh mesh: mesh
|
||||
"""
|
||||
|
||||
_solutionType = 'hSolution'
|
||||
_formulation = 'HJ'
|
||||
fieldsPair = Fields3D_h
|
||||
_fieldType = 'h'
|
||||
_eqLocs = 'EF'
|
||||
fieldsPair = Fields_h
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseFDEMProblem.__init__(self, mesh, **kwargs)
|
||||
@@ -619,51 +635,51 @@ class Problem3D_h(BaseFDEMProblem):
|
||||
|
||||
return C.T * (MfRho * C) + 1j*omega(freq)*MeMu
|
||||
|
||||
def getADeriv(self, freq, u, v, adjoint=False):
|
||||
def getADeriv_m(self, freq, u, v, adjoint=False):
|
||||
"""
|
||||
Product of the derivative of our system matrix with respect to the model and a vector
|
||||
|
||||
.. math::
|
||||
\\frac{\mathbf{A}(\mathbf{m}) \mathbf{v}}{d \mathbf{m}} = \mathbf{C}^{\\top}\\frac{d \mathbf{M^f_{\\rho}}\mathbf{v} }{d\mathbf{m}}
|
||||
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray u: solution vector (nE,)
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray u: solution vector (nE,)
|
||||
:param numpy.ndarray v: vector to take prodct with (nP,) or (nD,) for adjoint
|
||||
:param bool adjoint: adjoint?
|
||||
:rtype: numpy.ndarray
|
||||
:return: derivative of the system matrix times a vector (nP,) or adjoint (nD,)
|
||||
:return: derivative of the system matrix times a vector (nP,) or adjoint (nD,)
|
||||
"""
|
||||
|
||||
MeMu = self.MeMu
|
||||
C = self.mesh.edgeCurl
|
||||
MfRhoDeriv = self.MfRhoDeriv(C*u)
|
||||
MfRhoDeriv_m = self.MfRhoDeriv(C*u)
|
||||
|
||||
if adjoint:
|
||||
return MfRhoDeriv.T * (C * v)
|
||||
return C.T * (MfRhoDeriv * v)
|
||||
return MfRhoDeriv_m.T * (C * v)
|
||||
return C.T * (MfRhoDeriv_m * v)
|
||||
|
||||
def getRHS(self, freq):
|
||||
"""
|
||||
Right hand side for the system
|
||||
Right hand side for the system
|
||||
|
||||
.. math ::
|
||||
|
||||
\mathbf{RHS} = \mathbf{M^e} \mathbf{s_m} + \mathbf{C}^{\\top} \mathbf{M_{\\rho}^f} \mathbf{s_e}
|
||||
|
||||
:param float freq: Frequency
|
||||
:rtype: numpy.ndarray
|
||||
:rtype: numpy.ndarray
|
||||
:return: RHS (nE, nSrc)
|
||||
"""
|
||||
|
||||
s_m, s_e = self.getSourceTerm(freq)
|
||||
S_m, S_e = self.getSourceTerm(freq)
|
||||
C = self.mesh.edgeCurl
|
||||
MfRho = self.MfRho
|
||||
|
||||
return s_m + C.T * ( MfRho * s_e )
|
||||
return S_m + C.T * ( MfRho * S_e )
|
||||
|
||||
def getRHSDeriv(self, freq, src, v, adjoint=False):
|
||||
def getRHSDeriv_m(self, freq, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
Derivative of the right hand side with respect to the model
|
||||
|
||||
:param float freq: frequency
|
||||
:param SimPEG.EM.FDEM.Src src: FDEM source
|
||||
@@ -673,17 +689,17 @@ class Problem3D_h(BaseFDEMProblem):
|
||||
:return: product of rhs deriv with a vector
|
||||
"""
|
||||
|
||||
_, s_e = src.eval(self)
|
||||
_, S_e = src.eval(self)
|
||||
C = self.mesh.edgeCurl
|
||||
MfRho = self.MfRho
|
||||
|
||||
MfRhoDeriv = self.MfRhoDeriv(s_e)
|
||||
MfRhoDeriv = self.MfRhoDeriv(S_e)
|
||||
if not adjoint:
|
||||
RHSDeriv = C.T * (MfRhoDeriv * v)
|
||||
elif adjoint:
|
||||
RHSDeriv = MfRhoDeriv.T * (C * v)
|
||||
|
||||
s_mDeriv, s_eDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
S_mDeriv, S_eDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
|
||||
return RHSDeriv + s_mDeriv(v) + C.T * (MfRho * s_eDeriv(v))
|
||||
return RHSDeriv + S_mDeriv(v) + C.T * (MfRho * S_eDeriv(v))
|
||||
|
||||
+350
-766
File diff suppressed because it is too large
Load Diff
@@ -1,139 +0,0 @@
|
||||
import SimPEG
|
||||
from SimPEG import sp
|
||||
|
||||
class BaseRx(SimPEG.Survey.BaseRx):
|
||||
"""
|
||||
Frequency domain receiver base class
|
||||
|
||||
:param numpy.ndarray locs: receiver locations (ie. :code:`np.r_[x,y,z]`)
|
||||
:param string orientation: receiver orientation 'x', 'y' or 'z'
|
||||
:param string component: real or imaginary component 'real' or 'imag'
|
||||
"""
|
||||
|
||||
def __init__(self, locs, orientation=None, component=None):
|
||||
assert(orientation in ['x','y','z']), "Orientation %s not known. Orientation must be in 'x', 'y', 'z'. Arbitrary orientations have not yet been implemented."%orientation
|
||||
assert(component in ['real', 'imag']), "'component' must be 'real' or 'imag', not %s"%component
|
||||
|
||||
self.projComp = orientation
|
||||
self.component = component
|
||||
|
||||
SimPEG.Survey.BaseRx.__init__(self, locs, rxType=None) #TODO: remove rxType from baseRx
|
||||
|
||||
def projGLoc(self, u):
|
||||
"""Grid Location projection (e.g. Ex Fy ...)"""
|
||||
return u._GLoc(self.projField) + self.projComp
|
||||
|
||||
def eval(self, src, mesh, f):
|
||||
"""
|
||||
Project fields to recievers to get data.
|
||||
|
||||
:param Source src: FDEM source
|
||||
:param Mesh mesh: mesh used
|
||||
:param Fields f: fields object
|
||||
:rtype: numpy.ndarray
|
||||
:return: fields projected to recievers
|
||||
"""
|
||||
|
||||
P = self.getP(mesh, self.projGLoc(f))
|
||||
f_part_complex = f[src, self.projField]
|
||||
f_part = getattr(f_part_complex, self.component) # get the real or imag component
|
||||
|
||||
return P*f_part
|
||||
|
||||
def evalDeriv(self, src, mesh, f, v, adjoint=False):
|
||||
"""
|
||||
Derivative of projected fields with respect to the inversion model times a vector.
|
||||
|
||||
:param Source src: FDEM source
|
||||
:param Mesh mesh: mesh used
|
||||
:param Fields f: fields object
|
||||
:param numpy.ndarray v: vector to multiply
|
||||
:rtype: numpy.ndarray
|
||||
:return: fields projected to recievers
|
||||
"""
|
||||
|
||||
P = self.getP(mesh, self.projGLoc(f))
|
||||
|
||||
if not adjoint:
|
||||
Pv_complex = P * v
|
||||
Pv = getattr(Pv_complex, self.component)
|
||||
elif adjoint:
|
||||
Pv_real = P.T * v
|
||||
|
||||
if self.component == 'imag':
|
||||
Pv = 1j*Pv_real
|
||||
elif self.component == 'real':
|
||||
Pv = Pv_real.astype(complex)
|
||||
else:
|
||||
raise NotImplementedError('must be real or imag')
|
||||
|
||||
return Pv
|
||||
|
||||
|
||||
class Point_e(BaseRx):
|
||||
"""
|
||||
Electric field FDEM receiver
|
||||
|
||||
:param numpy.ndarray locs: receiver locations (ie. :code:`np.r_[x,y,z]`)
|
||||
:param string orientation: receiver orientation 'x', 'y' or 'z'
|
||||
:param string component: real or imaginary component 'real' or 'imag'
|
||||
"""
|
||||
|
||||
def __init__(self, locs, orientation=None, component=None):
|
||||
self.projField = 'e'
|
||||
super(Point_e, self).__init__(locs, orientation, component)
|
||||
|
||||
|
||||
class Point_b(BaseRx):
|
||||
"""
|
||||
Magnetic flux FDEM receiver
|
||||
|
||||
:param numpy.ndarray locs: receiver locations (ie. :code:`np.r_[x,y,z]`)
|
||||
:param string orientation: receiver orientation 'x', 'y' or 'z'
|
||||
:param string component: real or imaginary component 'real' or 'imag'
|
||||
"""
|
||||
|
||||
def __init__(self, locs, orientation=None, component=None):
|
||||
self.projField = 'b'
|
||||
super(Point_b, self).__init__(locs, orientation, component)
|
||||
|
||||
class Point_bSecondary(BaseRx):
|
||||
"""
|
||||
Magnetic flux FDEM receiver
|
||||
|
||||
:param numpy.ndarray locs: receiver locations (ie. :code:`np.r_[x,y,z]`)
|
||||
:param string orientation: receiver orientation 'x', 'y' or 'z'
|
||||
:param string component: real or imaginary component 'real' or 'imag'
|
||||
"""
|
||||
|
||||
def __init__(self, locs, orientation=None, component=None):
|
||||
self.projField = 'bSecondary'
|
||||
super(Point_bSecondary, self).__init__(locs, orientation, component)
|
||||
|
||||
|
||||
class Point_h(BaseRx):
|
||||
"""
|
||||
Magnetic field FDEM receiver
|
||||
|
||||
:param numpy.ndarray locs: receiver locations (ie. :code:`np.r_[x,y,z]`)
|
||||
:param string orientation: receiver orientation 'x', 'y' or 'z'
|
||||
:param string component: real or imaginary component 'real' or 'imag'
|
||||
"""
|
||||
|
||||
def __init__(self, locs, orientation=None, component=None):
|
||||
self.projField = 'h'
|
||||
super(Point_h, self).__init__(locs, orientation, component)
|
||||
|
||||
|
||||
class Point_j(BaseRx):
|
||||
"""
|
||||
Current density FDEM receiver
|
||||
|
||||
:param numpy.ndarray locs: receiver locations (ie. :code:`np.r_[x,y,z]`)
|
||||
:param string orientation: receiver orientation 'x', 'y' or 'z'
|
||||
:param string component: real or imaginary component 'real' or 'imag'
|
||||
"""
|
||||
|
||||
def __init__(self, locs, orientation=None, component=None):
|
||||
self.projField = 'j'
|
||||
super(Point_j, self).__init__(locs, orientation, component)
|
||||
+126
-173
@@ -1,7 +1,7 @@
|
||||
from SimPEG import Survey, Problem, Utils, np, sp
|
||||
from scipy.constants import mu_0
|
||||
from SimPEG.EM.Utils import *
|
||||
from SimPEG.Utils import Zero
|
||||
from SimPEG.Utils import Zero
|
||||
|
||||
class BaseSrc(Survey.BaseSrc):
|
||||
"""
|
||||
@@ -9,44 +9,39 @@ class BaseSrc(Survey.BaseSrc):
|
||||
"""
|
||||
|
||||
freq = None
|
||||
integrate = False
|
||||
_ePrimary = None
|
||||
_bPrimary = None
|
||||
_hPrimary = None
|
||||
_jPrimary = None
|
||||
|
||||
def __init__(self, rxList, **kwargs):
|
||||
Survey.BaseSrc.__init__(self, rxList, **kwargs)
|
||||
# rxPair = RxFDEM
|
||||
integrate = True
|
||||
|
||||
def eval(self, prob):
|
||||
"""
|
||||
- :math:`s_m` : magnetic source term
|
||||
- :math:`s_e` : electric source term
|
||||
Evaluate the source terms.
|
||||
- :math:`S_m` : magnetic source term
|
||||
- :math:`S_e` : electric source term
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: (numpy.ndarray, numpy.ndarray)
|
||||
:return: tuple with magnetic source term and electric source term
|
||||
"""
|
||||
s_m = self.s_m(prob)
|
||||
s_e = self.s_e(prob)
|
||||
return s_m, s_e
|
||||
S_m = self.S_m(prob)
|
||||
S_e = self.S_e(prob)
|
||||
return S_m, S_e
|
||||
|
||||
def evalDeriv(self, prob, v=None, adjoint=False):
|
||||
"""
|
||||
Derivatives of the source terms with respect to the inversion model
|
||||
- :code:`s_mDeriv` : derivative of the magnetic source term
|
||||
- :code:`s_eDeriv` : derivative of the electric source term
|
||||
- :code:`S_mDeriv` : derivative of the magnetic source term
|
||||
- :code:`S_eDeriv` : derivative of the electric source term
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:param numpy.ndarray v: vector to take product with
|
||||
:param bool adjoint: adjoint?
|
||||
:rtype: (numpy.ndarray, numpy.ndarray)
|
||||
:return: tuple with magnetic source term and electric source term derivatives times a vector
|
||||
:return: tuple with magnetic source term and electric source term derivatives times a vector
|
||||
"""
|
||||
if v is not None:
|
||||
return self.s_mDeriv(prob, v, adjoint), self.s_eDeriv(prob, v, adjoint)
|
||||
if v is not None:
|
||||
return self.S_mDeriv(prob,v,adjoint), self.S_eDeriv(prob,v,adjoint)
|
||||
else:
|
||||
return lambda v: self.s_mDeriv(prob, v, adjoint), lambda v: self.s_eDeriv(prob, v, adjoint)
|
||||
return lambda v: self.S_mDeriv(prob,v,adjoint), lambda v: self.S_eDeriv(prob,v,adjoint)
|
||||
|
||||
def bPrimary(self, prob):
|
||||
"""
|
||||
@@ -54,11 +49,9 @@ class BaseSrc(Survey.BaseSrc):
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic flux density
|
||||
:return: primary magnetic flux density
|
||||
"""
|
||||
if self._bPrimary is None:
|
||||
return Zero()
|
||||
return self._bPrimary
|
||||
return Zero()
|
||||
|
||||
def hPrimary(self, prob):
|
||||
"""
|
||||
@@ -66,11 +59,9 @@ class BaseSrc(Survey.BaseSrc):
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
if self._hPrimary is None:
|
||||
return Zero()
|
||||
return self._hPrimary
|
||||
return Zero()
|
||||
|
||||
def ePrimary(self, prob):
|
||||
"""
|
||||
@@ -78,11 +69,9 @@ class BaseSrc(Survey.BaseSrc):
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary electric field
|
||||
:return: primary electric field
|
||||
"""
|
||||
if self._ePrimary is None:
|
||||
return Zero()
|
||||
return self._ePrimary
|
||||
return Zero()
|
||||
|
||||
def jPrimary(self, prob):
|
||||
"""
|
||||
@@ -90,15 +79,13 @@ class BaseSrc(Survey.BaseSrc):
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary current density
|
||||
:return: primary current density
|
||||
"""
|
||||
if self._jPrimary is None:
|
||||
return Zero()
|
||||
return self._jPrimary
|
||||
return Zero()
|
||||
|
||||
def s_m(self, prob):
|
||||
def S_m(self, prob):
|
||||
"""
|
||||
Magnetic source term
|
||||
Magnetic source term
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: numpy.ndarray
|
||||
@@ -106,9 +93,9 @@ class BaseSrc(Survey.BaseSrc):
|
||||
"""
|
||||
return Zero()
|
||||
|
||||
def s_e(self, prob):
|
||||
def S_e(self, prob):
|
||||
"""
|
||||
Electric source term
|
||||
Electric source term
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: numpy.ndarray
|
||||
@@ -116,7 +103,7 @@ class BaseSrc(Survey.BaseSrc):
|
||||
"""
|
||||
return Zero()
|
||||
|
||||
def s_mDeriv(self, prob, v, adjoint = False):
|
||||
def S_mDeriv(self, prob, v, adjoint = False):
|
||||
"""
|
||||
Derivative of magnetic source term with respect to the inversion model
|
||||
|
||||
@@ -129,7 +116,7 @@ class BaseSrc(Survey.BaseSrc):
|
||||
|
||||
return Zero()
|
||||
|
||||
def s_eDeriv(self, prob, v, adjoint = False):
|
||||
def S_eDeriv(self, prob, v, adjoint = False):
|
||||
"""
|
||||
Derivative of electric source term with respect to the inversion model
|
||||
|
||||
@@ -144,114 +131,88 @@ class BaseSrc(Survey.BaseSrc):
|
||||
|
||||
class RawVec_e(BaseSrc):
|
||||
"""
|
||||
RawVec electric source. It is defined by the user provided vector s_e
|
||||
RawVec electric source. It is defined by the user provided vector S_e
|
||||
|
||||
:param list rxList: receiver list
|
||||
:param float freq: frequency
|
||||
:param numpy.array s_e: electric source term
|
||||
:param bool integrate: Integrate the source term (multiply by Me) [False]
|
||||
:param numpy.array S_e: electric source term
|
||||
"""
|
||||
|
||||
def __init__(self, rxList, freq, s_e, **kwargs):
|
||||
self._s_e = np.array(s_e, dtype=complex)
|
||||
def __init__(self, rxList, freq, S_e): #, ePrimary=None, bPrimary=None, hPrimary=None, jPrimary=None):
|
||||
self._S_e = np.array(S_e,dtype=complex)
|
||||
self.freq = float(freq)
|
||||
BaseSrc.__init__(self, rxList)
|
||||
|
||||
BaseSrc.__init__(self, rxList, **kwargs)
|
||||
def S_e(self, prob):
|
||||
|
||||
def s_e(self, prob):
|
||||
"""
|
||||
Electric source term
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: electric source term on mesh
|
||||
"""
|
||||
if prob._formulation is 'EB' and self.integrate is True:
|
||||
return prob.Me * self._s_e
|
||||
return self._s_e
|
||||
return self._S_e
|
||||
|
||||
|
||||
class RawVec_m(BaseSrc):
|
||||
"""
|
||||
RawVec magnetic source. It is defined by the user provided vector s_m
|
||||
RawVec magnetic source. It is defined by the user provided vector S_m
|
||||
|
||||
:param float freq: frequency
|
||||
:param rxList: receiver list
|
||||
:param numpy.array s_m: magnetic source term
|
||||
:param bool integrate: Integrate the source term (multiply by Me) [False]
|
||||
:param numpy.array S_m: magnetic source term
|
||||
"""
|
||||
|
||||
def __init__(self, rxList, freq, s_m, **kwargs): #ePrimary=Zero(), bPrimary=Zero(), hPrimary=Zero(), jPrimary=Zero()):
|
||||
self._s_m = np.array(s_m, dtype=complex)
|
||||
def __init__(self, rxList, freq, S_m, integrate = True): #ePrimary=Zero(), bPrimary=Zero(), hPrimary=Zero(), jPrimary=Zero()):
|
||||
self._S_m = np.array(S_m,dtype=complex)
|
||||
self.freq = float(freq)
|
||||
self.integrate = integrate
|
||||
|
||||
BaseSrc.__init__(self, rxList, **kwargs)
|
||||
BaseSrc.__init__(self, rxList)
|
||||
|
||||
def s_m(self, prob):
|
||||
def S_m(self, prob):
|
||||
"""
|
||||
Magnetic source term
|
||||
Magnetic source term
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: magnetic source term on mesh
|
||||
"""
|
||||
if prob._formulation is 'HJ' and self.integrate is True:
|
||||
return prob.Me * self._s_m
|
||||
return self._s_m
|
||||
return self._S_m
|
||||
|
||||
|
||||
class RawVec(BaseSrc):
|
||||
"""
|
||||
RawVec source. It is defined by the user provided vectors s_m, s_e
|
||||
RawVec source. It is defined by the user provided vectors S_m, S_e
|
||||
|
||||
:param rxList: receiver list
|
||||
:param float freq: frequency
|
||||
:param numpy.array s_m: magnetic source term
|
||||
:param numpy.array s_e: electric source term
|
||||
:param bool integrate: Integrate the source term (multiply by Me) [False]
|
||||
:param numpy.array S_m: magnetic source term
|
||||
:param numpy.array S_e: electric source term
|
||||
"""
|
||||
def __init__(self, rxList, freq, s_m, s_e, **kwargs):
|
||||
self._s_m = np.array(s_m, dtype=complex)
|
||||
self._s_e = np.array(s_e, dtype=complex)
|
||||
def __init__(self, rxList, freq, S_m, S_e, integrate = True):
|
||||
self._S_m = np.array(S_m,dtype=complex)
|
||||
self._S_e = np.array(S_e,dtype=complex)
|
||||
self.freq = float(freq)
|
||||
BaseSrc.__init__(self, rxList, **kwargs)
|
||||
self.integrate = integrate
|
||||
BaseSrc.__init__(self, rxList)
|
||||
|
||||
def s_m(self, prob):
|
||||
"""
|
||||
Magnetic source term
|
||||
def S_m(self, prob):
|
||||
if prob._eqLocs is 'EF' and self.integrate is True:
|
||||
return prob.Me * self._S_m
|
||||
return self._S_m
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: magnetic source term on mesh
|
||||
"""
|
||||
if prob._formulation is 'HJ' and self.integrate is True:
|
||||
return prob.Me * self._s_m
|
||||
return self._s_m
|
||||
|
||||
def s_e(self, prob):
|
||||
"""
|
||||
Electric source term
|
||||
|
||||
:param Problem prob: FDEM Problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: electric source term on mesh
|
||||
"""
|
||||
if prob._formulation is 'EB' and self.integrate is True:
|
||||
return prob.Me * self._s_e
|
||||
return self._s_e
|
||||
def S_e(self, prob):
|
||||
if prob._eqLocs is 'FE' and self.integrate is True:
|
||||
return prob.Me * self._S_e
|
||||
return self._S_e
|
||||
|
||||
|
||||
class MagDipole(BaseSrc):
|
||||
"""
|
||||
"""
|
||||
Point magnetic dipole source calculated by taking the curl of a magnetic
|
||||
vector potential. By taking the discrete curl, we ensure that the magnetic
|
||||
flux density is divergence free (no magnetic monopoles!).
|
||||
flux density is divergence free (no magnetic monopoles!).
|
||||
|
||||
This approach uses a primary-secondary in frequency. Here we show the
|
||||
derivation for E-B formulation noting that similar steps are followed for
|
||||
the H-J formulation.
|
||||
|
||||
.. math::
|
||||
.. math::
|
||||
\mathbf{C} \mathbf{e} + i \omega \mathbf{b} = \mathbf{s_m} \\\\
|
||||
{\mathbf{C}^T \mathbf{M_{\mu^{-1}}^f} \mathbf{b} - \mathbf{M_{\sigma}^e} \mathbf{e} = \mathbf{s_e}}
|
||||
|
||||
@@ -264,17 +225,17 @@ class MagDipole(BaseSrc):
|
||||
and define a zero-frequency primary problem, noting that the source is
|
||||
generated by a divergence free electric current
|
||||
|
||||
.. math::
|
||||
.. math::
|
||||
\mathbf{C} \mathbf{e^P} = \mathbf{s_m^P} = 0 \\\\
|
||||
{\mathbf{C}^T \mathbf{{M_{\mu^{-1}}^f}^P} \mathbf{b^P} - \mathbf{M_{\sigma}^e} \mathbf{e^P} = \mathbf{M^e} \mathbf{s_e^P}}
|
||||
|
||||
Since :math:`\mathbf{e^P}` is curl-free, divergence-free, we assume that there is no constant field background, the :math:`\mathbf{e^P} = 0`, so our primary problem is
|
||||
Since :math:`\mathbf{e^P}` is curl-free, divergence-free, we assume that there is no constant field background, the :math:`\mathbf{e^P} = 0`, so our primary problem is
|
||||
|
||||
.. math::
|
||||
.. math::
|
||||
\mathbf{e^P} = 0 \\\\
|
||||
{\mathbf{C}^T \mathbf{{M_{\mu^{-1}}^f}^P} \mathbf{b^P} = \mathbf{s_e^P}}
|
||||
|
||||
Our secondary problem is then
|
||||
Our secondary problem is then
|
||||
|
||||
.. math::
|
||||
\mathbf{C} \mathbf{e^S} + i \omega \mathbf{b^S} = - i \omega \mathbf{b^P} \\\\
|
||||
@@ -284,17 +245,18 @@ class MagDipole(BaseSrc):
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray loc: source location (ie: :code:`np.r_[xloc,yloc,zloc]`)
|
||||
:param string orientation: 'X', 'Y', 'Z'
|
||||
:param float moment: magnetic dipole moment
|
||||
:param float mu: background magnetic permeability
|
||||
:param float moment: magnetic dipole moment
|
||||
:param float mu: background magnetic permeability
|
||||
"""
|
||||
|
||||
def __init__(self, rxList, freq, loc, orientation='Z', moment=1., mu=mu_0, **kwargs):
|
||||
#TODO: right now, orientation doesn't actually do anything! The methods in SrcUtils should take care of that
|
||||
def __init__(self, rxList, freq, loc, orientation='Z', moment=1., mu = mu_0):
|
||||
self.freq = float(freq)
|
||||
self.loc = loc
|
||||
self.orientation = orientation
|
||||
assert orientation in ['X','Y','Z'], "Orientation (right now) doesn't actually do anything! The methods in SrcUtils should take care of this..."
|
||||
self.moment = moment
|
||||
self.mu = mu
|
||||
self.integrate = False
|
||||
BaseSrc.__init__(self, rxList)
|
||||
|
||||
def bPrimary(self, prob):
|
||||
@@ -303,17 +265,17 @@ class MagDipole(BaseSrc):
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
formulation = prob._formulation
|
||||
eqLocs = prob._eqLocs
|
||||
|
||||
if formulation is 'EB':
|
||||
if eqLocs is 'FE':
|
||||
gridX = prob.mesh.gridEx
|
||||
gridY = prob.mesh.gridEy
|
||||
gridZ = prob.mesh.gridEz
|
||||
C = prob.mesh.edgeCurl
|
||||
|
||||
elif formulation is 'HJ':
|
||||
elif eqLocs is 'EF':
|
||||
gridX = prob.mesh.gridFx
|
||||
gridY = prob.mesh.gridFy
|
||||
gridZ = prob.mesh.gridFz
|
||||
@@ -341,46 +303,44 @@ class MagDipole(BaseSrc):
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
b = self.bPrimary(prob)
|
||||
return 1./self.mu * b
|
||||
return h_from_b(prob,b)
|
||||
|
||||
def s_m(self, prob):
|
||||
def S_m(self, prob):
|
||||
"""
|
||||
The magnetic source term
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
|
||||
b_p = self.bPrimary(prob)
|
||||
if prob._formulation is 'HJ':
|
||||
b_p = prob.Me * b_p
|
||||
return -1j*omega(self.freq)*b_p
|
||||
|
||||
def s_e(self, prob):
|
||||
def S_e(self, prob):
|
||||
"""
|
||||
The electric source term
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
|
||||
if all(np.r_[self.mu] == np.r_[prob.curModel.mu]):
|
||||
return Zero()
|
||||
else:
|
||||
formulation = prob._formulation
|
||||
eqLocs = prob._eqLocs
|
||||
|
||||
if formulation is 'EB':
|
||||
if eqLocs is 'FE':
|
||||
mui_s = prob.curModel.mui - 1./self.mu
|
||||
MMui_s = prob.mesh.getFaceInnerProduct(mui_s)
|
||||
C = prob.mesh.edgeCurl
|
||||
elif formulation is 'HJ':
|
||||
elif eqLocs is 'EF':
|
||||
mu_s = prob.curModel.mu - self.mu
|
||||
MMui_s = prob.mesh.getEdgeInnerProduct(mu_s, invMat=True)
|
||||
MMui_s = prob.mesh.getEdgeInnerProduct(mu_s,invMat=True)
|
||||
C = prob.mesh.edgeCurl.T
|
||||
|
||||
return -C.T * (MMui_s * self.bPrimary(prob))
|
||||
@@ -393,20 +353,21 @@ class MagDipole_Bfield(BaseSrc):
|
||||
fields from a magnetic dipole. No discrete curl is taken, so the magnetic
|
||||
flux density may not be strictly divergence free.
|
||||
|
||||
This approach uses a primary-secondary in frequency in the same fashion as the MagDipole.
|
||||
This approach uses a primary-secondary in frequency in the same fashion as the MagDipole.
|
||||
|
||||
:param list rxList: receiver list
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray loc: source location (ie: :code:`np.r_[xloc,yloc,zloc]`)
|
||||
:param string orientation: 'X', 'Y', 'Z'
|
||||
:param float moment: magnetic dipole moment
|
||||
:param float mu: background magnetic permeability
|
||||
:param float moment: magnetic dipole moment
|
||||
:param float mu: background magnetic permeability
|
||||
"""
|
||||
|
||||
#TODO: right now, orientation doesn't actually do anything! The methods in SrcUtils should take care of that
|
||||
#TODO: neither does moment
|
||||
def __init__(self, rxList, freq, loc, orientation='Z', moment=1., mu = mu_0):
|
||||
self.freq = float(freq)
|
||||
self.loc = loc
|
||||
assert orientation in ['X','Y','Z'], "Orientation (right now) doesn't actually do anything! The methods in SrcUtils should take care of this..."
|
||||
self.orientation = orientation
|
||||
self.moment = moment
|
||||
self.mu = mu
|
||||
@@ -418,18 +379,18 @@ class MagDipole_Bfield(BaseSrc):
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
|
||||
formulation = prob._formulation
|
||||
eqLocs = prob._eqLocs
|
||||
|
||||
if formulation is 'EB':
|
||||
if eqLocs is 'FE':
|
||||
gridX = prob.mesh.gridFx
|
||||
gridY = prob.mesh.gridFy
|
||||
gridZ = prob.mesh.gridFz
|
||||
C = prob.mesh.edgeCurl
|
||||
|
||||
elif formulation is 'HJ':
|
||||
elif eqLocs is 'EF':
|
||||
gridX = prob.mesh.gridEx
|
||||
gridY = prob.mesh.gridEy
|
||||
gridZ = prob.mesh.gridEz
|
||||
@@ -457,44 +418,42 @@ class MagDipole_Bfield(BaseSrc):
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
b = self.bPrimary(prob)
|
||||
return 1/self.mu * b
|
||||
return h_from_b(prob, b)
|
||||
|
||||
def s_m(self, prob):
|
||||
def S_m(self, prob):
|
||||
"""
|
||||
The magnetic source term
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
b = self.bPrimary(prob)
|
||||
if prob._formulation is 'HJ':
|
||||
b = prob.Me * b
|
||||
return -1j*omega(self.freq)*b
|
||||
|
||||
def s_e(self, prob):
|
||||
def S_e(self, prob):
|
||||
"""
|
||||
The electric source term
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
if all(np.r_[self.mu] == np.r_[prob.curModel.mu]):
|
||||
return Zero()
|
||||
else:
|
||||
formulation = prob._formulation
|
||||
eqLocs = prob._eqLocs
|
||||
|
||||
if formulation is 'EB':
|
||||
if eqLocs is 'FE':
|
||||
mui_s = prob.curModel.mui - 1./self.mu
|
||||
MMui_s = prob.mesh.getFaceInnerProduct(mui_s)
|
||||
C = prob.mesh.edgeCurl
|
||||
elif formulation is 'HJ':
|
||||
elif eqLocs is 'EF':
|
||||
mu_s = prob.curModel.mu - self.mu
|
||||
MMui_s = prob.mesh.getEdgeInnerProduct(mu_s, invMat=True)
|
||||
MMui_s = prob.mesh.getEdgeInnerProduct(mu_s,invMat=True)
|
||||
C = prob.mesh.edgeCurl.T
|
||||
|
||||
return -C.T * (MMui_s * self.bPrimary(prob))
|
||||
@@ -504,22 +463,22 @@ class CircularLoop(BaseSrc):
|
||||
"""
|
||||
Circular loop magnetic source calculated by taking the curl of a magnetic
|
||||
vector potential. By taking the discrete curl, we ensure that the magnetic
|
||||
flux density is divergence free (no magnetic monopoles!).
|
||||
flux density is divergence free (no magnetic monopoles!).
|
||||
|
||||
This approach uses a primary-secondary in frequency in the same fashion as the MagDipole.
|
||||
This approach uses a primary-secondary in frequency in the same fashion as the MagDipole.
|
||||
|
||||
:param list rxList: receiver list
|
||||
:param float freq: frequency
|
||||
:param numpy.ndarray loc: source location (ie: :code:`np.r_[xloc,yloc,zloc]`)
|
||||
:param string orientation: 'X', 'Y', 'Z'
|
||||
:param float moment: magnetic dipole moment
|
||||
:param float mu: background magnetic permeability
|
||||
:param float moment: magnetic dipole moment
|
||||
:param float mu: background magnetic permeability
|
||||
"""
|
||||
|
||||
def __init__(self, rxList, freq, loc, orientation='Z', radius=1., mu=mu_0):
|
||||
#TODO: right now, orientation doesn't actually do anything! The methods in SrcUtils should take care of that
|
||||
def __init__(self, rxList, freq, loc, orientation='Z', radius = 1., mu=mu_0):
|
||||
self.freq = float(freq)
|
||||
self.orientation = orientation
|
||||
assert orientation in ['X','Y','Z'], "Orientation (right now) doesn't actually do anything! The methods in SrcUtils should take care of this..."
|
||||
self.radius = radius
|
||||
self.mu = mu
|
||||
self.loc = loc
|
||||
@@ -532,17 +491,17 @@ class CircularLoop(BaseSrc):
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
formulation = prob._formulation
|
||||
eqLocs = prob._eqLocs
|
||||
|
||||
if formulation is 'EB':
|
||||
if eqLocs is 'FE':
|
||||
gridX = prob.mesh.gridEx
|
||||
gridY = prob.mesh.gridEy
|
||||
gridZ = prob.mesh.gridEz
|
||||
C = prob.mesh.edgeCurl
|
||||
|
||||
elif formulation is 'HJ':
|
||||
elif eqLocs is 'EF':
|
||||
gridX = prob.mesh.gridFx
|
||||
gridY = prob.mesh.gridFy
|
||||
gridZ = prob.mesh.gridFz
|
||||
@@ -552,7 +511,7 @@ class CircularLoop(BaseSrc):
|
||||
if not prob.mesh.isSymmetric:
|
||||
# TODO ?
|
||||
raise NotImplementedError('Non-symmetric cyl mesh not implemented yet!')
|
||||
a = MagneticLoopVectorPotential(self.loc, gridY, 'y', moment=self.radius, mu=self.mu)
|
||||
a = MagneticDipoleVectorPotential(self.loc, gridY, 'y', moment=self.radius, mu=self.mu)
|
||||
|
||||
else:
|
||||
srcfct = MagneticDipoleVectorPotential
|
||||
@@ -569,50 +528,44 @@ class CircularLoop(BaseSrc):
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
b = self.bPrimary(prob)
|
||||
return 1./self.mu*b
|
||||
|
||||
def s_m(self, prob):
|
||||
def S_m(self, prob):
|
||||
"""
|
||||
The magnetic source term
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
b = self.bPrimary(prob)
|
||||
if prob._formulation is 'HJ':
|
||||
b = prob.Me * b
|
||||
return -1j*omega(self.freq)*b
|
||||
|
||||
def s_e(self, prob):
|
||||
def S_e(self, prob):
|
||||
"""
|
||||
The electric source term
|
||||
|
||||
:param Problem prob: FDEM problem
|
||||
:rtype: numpy.ndarray
|
||||
:return: primary magnetic field
|
||||
:return: primary magnetic field
|
||||
"""
|
||||
if all(np.r_[self.mu] == np.r_[prob.curModel.mu]):
|
||||
return Zero()
|
||||
else:
|
||||
formulation = prob._formulation
|
||||
eqLocs = prob._eqLocs
|
||||
|
||||
if formulation is 'EB':
|
||||
if eqLocs is 'FE':
|
||||
mui_s = prob.curModel.mui - 1./self.mu
|
||||
MMui_s = prob.mesh.getFaceInnerProduct(mui_s)
|
||||
C = prob.mesh.edgeCurl
|
||||
|
||||
|
||||
elif formulation is 'HJ':
|
||||
elif eqLocs is 'EF':
|
||||
mu_s = prob.curModel.mu - self.mu
|
||||
MMui_s = prob.mesh.getEdgeInnerProduct(mu_s, invMat=True)
|
||||
MMui_s = prob.mesh.getEdgeInnerProduct(mu_s,invMat=True)
|
||||
C = prob.mesh.edgeCurl.T
|
||||
|
||||
return -C.T * (MMui_s * self.bPrimary(prob))
|
||||
|
||||
|
||||
|
||||
|
||||
|
||||
@@ -1,13 +1,124 @@
|
||||
import SimPEG
|
||||
from SimPEG.EM.Utils import *
|
||||
from SimPEG.EM.Base import BaseEMSurvey
|
||||
from scipy.constants import mu_0
|
||||
from SimPEG.Utils import Zero, Identity
|
||||
import SrcFDEM as Src
|
||||
import RxFDEM as Rx
|
||||
from SimPEG import sp
|
||||
|
||||
class Survey(BaseEMSurvey):
|
||||
|
||||
####################################################
|
||||
# Receivers
|
||||
####################################################
|
||||
|
||||
class Rx(SimPEG.Survey.BaseRx):
|
||||
"""
|
||||
Frequency domain receivers
|
||||
|
||||
:param numpy.ndarray locs: receiver locations (ie. :code:`np.r_[x,y,z]`)
|
||||
:param string rxType: reciever type from knownRxTypes
|
||||
"""
|
||||
|
||||
knownRxTypes = {
|
||||
'exr':['e', 'Ex', 'real'],
|
||||
'eyr':['e', 'Ey', 'real'],
|
||||
'ezr':['e', 'Ez', 'real'],
|
||||
'exi':['e', 'Ex', 'imag'],
|
||||
'eyi':['e', 'Ey', 'imag'],
|
||||
'ezi':['e', 'Ez', 'imag'],
|
||||
|
||||
'bxr':['b', 'Fx', 'real'],
|
||||
'byr':['b', 'Fy', 'real'],
|
||||
'bzr':['b', 'Fz', 'real'],
|
||||
'bxi':['b', 'Fx', 'imag'],
|
||||
'byi':['b', 'Fy', 'imag'],
|
||||
'bzi':['b', 'Fz', 'imag'],
|
||||
|
||||
'jxr':['j', 'Fx', 'real'],
|
||||
'jyr':['j', 'Fy', 'real'],
|
||||
'jzr':['j', 'Fz', 'real'],
|
||||
'jxi':['j', 'Fx', 'imag'],
|
||||
'jyi':['j', 'Fy', 'imag'],
|
||||
'jzi':['j', 'Fz', 'imag'],
|
||||
|
||||
'hxr':['h', 'Ex', 'real'],
|
||||
'hyr':['h', 'Ey', 'real'],
|
||||
'hzr':['h', 'Ez', 'real'],
|
||||
'hxi':['h', 'Ex', 'imag'],
|
||||
'hyi':['h', 'Ey', 'imag'],
|
||||
'hzi':['h', 'Ez', 'imag'],
|
||||
}
|
||||
radius = None
|
||||
|
||||
def __init__(self, locs, rxType):
|
||||
SimPEG.Survey.BaseRx.__init__(self, locs, rxType)
|
||||
|
||||
@property
|
||||
def projField(self):
|
||||
"""Field Type projection (e.g. e b ...)"""
|
||||
return self.knownRxTypes[self.rxType][0]
|
||||
|
||||
@property
|
||||
def projGLoc(self):
|
||||
"""Grid Location projection (e.g. Ex Fy ...)"""
|
||||
return self.knownRxTypes[self.rxType][1]
|
||||
|
||||
@property
|
||||
def projComp(self):
|
||||
"""Component projection (real/imag)"""
|
||||
return self.knownRxTypes[self.rxType][2]
|
||||
|
||||
def projectFields(self, src, mesh, u):
|
||||
"""
|
||||
Project fields to recievers to get data.
|
||||
|
||||
:param Source src: FDEM source
|
||||
:param Mesh mesh: mesh used
|
||||
:param Fields u: fields object
|
||||
:rtype: numpy.ndarray
|
||||
:return: fields projected to recievers
|
||||
"""
|
||||
P = self.getP(mesh)
|
||||
u_part_complex = u[src, self.projField]
|
||||
# get the real or imag component
|
||||
real_or_imag = self.projComp
|
||||
u_part = getattr(u_part_complex, real_or_imag)
|
||||
return P*u_part
|
||||
|
||||
def projectFieldsDeriv(self, src, mesh, u, v, adjoint=False):
|
||||
"""
|
||||
Derivative of projected fields with respect to the inversion model times a vector.
|
||||
|
||||
:param Source src: FDEM source
|
||||
:param Mesh mesh: mesh used
|
||||
:param Fields u: fields object
|
||||
:param numpy.ndarray v: vector to multiply
|
||||
:rtype: numpy.ndarray
|
||||
:return: fields projected to recievers
|
||||
"""
|
||||
P = self.getP(mesh)
|
||||
|
||||
if not adjoint:
|
||||
Pv_complex = P * v
|
||||
real_or_imag = self.projComp
|
||||
Pv = getattr(Pv_complex, real_or_imag)
|
||||
elif adjoint:
|
||||
Pv_real = P.T * v
|
||||
|
||||
real_or_imag = self.projComp
|
||||
if real_or_imag == 'imag':
|
||||
Pv = 1j*Pv_real
|
||||
elif real_or_imag == 'real':
|
||||
Pv = Pv_real.astype(complex)
|
||||
else:
|
||||
raise NotImplementedError('must be real or imag')
|
||||
|
||||
return Pv
|
||||
|
||||
|
||||
####################################################
|
||||
# Survey
|
||||
####################################################
|
||||
|
||||
class Survey(SimPEG.Survey.BaseSurvey):
|
||||
"""
|
||||
Frequency domain electromagnetic survey
|
||||
|
||||
@@ -15,12 +126,12 @@ class Survey(BaseEMSurvey):
|
||||
"""
|
||||
|
||||
srcPair = Src.BaseSrc
|
||||
rxPair = Rx.BaseRx
|
||||
rxPaair = Rx
|
||||
|
||||
def __init__(self, srcList, **kwargs):
|
||||
# Sort these by frequency
|
||||
self.srcList = srcList
|
||||
BaseEMSurvey.__init__(self, srcList, **kwargs)
|
||||
SimPEG.Survey.BaseSurvey.__init__(self, **kwargs)
|
||||
|
||||
_freqDict = {}
|
||||
for src in srcList:
|
||||
@@ -55,8 +166,23 @@ class Survey(BaseEMSurvey):
|
||||
Returns the sources associated with a specific frequency.
|
||||
:param float freq: frequency for which we look up sources
|
||||
:rtype: dictionary
|
||||
:return: sources at the sepcified frequency
|
||||
:return: sources at the sepcified frequency
|
||||
"""
|
||||
assert freq in self._freqDict, "The requested frequency is not in this survey."
|
||||
return self._freqDict[freq]
|
||||
|
||||
def projectFields(self, u):
|
||||
"""
|
||||
Project fields to receiver locations
|
||||
:param Fields u: fields object
|
||||
:rtype: numpy.ndarray
|
||||
:return: data
|
||||
"""
|
||||
data = SimPEG.Survey.Data(self)
|
||||
for src in self.srcList:
|
||||
for rx in src.rxList:
|
||||
data[src, rx] = rx.projectFields(src, self.mesh, u)
|
||||
return data
|
||||
|
||||
def projectFieldsDeriv(self, u):
|
||||
raise Exception('Use Sources to project fields deriv.')
|
||||
|
||||
@@ -1,5 +1,3 @@
|
||||
from SurveyFDEM import Survey
|
||||
import SrcFDEM as Src
|
||||
import RxFDEM as Rx
|
||||
from ProblemFDEM import Problem3D_e, Problem3D_b, Problem3D_j, Problem3D_h
|
||||
from FieldsFDEM import Fields3D_e, Fields3D_b, Fields3D_j, Fields3D_h
|
||||
from SurveyFDEM import Rx, Src, Survey
|
||||
from FDEM import BaseFDEMProblem, Problem_e, Problem_b, Problem_j, Problem_h
|
||||
from FieldsFDEM import *
|
||||
@@ -1,160 +0,0 @@
|
||||
import numpy as np
|
||||
|
||||
def getxBCyBC_CC(mesh, alpha, beta, gamma):
|
||||
# def getxBCyBC(mesh, alpha, beta, gamma):
|
||||
"""
|
||||
This is a subfunction generating mixed-boundary condition:
|
||||
|
||||
.. math::
|
||||
|
||||
\nabla \cdot \vec{j} = -\nabla \cdot \vec{j}_s = q
|
||||
|
||||
\rho \vec{j} = -\nabla \phi \phi
|
||||
|
||||
\alpha \phi + \beta \frac{\partial \phi}{\partial r} = \gamma \ at \ r = \partial \Omega
|
||||
|
||||
xBC = f_1(\alpha, \beta, \gamma)
|
||||
yBC = f(\alpha, \beta, \gamma)
|
||||
|
||||
Computes xBC and yBC for cell-centered discretizations
|
||||
"""
|
||||
if mesh.dim == 1: #1D
|
||||
if (len(alpha) != 2 or len(beta) != 2 or len(gamma) != 2):
|
||||
raise Exception("Lenght of list, alpha should be 2")
|
||||
fCCxm,fCCxp = mesh.cellBoundaryInd
|
||||
nBC = fCCxm.sum()+fCCxp.sum()
|
||||
h_xm, h_xp = mesh.gridCC[fCCxm], mesh.gridCC[fCCxp]
|
||||
|
||||
alpha_xm, beta_xm, gamma_xm = alpha[0], beta[0], gamma[0]
|
||||
alpha_xp, beta_xp, gamma_xp = alpha[1], beta[1], gamma[1]
|
||||
|
||||
# h_xm, h_xp = mesh.gridCC[fCCxm], mesh.gridCC[fCCxp]
|
||||
h_xm, h_xp = mesh.hx[0], mesh.hx[-1]
|
||||
|
||||
a_xm = gamma_xm/(0.5*alpha_xm-beta_xm/h_xm)
|
||||
b_xm = (0.5*alpha_xm+beta_xm/h_xm)/(0.5*alpha_xm-beta_xm/h_xm)
|
||||
a_xp = gamma_xp/(0.5*alpha_xp-beta_xp/h_xp)
|
||||
b_xp = (0.5*alpha_xp+beta_xp/h_xp)/(0.5*alpha_xp-beta_xp/h_xp)
|
||||
|
||||
xBC_xm = 0.5*a_xm
|
||||
xBC_xp = 0.5*a_xp/b_xp
|
||||
yBC_xm = 0.5*(1.-b_xm)
|
||||
yBC_xp = 0.5*(1.-1./b_xp)
|
||||
|
||||
xBC = np.r_[xBC_xm, xBC_xp]
|
||||
yBC = np.r_[yBC_xm, yBC_xp]
|
||||
|
||||
elif mesh.dim == 2: #2D
|
||||
if (len(alpha) != 4 or len(beta) != 4 or len(gamma) != 4):
|
||||
raise Exception("Lenght of list, alpha should be 4")
|
||||
|
||||
fxm,fxp,fym,fyp = mesh.faceBoundaryInd
|
||||
nBC = fxm.sum()+fxp.sum()+fxm.sum()+fxp.sum()
|
||||
|
||||
alpha_xm, beta_xm, gamma_xm = alpha[0], beta[0], gamma[0]
|
||||
alpha_xp, beta_xp, gamma_xp = alpha[1], beta[1], gamma[1]
|
||||
alpha_ym, beta_ym, gamma_ym = alpha[2], beta[2], gamma[2]
|
||||
alpha_yp, beta_yp, gamma_yp = alpha[3], beta[3], gamma[3]
|
||||
|
||||
# h_xm, h_xp = mesh.gridCC[fCCxm,0], mesh.gridCC[fCCxp,0]
|
||||
# h_ym, h_yp = mesh.gridCC[fCCym,1], mesh.gridCC[fCCyp,1]
|
||||
|
||||
h_xm, h_xp = mesh.hx[0]*np.ones_like(alpha_xm), mesh.hx[-1]*np.ones_like(alpha_xp)
|
||||
h_ym, h_yp = mesh.hy[0]*np.ones_like(alpha_ym), mesh.hy[-1]*np.ones_like(alpha_yp)
|
||||
|
||||
a_xm = gamma_xm/(0.5*alpha_xm-beta_xm/h_xm)
|
||||
b_xm = (0.5*alpha_xm+beta_xm/h_xm)/(0.5*alpha_xm-beta_xm/h_xm)
|
||||
a_xp = gamma_xp/(0.5*alpha_xp-beta_xp/h_xp)
|
||||
b_xp = (0.5*alpha_xp+beta_xp/h_xp)/(0.5*alpha_xp-beta_xp/h_xp)
|
||||
|
||||
a_ym = gamma_ym/(0.5*alpha_ym-beta_ym/h_ym)
|
||||
b_ym = (0.5*alpha_ym+beta_ym/h_ym)/(0.5*alpha_ym-beta_ym/h_ym)
|
||||
a_yp = gamma_yp/(0.5*alpha_yp-beta_yp/h_yp)
|
||||
b_yp = (0.5*alpha_yp+beta_yp/h_yp)/(0.5*alpha_yp-beta_yp/h_yp)
|
||||
|
||||
xBC_xm = 0.5*a_xm
|
||||
xBC_xp = 0.5*a_xp/b_xp
|
||||
yBC_xm = 0.5*(1.-b_xm)
|
||||
yBC_xp = 0.5*(1.-1./b_xp)
|
||||
xBC_ym = 0.5*a_ym
|
||||
xBC_yp = 0.5*a_yp/b_yp
|
||||
yBC_ym = 0.5*(1.-b_ym)
|
||||
yBC_yp = 0.5*(1.-1./b_yp)
|
||||
|
||||
sortindsfx = np.argsort(np.r_[np.arange(mesh.nFx)[fxm], np.arange(mesh.nFx)[fxp]])
|
||||
sortindsfy = np.argsort(np.r_[np.arange(mesh.nFy)[fym], np.arange(mesh.nFy)[fyp]])
|
||||
|
||||
xBC_x = np.r_[xBC_xm, xBC_xp][sortindsfx]
|
||||
xBC_y = np.r_[xBC_ym, xBC_yp][sortindsfy]
|
||||
yBC_x = np.r_[yBC_xm, yBC_xp][sortindsfx]
|
||||
yBC_y = np.r_[yBC_ym, yBC_yp][sortindsfy]
|
||||
|
||||
xBC = np.r_[xBC_x, xBC_y]
|
||||
yBC = np.r_[yBC_x, yBC_y]
|
||||
|
||||
elif mesh.dim == 3: #3D
|
||||
if (len(alpha) != 6 or len(beta) != 6 or len(gamma) != 6):
|
||||
raise Exception("Lenght of list, alpha should be 6")
|
||||
# fCCxm,fCCxp,fCCym,fCCyp,fCCzm,fCCzp = mesh.cellBoundaryInd
|
||||
fxm,fxp,fym,fyp,fzm,fzp = mesh.faceBoundaryInd
|
||||
nBC = fxm.sum()+fxp.sum()+fxm.sum()+fxp.sum()
|
||||
|
||||
alpha_xm, beta_xm, gamma_xm = alpha[0], beta[0], gamma[0]
|
||||
alpha_xp, beta_xp, gamma_xp = alpha[1], beta[1], gamma[1]
|
||||
alpha_ym, beta_ym, gamma_ym = alpha[2], beta[2], gamma[2]
|
||||
alpha_yp, beta_yp, gamma_yp = alpha[3], beta[3], gamma[3]
|
||||
alpha_zm, beta_zm, gamma_zm = alpha[4], beta[4], gamma[4]
|
||||
alpha_zp, beta_zp, gamma_zp = alpha[5], beta[5], gamma[5]
|
||||
|
||||
# h_xm, h_xp = mesh.gridCC[fCCxm,0], mesh.gridCC[fCCxp,0]
|
||||
# h_ym, h_yp = mesh.gridCC[fCCym,1], mesh.gridCC[fCCyp,1]
|
||||
# h_zm, h_zp = mesh.gridCC[fCCzm,2], mesh.gridCC[fCCzp,2]
|
||||
|
||||
h_xm, h_xp = mesh.hx[0]*np.ones_like(alpha_xm), mesh.hx[-1]*np.ones_like(alpha_xp)
|
||||
h_ym, h_yp = mesh.hy[0]*np.ones_like(alpha_ym), mesh.hy[-1]*np.ones_like(alpha_yp)
|
||||
h_zm, h_zp = mesh.hz[0]*np.ones_like(alpha_zm), mesh.hz[-1]*np.ones_like(alpha_zp)
|
||||
|
||||
a_xm = gamma_xm/(0.5*alpha_xm-beta_xm/h_xm)
|
||||
b_xm = (0.5*alpha_xm+beta_xm/h_xm)/(0.5*alpha_xm-beta_xm/h_xm)
|
||||
a_xp = gamma_xp/(0.5*alpha_xp-beta_xp/h_xp)
|
||||
b_xp = (0.5*alpha_xp+beta_xp/h_xp)/(0.5*alpha_xp-beta_xp/h_xp)
|
||||
|
||||
a_ym = gamma_ym/(0.5*alpha_ym-beta_ym/h_ym)
|
||||
b_ym = (0.5*alpha_ym+beta_ym/h_ym)/(0.5*alpha_ym-beta_ym/h_ym)
|
||||
a_yp = gamma_yp/(0.5*alpha_yp-beta_yp/h_yp)
|
||||
b_yp = (0.5*alpha_yp+beta_yp/h_yp)/(0.5*alpha_yp-beta_yp/h_yp)
|
||||
|
||||
a_zm = gamma_zm/(0.5*alpha_zm-beta_zm/h_zm)
|
||||
b_zm = (0.5*alpha_zm+beta_zm/h_zm)/(0.5*alpha_zm-beta_zm/h_zm)
|
||||
a_zp = gamma_zp/(0.5*alpha_zp-beta_zp/h_zp)
|
||||
b_zp = (0.5*alpha_zp+beta_zp/h_zp)/(0.5*alpha_zp-beta_zp/h_zp)
|
||||
|
||||
xBC_xm = 0.5*a_xm
|
||||
xBC_xp = 0.5*a_xp/b_xp
|
||||
yBC_xm = 0.5*(1.-b_xm)
|
||||
yBC_xp = 0.5*(1.-1./b_xp)
|
||||
xBC_ym = 0.5*a_ym
|
||||
xBC_yp = 0.5*a_yp/b_yp
|
||||
yBC_ym = 0.5*(1.-b_ym)
|
||||
yBC_yp = 0.5*(1.-1./b_yp)
|
||||
xBC_zm = 0.5*a_zm
|
||||
xBC_zp = 0.5*a_zp/b_zp
|
||||
yBC_zm = 0.5*(1.-b_zm)
|
||||
yBC_zp = 0.5*(1.-1./b_zp)
|
||||
|
||||
sortindsfx = np.argsort(np.r_[np.arange(mesh.nFx)[fxm], np.arange(mesh.nFx)[fxp]])
|
||||
sortindsfy = np.argsort(np.r_[np.arange(mesh.nFy)[fym], np.arange(mesh.nFy)[fyp]])
|
||||
sortindsfz = np.argsort(np.r_[np.arange(mesh.nFz)[fzm], np.arange(mesh.nFz)[fzp]])
|
||||
|
||||
xBC_x = np.r_[xBC_xm, xBC_xp][sortindsfx]
|
||||
xBC_y = np.r_[xBC_ym, xBC_yp][sortindsfy]
|
||||
xBC_z = np.r_[xBC_zm, xBC_zp][sortindsfz]
|
||||
|
||||
yBC_x = np.r_[yBC_xm, yBC_xp][sortindsfx]
|
||||
yBC_y = np.r_[yBC_ym, yBC_yp][sortindsfy]
|
||||
yBC_z = np.r_[yBC_zm, yBC_zp][sortindsfz]
|
||||
|
||||
xBC = np.r_[xBC_x, xBC_y, xBC_z]
|
||||
yBC = np.r_[yBC_x, yBC_y, yBC_z]
|
||||
|
||||
return xBC, yBC
|
||||
@@ -1,148 +0,0 @@
|
||||
import SimPEG
|
||||
from SimPEG.Utils import Identity, Zero
|
||||
import numpy as np
|
||||
from scipy.constants import epsilon_0
|
||||
|
||||
class Fields(SimPEG.Problem.Fields):
|
||||
knownFields = {}
|
||||
dtype = float
|
||||
|
||||
def _phiDeriv(self, src, du_dm_v, v, adjoint=False):
|
||||
if getattr(self, '_phiDeriv_u', None) is None or getattr(self, '_phiDeriv_m', None) is None:
|
||||
raise NotImplementedError ('Getting phiDerivs from %s is not implemented' %self.knownFields.keys()[0])
|
||||
|
||||
if adjoint:
|
||||
return self._phiDeriv_u(src, v, adjoint=adjoint), self._phiDeriv_m(src, v, adjoint=adjoint)
|
||||
|
||||
return np.array(self._phiDeriv_u(src, du_dm_v, adjoint) + self._phiDeriv_m(src, v, adjoint), dtype = float)
|
||||
|
||||
def _eDeriv(self, src, du_dm_v, v, adjoint=False):
|
||||
if getattr(self, '_eDeriv_u', None) is None or getattr(self, '_eDeriv_m', None) is None:
|
||||
raise NotImplementedError ('Getting eDerivs from %s is not implemented' %self.knownFields.keys()[0])
|
||||
|
||||
if adjoint:
|
||||
return self._eDeriv_u(src, v, adjoint), self._eDeriv_m(src, v, adjoint)
|
||||
return np.array(self._eDeriv_u(src, du_dm_v, adjoint) + self._eDeriv_m(src, v, adjoint), dtype = float)
|
||||
|
||||
def _jDeriv(self, src, du_dm_v, v, adjoint=False):
|
||||
if getattr(self, '_jDeriv_u', None) is None or getattr(self, '_jDeriv_m', None) is None:
|
||||
raise NotImplementedError ('Getting jDerivs from %s is not implemented' %self.knownFields.keys()[0])
|
||||
|
||||
if adjoint:
|
||||
return self._jDeriv_u(src, v, adjoint), self._jDeriv_m(src, v, adjoint)
|
||||
return np.array(self._jDeriv_u(src, du_dm_v, adjoint) + self._jDeriv_m(src, v, adjoint), dtype = float)
|
||||
|
||||
|
||||
class Fields_CC(Fields):
|
||||
knownFields = {'phiSolution':'CC'}
|
||||
aliasFields = {
|
||||
'phi': ['phiSolution','CC','_phi'],
|
||||
'j' : ['phiSolution','F','_j'],
|
||||
'e' : ['phiSolution','F','_e'],
|
||||
'charge' : ['phiSolution','CC','_charge'],
|
||||
}
|
||||
# primary - secondary
|
||||
# CC variables
|
||||
|
||||
def __init__(self, mesh, survey, **kwargs):
|
||||
Fields.__init__(self, mesh, survey, **kwargs)
|
||||
mesh.setCellGradBC("neumann")
|
||||
cellGrad = mesh.cellGrad
|
||||
def startup(self):
|
||||
self.prob = self.survey.prob
|
||||
|
||||
def _GLoc(self, fieldType):
|
||||
if fieldType == 'phi':
|
||||
return 'CC'
|
||||
elif fieldType == 'e' or fieldType == 'j':
|
||||
return 'F'
|
||||
else:
|
||||
raise Exception('Field type must be phi, e, j')
|
||||
|
||||
def _phi(self, phiSolution, srcList):
|
||||
return phiSolution
|
||||
|
||||
def _phiDeriv_u(self, src, v, adjoint = False):
|
||||
return Identity()*v
|
||||
|
||||
def _phiDeriv_m(self, src, v, adjoint = False):
|
||||
return Zero()
|
||||
|
||||
def _j(self, phiSolution, srcList):
|
||||
"""
|
||||
.. math::
|
||||
\mathbf{j} = \mathbf{M}^{f \ -1}_{\rho} \mathbf{G} \phi
|
||||
"""
|
||||
return self.prob.MfRhoI*self.prob.Grad*phiSolution
|
||||
|
||||
def _e(self, phiSolution, srcList):
|
||||
"""
|
||||
In HJ formulation e is not well-defined!!
|
||||
.. math::
|
||||
\vec{e} = -\nabla \phi
|
||||
"""
|
||||
return -self.mesh.cellGrad*phiSolution
|
||||
|
||||
def _charge(self, phiSolution, srcList):
|
||||
"""
|
||||
.. math::
|
||||
\int \nabla \codt \vec{e} = \int \frac{\rho_v }{\epsillon_0}
|
||||
"""
|
||||
return epsilon_0*self.prob.Vol*(self.mesh.faceDiv*self._e(phiSolution, srcList))
|
||||
|
||||
class Fields_N(Fields):
|
||||
knownFields = {'phiSolution':'N'}
|
||||
aliasFields = {
|
||||
'phi': ['phiSolution','N','_phi'],
|
||||
'j' : ['phiSolution','E','_j'],
|
||||
'e' : ['phiSolution','E','_e'],
|
||||
'charge' : ['phiSolution','N','_charge'],
|
||||
}
|
||||
# primary - secondary
|
||||
# N variables
|
||||
|
||||
def __init__(self, mesh, survey, **kwargs):
|
||||
Fields.__init__(self, mesh, survey, **kwargs)
|
||||
|
||||
def startup(self):
|
||||
self.prob = self.survey.prob
|
||||
|
||||
def _GLoc(self, fieldType):
|
||||
if fieldType == 'phi':
|
||||
return 'N'
|
||||
elif fieldType == 'e' or fieldType == 'j':
|
||||
return 'E'
|
||||
else:
|
||||
raise Exception('Field type must be phi, e, j')
|
||||
|
||||
def _phi(self, phiSolution, srcList):
|
||||
return phiSolution
|
||||
|
||||
def _phiDeriv_u(self, src, v, adjoint = False):
|
||||
return Identity()*v
|
||||
|
||||
def _phiDeriv_m(self, src, v, adjoint = False):
|
||||
return Zero()
|
||||
|
||||
def _j(self, phiSolution, srcList):
|
||||
"""
|
||||
In EB formulation j is not well-defined!!
|
||||
.. math::
|
||||
\mathbf{j} = - \mathbf{M}^{e}_{\sigma} \mathbf{G} \phi
|
||||
"""
|
||||
return self.prob.MeSigma * self._e(phiSolution, srcList)
|
||||
|
||||
def _e(self, phiSolution, srcList):
|
||||
"""
|
||||
In HJ formulation e is not well-defined!!
|
||||
.. math::
|
||||
\vec{e} = -\nabla \phi
|
||||
"""
|
||||
return -self.mesh.nodalGrad * phiSolution
|
||||
|
||||
def _charge(self, phiSolution, srcList):
|
||||
"""
|
||||
.. math::
|
||||
\int \nabla \codt \vec{e} = \int \frac{\rho_v }{\epsillon_0}
|
||||
"""
|
||||
return - epsilon_0*(self.mesh.nodalGrad.T*self.mesh.getEdgeInnerProduct()*self._e(phiSolution, srcList))
|
||||
@@ -1,146 +0,0 @@
|
||||
import SimPEG
|
||||
from SimPEG.Utils import Identity, Zero
|
||||
import numpy as np
|
||||
|
||||
class Fields_ky(SimPEG.Problem.TimeFields):
|
||||
|
||||
"""
|
||||
|
||||
Fancy Field Storage for a 2.5D code.
|
||||
|
||||
u[:,'phi', kyInd] = phi
|
||||
print u[src0,'phi']
|
||||
|
||||
Only one field type is stored for
|
||||
each problem, the rest are computed. The fields obejct acts like an array and is indexed by
|
||||
.. code-block:: python
|
||||
f = problem.fields(m)
|
||||
e = f[srcList,'e']
|
||||
j = f[srcList,'j']
|
||||
|
||||
If accessing all sources for a given field, use the :code:`:`
|
||||
.. code-block:: python
|
||||
f = problem.fields(m)
|
||||
phi = f[:,'phi']
|
||||
e = f[:,'e']
|
||||
b = f[:,'b']
|
||||
The array returned will be size (nE or nF, nSrcs :math:`\\times` nFrequencies)
|
||||
"""
|
||||
|
||||
knownFields = {}
|
||||
dtype = float
|
||||
|
||||
def _phiDeriv(self,kyInd, src, du_dm_v, v, adjoint=False):
|
||||
if getattr(self, '_phiDeriv_u', None) is None or getattr(self, '_phiDeriv_m', None) is None:
|
||||
raise NotImplementedError ('Getting phiDerivs from %s is not implemented' %self.knownFields.keys()[0])
|
||||
|
||||
if adjoint:
|
||||
return self._phiDeriv_u(kyInd, src, v, adjoint=adjoint), self._phiDeriv_m(kyInd, src, v, adjoint=adjoint)
|
||||
|
||||
return np.array(self._phiDeriv_u(kyInd, src, du_dm_v, adjoint) + self._phiDeriv_m(kyInd, src, v, adjoint), dtype = float)
|
||||
|
||||
def _eDeriv(self,kyInd, src, du_dm_v, v, adjoint=False):
|
||||
if getattr(self, '_eDeriv_u', None) is None or getattr(self, '_eDeriv_m', None) is None:
|
||||
raise NotImplementedError ('Getting eDerivs from %s is not implemented' %self.knownFields.keys()[0])
|
||||
|
||||
if adjoint:
|
||||
return self._eDeriv_u(kyInd, src, v, adjoint), self._eDeriv_m(kyInd, src, v, adjoint)
|
||||
return np.array(self._eDeriv_u(kyInd, src, du_dm_v, adjoint) + self._eDeriv_m(kyInd, src, v, adjoint), dtype = float)
|
||||
|
||||
def _jDeriv(self,kyInd, src, du_dm_v, v, adjoint=False):
|
||||
if getattr(self, '_jDeriv_u', None) is None or getattr(self, '_jDeriv_m', None) is None:
|
||||
raise NotImplementedError ('Getting jDerivs from %s is not implemented' %self.knownFields.keys()[0])
|
||||
|
||||
if adjoint:
|
||||
return self._jDeriv_u(kyInd, src, v, adjoint), self._jDeriv_m(kyInd, src, v, adjoint)
|
||||
return np.array(self._jDeriv_u(kyInd, src, du_dm_v, adjoint) + self._jDeriv_m(kyInd, src, v, adjoint), dtype = float)
|
||||
|
||||
|
||||
# def _eDeriv(self, tInd, src, dun_dm_v, v, adjoint=False):
|
||||
# if adjoint is True:
|
||||
# return self._eDeriv_u(tInd, src, v, adjoint), self._eDeriv_m(tInd, src, v, adjoint)
|
||||
# return self._eDeriv_u(tInd, src, dun_dm_v) + self._eDeriv_m(tInd, src, v)
|
||||
|
||||
# def _bDeriv(self, tInd, src, dun_dm_v, v, adjoint=False):
|
||||
# if adjoint is True:
|
||||
# return self._bDeriv_u(tInd, src, v, adjoint), self._bDeriv_m(tInd, src, v, adjoint)
|
||||
# return self._bDeriv_u(tInd, src, dun_dm_v) + self._bDeriv_m(tInd, src, v)
|
||||
|
||||
|
||||
class Fields_ky_CC(Fields_ky):
|
||||
knownFields = {'phiSolution':'CC'}
|
||||
aliasFields = {
|
||||
'phi': ['phiSolution','CC','_phi'],
|
||||
'j' : ['phiSolution','F','_j'],
|
||||
'e' : ['phiSolution','F','_e'],
|
||||
}
|
||||
# primary - secondary
|
||||
# CC variables
|
||||
|
||||
def __init__(self, mesh, survey, **kwargs):
|
||||
Fields_ky.__init__(self, mesh, survey, **kwargs)
|
||||
|
||||
def startup(self):
|
||||
self.prob = self.survey.prob
|
||||
|
||||
def _GLoc(self, fieldType):
|
||||
if fieldType == 'phi':
|
||||
return 'CC'
|
||||
elif fieldType == 'e' or fieldType == 'j':
|
||||
return 'F'
|
||||
else:
|
||||
raise Exception('Field type must be phi, e, j')
|
||||
|
||||
def _phi(self, phiSolution, src, kyInd):
|
||||
return phiSolution
|
||||
|
||||
def _phiDeriv_u(self, kyInd, src, v, adjoint = False):
|
||||
return Identity()*v
|
||||
|
||||
def _phiDeriv_m(self, kyInd, src, v, adjoint = False):
|
||||
return Zero()
|
||||
|
||||
def _j(self, phiSolution, srcList):
|
||||
raise NotImplementedError
|
||||
|
||||
def _e(self, phiSolution, srcList):
|
||||
raise NotImplementedError
|
||||
|
||||
class Fields_ky_N(Fields_ky):
|
||||
knownFields = {'phiSolution':'N'}
|
||||
aliasFields = {
|
||||
'phi': ['phiSolution','N','_phi'],
|
||||
'j' : ['phiSolution','E','_j'],
|
||||
'e' : ['phiSolution','E','_e'],
|
||||
}
|
||||
# primary - secondary
|
||||
# CC variables
|
||||
|
||||
def __init__(self, mesh, survey, **kwargs):
|
||||
Fields_ky.__init__(self, mesh, survey, **kwargs)
|
||||
|
||||
def startup(self):
|
||||
self.prob = self.survey.prob
|
||||
|
||||
def _GLoc(self, fieldType):
|
||||
if fieldType == 'phi':
|
||||
return 'N'
|
||||
elif fieldType == 'e' or fieldType == 'j':
|
||||
return 'E'
|
||||
else:
|
||||
raise Exception('Field type must be phi, e, j')
|
||||
|
||||
def _phi(self, phiSolution, src, kyInd):
|
||||
return phiSolution
|
||||
|
||||
def _phiDeriv_u(self, kyInd, src, v, adjoint = False):
|
||||
return Identity()*v
|
||||
|
||||
def _phiDeriv_m(self, kyInd, src, v, adjoint = False):
|
||||
return Zero()
|
||||
|
||||
def _j(self, phiSolution, srcList):
|
||||
raise NotImplementedError
|
||||
|
||||
def _e(self, phiSolution, srcList):
|
||||
raise NotImplementedError
|
||||
@@ -1,296 +0,0 @@
|
||||
from SimPEG import Problem, Utils
|
||||
from SimPEG.EM.Base import BaseEMProblem
|
||||
from SurveyDC import Survey
|
||||
from FieldsDC import Fields, Fields_CC, Fields_N
|
||||
from SimPEG.Utils import sdiag
|
||||
import numpy as np
|
||||
from SimPEG.Utils import Zero
|
||||
from BoundaryUtils import getxBCyBC_CC
|
||||
|
||||
class BaseDCProblem(BaseEMProblem):
|
||||
|
||||
surveyPair = Survey
|
||||
fieldsPair = Fields
|
||||
Ainv = None
|
||||
|
||||
def fields(self, m):
|
||||
self.curModel = m
|
||||
|
||||
if not self.Ainv == None:
|
||||
self.Ainv.clean()
|
||||
|
||||
f = self.fieldsPair(self.mesh, self.survey)
|
||||
A = self.getA()
|
||||
self.Ainv = self.Solver(A, **self.solverOpts)
|
||||
RHS = self.getRHS()
|
||||
u = self.Ainv * RHS
|
||||
Srcs = self.survey.srcList
|
||||
f[Srcs, self._solutionType] = u
|
||||
return f
|
||||
|
||||
def Jvec(self, m, v, f=None):
|
||||
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
|
||||
Jv = self.dataPair(self.survey) #same size as the data
|
||||
|
||||
A = self.getA()
|
||||
|
||||
for src in self.survey.srcList:
|
||||
u_src = f[src, self._solutionType] # solution vector
|
||||
dA_dm_v = self.getADeriv(u_src, v)
|
||||
dRHS_dm_v = self.getRHSDeriv(src, v)
|
||||
du_dm_v = self.Ainv * ( - dA_dm_v + dRHS_dm_v )
|
||||
|
||||
for rx in src.rxList:
|
||||
df_dmFun = getattr(f, '_%sDeriv'%rx.projField, None)
|
||||
df_dm_v = df_dmFun(src, du_dm_v, v, adjoint=False)
|
||||
Jv[src, rx] = rx.evalDeriv(src, self.mesh, f, df_dm_v)
|
||||
return Utils.mkvc(Jv)
|
||||
|
||||
def Jtvec(self, m, v, f=None):
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
|
||||
# Ensure v is a data object.
|
||||
if not isinstance(v, self.dataPair):
|
||||
v = self.dataPair(self.survey, v)
|
||||
|
||||
Jtv = np.zeros(m.size)
|
||||
AT = self.getA()
|
||||
|
||||
|
||||
for src in self.survey.srcList:
|
||||
u_src = f[src, self._solutionType]
|
||||
for rx in src.rxList:
|
||||
PTv = rx.evalDeriv(src, self.mesh, f, v[src, rx], adjoint=True) # wrt f, need possibility wrt m
|
||||
df_duTFun = getattr(f, '_%sDeriv'%rx.projField, None)
|
||||
df_duT, df_dmT = df_duTFun(src, None, PTv, adjoint=True)
|
||||
|
||||
ATinvdf_duT = self.Ainv * df_duT
|
||||
|
||||
dA_dmT = self.getADeriv(u_src, ATinvdf_duT, adjoint=True)
|
||||
dRHS_dmT = self.getRHSDeriv(src, ATinvdf_duT, adjoint=True)
|
||||
du_dmT = -dA_dmT + dRHS_dmT
|
||||
Jtv += (df_dmT + du_dmT).astype(float)
|
||||
|
||||
return Utils.mkvc(Jtv)
|
||||
|
||||
def getSourceTerm(self):
|
||||
"""
|
||||
takes concept of source and turns it into a matrix
|
||||
"""
|
||||
"""
|
||||
Evaluates the sources, and puts them in matrix form
|
||||
|
||||
:rtype: (numpy.ndarray, numpy.ndarray)
|
||||
:return: q (nC or nN, nSrc)
|
||||
"""
|
||||
|
||||
Srcs = self.survey.srcList
|
||||
|
||||
if self._formulation is 'EB':
|
||||
n = self.mesh.nN
|
||||
# return NotImplementedError
|
||||
|
||||
elif self._formulation is 'HJ':
|
||||
n = self.mesh.nC
|
||||
|
||||
q = np.zeros((n, len(Srcs)))
|
||||
|
||||
for i, src in enumerate(Srcs):
|
||||
q[:,i] = src.eval(self)
|
||||
return q
|
||||
|
||||
class Problem3D_CC(BaseDCProblem):
|
||||
|
||||
_solutionType = 'phiSolution'
|
||||
_formulation = 'HJ' # CC potentials means J is on faces
|
||||
fieldsPair = Fields_CC
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseDCProblem.__init__(self, mesh, **kwargs)
|
||||
self.setBC()
|
||||
|
||||
def getA(self):
|
||||
"""
|
||||
|
||||
Make the A matrix for the cell centered DC resistivity problem
|
||||
|
||||
A = D MfRhoI G
|
||||
|
||||
"""
|
||||
|
||||
D = self.Div
|
||||
G = self.Grad
|
||||
MfRhoI = self.MfRhoI
|
||||
A = D * MfRhoI * G
|
||||
|
||||
# I think we should deprecate this for DC problem.
|
||||
# if self._makeASymmetric is True:
|
||||
# return V.T * A
|
||||
return A
|
||||
|
||||
def getADeriv(self, u, v, adjoint= False):
|
||||
|
||||
D = self.Div
|
||||
G = self.Grad
|
||||
MfRhoIDeriv = self.MfRhoIDeriv
|
||||
|
||||
if adjoint:
|
||||
return(MfRhoIDeriv( G * u ).T) * ( D.T * v)
|
||||
|
||||
return D * (MfRhoIDeriv( G * u ) * v)
|
||||
|
||||
def getRHS(self):
|
||||
"""
|
||||
RHS for the DC problem
|
||||
|
||||
q
|
||||
"""
|
||||
|
||||
RHS = self.getSourceTerm()
|
||||
|
||||
return RHS
|
||||
|
||||
def getRHSDeriv(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
"""
|
||||
# TODO: add qDeriv for RHS depending on m
|
||||
# qDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
# return qDeriv
|
||||
return Zero()
|
||||
|
||||
def setBC(self):
|
||||
if self.mesh.dim==3:
|
||||
fxm,fxp,fym,fyp,fzm,fzp = self.mesh.faceBoundaryInd
|
||||
gBFxm = self.mesh.gridFx[fxm,:]
|
||||
gBFxp = self.mesh.gridFx[fxp,:]
|
||||
gBFym = self.mesh.gridFy[fym,:]
|
||||
gBFyp = self.mesh.gridFy[fyp,:]
|
||||
gBFzm = self.mesh.gridFz[fzm,:]
|
||||
gBFzp = self.mesh.gridFz[fzp,:]
|
||||
|
||||
# Setup Mixed B.C (alpha, beta, gamma)
|
||||
temp_xm, temp_xp = np.ones_like(gBFxm[:,0]), np.ones_like(gBFxp[:,0])
|
||||
temp_ym, temp_yp = np.ones_like(gBFym[:,1]), np.ones_like(gBFyp[:,1])
|
||||
temp_zm, temp_zp = np.ones_like(gBFzm[:,2]), np.ones_like(gBFzp[:,2])
|
||||
|
||||
alpha_xm, alpha_xp = temp_xm*0., temp_xp*0.
|
||||
alpha_ym, alpha_yp = temp_ym*0., temp_yp*0.
|
||||
alpha_zm, alpha_zp = temp_zm*0., temp_zp*0.
|
||||
|
||||
beta_xm, beta_xp = temp_xm, temp_xp
|
||||
beta_ym, beta_yp = temp_ym, temp_yp
|
||||
beta_zm, beta_zp = temp_zm, temp_zp
|
||||
|
||||
gamma_xm, gamma_xp = temp_xm*0., temp_xp*0.
|
||||
gamma_ym, gamma_yp = temp_ym*0., temp_yp*0.
|
||||
gamma_zm, gamma_zp = temp_zm*0., temp_zp*0.
|
||||
|
||||
alpha = [alpha_xm, alpha_xp, alpha_ym, alpha_yp, alpha_zm, alpha_zp]
|
||||
beta = [beta_xm, beta_xp, beta_ym, beta_yp, beta_zm, beta_zp]
|
||||
gamma = [gamma_xm, gamma_xp, gamma_ym, gamma_yp, gamma_zm, gamma_zp]
|
||||
|
||||
elif self.mesh.dim==2:
|
||||
|
||||
fxm,fxp,fym,fyp = self.mesh.faceBoundaryInd
|
||||
gBFxm = self.mesh.gridFx[fxm,:]
|
||||
gBFxp = self.mesh.gridFx[fxp,:]
|
||||
gBFym = self.mesh.gridFy[fym,:]
|
||||
gBFyp = self.mesh.gridFy[fyp,:]
|
||||
|
||||
# Setup Mixed B.C (alpha, beta, gamma)
|
||||
temp_xm, temp_xp = np.ones_like(gBFxm[:,0]), np.ones_like(gBFxp[:,0])
|
||||
temp_ym, temp_yp = np.ones_like(gBFym[:,1]), np.ones_like(gBFyp[:,1])
|
||||
|
||||
alpha_xm, alpha_xp = temp_xm*0., temp_xp*0.
|
||||
alpha_ym, alpha_yp = temp_ym*0., temp_yp*0.
|
||||
|
||||
beta_xm, beta_xp = temp_xm, temp_xp
|
||||
beta_ym, beta_yp = temp_ym, temp_yp
|
||||
|
||||
gamma_xm, gamma_xp = temp_xm*0., temp_xp*0.
|
||||
gamma_ym, gamma_yp = temp_ym*0., temp_yp*0.
|
||||
|
||||
alpha = [alpha_xm, alpha_xp, alpha_ym, alpha_yp]
|
||||
beta = [beta_xm, beta_xp, beta_ym, beta_yp]
|
||||
gamma = [gamma_xm, gamma_xp, gamma_ym, gamma_yp]
|
||||
|
||||
x_BC, y_BC = getxBCyBC_CC(self.mesh, alpha, beta, gamma)
|
||||
V = self.Vol
|
||||
self.Div = V * self.mesh.faceDiv
|
||||
P_BC, B = self.mesh.getBCProjWF_simple()
|
||||
M = B*self.mesh.aveCC2F
|
||||
self.Grad = self.Div.T - P_BC*Utils.sdiag(y_BC)*M
|
||||
|
||||
|
||||
class Problem3D_N(BaseDCProblem):
|
||||
|
||||
_solutionType = 'phiSolution'
|
||||
_formulation = 'EB' # N potentials means B is on faces
|
||||
fieldsPair = Fields_N
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseDCProblem.__init__(self, mesh, **kwargs)
|
||||
|
||||
def getA(self):
|
||||
"""
|
||||
|
||||
Make the A matrix for the cell centered DC resistivity problem
|
||||
|
||||
A = G.T MeSigma G
|
||||
|
||||
"""
|
||||
|
||||
MeSigma = self.MeSigma
|
||||
Grad = self.mesh.nodalGrad
|
||||
A = Grad.T * MeSigma * Grad
|
||||
|
||||
# Handling Null space of A
|
||||
A[0,0] = A[0,0] + 1.
|
||||
|
||||
return A
|
||||
|
||||
def getADeriv(self, u, v, adjoint=False):
|
||||
"""
|
||||
|
||||
Product of the derivative of our system matrix with respect to the model and a vector
|
||||
|
||||
"""
|
||||
MeSigma = self.MeSigma
|
||||
Grad = self.mesh.nodalGrad
|
||||
if not adjoint:
|
||||
return Grad.T*(self.MeSigmaDeriv(Grad*u)*v)
|
||||
elif adjoint:
|
||||
return self.MeSigmaDeriv(Grad*u).T * (Grad*v)
|
||||
|
||||
|
||||
def getRHS(self):
|
||||
"""
|
||||
RHS for the DC problem
|
||||
|
||||
q
|
||||
"""
|
||||
|
||||
RHS = self.getSourceTerm()
|
||||
return RHS
|
||||
|
||||
def getRHSDeriv(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
"""
|
||||
# TODO: add qDeriv for RHS depending on m
|
||||
# qDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
# return qDeriv
|
||||
return Zero()
|
||||
|
||||
|
||||
|
||||
|
||||
@@ -1,349 +0,0 @@
|
||||
from SimPEG import Problem, Utils
|
||||
from SimPEG.EM.Base import BaseEMProblem
|
||||
from SurveyDC import Survey, Survey_ky
|
||||
from FieldsDC_2D import Fields_ky, Fields_ky_CC, Fields_ky_N
|
||||
from SimPEG.Utils import sdiag
|
||||
import numpy as np
|
||||
from SimPEG.Utils import Zero
|
||||
from BoundaryUtils import getxBCyBC_CC
|
||||
|
||||
class BaseDCProblem_2D(BaseEMProblem):
|
||||
|
||||
surveyPair = Survey_ky
|
||||
fieldsPair = Fields_ky
|
||||
nky = 15
|
||||
kys = np.logspace(-4, 1, nky)
|
||||
Ainv = [None for i in range(nky)]
|
||||
nT = nky # Only for using TimeFields
|
||||
|
||||
def fields(self, m):
|
||||
self.curModel = m
|
||||
|
||||
if not self.Ainv[0] == None:
|
||||
for i in range(self.nky):
|
||||
self.Ainv[i].clean()
|
||||
|
||||
f = self.fieldsPair(self.mesh, self.survey)
|
||||
Srcs = self.survey.srcList
|
||||
for iky in range(self.nky):
|
||||
ky = self.kys[iky]
|
||||
A = self.getA(ky)
|
||||
self.Ainv[iky] = self.Solver(A, **self.solverOpts)
|
||||
RHS = self.getRHS(ky)
|
||||
u = self.Ainv[iky] * RHS
|
||||
f[Srcs, self._solutionType, iky] = u
|
||||
return f
|
||||
|
||||
def Jvec(self, m, v, f=None):
|
||||
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
|
||||
Jv = self.dataPair(self.survey) #same size as the data
|
||||
Jv0 = self.dataPair(self.survey)
|
||||
|
||||
# Assume y=0.
|
||||
# This needs some thoughts to implement in general when src is dipole
|
||||
dky = np.diff(self.kys)
|
||||
dky = np.r_[dky[0], dky]
|
||||
y = 0.
|
||||
|
||||
#TODO: this loop is pretty slow .. (Parellize)
|
||||
for iky in range(self.nky):
|
||||
ky = self.kys[iky]
|
||||
A = self.getA(ky)
|
||||
for src in self.survey.srcList:
|
||||
u_src = f[src, self._solutionType, iky] # solution vector
|
||||
dA_dm_v = self.getADeriv(ky, u_src, v)
|
||||
dRHS_dm_v = self.getRHSDeriv(ky, src, v)
|
||||
du_dm_v = self.Ainv[iky] * ( - dA_dm_v + dRHS_dm_v )
|
||||
for rx in src.rxList:
|
||||
df_dmFun = getattr(f, '_%sDeriv'%rx.projField, None)
|
||||
df_dm_v = df_dmFun(iky, src, du_dm_v, v, adjoint=False)
|
||||
# Trapezoidal intergration
|
||||
Jv1_temp = 1./np.pi*rx.evalDeriv(ky, src, self.mesh, f, df_dm_v)
|
||||
if iky==0:
|
||||
#First assigment
|
||||
Jv[src, rx] = Jv1_temp*dky[iky]*np.cos(ky*y)
|
||||
else:
|
||||
Jv[src, rx] += Jv1_temp*dky[iky] /2.*np.cos(ky*y)
|
||||
Jv[src, rx] += Jv0[src, rx]*dky[iky]/2.*np.cos(ky*y)
|
||||
Jv0[src, rx] = Jv1_temp.copy()
|
||||
return Utils.mkvc(Jv)
|
||||
|
||||
def Jtvec(self, m, v, f=None):
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
|
||||
# Ensure v is a data object.
|
||||
if not isinstance(v, self.dataPair):
|
||||
v = self.dataPair(self.survey, v)
|
||||
|
||||
Jtv = np.zeros(m.size, dtype=float)
|
||||
|
||||
# Assume y=0.
|
||||
# This needs some thoughts to implement in general when src is dipole
|
||||
dky = np.diff(self.kys)
|
||||
dky = np.r_[dky[0], dky]
|
||||
y = 0.
|
||||
|
||||
for src in self.survey.srcList:
|
||||
for rx in src.rxList:
|
||||
Jtv_temp1 = np.zeros(m.size, dtype=float)
|
||||
Jtv_temp0 = np.zeros(m.size, dtype=float)
|
||||
#TODO: this loop is pretty slow .. (Parellize)
|
||||
for iky in range(self.nky):
|
||||
u_src = f[src, self._solutionType, iky]
|
||||
ky = self.kys[iky]
|
||||
AT = self.getA(ky)
|
||||
PTv = rx.evalDeriv(ky, src, self.mesh, f, v[src, rx], adjoint=True) # wrt f, need possibility wrt m
|
||||
df_duTFun = getattr(f, '_%sDeriv'%rx.projField, None)
|
||||
df_duT, df_dmT = df_duTFun(iky, src, None, PTv, adjoint=True)
|
||||
|
||||
ATinvdf_duT = self.Ainv[iky] * df_duT
|
||||
|
||||
dA_dmT = self.getADeriv(ky, u_src, ATinvdf_duT, adjoint=True)
|
||||
dRHS_dmT = self.getRHSDeriv(ky, src, ATinvdf_duT, adjoint=True)
|
||||
du_dmT = -dA_dmT + dRHS_dmT
|
||||
Jtv_temp1 = 1./np.pi*(df_dmT + du_dmT).astype(float)
|
||||
# Trapezoidal intergration
|
||||
if iky==0:
|
||||
#First assigment
|
||||
Jtv += Jtv_temp1*dky[iky]*np.cos(ky*y)
|
||||
else:
|
||||
Jtv += Jtv_temp1*dky[iky]/2.*np.cos(ky*y)
|
||||
Jtv += Jtv_temp0*dky[iky]/2.*np.cos(ky*y)
|
||||
Jtv_temp0 = Jtv_temp1.copy()
|
||||
return Utils.mkvc(Jtv)
|
||||
|
||||
def getSourceTerm(self, ky):
|
||||
"""
|
||||
takes concept of source and turns it into a matrix
|
||||
"""
|
||||
"""
|
||||
Evaluates the sources, and puts them in matrix form
|
||||
|
||||
:rtype: (numpy.ndarray, numpy.ndarray)
|
||||
:return: q (nC or nN, nSrc)
|
||||
"""
|
||||
|
||||
Srcs = self.survey.srcList
|
||||
|
||||
if self._formulation is 'EB':
|
||||
n = self.mesh.nN
|
||||
# return NotImplementedError
|
||||
|
||||
elif self._formulation is 'HJ':
|
||||
n = self.mesh.nC
|
||||
|
||||
q = np.zeros((n, len(Srcs)))
|
||||
|
||||
for i, src in enumerate(Srcs):
|
||||
q[:,i] = src.eval(self)
|
||||
return q
|
||||
|
||||
class Problem2D_CC(BaseDCProblem_2D):
|
||||
|
||||
_solutionType = 'phiSolution'
|
||||
_formulation = 'HJ' # CC potentials means J is on faces
|
||||
fieldsPair = Fields_ky_CC
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseDCProblem_2D.__init__(self, mesh, **kwargs)
|
||||
self.setBC()
|
||||
|
||||
def getA(self, ky):
|
||||
"""
|
||||
|
||||
Make the A matrix for the cell centered DC resistivity problem
|
||||
|
||||
A = D MfRhoI G
|
||||
|
||||
"""
|
||||
|
||||
D = self.Div
|
||||
G = self.Grad
|
||||
vol = self.mesh.vol
|
||||
MfRhoI = self.MfRhoI
|
||||
# Get resistivity rho
|
||||
rho = self.curModel.rho
|
||||
A = D * MfRhoI * G + Utils.sdiag(ky**2*vol/rho)
|
||||
return A
|
||||
|
||||
def getADeriv(self, ky, u, v, adjoint= False):
|
||||
|
||||
D = self.Div
|
||||
G = self.Grad
|
||||
vol = self.mesh.vol
|
||||
MfRhoIDeriv = self.MfRhoIDeriv
|
||||
rho = self.curModel.rho
|
||||
if adjoint:
|
||||
return(MfRhoIDeriv( G * u ).T) * ( D.T * v) + ky**2*Utils.sdiag(u.flatten()*vol*(-1./rho**2))*v
|
||||
return D * ((MfRhoIDeriv( G * u )) * v) + ky**2*Utils.sdiag(u.flatten()*vol*(-1./rho**2))*v
|
||||
|
||||
def getRHS(self, ky):
|
||||
"""
|
||||
RHS for the DC problem
|
||||
|
||||
q
|
||||
"""
|
||||
|
||||
RHS = self.getSourceTerm(ky)
|
||||
return RHS
|
||||
|
||||
def getRHSDeriv(self, ky, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
"""
|
||||
# TODO: add qDeriv for RHS depending on m
|
||||
# qDeriv = src.evalDeriv(self, ky, adjoint=adjoint)
|
||||
# return qDeriv
|
||||
return Zero()
|
||||
|
||||
def setBC(self):
|
||||
if self.mesh.dim==3:
|
||||
fxm,fxp,fym,fyp,fzm,fzp = self.mesh.faceBoundaryInd
|
||||
gBFxm = self.mesh.gridFx[fxm,:]
|
||||
gBFxp = self.mesh.gridFx[fxp,:]
|
||||
gBFym = self.mesh.gridFy[fym,:]
|
||||
gBFyp = self.mesh.gridFy[fyp,:]
|
||||
gBFzm = self.mesh.gridFz[fzm,:]
|
||||
gBFzp = self.mesh.gridFz[fzp,:]
|
||||
|
||||
# Setup Mixed B.C (alpha, beta, gamma)
|
||||
temp_xm, temp_xp = np.ones_like(gBFxm[:,0]), np.ones_like(gBFxp[:,0])
|
||||
temp_ym, temp_yp = np.ones_like(gBFym[:,1]), np.ones_like(gBFyp[:,1])
|
||||
temp_zm, temp_zp = np.ones_like(gBFzm[:,2]), np.ones_like(gBFzp[:,2])
|
||||
|
||||
alpha_xm, alpha_xp = temp_xm*0., temp_xp*0.
|
||||
alpha_ym, alpha_yp = temp_ym*0., temp_yp*0.
|
||||
alpha_zm, alpha_zp = temp_zm*0., temp_zp*0.
|
||||
|
||||
beta_xm, beta_xp = temp_xm, temp_xp
|
||||
beta_ym, beta_yp = temp_ym, temp_yp
|
||||
beta_zm, beta_zp = temp_zm, temp_zp
|
||||
|
||||
gamma_xm, gamma_xp = temp_xm*0., temp_xp*0.
|
||||
gamma_ym, gamma_yp = temp_ym*0., temp_yp*0.
|
||||
gamma_zm, gamma_zp = temp_zm*0., temp_zp*0.
|
||||
|
||||
alpha = [alpha_xm, alpha_xp, alpha_ym, alpha_yp, alpha_zm, alpha_zp]
|
||||
beta = [beta_xm, beta_xp, beta_ym, beta_yp, beta_zm, beta_zp]
|
||||
gamma = [gamma_xm, gamma_xp, gamma_ym, gamma_yp, gamma_zm, gamma_zp]
|
||||
|
||||
elif self.mesh.dim==2:
|
||||
|
||||
fxm,fxp,fym,fyp = self.mesh.faceBoundaryInd
|
||||
gBFxm = self.mesh.gridFx[fxm,:]
|
||||
gBFxp = self.mesh.gridFx[fxp,:]
|
||||
gBFym = self.mesh.gridFy[fym,:]
|
||||
gBFyp = self.mesh.gridFy[fyp,:]
|
||||
|
||||
# Setup Mixed B.C (alpha, beta, gamma)
|
||||
temp_xm, temp_xp = np.ones_like(gBFxm[:,0]), np.ones_like(gBFxp[:,0])
|
||||
temp_ym, temp_yp = np.ones_like(gBFym[:,1]), np.ones_like(gBFyp[:,1])
|
||||
|
||||
alpha_xm, alpha_xp = temp_xm*0., temp_xp*0.
|
||||
alpha_ym, alpha_yp = temp_ym*0., temp_yp*0.
|
||||
|
||||
beta_xm, beta_xp = temp_xm, temp_xp
|
||||
beta_ym, beta_yp = temp_ym, temp_yp
|
||||
|
||||
gamma_xm, gamma_xp = temp_xm*0., temp_xp*0.
|
||||
gamma_ym, gamma_yp = temp_ym*0., temp_yp*0.
|
||||
|
||||
alpha = [alpha_xm, alpha_xp, alpha_ym, alpha_yp]
|
||||
beta = [beta_xm, beta_xp, beta_ym, beta_yp]
|
||||
gamma = [gamma_xm, gamma_xp, gamma_ym, gamma_yp]
|
||||
|
||||
x_BC, y_BC = getxBCyBC_CC(self.mesh, alpha, beta, gamma)
|
||||
V = self.Vol
|
||||
self.Div = V * self.mesh.faceDiv
|
||||
P_BC, B = self.mesh.getBCProjWF_simple()
|
||||
M = B*self.mesh.aveCC2F
|
||||
self.Grad = self.Div.T - P_BC*Utils.sdiag(y_BC)*M
|
||||
|
||||
class Problem2D_N(BaseDCProblem_2D):
|
||||
|
||||
_solutionType = 'phiSolution'
|
||||
_formulation = 'EB' # CC potentials means J is on faces
|
||||
fieldsPair = Fields_ky_N
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseDCProblem_2D.__init__(self, mesh, **kwargs)
|
||||
# self.setBC()
|
||||
|
||||
@property
|
||||
def MnSigma(self):
|
||||
"""
|
||||
Node inner product matrix for \\(\\sigma\\). Used in the E-B formulation
|
||||
"""
|
||||
# TODO: only works isotropic sigma
|
||||
sigma = self.curModel.sigma
|
||||
vol = self.mesh.vol
|
||||
MnSigma = Utils.sdiag(self.mesh.aveN2CC.T*(Utils.sdiag(vol)*sigma))
|
||||
|
||||
return MnSigma
|
||||
|
||||
def MnSigmaDeriv(self, u):
|
||||
"""
|
||||
Derivative of MnSigma with respect to the model
|
||||
"""
|
||||
sigma = self.curModel.sigma
|
||||
sigmaderiv = self.curModel.sigmaDeriv
|
||||
vol = self.mesh.vol
|
||||
return Utils.sdiag(u)*self.mesh.aveN2CC.T*Utils.sdiag(vol) * self.curModel.sigmaDeriv
|
||||
|
||||
def getA(self, ky):
|
||||
"""
|
||||
|
||||
Make the A matrix for the cell centered DC resistivity problem
|
||||
|
||||
A = D MfRhoI G
|
||||
|
||||
"""
|
||||
|
||||
MeSigma = self.MeSigma
|
||||
MnSigma = self.MnSigma
|
||||
Grad = self.mesh.nodalGrad
|
||||
# Get conductivity sigma
|
||||
sigma = self.curModel.sigma
|
||||
A = Grad.T * MeSigma * Grad + ky**2*MnSigma
|
||||
|
||||
# Handling Null space of A
|
||||
A[0,0] = A[0,0] + 1.
|
||||
return A
|
||||
|
||||
def getADeriv(self, ky, u, v, adjoint= False):
|
||||
|
||||
MeSigma = self.MeSigma
|
||||
Grad = self.mesh.nodalGrad
|
||||
sigma = self.curModel.sigma
|
||||
vol = self.mesh.vol
|
||||
|
||||
if adjoint:
|
||||
return self.MeSigmaDeriv(Grad*u).T * (Grad*v) + ky**2*self.MnSigmaDeriv(u).T*v
|
||||
return Grad.T*(self.MeSigmaDeriv(Grad*u)*v) + ky**2*self.MnSigmaDeriv(u)*v
|
||||
|
||||
def getRHS(self, ky):
|
||||
"""
|
||||
RHS for the DC problem
|
||||
|
||||
q
|
||||
"""
|
||||
|
||||
RHS = self.getSourceTerm(ky)
|
||||
return RHS
|
||||
|
||||
def getRHSDeriv(self, ky, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
"""
|
||||
# TODO: add qDeriv for RHS depending on m
|
||||
# qDeriv = src.evalDeriv(self, ky, adjoint=adjoint)
|
||||
# return qDeriv
|
||||
return Zero()
|
||||
@@ -1,129 +0,0 @@
|
||||
import SimPEG
|
||||
import numpy as np
|
||||
from SimPEG.Utils import Zero, closestPoints
|
||||
|
||||
class BaseRx(SimPEG.Survey.BaseRx):
|
||||
locs = None
|
||||
rxType = None
|
||||
|
||||
knownRxTypes = {
|
||||
'phi':['phi',None],
|
||||
'ex':['e','x'],
|
||||
'ey':['e','y'],
|
||||
'ez':['e','z'],
|
||||
'jx':['j','x'],
|
||||
'jy':['j','y'],
|
||||
'jz':['j','z'],
|
||||
}
|
||||
|
||||
def __init__(self, locs, rxType, **kwargs):
|
||||
SimPEG.Survey.BaseRx.__init__(self, locs, rxType, **kwargs)
|
||||
|
||||
|
||||
@property
|
||||
def projField(self):
|
||||
"""Field Type projection (e.g. e b ...)"""
|
||||
return self.knownRxTypes[self.rxType][0]
|
||||
|
||||
def projGLoc(self, f):
|
||||
"""Grid Location projection (e.g. Ex Fy ...)"""
|
||||
comp = self.knownRxTypes[self.rxType][1]
|
||||
if comp is not None:
|
||||
return f._GLoc(self.rxType) + comp
|
||||
return f._GLoc(self.rxType)
|
||||
|
||||
def eval(self, src, mesh, f):
|
||||
P = self.getP(mesh, self.projGLoc(f))
|
||||
return P*f[src, self.projField]
|
||||
|
||||
def evalDeriv(self, src, mesh, f, v, adjoint=False):
|
||||
P = self.getP(mesh, self.projGLoc(f))
|
||||
if not adjoint:
|
||||
return P*v
|
||||
elif adjoint:
|
||||
return P.T*v
|
||||
|
||||
# DC.Rx.Dipole(locs)
|
||||
class Dipole(BaseRx):
|
||||
|
||||
def __init__(self, locsM, locsN, rxType = 'phi', **kwargs):
|
||||
assert locsM.shape == locsN.shape, 'locsM and locsN need to be the same size'
|
||||
locs = [locsM, locsN]
|
||||
# We may not need this ...
|
||||
BaseRx.__init__(self, locs, rxType)
|
||||
|
||||
@property
|
||||
def nD(self):
|
||||
"""Number of data in the receiver."""
|
||||
return self.locs[0].shape[0]
|
||||
|
||||
# Not sure why ...
|
||||
# return int(self.locs[0].size / 2)
|
||||
|
||||
|
||||
def getP(self, mesh, Gloc):
|
||||
if mesh in self._Ps:
|
||||
return self._Ps[mesh]
|
||||
|
||||
P0 = mesh.getInterpolationMat(self.locs[0], Gloc)
|
||||
P1 = mesh.getInterpolationMat(self.locs[1], Gloc)
|
||||
P = P0 - P1
|
||||
|
||||
if self.storeProjections:
|
||||
self._Ps[mesh] = P
|
||||
|
||||
return P
|
||||
|
||||
|
||||
class Dipole_ky(BaseRx):
|
||||
|
||||
def __init__(self, locsM, locsN, rxType = 'phi', **kwargs):
|
||||
assert locsM.shape == locsN.shape, 'locsM and locsN need to be the same size'
|
||||
locs = [locsM, locsN]
|
||||
# We may not need this ...
|
||||
BaseRx.__init__(self, locs, rxType)
|
||||
|
||||
@property
|
||||
def nD(self):
|
||||
"""Number of data in the receiver."""
|
||||
return self.locs[0].shape[0]
|
||||
|
||||
# Not sure why ...
|
||||
# return int(self.locs[0].size / 2)
|
||||
|
||||
def getP(self, mesh, Gloc):
|
||||
if mesh in self._Ps:
|
||||
return self._Ps[mesh]
|
||||
|
||||
P0 = mesh.getInterpolationMat(self.locs[0], Gloc)
|
||||
P1 = mesh.getInterpolationMat(self.locs[1], Gloc)
|
||||
P = P0 - P1
|
||||
if self.storeProjections:
|
||||
self._Ps[mesh] = P
|
||||
return P
|
||||
|
||||
def eval(self, kys, src, mesh, f):
|
||||
P = self.getP(mesh, self.projGLoc(f))
|
||||
Pf = P*f[src, self.projField,:]
|
||||
return self.IntTrapezoidal(kys, Pf, y=0.)
|
||||
|
||||
def evalDeriv(self, ky, src, mesh, f, v, adjoint=False):
|
||||
P = self.getP(mesh, self.projGLoc(f))
|
||||
if not adjoint:
|
||||
return P*v
|
||||
elif adjoint:
|
||||
return P.T*v
|
||||
|
||||
def IntTrapezoidal(self, kys, Pf, y=0.):
|
||||
phi = np.zeros(Pf.shape[0])
|
||||
nky = kys.size
|
||||
dky = np.diff(kys)
|
||||
dky = np.r_[dky[0], dky]
|
||||
phi0 = 1./np.pi*Pf[:,0]
|
||||
for iky in range(nky):
|
||||
phi1 = 1./np.pi*Pf[:,iky]
|
||||
phi += phi1*dky[iky]/2.*np.cos(kys[iky]*y)
|
||||
phi += phi0*dky[iky]/2.*np.cos(kys[iky]*y)
|
||||
phi0 = phi1.copy()
|
||||
return phi
|
||||
|
||||
@@ -1,86 +0,0 @@
|
||||
import SimPEG
|
||||
# from SimPEG.EM.Base import BaseEMSurvey
|
||||
from SimPEG.Utils import Zero, closestPoints, mkvc
|
||||
import numpy as np
|
||||
|
||||
class BaseSrc(SimPEG.Survey.BaseSrc):
|
||||
|
||||
current = 1.0
|
||||
loc = None
|
||||
|
||||
def __init__(self, rxList, **kwargs):
|
||||
SimPEG.Survey.BaseSrc.__init__(self, rxList, **kwargs)
|
||||
|
||||
def eval(self, prob):
|
||||
raise NotImplementedError
|
||||
|
||||
def evalDeriv(self, prob):
|
||||
return Zero()
|
||||
|
||||
|
||||
class Dipole(BaseSrc):
|
||||
|
||||
def __init__(self, rxList, locA, locB, **kwargs):
|
||||
assert locA.shape == locB.shape, 'Shape of locA and locB should be the same'
|
||||
self.loc = [locA, locB]
|
||||
BaseSrc.__init__(self, rxList, **kwargs)
|
||||
|
||||
def eval(self, prob):
|
||||
if prob._formulation == 'HJ':
|
||||
inds = closestPoints(prob.mesh, self.loc, gridLoc='CC')
|
||||
q = np.zeros(prob.mesh.nC)
|
||||
q[inds] = self.current * np.r_[1., -1.]
|
||||
elif prob._formulation == 'EB':
|
||||
qa = prob.mesh.getInterpolationMat(self.loc[0], locType='N').todense()
|
||||
qb = -prob.mesh.getInterpolationMat(self.loc[1], locType='N').todense()
|
||||
q = self.current * mkvc(qa+qb)
|
||||
return q
|
||||
|
||||
class Pole(BaseSrc):
|
||||
|
||||
def __init__(self, rxList, loc, **kwargs):
|
||||
BaseSrc.__init__(self, rxList, loc=loc, **kwargs)
|
||||
|
||||
def eval(self, prob):
|
||||
if prob._formulation == 'HJ':
|
||||
inds = closestPoints(prob.mesh, self.loc)
|
||||
q = np.zeros(prob.mesh.nC)
|
||||
q[inds] = self.current * np.r_[1.]
|
||||
elif prob._formulation == 'EB':
|
||||
q = prob.mesh.getInterpolationMat(self.loc, locType='N').todense()
|
||||
q = self.current * mkvc(q)
|
||||
return q
|
||||
|
||||
|
||||
# class Dipole_ky(BaseSrc):
|
||||
|
||||
# def __init__(self, rxList, locA, locB, **kwargs):
|
||||
# assert locA.shape == locB.shape, 'Shape of locA and locB should be the same'
|
||||
# self.loc = [locA[[0,2]], locB[[0,2]]]
|
||||
# BaseSrc.__init__(self, rxList, **kwargs)
|
||||
|
||||
# def eval(self, prob):
|
||||
# if prob._formulation == 'HJ':
|
||||
# inds = closestPoints(prob.mesh, self.loc, gridLoc='CC')
|
||||
# q = np.zeros(prob.mesh.nC)
|
||||
# q[inds] = self.current * np.r_[1., -1.]
|
||||
# elif prob._formulation == 'EB':
|
||||
# qa = prob.mesh.getInterpolationMat(self.loc[0], locType='N').todense()
|
||||
# qb = -prob.mesh.getInterpolationMat(self.loc[1], locType='N').todense()
|
||||
# q = self.current * mkvc(qa+qb)
|
||||
# return q
|
||||
|
||||
# class Pole_ky(BaseSrc):
|
||||
|
||||
# def __init__(self, rxList, loc, **kwargs):
|
||||
# BaseSrc.__init__(self, rxList, loc=loc, **kwargs)
|
||||
|
||||
# def eval(self, prob):
|
||||
# if prob._formulation == 'HJ':
|
||||
# inds = closestPoints(prob.mesh, self.loc[[0,2]])
|
||||
# q = np.zeros(prob.mesh.nC)
|
||||
# q[inds] = self.current * np.r_[1.]
|
||||
# elif prob._formulation == 'EB':
|
||||
# q = prob.mesh.getInterpolationMat(self.loc[[0,2]], locType='N').todense()
|
||||
# q = self.current * mkvc(q)
|
||||
# return q
|
||||
@@ -1,38 +0,0 @@
|
||||
import SimPEG
|
||||
from SimPEG.EM.Base import BaseEMSurvey
|
||||
from SimPEG import sp, Survey
|
||||
from SimPEG.Utils import Zero, Identity
|
||||
from RxDC import BaseRx
|
||||
from SrcDC import BaseSrc
|
||||
|
||||
class Survey(BaseEMSurvey):
|
||||
rxPair = BaseRx
|
||||
srcPair = BaseSrc
|
||||
|
||||
def __init__(self, srcList, **kwargs):
|
||||
self.srcList = srcList
|
||||
BaseEMSurvey.__init__(self, srcList, **kwargs)
|
||||
|
||||
class Survey_ky(BaseEMSurvey):
|
||||
rxPair = BaseRx
|
||||
srcPair = BaseSrc
|
||||
|
||||
def __init__(self, srcList, **kwargs):
|
||||
self.srcList = srcList
|
||||
BaseEMSurvey.__init__(self, srcList, **kwargs)
|
||||
|
||||
def eval(self, f):
|
||||
"""
|
||||
Project fields to receiver locations
|
||||
:param Fields u: fields object
|
||||
:rtype: numpy.ndarray
|
||||
:return: data
|
||||
"""
|
||||
data = SimPEG.Survey.Data(self)
|
||||
kys = self.prob.kys
|
||||
for src in self.srcList:
|
||||
for rx in src.rxList:
|
||||
data[src, rx] = rx.eval(kys, src, self.mesh, f)
|
||||
return data
|
||||
|
||||
|
||||
@@ -1,38 +0,0 @@
|
||||
import numpy as np
|
||||
|
||||
def WennerSrcList(nElecs, aSpacing, in2D=False, plotIt=False):
|
||||
|
||||
import SimPEG.EM.Static.DC as DC
|
||||
|
||||
elocs = np.arange(0,aSpacing*nElecs,aSpacing)
|
||||
elocs -= (nElecs*aSpacing - aSpacing)/2
|
||||
space = 1
|
||||
WENNER = np.zeros((0,),dtype=int)
|
||||
for ii in range(nElecs):
|
||||
for jj in range(nElecs):
|
||||
test = np.r_[jj,jj+space,jj+space*2,jj+space*3]
|
||||
if np.any(test >= nElecs):
|
||||
break
|
||||
WENNER = np.r_[WENNER, test]
|
||||
space += 1
|
||||
WENNER = WENNER.reshape((-1,4))
|
||||
|
||||
|
||||
if plotIt:
|
||||
for i, s in enumerate('rbkg'):
|
||||
plt.plot(elocs[WENNER[:,i]],s+'.')
|
||||
plt.show()
|
||||
|
||||
# Create sources and receivers
|
||||
i = 0
|
||||
if in2D:
|
||||
getLoc = lambda ii, abmn: np.r_[elocs[WENNER[ii,abmn]],0]
|
||||
else:
|
||||
getLoc = lambda ii, abmn: np.r_[elocs[WENNER[ii,abmn]],0, 0]
|
||||
srcList = []
|
||||
for i in range(WENNER.shape[0]):
|
||||
rx = DC.Rx.Dipole(getLoc(i,1).reshape([1,-1]),getLoc(i,2).reshape([1,-1]))
|
||||
src = DC.Src.Dipole([rx], getLoc(i,0),getLoc(i,3))
|
||||
srcList += [src]
|
||||
|
||||
return srcList
|
||||
@@ -1,8 +0,0 @@
|
||||
from ProblemDC import Problem3D_CC, Problem3D_N
|
||||
from ProblemDC_2D import Problem2D_CC, Problem2D_N
|
||||
from SurveyDC import Survey, Survey_ky
|
||||
import SrcDC as Src #Pole
|
||||
import RxDC as Rx
|
||||
from FieldsDC import Fields_CC
|
||||
from BoundaryUtils import getxBCyBC_CC
|
||||
import Utils
|
||||
@@ -1,372 +0,0 @@
|
||||
from SimPEG import Problem, Utils, Maps, Mesh
|
||||
from SimPEG.EM.Base import BaseEMProblem
|
||||
from SimPEG.EM.Static.DC.FieldsDC import Fields, Fields_CC, Fields_N
|
||||
from SimPEG.Utils import sdiag
|
||||
import numpy as np
|
||||
from SimPEG.Utils import Zero
|
||||
from SimPEG.EM.Static.DC import getxBCyBC_CC
|
||||
from SurveyIP import Survey
|
||||
|
||||
class IPPropMap(Maps.PropMap):
|
||||
"""
|
||||
Property Map for IP Problems. The electrical chargeability,
|
||||
(\\(\\eta\\)) is the default inversion property
|
||||
"""
|
||||
eta = Maps.Property("Electrical Chargeability", defaultInvProp = True)
|
||||
|
||||
class BaseIPProblem(BaseEMProblem):
|
||||
|
||||
surveyPair = Survey
|
||||
fieldsPair = Fields
|
||||
PropMap = IPPropMap
|
||||
Ainv = None
|
||||
sigma = None
|
||||
rho = None
|
||||
f = None
|
||||
Ainv = None
|
||||
|
||||
def fields(self, m):
|
||||
self.curModel = m
|
||||
if self.f is None:
|
||||
self.f = self.fieldsPair(self.mesh, self.survey)
|
||||
if self.Ainv == None:
|
||||
A = self.getA()
|
||||
self.Ainv = self.Solver(A, **self.solverOpts)
|
||||
RHS = self.getRHS()
|
||||
u = self.Ainv * RHS
|
||||
Srcs = self.survey.srcList
|
||||
self.f[Srcs, self._solutionType] = u
|
||||
return self.f
|
||||
|
||||
def Jvec(self, m, v, f=None):
|
||||
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
|
||||
Jv = self.dataPair(self.survey) #same size as the data
|
||||
|
||||
A = self.getA()
|
||||
|
||||
for src in self.survey.srcList:
|
||||
u_src = f[src, self._solutionType] # solution vector
|
||||
dA_dm_v = self.getADeriv(u_src, v)
|
||||
dRHS_dm_v = self.getRHSDeriv(src, v)
|
||||
du_dm_v = self.Ainv * ( - dA_dm_v + dRHS_dm_v )
|
||||
|
||||
for rx in src.rxList:
|
||||
df_dmFun = getattr(f, '_%sDeriv'%rx.projField, None)
|
||||
df_dm_v = df_dmFun(src, du_dm_v, v, adjoint=False)
|
||||
Jv[src, rx] = rx.evalDeriv(src, self.mesh, f, df_dm_v)
|
||||
# Conductivity (d u / d log sigma)
|
||||
if self._formulation is 'EB':
|
||||
return -Utils.mkvc(Jv)
|
||||
# Conductivity (d u / d log rho)
|
||||
if self._formulation is 'HJ':
|
||||
return Utils.mkvc(Jv)
|
||||
|
||||
def Jtvec(self, m, v, f=None):
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
|
||||
# Ensure v is a data object.
|
||||
if not isinstance(v, self.dataPair):
|
||||
v = self.dataPair(self.survey, v)
|
||||
|
||||
Jtv = np.zeros(m.size)
|
||||
AT = self.getA()
|
||||
|
||||
for src in self.survey.srcList:
|
||||
u_src = f[src, self._solutionType]
|
||||
for rx in src.rxList:
|
||||
PTv = rx.evalDeriv(src, self.mesh, f, v[src, rx], adjoint=True) # wrt f, need possibility wrt m
|
||||
df_duTFun = getattr(f, '_%sDeriv'%rx.projField, None)
|
||||
df_duT, df_dmT = df_duTFun(src, None, PTv, adjoint=True)
|
||||
ATinvdf_duT = self.Ainv * df_duT
|
||||
dA_dmT = self.getADeriv(u_src, ATinvdf_duT, adjoint=True)
|
||||
dRHS_dmT = self.getRHSDeriv(src, ATinvdf_duT, adjoint=True)
|
||||
du_dmT = -dA_dmT + dRHS_dmT
|
||||
Jtv += (df_dmT + du_dmT).astype(float)
|
||||
# Conductivity ((d u / d log sigma).T)
|
||||
if self._formulation is 'EB':
|
||||
return -Utils.mkvc(Jtv)
|
||||
# Conductivity ((d u / d log rho).T)
|
||||
if self._formulation is 'HJ':
|
||||
return Utils.mkvc(Jtv)
|
||||
|
||||
def getSourceTerm(self):
|
||||
"""
|
||||
takes concept of source and turns it into a matrix
|
||||
"""
|
||||
"""
|
||||
Evaluates the sources, and puts them in matrix form
|
||||
|
||||
:rtype: (numpy.ndarray, numpy.ndarray)
|
||||
:return: q (nC or nN, nSrc)
|
||||
"""
|
||||
|
||||
Srcs = self.survey.srcList
|
||||
|
||||
if self._formulation is 'EB':
|
||||
n = self.mesh.nN
|
||||
# return NotImplementedError
|
||||
|
||||
elif self._formulation is 'HJ':
|
||||
n = self.mesh.nC
|
||||
|
||||
q = np.zeros((n, len(Srcs)))
|
||||
|
||||
for i, src in enumerate(Srcs):
|
||||
q[:,i] = src.eval(self)
|
||||
return q
|
||||
|
||||
@property
|
||||
def deleteTheseOnModelUpdate(self):
|
||||
toDelete = []
|
||||
return toDelete
|
||||
|
||||
# assume log rho or log cond
|
||||
@property
|
||||
def MeSigma(self):
|
||||
"""
|
||||
Edge inner product matrix for \\(\\sigma\\). Used in the E-B formulation
|
||||
"""
|
||||
if getattr(self, '_MeSigma', None) is None:
|
||||
self._MeSigma = self.mesh.getEdgeInnerProduct(self.sigma)
|
||||
return self._MeSigma
|
||||
|
||||
@property
|
||||
def MfRhoI(self):
|
||||
"""
|
||||
Inverse of :code:`MfRho`
|
||||
"""
|
||||
if getattr(self, '_MfRhoI', None) is None:
|
||||
self._MfRhoI = self.mesh.getFaceInnerProduct(self.rho, invMat=True)
|
||||
return self._MfRhoI
|
||||
|
||||
def MfRhoIDeriv(self,u):
|
||||
"""
|
||||
Derivative of :code:`MfRhoI` with respect to the model.
|
||||
"""
|
||||
|
||||
dMfRhoI_dI = -self.MfRhoI**2
|
||||
dMf_drho = self.mesh.getFaceInnerProductDeriv(self.rho)(u)
|
||||
drho_dlogrho = Utils.sdiag(self.rho)*self.curModel.etaDeriv
|
||||
return dMfRhoI_dI * ( dMf_drho * ( drho_dlogrho))
|
||||
|
||||
# TODO: This should take a vector
|
||||
def MeSigmaDeriv(self, u):
|
||||
"""
|
||||
Derivative of MeSigma with respect to the model
|
||||
"""
|
||||
dsigma_dlogsigma = Utils.sdiag(self.sigma)*self.curModel.etaDeriv
|
||||
return self.mesh.getEdgeInnerProductDeriv(self.sigma)(u) * dsigma_dlogsigma
|
||||
|
||||
class Problem3D_CC(BaseIPProblem):
|
||||
|
||||
_solutionType = 'phiSolution'
|
||||
_formulation = 'HJ' # CC potentials means J is on faces
|
||||
fieldsPair = Fields_CC
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseIPProblem.__init__(self, mesh, **kwargs)
|
||||
self.setBC()
|
||||
|
||||
def getA(self):
|
||||
"""
|
||||
|
||||
Make the A matrix for the cell centered DC resistivity problem
|
||||
|
||||
A = D MfRhoI G
|
||||
|
||||
"""
|
||||
|
||||
D = self.Div
|
||||
G = self.Grad
|
||||
MfRhoI = self.MfRhoI
|
||||
A = D * MfRhoI * G
|
||||
|
||||
# I think we should deprecate this for DC problem.
|
||||
# if self._makeASymmetric is True:
|
||||
# return V.T * A
|
||||
return A
|
||||
|
||||
def getADeriv(self, u, v, adjoint= False):
|
||||
|
||||
D = self.Div
|
||||
G = self.Grad
|
||||
MfRhoIDeriv = self.MfRhoIDeriv
|
||||
|
||||
if adjoint:
|
||||
# if self._makeASymmetric is True:
|
||||
# v = V * v
|
||||
return(MfRhoIDeriv( G * u ).T) * ( D.T * v)
|
||||
|
||||
# I think we should deprecate this for DC problem.
|
||||
# if self._makeASymmetric is True:
|
||||
# return V.T * ( D * ( MfRhoIDeriv( D.T * ( V * u ) ) * v ) )
|
||||
return D * (MfRhoIDeriv( G * u ) * v)
|
||||
|
||||
def getRHS(self):
|
||||
"""
|
||||
RHS for the DC problem
|
||||
|
||||
q
|
||||
"""
|
||||
|
||||
RHS = self.getSourceTerm()
|
||||
|
||||
# I think we should deprecate this for DC problem.
|
||||
# if self._makeASymmetric is True:
|
||||
# return self.Vol.T * RHS
|
||||
|
||||
return RHS
|
||||
|
||||
def getRHSDeriv(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
"""
|
||||
# TODO: add qDeriv for RHS depending on m
|
||||
# qDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
# return qDeriv
|
||||
return Zero()
|
||||
|
||||
def setBC(self):
|
||||
if self.mesh.dim==3:
|
||||
fxm,fxp,fym,fyp,fzm,fzp = self.mesh.faceBoundaryInd
|
||||
gBFxm = self.mesh.gridFx[fxm,:]
|
||||
gBFxp = self.mesh.gridFx[fxp,:]
|
||||
gBFym = self.mesh.gridFy[fym,:]
|
||||
gBFyp = self.mesh.gridFy[fyp,:]
|
||||
gBFzm = self.mesh.gridFz[fzm,:]
|
||||
gBFzp = self.mesh.gridFz[fzp,:]
|
||||
|
||||
# Setup Mixed B.C (alpha, beta, gamma)
|
||||
temp_xm, temp_xp = np.ones_like(gBFxm[:,0]), np.ones_like(gBFxp[:,0])
|
||||
temp_ym, temp_yp = np.ones_like(gBFym[:,1]), np.ones_like(gBFyp[:,1])
|
||||
temp_zm, temp_zp = np.ones_like(gBFzm[:,2]), np.ones_like(gBFzp[:,2])
|
||||
|
||||
alpha_xm, alpha_xp = temp_xm*0., temp_xp*0.
|
||||
alpha_ym, alpha_yp = temp_ym*0., temp_yp*0.
|
||||
alpha_zm, alpha_zp = temp_zm*0., temp_zp*0.
|
||||
|
||||
beta_xm, beta_xp = temp_xm, temp_xp
|
||||
beta_ym, beta_yp = temp_ym, temp_yp
|
||||
beta_zm, beta_zp = temp_zm, temp_zp
|
||||
|
||||
gamma_xm, gamma_xp = temp_xm*0., temp_xp*0.
|
||||
gamma_ym, gamma_yp = temp_ym*0., temp_yp*0.
|
||||
gamma_zm, gamma_zp = temp_zm*0., temp_zp*0.
|
||||
|
||||
alpha = [alpha_xm, alpha_xp, alpha_ym, alpha_yp, alpha_zm, alpha_zp]
|
||||
beta = [beta_xm, beta_xp, beta_ym, beta_yp, beta_zm, beta_zp]
|
||||
gamma = [gamma_xm, gamma_xp, gamma_ym, gamma_yp, gamma_zm, gamma_zp]
|
||||
|
||||
elif self.mesh.dim==2:
|
||||
|
||||
fxm,fxp,fym,fyp = self.mesh.faceBoundaryInd
|
||||
gBFxm = self.mesh.gridFx[fxm,:]
|
||||
gBFxp = self.mesh.gridFx[fxp,:]
|
||||
gBFym = self.mesh.gridFy[fym,:]
|
||||
gBFyp = self.mesh.gridFy[fyp,:]
|
||||
|
||||
# Setup Mixed B.C (alpha, beta, gamma)
|
||||
temp_xm, temp_xp = np.ones_like(gBFxm[:,0]), np.ones_like(gBFxp[:,0])
|
||||
temp_ym, temp_yp = np.ones_like(gBFym[:,1]), np.ones_like(gBFyp[:,1])
|
||||
|
||||
alpha_xm, alpha_xp = temp_xm*0., temp_xp*0.
|
||||
alpha_ym, alpha_yp = temp_ym*0., temp_yp*0.
|
||||
|
||||
beta_xm, beta_xp = temp_xm, temp_xp
|
||||
beta_ym, beta_yp = temp_ym, temp_yp
|
||||
|
||||
gamma_xm, gamma_xp = temp_xm*0., temp_xp*0.
|
||||
gamma_ym, gamma_yp = temp_ym*0., temp_yp*0.
|
||||
|
||||
alpha = [alpha_xm, alpha_xp, alpha_ym, alpha_yp]
|
||||
beta = [beta_xm, beta_xp, beta_ym, beta_yp]
|
||||
gamma = [gamma_xm, gamma_xp, gamma_ym, gamma_yp]
|
||||
|
||||
x_BC, y_BC = getxBCyBC_CC(self.mesh, alpha, beta, gamma)
|
||||
V = self.Vol
|
||||
self.Div = V * self.mesh.faceDiv
|
||||
P_BC, B = self.mesh.getBCProjWF_simple()
|
||||
M = B*self.mesh.aveCC2F
|
||||
self.Grad = self.Div.T - P_BC*Utils.sdiag(y_BC)*M
|
||||
|
||||
|
||||
class Problem3D_N(BaseIPProblem):
|
||||
|
||||
_solutionType = 'phiSolution'
|
||||
_formulation = 'EB' # N potentials means B is on faces
|
||||
fieldsPair = Fields_N
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseIPProblem.__init__(self, mesh, **kwargs)
|
||||
|
||||
def getA(self):
|
||||
"""
|
||||
|
||||
Make the A matrix for the cell centered DC resistivity problem
|
||||
|
||||
A = G.T MeSigma G
|
||||
|
||||
"""
|
||||
|
||||
MeSigma = self.MeSigma
|
||||
Grad = self.mesh.nodalGrad
|
||||
A = Grad.T * MeSigma * Grad
|
||||
|
||||
# Handling Null space of A
|
||||
A[0,0] = A[0,0] + 1.
|
||||
|
||||
return A
|
||||
|
||||
def getADeriv(self, u, v, adjoint=False):
|
||||
"""
|
||||
|
||||
Product of the derivative of our system matrix with respect to the model and a vector
|
||||
|
||||
"""
|
||||
MeSigma = self.MeSigma
|
||||
Grad = self.mesh.nodalGrad
|
||||
if not adjoint:
|
||||
return Grad.T*(self.MeSigmaDeriv(Grad*u)*v)
|
||||
elif adjoint:
|
||||
return self.MeSigmaDeriv(Grad*u).T * (Grad*v)
|
||||
|
||||
|
||||
def getRHS(self):
|
||||
"""
|
||||
RHS for the DC problem
|
||||
|
||||
q
|
||||
"""
|
||||
|
||||
RHS = self.getSourceTerm()
|
||||
return RHS
|
||||
|
||||
def getRHSDeriv(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
"""
|
||||
# TODO: add qDeriv for RHS depending on m
|
||||
# qDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
# return qDeriv
|
||||
return Zero()
|
||||
|
||||
if __name__ == '__main__':
|
||||
|
||||
|
||||
cs = 12.5
|
||||
hx = [(cs,7, -1.3),(cs,21),(cs,7, 1.3)]
|
||||
hy = [(cs,7, -1.3),(cs,21),(cs,7, 1.3)]
|
||||
hz = [(cs,7, -1.3),(cs,20)]
|
||||
mesh = Mesh.TensorMesh([hx, hy, hz],x0="CCN")
|
||||
sigma = np.ones(mesh.nC)
|
||||
prob = BaseIPProblem(mesh, sigma=sigma)
|
||||
|
||||
|
||||
@@ -1,23 +0,0 @@
|
||||
import SimPEG
|
||||
from SimPEG.EM.Base import BaseEMSurvey
|
||||
from SimPEG import sp, Survey
|
||||
from SimPEG.Utils import Zero, Identity
|
||||
from SimPEG.EM.Static.DC.SrcDC import BaseSrc
|
||||
from SimPEG.EM.Static.DC.RxDC import BaseRx
|
||||
|
||||
class Survey(BaseEMSurvey):
|
||||
rxPair = BaseRx
|
||||
srcPair = BaseSrc
|
||||
|
||||
def __init__(self, srcList, **kwargs):
|
||||
self.srcList = srcList
|
||||
BaseEMSurvey.__init__(self, srcList, **kwargs)
|
||||
|
||||
def dpred(self, m, f=None):
|
||||
"""
|
||||
Predicted data.
|
||||
|
||||
.. math::
|
||||
d_\\text{pred} = Pf(m)
|
||||
"""
|
||||
return self.prob.Jvec(m, m, f=f)
|
||||
@@ -1,2 +0,0 @@
|
||||
from ProblemIP import Problem3D_CC, Problem3D_N
|
||||
from SurveyIP import Survey
|
||||
@@ -1,445 +0,0 @@
|
||||
from SimPEG import Problem, Utils, Maps, Mesh
|
||||
from SimPEG.EM.Base import BaseEMProblem
|
||||
from SimPEG.EM.Static.DC.FieldsDC import Fields, Fields_CC, Fields_N
|
||||
from SimPEG.Utils import sdiag
|
||||
import numpy as np
|
||||
from SimPEG.Utils import Zero
|
||||
from SimPEG.EM.Static.DC import getxBCyBC_CC
|
||||
from SurveySIP import Survey, Data
|
||||
|
||||
class ColeColePropMap(Maps.PropMap):
|
||||
"""
|
||||
Property Map for EM Problems. The electrical conductivity (\\(\\sigma\\)) is the default inversion property, and the default value of the magnetic permeability is that of free space (\\(\\mu = 4\\pi\\times 10^{-7} \\) H/m)
|
||||
"""
|
||||
|
||||
eta = Maps.Property("Electrical Conductivity", defaultInvProp=True)
|
||||
tau = Maps.Property("Electrical Conductivity", defaultVal=0.1, propertyLink=('taui', Maps.ReciprocalMap))
|
||||
taui = Maps.Property("Electrical Conductivity", defaultVal=1., propertyLink=('tau', Maps.ReciprocalMap))
|
||||
c = Maps.Property("Electrical Conductivity", defaultVal=1.)
|
||||
|
||||
|
||||
class BaseSIPProblem(BaseEMProblem):
|
||||
|
||||
surveyPair = Survey
|
||||
fieldsPair = Fields
|
||||
dataPair = Data
|
||||
PropMap = ColeColePropMap
|
||||
Ainv = None
|
||||
sigma = None
|
||||
rho = None
|
||||
f = None
|
||||
Ainv = None
|
||||
|
||||
def DebyeTime(self, t):
|
||||
peta = self.curModel.eta*np.exp(-self.curModel.taui*t)
|
||||
return peta
|
||||
|
||||
def EtaDeriv(self, t, v, adjoint=False):
|
||||
v = np.array(v, dtype=float)
|
||||
if adjoint:
|
||||
return self.curModel.etaDeriv.T * (np.exp(-self.curModel.taui*t)*v)
|
||||
else:
|
||||
return np.exp(-self.curModel.taui*t) * (self.curModel.etaDeriv*v)
|
||||
|
||||
|
||||
def TauiDeriv(self, t, v, adjoint=False):
|
||||
v = np.array(v, dtype=float)
|
||||
if adjoint:
|
||||
return -self.curModel.tauiDeriv.T * (self.curModel.eta*t*np.exp(-self.curModel.taui*t)*v)
|
||||
else:
|
||||
return -self.curModel.eta*t*np.exp(-self.curModel.taui*t) * (self.curModel.tauiDeriv*v)
|
||||
|
||||
def fields(self, m):
|
||||
self.curModel = m
|
||||
if self.f is None:
|
||||
self.f = self.fieldsPair(self.mesh, self.survey)
|
||||
if self.Ainv == None:
|
||||
A = self.getA()
|
||||
self.Ainv = self.Solver(A, **self.solverOpts)
|
||||
RHS = self.getRHS()
|
||||
u = self.Ainv * RHS
|
||||
Srcs = self.survey.srcList
|
||||
self.f[Srcs, self._solutionType] = u
|
||||
return self.f
|
||||
|
||||
def forward(self, m, f=None):
|
||||
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
Jv = self.dataPair(self.survey) #same size as the data
|
||||
# A = self.getA()
|
||||
JvAll = []
|
||||
for tind in range(len(self.survey.times)):
|
||||
#Pseudo-chareability
|
||||
t = self.survey.times[tind]
|
||||
v = self.DebyeTime(t)
|
||||
for src in self.survey.srcList:
|
||||
u_src = f[src, self._solutionType] # solution vector
|
||||
dA_dm_v = self.getADeriv(u_src, v)
|
||||
dRHS_dm_v = self.getRHSDeriv(src, v)
|
||||
du_dm_v = self.Ainv * ( - dA_dm_v + dRHS_dm_v )
|
||||
for rx in src.rxList:
|
||||
timeindex = rx.getTimeP(self.survey.times)
|
||||
if timeindex[tind]:
|
||||
df_dmFun = getattr(f, '_%sDeriv'%rx.projField, None)
|
||||
df_dm_v = df_dmFun(src, du_dm_v, v, adjoint=False)
|
||||
Jv[src, rx, t] = rx.evalDeriv(src, self.mesh, f, df_dm_v)
|
||||
|
||||
# Conductivity (d u / d log sigma)
|
||||
if self._formulation is 'EB':
|
||||
return -Utils.mkvc(Jv)
|
||||
# Resistivity (d u / d log rho)
|
||||
if self._formulation is 'HJ':
|
||||
return Utils.mkvc(Jv)
|
||||
|
||||
def Jvec(self, m, v, f=None):
|
||||
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
Jv = self.dataPair(self.survey) #same size as the data
|
||||
# A = self.getA()
|
||||
JvAll = []
|
||||
#Assume only eta and tau (eta first then tau)
|
||||
# v = [2*Mx1]
|
||||
v = v.reshape((int(v.size/2), 2), order='F')
|
||||
|
||||
for tind in range(len(self.survey.times)):
|
||||
t = self.survey.times[tind]
|
||||
v0 = self.EtaDeriv(t, v[:,0])
|
||||
v1 = self.TauiDeriv(t, v[:,1])
|
||||
for src in self.survey.srcList:
|
||||
u_src = f[src, self._solutionType] # solution vector
|
||||
dA_dm_v0 = self.getADeriv(u_src, v0)
|
||||
dRHS_dm_v0 = self.getRHSDeriv(src, v0)
|
||||
du_dm_v0 = self.Ainv * ( - dA_dm_v0 + dRHS_dm_v0 )
|
||||
dA_dm_v1 = self.getADeriv(u_src, v1)
|
||||
dRHS_dm_v1 = self.getRHSDeriv(src, v1)
|
||||
du_dm_v1 = self.Ainv * ( - dA_dm_v1 + dRHS_dm_v1 )
|
||||
for rx in src.rxList:
|
||||
timeindex = rx.getTimeP(self.survey.times)
|
||||
if timeindex[tind]:
|
||||
df_dmFun = getattr(f, '_%sDeriv'%rx.projField, None)
|
||||
df_dm_v0 = df_dmFun(src, du_dm_v0, v0, adjoint=False)
|
||||
df_dm_v1 = df_dmFun(src, du_dm_v1, v1, adjoint=False)
|
||||
Jv[src, rx, t] = rx.evalDeriv(src, self.mesh, f, df_dm_v0)
|
||||
Jv[src, rx, t] += rx.evalDeriv(src, self.mesh, f, df_dm_v1)
|
||||
# Conductivity (d u / d log sigma)
|
||||
if self._formulation is 'EB':
|
||||
return -Jv.tovec()
|
||||
# Resistivity (d u / d log rho)
|
||||
if self._formulation is 'HJ':
|
||||
return Jv.tovec()
|
||||
|
||||
def Jtvec(self, m, v, f=None):
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
|
||||
# Ensure v is a data object.
|
||||
if not isinstance(v, self.dataPair):
|
||||
v = self.dataPair(self.survey, v)
|
||||
|
||||
Jtv= np.zeros(m.size)
|
||||
for tind in range(len(self.survey.times)):
|
||||
t = self.survey.times[tind]
|
||||
for src in self.survey.srcList:
|
||||
u_src = f[src, self._solutionType]
|
||||
for rx in src.rxList:
|
||||
timeindex = rx.getTimeP(self.survey.times)
|
||||
if timeindex[tind]:
|
||||
PTv = rx.evalDeriv(src, self.mesh, f, v[src, rx, t], adjoint=True) # wrt f, need possibility wrt m
|
||||
df_duTFun = getattr(f, '_%sDeriv'%rx.projField, None)
|
||||
df_duT, df_dmT = df_duTFun(src, None, PTv, adjoint=True)
|
||||
ATinvdf_duT = self.Ainv * df_duT
|
||||
dA_dmT = self.getADeriv(u_src, ATinvdf_duT, adjoint=True)
|
||||
dRHS_dmT = self.getRHSDeriv(src, ATinvdf_duT, adjoint=True)
|
||||
du_dmT = -dA_dmT + dRHS_dmT
|
||||
Jtv += np.r_[self.EtaDeriv(self.survey.times[tind], du_dmT, adjoint=True), self.TauiDeriv(self.survey.times[tind], du_dmT, adjoint=True)]
|
||||
|
||||
# Conductivity ((d u / d log sigma).T)
|
||||
if self._formulation is 'EB':
|
||||
return -Jtv
|
||||
# Conductivity ((d u / d log rho).T)
|
||||
if self._formulation is 'HJ':
|
||||
return Jtv
|
||||
|
||||
def getSourceTerm(self):
|
||||
"""
|
||||
takes concept of source and turns it into a matrix
|
||||
"""
|
||||
"""
|
||||
Evaluates the sources, and puts them in matrix form
|
||||
|
||||
:rtype: (numpy.ndarray, numpy.ndarray)
|
||||
:return: q (nC or nN, nSrc)
|
||||
"""
|
||||
|
||||
Srcs = self.survey.srcList
|
||||
|
||||
if self._formulation is 'EB':
|
||||
n = self.mesh.nN
|
||||
# return NotImplementedError
|
||||
|
||||
elif self._formulation is 'HJ':
|
||||
n = self.mesh.nC
|
||||
|
||||
q = np.zeros((n, len(Srcs)))
|
||||
|
||||
for i, src in enumerate(Srcs):
|
||||
q[:,i] = src.eval(self)
|
||||
return q
|
||||
|
||||
@property
|
||||
def deleteTheseOnModelUpdate(self):
|
||||
toDelete = []
|
||||
return toDelete
|
||||
|
||||
# assume log rho or log cond
|
||||
@property
|
||||
def MeSigma(self):
|
||||
"""
|
||||
Edge inner product matrix for \\(\\sigma\\). Used in the E-B formulation
|
||||
"""
|
||||
if getattr(self, '_MeSigma', None) is None:
|
||||
self._MeSigma = self.mesh.getEdgeInnerProduct(self.sigma)
|
||||
return self._MeSigma
|
||||
|
||||
@property
|
||||
def MfRhoI(self):
|
||||
"""
|
||||
Inverse of :code:`MfRho`
|
||||
"""
|
||||
if getattr(self, '_MfRhoI', None) is None:
|
||||
self._MfRhoI = self.mesh.getFaceInnerProduct(self.rho, invMat=True)
|
||||
return self._MfRhoI
|
||||
|
||||
def MfRhoIDeriv(self,u):
|
||||
"""
|
||||
Derivative of :code:`MfRhoI` with respect to the model.
|
||||
"""
|
||||
|
||||
dMfRhoI_dI = -self.MfRhoI**2
|
||||
dMf_drho = self.mesh.getFaceInnerProductDeriv(self.rho)(u)
|
||||
drho_dlogrho = Utils.sdiag(self.rho)
|
||||
return dMfRhoI_dI * ( dMf_drho * ( drho_dlogrho))
|
||||
|
||||
# TODO: This should take a vector
|
||||
def MeSigmaDeriv(self, u):
|
||||
"""
|
||||
Derivative of MeSigma with respect to the model
|
||||
"""
|
||||
dsigma_dlogsigma = Utils.sdiag(self.sigma)
|
||||
return self.mesh.getEdgeInnerProductDeriv(self.sigma)(u) * dsigma_dlogsigma
|
||||
|
||||
class Problem3D_CC(BaseSIPProblem):
|
||||
|
||||
_solutionType = 'phiSolution'
|
||||
_formulation = 'HJ' # CC potentials means J is on faces
|
||||
fieldsPair = Fields_CC
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseSIPProblem.__init__(self, mesh, **kwargs)
|
||||
self.setBC()
|
||||
|
||||
def getA(self):
|
||||
"""
|
||||
|
||||
Make the A matrix for the cell centered DC resistivity problem
|
||||
|
||||
A = D MfRhoI G
|
||||
|
||||
"""
|
||||
|
||||
D = self.Div
|
||||
G = self.Grad
|
||||
# TODO: this won't work for full anisotropy
|
||||
MfRhoI = self.MfRhoI
|
||||
A = D * MfRhoI * G
|
||||
|
||||
# I think we should deprecate this for DC problem.
|
||||
# if self._makeASymmetric is True:
|
||||
# return V.T * A
|
||||
return A
|
||||
|
||||
def getADeriv(self, u, v, adjoint= False):
|
||||
|
||||
D = self.Div
|
||||
G = self.Grad
|
||||
MfRhoIDeriv = self.MfRhoIDeriv
|
||||
|
||||
if adjoint:
|
||||
# if self._makeASymmetric is True:
|
||||
# v = V * v
|
||||
return(MfRhoIDeriv( G * u ).T) * ( D.T * v)
|
||||
|
||||
# I think we should deprecate this for DC problem.
|
||||
# if self._makeASymmetric is True:
|
||||
# return V.T * ( D * ( MfRhoIDeriv( D.T * ( V * u ) ) * v ) )
|
||||
return D * (MfRhoIDeriv( G * u ) * v)
|
||||
|
||||
def getRHS(self):
|
||||
"""
|
||||
RHS for the DC problem
|
||||
|
||||
q
|
||||
"""
|
||||
|
||||
RHS = self.getSourceTerm()
|
||||
|
||||
# I think we should deprecate this for DC problem.
|
||||
# if self._makeASymmetric is True:
|
||||
# return self.Vol.T * RHS
|
||||
|
||||
return RHS
|
||||
|
||||
def getRHSDeriv(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
"""
|
||||
# TODO: add qDeriv for RHS depending on m
|
||||
# qDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
# return qDeriv
|
||||
return Zero()
|
||||
|
||||
def setBC(self):
|
||||
if self.mesh.dim==3:
|
||||
fxm,fxp,fym,fyp,fzm,fzp = self.mesh.faceBoundaryInd
|
||||
gBFxm = self.mesh.gridFx[fxm,:]
|
||||
gBFxp = self.mesh.gridFx[fxp,:]
|
||||
gBFym = self.mesh.gridFy[fym,:]
|
||||
gBFyp = self.mesh.gridFy[fyp,:]
|
||||
gBFzm = self.mesh.gridFz[fzm,:]
|
||||
gBFzp = self.mesh.gridFz[fzp,:]
|
||||
|
||||
# Setup Mixed B.C (alpha, beta, gamma)
|
||||
temp_xm, temp_xp = np.ones_like(gBFxm[:,0]), np.ones_like(gBFxp[:,0])
|
||||
temp_ym, temp_yp = np.ones_like(gBFym[:,1]), np.ones_like(gBFyp[:,1])
|
||||
temp_zm, temp_zp = np.ones_like(gBFzm[:,2]), np.ones_like(gBFzp[:,2])
|
||||
|
||||
alpha_xm, alpha_xp = temp_xm*0., temp_xp*0.
|
||||
alpha_ym, alpha_yp = temp_ym*0., temp_yp*0.
|
||||
alpha_zm, alpha_zp = temp_zm*0., temp_zp*0.
|
||||
|
||||
beta_xm, beta_xp = temp_xm, temp_xp
|
||||
beta_ym, beta_yp = temp_ym, temp_yp
|
||||
beta_zm, beta_zp = temp_zm, temp_zp
|
||||
|
||||
gamma_xm, gamma_xp = temp_xm*0., temp_xp*0.
|
||||
gamma_ym, gamma_yp = temp_ym*0., temp_yp*0.
|
||||
gamma_zm, gamma_zp = temp_zm*0., temp_zp*0.
|
||||
|
||||
alpha = [alpha_xm, alpha_xp, alpha_ym, alpha_yp, alpha_zm, alpha_zp]
|
||||
beta = [beta_xm, beta_xp, beta_ym, beta_yp, beta_zm, beta_zp]
|
||||
gamma = [gamma_xm, gamma_xp, gamma_ym, gamma_yp, gamma_zm, gamma_zp]
|
||||
|
||||
elif self.mesh.dim==2:
|
||||
|
||||
fxm,fxp,fym,fyp = self.mesh.faceBoundaryInd
|
||||
gBFxm = self.mesh.gridFx[fxm,:]
|
||||
gBFxp = self.mesh.gridFx[fxp,:]
|
||||
gBFym = self.mesh.gridFy[fym,:]
|
||||
gBFyp = self.mesh.gridFy[fyp,:]
|
||||
|
||||
# Setup Mixed B.C (alpha, beta, gamma)
|
||||
temp_xm, temp_xp = np.ones_like(gBFxm[:,0]), np.ones_like(gBFxp[:,0])
|
||||
temp_ym, temp_yp = np.ones_like(gBFym[:,1]), np.ones_like(gBFyp[:,1])
|
||||
|
||||
alpha_xm, alpha_xp = temp_xm*0., temp_xp*0.
|
||||
alpha_ym, alpha_yp = temp_ym*0., temp_yp*0.
|
||||
|
||||
beta_xm, beta_xp = temp_xm, temp_xp
|
||||
beta_ym, beta_yp = temp_ym, temp_yp
|
||||
|
||||
gamma_xm, gamma_xp = temp_xm*0., temp_xp*0.
|
||||
gamma_ym, gamma_yp = temp_ym*0., temp_yp*0.
|
||||
|
||||
alpha = [alpha_xm, alpha_xp, alpha_ym, alpha_yp]
|
||||
beta = [beta_xm, beta_xp, beta_ym, beta_yp]
|
||||
gamma = [gamma_xm, gamma_xp, gamma_ym, gamma_yp]
|
||||
|
||||
x_BC, y_BC = getxBCyBC_CC(self.mesh, alpha, beta, gamma)
|
||||
V = self.Vol
|
||||
self.Div = V * self.mesh.faceDiv
|
||||
P_BC, B = self.mesh.getBCProjWF_simple()
|
||||
M = B*self.mesh.aveCC2F
|
||||
self.Grad = self.Div.T - P_BC*Utils.sdiag(y_BC)*M
|
||||
|
||||
|
||||
class Problem3D_N(BaseSIPProblem):
|
||||
|
||||
_solutionType = 'phiSolution'
|
||||
_formulation = 'EB' # N potentials means B is on faces
|
||||
fieldsPair = Fields_N
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseSIPProblem.__init__(self, mesh, **kwargs)
|
||||
|
||||
def getA(self):
|
||||
"""
|
||||
|
||||
Make the A matrix for the cell centered DC resistivity problem
|
||||
|
||||
A = G.T MeSigma G
|
||||
|
||||
"""
|
||||
|
||||
# TODO: this won't work for full anisotropy
|
||||
MeSigma = self.MeSigma
|
||||
Grad = self.mesh.nodalGrad
|
||||
A = Grad.T * MeSigma * Grad
|
||||
|
||||
# Handling Null space of A
|
||||
A[0,0] = A[0,0] + 1.
|
||||
|
||||
return A
|
||||
|
||||
def getADeriv(self, u, v, adjoint=False):
|
||||
"""
|
||||
|
||||
Product of the derivative of our system matrix with respect to the model and a vector
|
||||
|
||||
"""
|
||||
MeSigma = self.MeSigma
|
||||
Grad = self.mesh.nodalGrad
|
||||
if not adjoint:
|
||||
return Grad.T*(self.MeSigmaDeriv(Grad*u)*v)
|
||||
elif adjoint:
|
||||
return self.MeSigmaDeriv(Grad*u).T * (Grad*v)
|
||||
|
||||
|
||||
def getRHS(self):
|
||||
"""
|
||||
RHS for the DC problem
|
||||
|
||||
q
|
||||
"""
|
||||
|
||||
RHS = self.getSourceTerm()
|
||||
return RHS
|
||||
|
||||
def getRHSDeriv(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the right hand side with respect to the model
|
||||
"""
|
||||
# TODO: add qDeriv for RHS depending on m
|
||||
# qDeriv = src.evalDeriv(self, adjoint=adjoint)
|
||||
# return qDeriv
|
||||
return Zero()
|
||||
|
||||
if __name__ == '__main__':
|
||||
|
||||
|
||||
cs = 12.5
|
||||
hx = [(cs,7, -1.3),(cs,21),(cs,7, 1.3)]
|
||||
hy = [(cs,7, -1.3),(cs,21),(cs,7, 1.3)]
|
||||
hz = [(cs,7, -1.3),(cs,20)]
|
||||
mesh = Mesh.TensorMesh([hx, hy, hz],x0="CCN")
|
||||
sigma = np.ones(mesh.nC)
|
||||
prob = BaseSIPProblem(mesh, sigma=sigma)
|
||||
|
||||
|
||||
@@ -1,204 +0,0 @@
|
||||
from SimPEG import Utils, Maps, Mesh, sp, np
|
||||
from SimPEG.Regularization import BaseRegularization, Simple
|
||||
|
||||
class MultiRegularization(Simple):
|
||||
"""
|
||||
**MultiRegularization Class**
|
||||
|
||||
This is used to regularize the model space
|
||||
having multiple models [m1, m2, m3, ...] ::
|
||||
|
||||
reg = Regularization(mesh)
|
||||
|
||||
"""
|
||||
nModels = None # Number of models
|
||||
ratios = None # Ratio for different models
|
||||
crossgrad = False # Use cross gradient or not
|
||||
betacross = 1.
|
||||
wx = []
|
||||
wy = []
|
||||
wz = []
|
||||
|
||||
def __init__(self, mesh, mapping=None, indActive=None, **kwargs):
|
||||
BaseRegularization.__init__(self, mesh, mapping=mapping, indActive=indActive, **kwargs)
|
||||
if self.nModels == None:
|
||||
raise Exception("Put nModels as a initial input!")
|
||||
if self.ratios == None:
|
||||
self.ratios = [1. for imodel in range(self.nModels)]
|
||||
|
||||
@property
|
||||
def Wsmall(self):
|
||||
"""Regularization matrix Wsmall"""
|
||||
if getattr(self,'_Wsmall', None) is None:
|
||||
vecs = []
|
||||
for imodel in range(self.nModels):
|
||||
vecs.append((self.regmesh.vol*self.alpha_s*self.wght*self.ratios[imodel])**0.5)
|
||||
self._Wsmall = Utils.sdiag(np.hstack(vecs))
|
||||
return self._Wsmall
|
||||
|
||||
@property
|
||||
def Wx(self):
|
||||
"""Regularization matrix Wx"""
|
||||
if getattr(self, '_Wx', None) is None:
|
||||
mats = []
|
||||
for imodel in range(self.nModels):
|
||||
self.wx.append(Utils.sdiag((self.regmesh.aveCC2Fx * self.regmesh.vol*self.alpha_x*self.ratios[imodel]*(self.regmesh.aveCC2Fx*self.wght))**0.5))
|
||||
mats.append(self.wx[imodel]*self.regmesh.cellDiffxStencil)
|
||||
self._Wx = sp.block_diag(mats)
|
||||
return self._Wx
|
||||
|
||||
@property
|
||||
def Wy(self):
|
||||
"""Regularization matrix Wy"""
|
||||
if getattr(self, '_Wy', None) is None:
|
||||
mats = []
|
||||
for imodel in range(self.nModels):
|
||||
self.wy.append(Utils.sdiag((self.regmesh.aveCC2Fy * self.regmesh.vol*self.alpha_y*self.ratios[imodel]*(self.regmesh.aveCC2Fy*self.wght))**0.5))
|
||||
mats.append(self.wy[imodel]*self.regmesh.cellDiffyStencil)
|
||||
self._Wy = sp.block_diag(mats)
|
||||
return self._Wy
|
||||
|
||||
@property
|
||||
def Wz(self):
|
||||
"""Regularization matrix Wz"""
|
||||
if getattr(self, '_Wz', None) is None:
|
||||
mats = []
|
||||
for imodel in range(self.nModels):
|
||||
self.wz.append(Utils.sdiag((self.regmesh.aveCC2Fz * self.regmesh.vol*self.alpha_z*self.ratios[imodel]*(self.regmesh.aveCC2Fz*self.wght))**0.5))
|
||||
mats.append(self.wz[imodel]*self.regmesh.cellDiffzStencil)
|
||||
self._Wz = sp.block_diag(mats)
|
||||
return self._Wz
|
||||
|
||||
@property
|
||||
def Wsmooth(self):
|
||||
"""Full smoothness regularization matrix W"""
|
||||
if getattr(self, '_Wsmooth', None) is None:
|
||||
wlist = (self.Wx,)
|
||||
if self.regmesh.dim > 1:
|
||||
wlist += (self.Wy,)
|
||||
if self.regmesh.dim > 2:
|
||||
wlist += (self.Wz,)
|
||||
self._Wsmooth = sp.vstack(wlist)
|
||||
return self._Wsmooth
|
||||
|
||||
@property
|
||||
def W(self):
|
||||
"""Full regularization matrix W"""
|
||||
if getattr(self, '_W', None) is None:
|
||||
wlist = (self.Wsmall, self.Wsmooth)
|
||||
self._W = sp.vstack(wlist)
|
||||
return self._W
|
||||
|
||||
|
||||
@Utils.timeIt
|
||||
def eval(self, m):
|
||||
return self._evalSmall(m) + self._evalSmooth(m)
|
||||
|
||||
@Utils.timeIt
|
||||
def _evalSmall(self, m):
|
||||
r = self.Wsmall * ( self.mapping * (m - self.mref) )
|
||||
return 0.5 * r.dot(r)
|
||||
|
||||
@Utils.timeIt
|
||||
def _evalSmooth(self, m):
|
||||
if self.mrefInSmooth == True:
|
||||
r = self.Wsmooth * ( self.mapping * (m - self.mref) )
|
||||
elif self.mrefInSmooth == False:
|
||||
r = self.Wsmooth * ( self.mapping * m)
|
||||
return 0.5 * r.dot(r)
|
||||
|
||||
def cross(a,b):
|
||||
ax, ay, az = a[0], a[1], a[2]
|
||||
bx, by, bz = b[0], b[1], b[2]
|
||||
cx = ay*bz - az*by
|
||||
cy = az*bx - ax*bz
|
||||
cz = ax*by - ay*bx
|
||||
return [cx, cy, cz]
|
||||
|
||||
# TODO: Implement Cross Gradients..
|
||||
@Utils.timeIt
|
||||
def _evalCross(self, m):
|
||||
if self.crossgrad == False:
|
||||
return 0.
|
||||
elif self.crossgrad == True:
|
||||
M = (self.mapping * m).reshape((self.regmesh.nC, self.nModels), order="F")
|
||||
|
||||
ax = self.regmesh.aveFx2CC*self.regmesh.wx[0]*M[:,0]
|
||||
ay = self.regmesh.aveFy2CC*self.regmesh.wy[0]*M[:,0]
|
||||
az = self.regmesh.aveFz2CC*self.regmesh.wz[0]*M[:,0]
|
||||
bx = self.regmesh.aveFx2CC*self.regmesh.wx[1]*M[:,1]
|
||||
by = self.regmesh.aveFy2CC*self.regmesh.wy[1]*M[:,1]
|
||||
bz = self.regmesh.aveFz2CC*self.regmesh.wz[1]*M[:,1]
|
||||
#ab
|
||||
out_ab = cross([ax, ay, az], [bx, by, bz])
|
||||
r = np.r_[out_ab[0], out_ab[1], out_ab[2]]*np.sqrt(self.betacross)
|
||||
|
||||
if self.nModels == 3:
|
||||
cx = self.regmesh.aveFx2CC*self.regmesh.wx[1]*M[:,1]
|
||||
cy = self.regmesh.aveFy2CC*self.regmesh.wy[1]*M[:,1]
|
||||
cz = self.regmesh.aveFz2CC*self.regmesh.wz[1]*M[:,1]
|
||||
#ac
|
||||
out_ac = cross([ax, ay, az], [cx, cy, cz])
|
||||
#bc
|
||||
out_bc = cross([bx, by, bz], [cx, cy, cz])
|
||||
r = np.r_[r, np.hstack(out_ac)*np.sqrt(self.betacross), np.hstack(out_bc)*np.sqrt(self.betacross)]
|
||||
|
||||
return 0.5 * r.dot(r)
|
||||
|
||||
@Utils.timeIt
|
||||
def evalDeriv(self, m):
|
||||
"""
|
||||
The regularization is:
|
||||
|
||||
.. math::
|
||||
|
||||
R(m) = \\frac{1}{2}\mathbf{(m-m_\\text{ref})^\\top W^\\top W(m-m_\\text{ref})}
|
||||
|
||||
So the derivative is straight forward:
|
||||
|
||||
.. math::
|
||||
|
||||
R(m) = \mathbf{W^\\top W (m-m_\\text{ref})}
|
||||
|
||||
"""
|
||||
deriv = self._evalSmallDeriv(m) + self._evalSmoothDeriv(m)
|
||||
if self.crossgrad==True:
|
||||
deriv += self._evalCrossDeriv(m)
|
||||
return deriv
|
||||
|
||||
@Utils.timeIt
|
||||
def _evalCrossDeriv(self,m):
|
||||
r = self.Wsmall * ( self.mapping * (m - self.mref) )
|
||||
return r.T * ( self.Wsmall * self.mapping.deriv(m - self.mref) )
|
||||
|
||||
@Utils.timeIt
|
||||
def eval2Deriv(self, m, v=None):
|
||||
"""
|
||||
Second derivative
|
||||
|
||||
:param numpy.array m: geophysical model
|
||||
:param numpy.array v: vector to multiply
|
||||
:rtype: scipy.sparse.csr_matrix or numpy.ndarray
|
||||
:return: WtW or WtW*v
|
||||
|
||||
The regularization is:
|
||||
|
||||
.. math::
|
||||
|
||||
R(m) = \\frac{1}{2}\mathbf{(m-m_\\text{ref})^\\top W^\\top W(m-m_\\text{ref})}
|
||||
|
||||
So the second derivative is straight forward:
|
||||
|
||||
.. math::
|
||||
|
||||
R(m) = \mathbf{W^\\top W}
|
||||
|
||||
"""
|
||||
mD = self.mapping.deriv(m - self.mref)
|
||||
if v is None:
|
||||
return mD.T * self.W.T * self.W * mD
|
||||
|
||||
return mD.T * ( self.W.T * ( self.W * ( mD * v) ) )
|
||||
|
||||
|
||||
|
||||
@@ -1,88 +0,0 @@
|
||||
import SimPEG
|
||||
import numpy as np
|
||||
from SimPEG.Utils import Zero, closestPoints
|
||||
|
||||
class BaseRx(SimPEG.Survey.BaseTimeRx):
|
||||
locs = None
|
||||
rxType = None
|
||||
|
||||
knownRxTypes = {
|
||||
'phi':['phi',None],
|
||||
'ex':['e','x'],
|
||||
'ey':['e','y'],
|
||||
'ez':['e','z'],
|
||||
'jx':['j','x'],
|
||||
'jy':['j','y'],
|
||||
'jz':['j','z'],
|
||||
}
|
||||
|
||||
def __init__(self, locs, times, rxType, **kwargs):
|
||||
SimPEG.Survey.BaseTimeRx.__init__(self, locs, times, rxType, **kwargs)
|
||||
|
||||
@property
|
||||
def projField(self):
|
||||
"""Field Type projection (e.g. e b ...)"""
|
||||
return self.knownRxTypes[self.rxType][0]
|
||||
|
||||
def projGLoc(self, f):
|
||||
"""Grid Location projection (e.g. Ex Fy ...)"""
|
||||
comp = self.knownRxTypes[self.rxType][1]
|
||||
if comp is not None:
|
||||
return f._GLoc(self.rxType) + comp
|
||||
return f._GLoc(self.rxType)
|
||||
|
||||
def getTimeP(self, timesall):
|
||||
"""
|
||||
Returns the time projection matrix.
|
||||
|
||||
.. note::
|
||||
|
||||
This is not stored in memory, but is created on demand.
|
||||
"""
|
||||
time_inds = np.in1d(timesall, self.times)
|
||||
return time_inds
|
||||
|
||||
def evalDeriv(self, src, mesh, f, v, adjoint=False):
|
||||
P = self.getP(mesh, self.projGLoc(f))
|
||||
if not adjoint:
|
||||
return P*v
|
||||
elif adjoint:
|
||||
return P.T*v
|
||||
|
||||
|
||||
# DC.Rx.Dipole(locs)
|
||||
class Dipole(BaseRx):
|
||||
|
||||
def __init__(self, locsM, locsN, times, rxType = 'phi', **kwargs):
|
||||
assert locsM.shape == locsN.shape, 'locsM and locsN need to be the same size'
|
||||
locs = [locsM, locsN]
|
||||
# We may not need this ...
|
||||
BaseRx.__init__(self, locs, times, rxType)
|
||||
|
||||
@property
|
||||
def nD(self):
|
||||
"""Number of data in the receiver."""
|
||||
# return self.locs[0].shape[0] * len(self.times)
|
||||
return self.locs[0].shape[0]
|
||||
|
||||
@property
|
||||
def nRx(self):
|
||||
"""Number of data in the receiver."""
|
||||
return self.locs[0].shape[0]
|
||||
|
||||
# Not sure why ...
|
||||
# return int(self.locs[0].size / 2)
|
||||
|
||||
|
||||
def getP(self, mesh, Gloc):
|
||||
if mesh in self._Ps:
|
||||
return self._Ps[mesh]
|
||||
|
||||
P0 = mesh.getInterpolationMat(self.locs[0], Gloc)
|
||||
P1 = mesh.getInterpolationMat(self.locs[1], Gloc)
|
||||
P = P0 - P1
|
||||
|
||||
if self.storeProjections:
|
||||
self._Ps[mesh] = P
|
||||
|
||||
return P
|
||||
@@ -1,64 +0,0 @@
|
||||
import SimPEG
|
||||
# from SimPEG.EM.Base import BaseEMSurvey
|
||||
from SimPEG.Utils import Zero, closestPoints, mkvc
|
||||
import numpy as np
|
||||
|
||||
class BaseSrc(SimPEG.Survey.BaseSrc):
|
||||
|
||||
current = 1.0
|
||||
loc = None
|
||||
|
||||
def __init__(self, rxList, **kwargs):
|
||||
SimPEG.Survey.BaseSrc.__init__(self, rxList, **kwargs)
|
||||
|
||||
def eval(self, prob):
|
||||
raise NotImplementedError
|
||||
|
||||
def evalDeriv(self, prob):
|
||||
return Zero()
|
||||
|
||||
@property
|
||||
def nD(self):
|
||||
"""Number of data"""
|
||||
return self.vnD.sum()
|
||||
|
||||
@property
|
||||
def vnD(self):
|
||||
"""Vector number of data"""
|
||||
return np.array([rx.nD*len(rx.times) for rx in self.rxList])
|
||||
|
||||
|
||||
|
||||
class Dipole(BaseSrc):
|
||||
|
||||
def __init__(self, rxList, locA, locB, **kwargs):
|
||||
assert locA.shape == locB.shape, 'Shape of locA and locB should be the same'
|
||||
self.loc = [locA, locB]
|
||||
BaseSrc.__init__(self, rxList, **kwargs)
|
||||
|
||||
def eval(self, prob):
|
||||
if prob._formulation == 'HJ':
|
||||
inds = closestPoints(prob.mesh, self.loc, gridLoc='CC')
|
||||
q = np.zeros(prob.mesh.nC)
|
||||
q[inds] = self.current * np.r_[1., -1.]
|
||||
elif prob._formulation == 'EB':
|
||||
qa = prob.mesh.getInterpolationMat(self.loc[0], locType='N').todense()
|
||||
qb = -prob.mesh.getInterpolationMat(self.loc[1], locType='N').todense()
|
||||
q = self.current * mkvc(qa+qb)
|
||||
return q
|
||||
|
||||
class Pole(BaseSrc):
|
||||
|
||||
def __init__(self, rxList, loc, **kwargs):
|
||||
BaseSrc.__init__(self, rxList, loc=loc, **kwargs)
|
||||
|
||||
def eval(self, prob):
|
||||
if prob._formulation == 'HJ':
|
||||
inds = closestPoints(prob.mesh, self.loc)
|
||||
q = np.zeros(prob.mesh.nC)
|
||||
q[inds] = self.current * np.r_[1.]
|
||||
elif prob._formulation == 'EB':
|
||||
q = prob.mesh.getInterpolationMat(self.loc, locType='N').todense()
|
||||
q = self.current * mkvc(q)
|
||||
return q
|
||||
|
||||
@@ -1,102 +0,0 @@
|
||||
import SimPEG
|
||||
from SimPEG.EM.Base import BaseEMSurvey
|
||||
from SimPEG import np, sp, Survey, Utils
|
||||
from SimPEG.Utils import Zero, Identity
|
||||
from SimPEG.EM.Static.SIP.SrcSIP import BaseSrc
|
||||
from SimPEG.EM.Static.SIP.RxSIP import BaseRx
|
||||
import uuid
|
||||
|
||||
|
||||
class Survey(BaseEMSurvey):
|
||||
rxPair = BaseRx
|
||||
srcPair = BaseSrc
|
||||
times = None
|
||||
|
||||
def __init__(self, srcList, **kwargs):
|
||||
self.srcList = srcList
|
||||
BaseEMSurvey.__init__(self, srcList, **kwargs)
|
||||
self.getUniqueTimes()
|
||||
|
||||
def getUniqueTimes(self):
|
||||
time_rx = []
|
||||
for src in self.srcList:
|
||||
for rx in src.rxList:
|
||||
time_rx.append(rx.times)
|
||||
self.times = np.unique(np.hstack(time_rx))
|
||||
|
||||
def dpred(self, m, f=None):
|
||||
"""
|
||||
Predicted data.
|
||||
|
||||
.. math::
|
||||
d_\\text{pred} = Pf(m)
|
||||
"""
|
||||
return self.prob.forward(m, f=f)
|
||||
|
||||
|
||||
class Data(SimPEG.Survey.Data):
|
||||
"""Fancy data storage by Src and Rx"""
|
||||
|
||||
def __init__(self, survey, v=None):
|
||||
self.uid = str(uuid.uuid4())
|
||||
self.survey = survey
|
||||
self._dataDict = {}
|
||||
for src in self.survey.srcList:
|
||||
self._dataDict[src] = {}
|
||||
for rx in src.rxList:
|
||||
self._dataDict[src][rx] = {}
|
||||
|
||||
if v is not None:
|
||||
self.fromvec(v)
|
||||
|
||||
def _ensureCorrectKey(self, key):
|
||||
if type(key) is tuple:
|
||||
if len(key) is not 3:
|
||||
raise KeyError('Key must be [Src, Rx, tInd]')
|
||||
if key[0] not in self.survey.srcList:
|
||||
raise KeyError('Src Key must be a source in the survey.')
|
||||
if key[1] not in key[0].rxList:
|
||||
raise KeyError('Rx Key must be a receiver for the source.')
|
||||
return key
|
||||
elif isinstance(key, self.survey.srcPair):
|
||||
if key not in self.survey.srcList:
|
||||
raise KeyError('Key must be a source in the survey.')
|
||||
return key, None, None
|
||||
else:
|
||||
raise KeyError('Key must be [Src] or [Src,Rx] or [Src, Rx, tInd]')
|
||||
|
||||
def __setitem__(self, key, value):
|
||||
src, rx, t = self._ensureCorrectKey(key)
|
||||
assert rx is not None, 'set data using [Src, Rx]'
|
||||
assert isinstance(value, np.ndarray), 'value must by ndarray'
|
||||
assert value.size == rx.nD, "value must have the same number of data as the source."
|
||||
self._dataDict[src][rx][t] = Utils.mkvc(value)
|
||||
|
||||
def __getitem__(self, key):
|
||||
src, rx, t = self._ensureCorrectKey(key)
|
||||
if rx is not None:
|
||||
if rx not in self._dataDict[src]:
|
||||
raise Exception('Data for receiver has not yet been set.')
|
||||
return self._dataDict[src][rx][t]
|
||||
|
||||
return np.concatenate([self[src,rx, t] for rx in src.rxList])
|
||||
|
||||
def tovec(self):
|
||||
val = []
|
||||
for src in self.survey.srcList:
|
||||
for rx in src.rxList:
|
||||
for t in rx.times:
|
||||
val.append(self[src, rx, t])
|
||||
return np.concatenate(val)
|
||||
|
||||
|
||||
def fromvec(self, v):
|
||||
v = Utils.mkvc(v)
|
||||
assert v.size == self.survey.nD, 'v must have the correct number of data.'
|
||||
indBot, indTop = 0, 0
|
||||
for src in self.survey.srcList:
|
||||
for rx in src.rxList:
|
||||
for t in rx.times:
|
||||
indTop += rx.nRx
|
||||
self[src, rx, t] = v[indBot:indTop]
|
||||
indBot += rx.nRx
|
||||
@@ -1,5 +0,0 @@
|
||||
from ProblemSIP import Problem3D_CC, Problem3D_N
|
||||
from SurveySIP import Survey, Data
|
||||
import SrcSIP as Src #Pole
|
||||
import RxSIP as Rx
|
||||
from Regularization import MultiRegularization
|
||||
@@ -1,317 +0,0 @@
|
||||
from SimPEG import np
|
||||
from SimPEG.EM.Static import DC, IP
|
||||
|
||||
def plot_pseudoSection(DCsurvey, axs, stype='dpdp', dtype="appc", clim=None):
|
||||
"""
|
||||
Read list of 2D tx-rx location and plot a speudo-section of apparent
|
||||
resistivity.
|
||||
|
||||
Assumes flat topo for now...
|
||||
|
||||
Input:
|
||||
:param d2D, z0
|
||||
:switch stype -> Either 'pdp' (pole-dipole) | 'dpdp' (dipole-dipole)
|
||||
:switch dtype=-> Either 'appr' (app. res) | 'appc' (app. con) | 'volt' (potential)
|
||||
Output:
|
||||
:figure scatter plot overlayed on image
|
||||
|
||||
Edited Feb 17th, 2016
|
||||
|
||||
@author: dominiquef
|
||||
|
||||
"""
|
||||
from SimPEG import np
|
||||
from scipy.interpolate import griddata
|
||||
import pylab as plt
|
||||
|
||||
# Set depth to 0 for now
|
||||
z0 = 0.
|
||||
|
||||
# Pre-allocate
|
||||
midx = []
|
||||
midz = []
|
||||
rho = []
|
||||
LEG = []
|
||||
count = 0 # Counter for data
|
||||
for ii in range(DCsurvey.nSrc):
|
||||
|
||||
Tx = DCsurvey.srcList[ii].loc
|
||||
Rx = DCsurvey.srcList[ii].rxList[0].locs
|
||||
|
||||
nD = DCsurvey.srcList[ii].rxList[0].nD
|
||||
|
||||
data = DCsurvey.dobs[count:count+nD]
|
||||
count += nD
|
||||
|
||||
# Get distances between each poles A-B-M-N
|
||||
if stype == 'pdp':
|
||||
MA = np.abs(Tx[0] - Rx[0][:,0])
|
||||
NA = np.abs(Tx[0] - Rx[1][:,0])
|
||||
MN = np.abs(Rx[1][:,0] - Rx[0][:,0])
|
||||
|
||||
# Create mid-point location
|
||||
Cmid = Tx[0]
|
||||
Pmid = (Rx[0][:,0] + Rx[1][:,0])/2
|
||||
if DCsurvey.mesh.dim == 2:
|
||||
zsrc = Tx[1]
|
||||
elif DCsurvey.mesh.dim ==3:
|
||||
zsrc = Tx[2]
|
||||
|
||||
elif stype == 'dpdp':
|
||||
MA = np.abs(Tx[0][0] - Rx[0][:,0])
|
||||
MB = np.abs(Tx[1][0] - Rx[0][:,0])
|
||||
NA = np.abs(Tx[0][0] - Rx[1][:,0])
|
||||
NB = np.abs(Tx[1][0] - Rx[1][:,0])
|
||||
|
||||
# Create mid-point location
|
||||
Cmid = (Tx[0][0] + Tx[1][0])/2
|
||||
Pmid = (Rx[0][:,0] + Rx[1][:,0])/2
|
||||
if DCsurvey.mesh.dim == 2:
|
||||
zsrc = (Tx[0][1] + Tx[1][1])/2
|
||||
elif DCsurvey.mesh.dim ==3:
|
||||
zsrc = (Tx[0][2] + Tx[1][2])/2
|
||||
|
||||
# Change output for dtype
|
||||
if dtype == 'volt':
|
||||
|
||||
rho = np.hstack([rho,data])
|
||||
|
||||
else:
|
||||
|
||||
# Compute pant leg of apparent rho
|
||||
if stype == 'pdp':
|
||||
|
||||
leg = data * 2*np.pi * MA * ( MA + MN ) / MN
|
||||
|
||||
elif stype == 'dpdp':
|
||||
|
||||
leg = data * 2*np.pi / ( 1/MA - 1/MB + 1/NB - 1/NA )
|
||||
LEG.append(1./(2*np.pi) *( 1/MA - 1/MB + 1/NB - 1/NA ))
|
||||
else:
|
||||
print """dtype must be 'pdp'(pole-dipole) | 'dpdp' (dipole-dipole) """
|
||||
break
|
||||
|
||||
|
||||
if dtype == 'appc':
|
||||
|
||||
leg = np.log10(abs(1./leg))
|
||||
rho = np.hstack([rho,leg])
|
||||
|
||||
elif dtype == 'appr':
|
||||
|
||||
leg = np.log10(abs(leg))
|
||||
rho = np.hstack([rho,leg])
|
||||
|
||||
else:
|
||||
print """dtype must be 'appr' | 'appc' | 'volt' """
|
||||
break
|
||||
|
||||
|
||||
midx = np.hstack([midx, ( Cmid + Pmid )/2 ])
|
||||
if DCsurvey.mesh.dim==3:
|
||||
midz = np.hstack([midz, -np.abs(Cmid-Pmid)/2 + zsrc ])
|
||||
elif DCsurvey.mesh.dim==2:
|
||||
midz = np.hstack([midz, -np.abs(Cmid-Pmid)/2 + zsrc ])
|
||||
ax = axs
|
||||
|
||||
# Grid points
|
||||
grid_x, grid_z = np.mgrid[np.min(midx):np.max(midx), np.min(midz):np.max(midz)]
|
||||
grid_rho = griddata(np.c_[midx,midz], rho.T, (grid_x, grid_z), method='linear')
|
||||
|
||||
if clim == None:
|
||||
vmin, vmax = rho.min(), rho.max()
|
||||
else:
|
||||
vmin, vmax = clim[0], clim[1]
|
||||
|
||||
grid_rho = np.ma.masked_where(np.isnan(grid_rho), grid_rho)
|
||||
ph = plt.pcolormesh(grid_x[:,0],grid_z[0,:],grid_rho.T, clim=(vmin, vmax), vmin=vmin, vmax=vmax)
|
||||
cbar = plt.colorbar(format="$10^{%.1f}$",fraction=0.04,orientation="horizontal")
|
||||
|
||||
cmin,cmax = cbar.get_clim()
|
||||
ticks = np.linspace(cmin,cmax,3)
|
||||
cbar.set_ticks(ticks)
|
||||
cbar.ax.tick_params(labelsize=10)
|
||||
|
||||
if dtype == 'appc':
|
||||
cbar.set_label("App.Cond",size=12)
|
||||
elif dtype == 'appr':
|
||||
cbar.set_label("App.Res.",size=12)
|
||||
elif dtype == 'volt':
|
||||
cbar.set_label("Potential (V)",size=12)
|
||||
|
||||
# Plot apparent resistivity
|
||||
ax.scatter(midx,midz,s=10,c=rho.T, vmin =vmin, vmax = vmax, clim=(vmin, vmax))
|
||||
|
||||
#ax.set_xticklabels([])
|
||||
#ax.set_yticklabels([])
|
||||
|
||||
plt.gca().set_aspect('equal', adjustable='box')
|
||||
|
||||
|
||||
|
||||
return ph, LEG
|
||||
|
||||
def gen_DCIPsurvey(endl, mesh, stype, a, b, n):
|
||||
"""
|
||||
Load in endpoints and survey specifications to generate Tx, Rx location
|
||||
stations.
|
||||
|
||||
Assumes flat topo for now...
|
||||
|
||||
Input:
|
||||
:param endl -> input endpoints [x1, y1, z1, x2, y2, z2]
|
||||
:object mesh -> SimPEG mesh object
|
||||
:switch stype -> "dpdp" (dipole-dipole) | "pdp" (pole-dipole) | 'gradient'
|
||||
: param a, n -> pole seperation, number of rx dipoles per tx
|
||||
|
||||
Output:
|
||||
:param Tx, Rx -> List objects for each tx location
|
||||
Lines: P1x, P1y, P1z, P2x, P2y, P2z
|
||||
|
||||
Created on Wed December 9th, 2015
|
||||
|
||||
@author: dominiquef
|
||||
!! Require clean up to deal with DCsurvey
|
||||
"""
|
||||
|
||||
from SimPEG import np
|
||||
|
||||
def xy_2_r(x1,x2,y1,y2):
|
||||
r = np.sqrt( np.sum((x2 - x1)**2 + (y2 - y1)**2) )
|
||||
return r
|
||||
|
||||
## Evenly distribute electrodes and put on surface
|
||||
# Mesure survey length and direction
|
||||
dl_len = xy_2_r(endl[0,0],endl[1,0],endl[0,1],endl[1,1])
|
||||
|
||||
dl_x = ( endl[1,0] - endl[0,0] ) / dl_len
|
||||
dl_y = ( endl[1,1] - endl[0,1] ) / dl_len
|
||||
|
||||
nstn = np.floor( dl_len / a )
|
||||
|
||||
# Compute discrete pole location along line
|
||||
stn_x = endl[0,0] + np.array(range(int(nstn)))*dl_x*a
|
||||
stn_y = endl[0,1] + np.array(range(int(nstn)))*dl_y*a
|
||||
|
||||
if mesh.dim==2:
|
||||
ztop = mesh.vectorNy[-1]
|
||||
# Create line of P1 locations
|
||||
M = np.c_[stn_x, np.ones(nstn).T*ztop]
|
||||
# Create line of P2 locations
|
||||
N = np.c_[stn_x+a*dl_x, np.ones(nstn).T*ztop]
|
||||
|
||||
elif mesh.dim==3:
|
||||
ztop = mesh.vectorNz[-1]
|
||||
# Create line of P1 locations
|
||||
M = np.c_[stn_x, stn_y, np.ones(nstn).T*ztop]
|
||||
# Create line of P2 locations
|
||||
N = np.c_[stn_x+a*dl_x, stn_y+a*dl_y, np.ones(nstn).T*ztop]
|
||||
|
||||
|
||||
## Build list of Tx-Rx locations depending on survey type
|
||||
# Dipole-dipole: Moving tx with [a] spacing -> [AB a MN1 a MN2 ... a MNn]
|
||||
# Pole-dipole: Moving pole on one end -> [A a MN1 a MN2 ... MNn a B]
|
||||
SrcList = []
|
||||
|
||||
|
||||
if stype != 'gradient':
|
||||
|
||||
for ii in range(0, int(nstn)-1):
|
||||
|
||||
|
||||
if stype == 'dpdp':
|
||||
tx = np.c_[M[ii,:],N[ii,:]]
|
||||
elif stype == 'pdp':
|
||||
tx = np.c_[M[ii,:],M[ii,:]]
|
||||
|
||||
# Rx.append(np.c_[M[ii+1:indx,:],N[ii+1:indx,:]])
|
||||
|
||||
# Current elctrode seperation
|
||||
AB = xy_2_r(tx[0,1],endl[1,0],tx[1,1],endl[1,1])
|
||||
|
||||
# Number of receivers to fit
|
||||
nstn = np.min([np.floor( (AB - b) / a ) , n])
|
||||
|
||||
# Check if there is enough space, else break the loop
|
||||
if nstn <= 0:
|
||||
continue
|
||||
|
||||
# Compute discrete pole location along line
|
||||
stn_x = N[ii,0] + dl_x*b + np.array(range(int(nstn)))*dl_x*a
|
||||
stn_y = N[ii,1] + dl_y*b + np.array(range(int(nstn)))*dl_y*a
|
||||
|
||||
# Create receiver poles
|
||||
|
||||
if mesh.dim==3:
|
||||
# Create line of P1 locations
|
||||
P1 = np.c_[stn_x, stn_y, np.ones(nstn).T*ztop]
|
||||
# Create line of P2 locations
|
||||
P2 = np.c_[stn_x+a*dl_x, stn_y+a*dl_y, np.ones(nstn).T*ztop]
|
||||
rxClass = DC.Rx.Dipole(P1, P2)
|
||||
|
||||
elif mesh.dim==2:
|
||||
# Create line of P1 locations
|
||||
P1 = np.c_[stn_x, np.ones(nstn).T*ztop]
|
||||
# Create line of P2 locations
|
||||
P2 = np.c_[stn_x+a*dl_x, np.ones(nstn).T*ztop]
|
||||
rxClass = DC.Rx.Dipole_ky(P1, P2)
|
||||
|
||||
if stype == 'dpdp':
|
||||
srcClass = DC.Src.Dipole([rxClass], M[ii,:],N[ii,:])
|
||||
elif stype == 'pdp':
|
||||
srcClass = DC.Src.Pole([rxClass], M[ii,:])
|
||||
SrcList.append(srcClass)
|
||||
|
||||
elif stype == 'gradient':
|
||||
|
||||
# Gradient survey only requires Tx at end of line and creates a square
|
||||
# grid of receivers at in the middle at a pre-set minimum distance
|
||||
|
||||
# Get the edge limit of survey area
|
||||
min_x = endl[0,0] + dl_x * b
|
||||
min_y = endl[0,1] + dl_y * b
|
||||
|
||||
max_x = endl[1,0] - dl_x * b
|
||||
max_y = endl[1,1] - dl_y * b
|
||||
|
||||
box_l = np.sqrt( (min_x - max_x)**2 + (min_y - max_y)**2 )
|
||||
box_w = box_l/2.
|
||||
|
||||
nstn = np.floor( box_l / a )
|
||||
|
||||
# Compute discrete pole location along line
|
||||
stn_x = min_x + np.array(range(int(nstn)))*dl_x*a
|
||||
stn_y = min_y + np.array(range(int(nstn)))*dl_y*a
|
||||
|
||||
# Define number of cross lines
|
||||
nlin = int(np.floor( box_w / a ))
|
||||
lind = range(-nlin,nlin+1)
|
||||
|
||||
ngrad = nstn * len(lind)
|
||||
|
||||
rx = np.zeros([ngrad,6])
|
||||
for ii in range( len(lind) ):
|
||||
|
||||
# Move line in perpendicular direction by dipole spacing
|
||||
lxx = stn_x - lind[ii]*a*dl_y
|
||||
lyy = stn_y + lind[ii]*a*dl_x
|
||||
|
||||
|
||||
M = np.c_[ lxx, lyy , np.ones(nstn).T*ztop]
|
||||
N = np.c_[ lxx+a*dl_x, lyy+a*dl_y, np.ones(nstn).T*ztop]
|
||||
rx[(ii*nstn):((ii+1)*nstn),:] = np.c_[M,N]
|
||||
|
||||
if mesh.dim==3:
|
||||
rxClass = DC.Rx.Dipole(rx[:,:3], rx[:,3:])
|
||||
elif mesh.dim==2:
|
||||
M = M[:,[0,2]]
|
||||
N = N[:,[0,2]]
|
||||
rxClass = DC.Rx.Dipole_ky(rx[:,[0,2]], rx[:,[3,5]])
|
||||
srcClass = DC.Src.Dipole([rxClass], M[0,:], N[-1,:])
|
||||
SrcList.append(srcClass)
|
||||
else:
|
||||
print """stype must be either 'pdp', 'dpdp' or 'gradient'. """
|
||||
|
||||
|
||||
return SrcList
|
||||
|
||||
@@ -1 +0,0 @@
|
||||
from StaticUtils import *
|
||||
@@ -1,3 +0,0 @@
|
||||
import DC
|
||||
import IP
|
||||
import SIP
|
||||
+11
-12
@@ -27,7 +27,6 @@ class FieldsTDEM(Problem.TimeFields):
|
||||
else:
|
||||
e = np.zeros((nE,nSrc)) # if nSrc == 1 else (nE, nSrc))
|
||||
u = np.concatenate((u, b, e))
|
||||
|
||||
return Utils.mkvc(u,nSrc)
|
||||
|
||||
|
||||
@@ -108,11 +107,11 @@ class BaseTDEMProblem(BaseTimeProblem, BaseEMProblem):
|
||||
Ainv.clean()
|
||||
return F
|
||||
|
||||
def Jvec(self, m, v, f=None):
|
||||
def Jvec(self, m, v, u=None):
|
||||
"""
|
||||
:param numpy.array m: Conductivity model
|
||||
:param numpy.ndarray v: vector (model object)
|
||||
:param simpegEM.TDEM.FieldsTDEM f: Fields resulting from m
|
||||
:param simpegEM.TDEM.FieldsTDEM u: Fields resulting from m
|
||||
:rtype: numpy.ndarray
|
||||
:return: w (data object)
|
||||
|
||||
@@ -125,15 +124,15 @@ class BaseTDEMProblem(BaseTimeProblem, BaseEMProblem):
|
||||
"""
|
||||
if self.verbose: print '%s\nCalculating J(v)\n%s'%('*'*50,'*'*50)
|
||||
self.curModel = m
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
p = self.Gvec(m, v, f)
|
||||
if u is None:
|
||||
u = self.fields(m)
|
||||
p = self.Gvec(m, v, u)
|
||||
y = self.solveAh(m, p)
|
||||
Jv = self.survey.evalDeriv(f, v=y)
|
||||
Jv = self.survey.projectFieldsDeriv(u, v=y)
|
||||
if self.verbose: print '%s\nDone calculating J(v)\n%s'%('*'*50,'*'*50)
|
||||
return - mkvc(Jv)
|
||||
|
||||
def Jtvec(self, m, v, f=None):
|
||||
def Jtvec(self, m, v, u=None):
|
||||
"""
|
||||
:param numpy.array m: Conductivity model
|
||||
:param numpy.ndarray,SimPEG.Survey.Data v: vector (data object)
|
||||
@@ -150,15 +149,15 @@ class BaseTDEMProblem(BaseTimeProblem, BaseEMProblem):
|
||||
"""
|
||||
if self.verbose: print '%s\nCalculating J^T(v)\n%s'%('*'*50,'*'*50)
|
||||
self.curModel = m
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
if u is None:
|
||||
u = self.fields(m)
|
||||
|
||||
if not isinstance(v, self.dataPair):
|
||||
v = self.dataPair(self.survey, v)
|
||||
|
||||
p = self.survey.evalDeriv(f, v=v, adjoint=True)
|
||||
p = self.survey.projectFieldsDeriv(u, v=v, adjoint=True)
|
||||
y = self.solveAht(m, p)
|
||||
w = self.Gtvec(m, y, f)
|
||||
w = self.Gtvec(m, y, u)
|
||||
if self.verbose: print '%s\nDone calculating J^T(v)\n%s'%('*'*50,'*'*50)
|
||||
return - mkvc(w)
|
||||
|
||||
|
||||
@@ -51,12 +51,12 @@ class RxTDEM(Survey.BaseTimeRx):
|
||||
else:
|
||||
return timeMesh.getInterpolationMat(self.times, self.projTLoc)
|
||||
|
||||
def eval(self, src, mesh, timeMesh, u):
|
||||
def projectFields(self, src, mesh, timeMesh, u):
|
||||
P = self.getP(mesh, timeMesh)
|
||||
u_part = Utils.mkvc(u[src, self.projField, :])
|
||||
return P*u_part
|
||||
|
||||
def evalDeriv(self, src, mesh, timeMesh, u, v, adjoint=False):
|
||||
def projectFieldsDeriv(self, src, mesh, timeMesh, u, v, adjoint=False):
|
||||
P = self.getP(mesh, timeMesh)
|
||||
|
||||
if not adjoint:
|
||||
@@ -79,32 +79,12 @@ class SrcTDEM(Survey.BaseSrc):
|
||||
|
||||
class SrcTDEM_VMD_MVP(SrcTDEM):
|
||||
|
||||
def __init__(self,rxList,loc,waveformType="STEPOFF"):
|
||||
def __init__(self,rxList,loc):
|
||||
self.loc = loc
|
||||
self.waveformType = waveformType
|
||||
SrcTDEM.__init__(self,rxList)
|
||||
|
||||
def getInitialFields(self, mesh):
|
||||
"""Vertical magnetic dipole, magnetic vector potential"""
|
||||
if self.waveformType == "STEPOFF":
|
||||
print ">> Step waveform: Non-zero initial condition"
|
||||
if mesh._meshType is 'CYL':
|
||||
if mesh.isSymmetric:
|
||||
MVP = MagneticDipoleVectorPotential(self.loc, mesh, 'Ey')
|
||||
else:
|
||||
raise NotImplementedError('Non-symmetric cyl mesh not implemented yet!')
|
||||
elif mesh._meshType is 'TENSOR':
|
||||
MVP = MagneticDipoleVectorPotential(self.loc, mesh, ['Ex','Ey','Ez'])
|
||||
else:
|
||||
raise Exception('Unknown mesh for VMD')
|
||||
return {"b": mesh.edgeCurl*MVP}
|
||||
elif self.waveformType == "GENERAL":
|
||||
print ">> General waveform: Zero initial condition"
|
||||
return {"b": np.zeros(mesh.nF)}
|
||||
else:
|
||||
raise NotImplementedError("Only use STEPOFF or GENERAL")
|
||||
|
||||
def getMeS(self, mesh, MfMui):
|
||||
if mesh._meshType is 'CYL':
|
||||
if mesh.isSymmetric:
|
||||
MVP = MagneticDipoleVectorPotential(self.loc, mesh, 'Ey')
|
||||
@@ -114,15 +94,16 @@ class SrcTDEM_VMD_MVP(SrcTDEM):
|
||||
MVP = MagneticDipoleVectorPotential(self.loc, mesh, ['Ex','Ey','Ez'])
|
||||
else:
|
||||
raise Exception('Unknown mesh for VMD')
|
||||
return mesh.edgeCurl.T*MfMui*mesh.edgeCurl*MVP
|
||||
|
||||
return {"b": mesh.edgeCurl*MVP}
|
||||
|
||||
|
||||
class SrcTDEM_CircularLoop_MVP(SrcTDEM):
|
||||
def __init__(self,rxList,loc,radius,waveformType="STEPOFF"):
|
||||
def __init__(self,rxList,loc,radius,waveformType):
|
||||
self.loc = loc
|
||||
self.radius = radius
|
||||
self.waveformType = waveformType
|
||||
SrcTDEM.__init__(self,rxList)
|
||||
SrcTDEM.__init__(self,rxList)
|
||||
|
||||
def getInitialFields(self, mesh):
|
||||
"""Circular Loop, magnetic vector potential"""
|
||||
@@ -153,7 +134,7 @@ class SrcTDEM_CircularLoop_MVP(SrcTDEM):
|
||||
elif mesh._meshType is 'TENSOR':
|
||||
MVP = MagneticLoopVectorPotential(self.loc, mesh, ['Ex','Ey','Ez'], self.radius)
|
||||
else:
|
||||
raise Exception('Unknown mesh for CircularLoop')
|
||||
raise Exception('Unknown mesh for CircularLoop')
|
||||
return mesh.edgeCurl.T*MfMui*mesh.edgeCurl*MVP
|
||||
|
||||
|
||||
@@ -168,27 +149,27 @@ class SurveyTDEM(Survey.BaseSurvey):
|
||||
self.srcList = srcList
|
||||
Survey.BaseSurvey.__init__(self, **kwargs)
|
||||
|
||||
def eval(self, u):
|
||||
def projectFields(self, u):
|
||||
data = Survey.Data(self)
|
||||
for src in self.srcList:
|
||||
for rx in src.rxList:
|
||||
data[src, rx] = rx.eval(src, self.mesh, self.prob.timeMesh, u)
|
||||
data[src, rx] = rx.projectFields(src, self.mesh, self.prob.timeMesh, u)
|
||||
return data
|
||||
|
||||
def evalDeriv(self, u, v=None, adjoint=False):
|
||||
def projectFieldsDeriv(self, u, v=None, adjoint=False):
|
||||
assert v is not None, 'v to multiply must be provided.'
|
||||
|
||||
if not adjoint:
|
||||
data = Survey.Data(self)
|
||||
for src in self.srcList:
|
||||
for rx in src.rxList:
|
||||
data[src, rx] = rx.evalDeriv(src, self.mesh, self.prob.timeMesh, u, v)
|
||||
data[src, rx] = rx.projectFieldsDeriv(src, self.mesh, self.prob.timeMesh, u, v)
|
||||
return data
|
||||
else:
|
||||
f = FieldsTDEM(self.mesh, self)
|
||||
for src in self.srcList:
|
||||
for rx in src.rxList:
|
||||
Ptv = rx.evalDeriv(src, self.mesh, self.prob.timeMesh, u, v, adjoint=True)
|
||||
Ptv = rx.projectFieldsDeriv(src, self.mesh, self.prob.timeMesh, u, v, adjoint=True)
|
||||
Ptv = Ptv.reshape((-1, self.prob.timeMesh.nN), order='F')
|
||||
if rx.projField not in f: # first time we are projecting
|
||||
f[src, rx.projField, :] = Ptv
|
||||
|
||||
@@ -13,4 +13,37 @@ def k(freq, sigma, mu=mu_0, eps=epsilon_0):
|
||||
beta = w * np.sqrt( mu*eps/2 * ( np.sqrt(1. + (sigma / (eps*w))**2 ) - 1) )
|
||||
return alp - 1j*beta
|
||||
|
||||
# Constitutive relations
|
||||
def e_from_j(prob,j):
|
||||
eqLocs = prob._eqLocs
|
||||
if eqLocs is 'FE':
|
||||
MSigmaI = prob.MeSigmaI
|
||||
elif eqLocs is 'EF':
|
||||
MSigmaI = prob.MfRho
|
||||
return MSigmaI*j
|
||||
|
||||
def j_from_e(prob,e):
|
||||
eqLocs = prob._eqLocs
|
||||
if eqLocs is 'FE':
|
||||
MSigma = prob.MeSigma
|
||||
elif eqLocs is 'EF':
|
||||
MSigma = prob.MfRhoI
|
||||
return MSigma*e
|
||||
|
||||
def b_from_h(prob,h):
|
||||
eqLocs = prob._eqLocs
|
||||
if eqLocs is 'FE':
|
||||
MMu = prob.MfMuiI
|
||||
elif eqLocs is 'EF':
|
||||
MMu = prob.MeMu
|
||||
return MMu*h
|
||||
|
||||
def h_from_b(prob,b):
|
||||
eqLocs = prob._eqLocs
|
||||
if eqLocs is 'FE':
|
||||
MMuI = prob.MfMui
|
||||
elif eqLocs is 'EF':
|
||||
MMuI = prob.MeMuI
|
||||
return MMuI*b
|
||||
|
||||
|
||||
|
||||
@@ -1,2 +1,5 @@
|
||||
from EMUtils import omega, k
|
||||
# import Sources
|
||||
# import Ana
|
||||
# import Solver
|
||||
from EMUtils import omega, e_from_j, j_from_e, b_from_h, h_from_b
|
||||
from AnalyticUtils import MagneticDipoleFields, MagneticDipoleVectorPotential, MagneticLoopVectorPotential
|
||||
@@ -4,77 +4,63 @@ from SimPEG import EM
|
||||
import sys
|
||||
from scipy.constants import mu_0
|
||||
|
||||
FLR = 1e-20 # "zero", so if residual below this --> pass regardless of order
|
||||
CONDUCTIVITY = 1e1
|
||||
MU = mu_0
|
||||
freq = 5e-1
|
||||
|
||||
|
||||
def getFDEMProblem(fdemType, comp, SrcList, freq, useMu=False, verbose=False):
|
||||
cs = 10.
|
||||
ncx, ncy, ncz = 0, 0, 0
|
||||
npad = 8
|
||||
def getFDEMProblem(fdemType, comp, SrcList, freq, verbose=False):
|
||||
cs = 5.
|
||||
ncx, ncy, ncz = 6, 6, 6
|
||||
npad = 3
|
||||
hx = [(cs,npad,-1.3), (cs,ncx), (cs,npad,1.3)]
|
||||
hy = [(cs,npad,-1.3), (cs,ncy), (cs,npad,1.3)]
|
||||
hz = [(cs,npad,-1.3), (cs,ncz), (cs,npad,1.3)]
|
||||
mesh = Mesh.TensorMesh([hx,hy,hz],['C','C','C'])
|
||||
|
||||
if useMu is True:
|
||||
mapping = [('sigma', Maps.ExpMap(mesh)), ('mu', Maps.IdentityMap(mesh))]
|
||||
else:
|
||||
mapping = Maps.ExpMap(mesh)
|
||||
mapping = Maps.ExpMap(mesh)
|
||||
|
||||
x = np.array([np.linspace(-5.*cs,-2.*cs,3),np.linspace(5.*cs,2.*cs,3)]) + cs/4. #don't sample right by the source, slightly off alignment from either staggered grid
|
||||
XYZ = Utils.ndgrid(x,x,np.linspace(-2.*cs,2.*cs,5))
|
||||
Rx0 = getattr(EM.FDEM.Rx, 'Point_' + comp[0])
|
||||
if comp[2] == 'r':
|
||||
real_or_imag = 'real'
|
||||
elif comp[2] == 'i':
|
||||
real_or_imag = 'imag'
|
||||
rx0 = Rx0(XYZ, comp[1], 'imag')
|
||||
x = np.array([np.linspace(-30,-15,3),np.linspace(15,30,3)]) #don't sample right by the source
|
||||
XYZ = Utils.ndgrid(x,x,np.r_[0.])
|
||||
Rx0 = EM.FDEM.Rx(XYZ, comp)
|
||||
|
||||
Src = []
|
||||
|
||||
for SrcType in SrcList:
|
||||
if SrcType is 'MagDipole':
|
||||
Src.append(EM.FDEM.Src.MagDipole([rx0], freq=freq, loc=np.r_[0.,0.,0.]))
|
||||
Src.append(EM.FDEM.Src.MagDipole([Rx0], freq=freq, loc=np.r_[0.,0.,0.]))
|
||||
elif SrcType is 'MagDipole_Bfield':
|
||||
Src.append(EM.FDEM.Src.MagDipole_Bfield([rx0], freq=freq, loc=np.r_[0.,0.,0.]))
|
||||
Src.append(EM.FDEM.Src.MagDipole_Bfield([Rx0], freq=freq, loc=np.r_[0.,0.,0.]))
|
||||
elif SrcType is 'CircularLoop':
|
||||
Src.append(EM.FDEM.Src.CircularLoop([rx0], freq=freq, loc=np.r_[0.,0.,0.]))
|
||||
Src.append(EM.FDEM.Src.CircularLoop([Rx0], freq=freq, loc=np.r_[0.,0.,0.]))
|
||||
elif SrcType is 'RawVec':
|
||||
if fdemType is 'e' or fdemType is 'b':
|
||||
S_m = np.zeros(mesh.nF)
|
||||
S_e = np.zeros(mesh.nE)
|
||||
S_m[Utils.closestPoints(mesh,[0.,0.,0.],'Fz') + np.sum(mesh.vnF[:1])] = 1e-3
|
||||
S_e[Utils.closestPoints(mesh,[0.,0.,0.],'Ez') + np.sum(mesh.vnE[:1])] = 1e-3
|
||||
Src.append(EM.FDEM.Src.RawVec([rx0], freq, S_m, mesh.getEdgeInnerProduct()*S_e))
|
||||
S_m[Utils.closestPoints(mesh,[0.,0.,0.],'Fz') + np.sum(mesh.vnF[:1])] = 1.
|
||||
S_e[Utils.closestPoints(mesh,[0.,0.,0.],'Ez') + np.sum(mesh.vnE[:1])] = 1.
|
||||
Src.append(EM.FDEM.Src.RawVec([Rx0], freq, S_m, S_e))
|
||||
|
||||
elif fdemType is 'h' or fdemType is 'j':
|
||||
S_m = np.zeros(mesh.nE)
|
||||
S_e = np.zeros(mesh.nF)
|
||||
S_m[Utils.closestPoints(mesh,[0.,0.,0.],'Ez') + np.sum(mesh.vnE[:1])] = 1e-3
|
||||
S_e[Utils.closestPoints(mesh,[0.,0.,0.],'Fz') + np.sum(mesh.vnF[:1])] = 1e-3
|
||||
Src.append(EM.FDEM.Src.RawVec([rx0], freq, mesh.getEdgeInnerProduct()*S_m, S_e))
|
||||
S_m[Utils.closestPoints(mesh,[0.,0.,0.],'Ez') + np.sum(mesh.vnE[:1])] = 1.
|
||||
S_e[Utils.closestPoints(mesh,[0.,0.,0.],'Fz') + np.sum(mesh.vnF[:1])] = 1.
|
||||
Src.append(EM.FDEM.Src.RawVec([Rx0], freq, S_m, S_e))
|
||||
|
||||
if verbose:
|
||||
print ' Fetching %s problem' % (fdemType)
|
||||
|
||||
if fdemType == 'e':
|
||||
survey = EM.FDEM.Survey(Src)
|
||||
prb = EM.FDEM.Problem3D_e(mesh, mapping=mapping)
|
||||
prb = EM.FDEM.Problem_e(mesh, mapping=mapping)
|
||||
|
||||
elif fdemType == 'b':
|
||||
survey = EM.FDEM.Survey(Src)
|
||||
prb = EM.FDEM.Problem3D_b(mesh, mapping=mapping)
|
||||
prb = EM.FDEM.Problem_b(mesh, mapping=mapping)
|
||||
|
||||
elif fdemType == 'j':
|
||||
survey = EM.FDEM.Survey(Src)
|
||||
prb = EM.FDEM.Problem3D_j(mesh, mapping=mapping)
|
||||
prb = EM.FDEM.Problem_j(mesh, mapping=mapping)
|
||||
|
||||
elif fdemType == 'h':
|
||||
survey = EM.FDEM.Survey(Src)
|
||||
prb = EM.FDEM.Problem3D_h(mesh, mapping=mapping)
|
||||
prb = EM.FDEM.Problem_h(mesh, mapping=mapping)
|
||||
|
||||
else:
|
||||
raise NotImplementedError()
|
||||
@@ -84,48 +70,6 @@ def getFDEMProblem(fdemType, comp, SrcList, freq, useMu=False, verbose=False):
|
||||
from pymatsolver import MumpsSolver
|
||||
prb.Solver = MumpsSolver
|
||||
except ImportError, e:
|
||||
prb.Solver = SolverLU
|
||||
pass
|
||||
|
||||
return prb
|
||||
|
||||
def crossCheckTest(SrcList, fdemType1, fdemType2, comp, addrandoms = False, useMu=False, TOL=1e-5, verbose=False):
|
||||
|
||||
l2norm = lambda r: np.sqrt(r.dot(r))
|
||||
|
||||
prb1 = getFDEMProblem(fdemType1, comp, SrcList, freq, useMu, verbose)
|
||||
mesh = prb1.mesh
|
||||
print 'Cross Checking Forward: %s, %s formulations - %s' % (fdemType1, fdemType2, comp)
|
||||
|
||||
logsig = np.log(np.ones(mesh.nC)*CONDUCTIVITY)
|
||||
mu = np.ones(mesh.nC)*MU
|
||||
|
||||
if addrandoms is True:
|
||||
logsig += np.random.randn(mesh.nC)*np.log(CONDUCTIVITY)*1e-1
|
||||
mu += np.random.randn(mesh.nC)*MU*1e-1
|
||||
|
||||
if useMu is True:
|
||||
m = np.r_[logsig, mu]
|
||||
else:
|
||||
m = logsig
|
||||
|
||||
survey1 = prb1.survey
|
||||
d1 = survey1.dpred(m)
|
||||
|
||||
if verbose:
|
||||
print ' Problem 1 solved'
|
||||
|
||||
|
||||
prb2 = getFDEMProblem(fdemType2, comp, SrcList, freq, useMu, verbose)
|
||||
|
||||
survey2 = prb2.survey
|
||||
d2 = survey2.dpred(m)
|
||||
|
||||
if verbose:
|
||||
print ' Problem 2 solved'
|
||||
|
||||
r = d2-d1
|
||||
l2r = l2norm(r)
|
||||
|
||||
tol = np.max([TOL*(10**int(np.log10(0.5* (l2norm(d1) + l2norm(d2)) ))),FLR])
|
||||
print l2norm(d1), l2norm(d2), l2r , tol, l2r < tol
|
||||
return l2r < tol
|
||||
return prb
|
||||
@@ -1,6 +1,5 @@
|
||||
import TDEM
|
||||
import FDEM
|
||||
import Static
|
||||
import Base
|
||||
import Analytics
|
||||
import Utils
|
||||
|
||||
@@ -1,68 +0,0 @@
|
||||
from SimPEG import *
|
||||
import SimPEG.DCIP as DC
|
||||
|
||||
def run(plotIt=False):
|
||||
cs = 25.
|
||||
hx = [(cs,7, -1.3),(cs,21),(cs,7, 1.3)]
|
||||
hy = [(cs,7, -1.3),(cs,21),(cs,7, 1.3)]
|
||||
hz = [(cs,7, -1.3),(cs,20)]
|
||||
mesh = Mesh.TensorMesh([hx, hy, hz], 'CCN')
|
||||
sighalf = 1e-2
|
||||
sigma = np.ones(mesh.nC)*sighalf
|
||||
xtemp = np.linspace(-150, 150, 21)
|
||||
ytemp = np.linspace(-150, 150, 21)
|
||||
xyz_rxP = Utils.ndgrid(xtemp-10., ytemp, np.r_[0.])
|
||||
xyz_rxN = Utils.ndgrid(xtemp+10., ytemp, np.r_[0.])
|
||||
xyz_rxM = Utils.ndgrid(xtemp, ytemp, np.r_[0.])
|
||||
|
||||
# if plotIt:
|
||||
# fig, ax = plt.subplots(1,1, figsize = (5,5))
|
||||
# mesh.plotSlice(sigma, grid=True, ax = ax)
|
||||
# ax.plot(xyz_rxP[:,0],xyz_rxP[:,1], 'w.')
|
||||
# ax.plot(xyz_rxN[:,0],xyz_rxN[:,1], 'r.', ms = 3)
|
||||
|
||||
rx = DC.RxDipole(xyz_rxP, xyz_rxN)
|
||||
src = DC.SrcDipole([rx], [-200, 0, -12.5], [+200, 0, -12.5])
|
||||
survey = DC.SurveyDC([src])
|
||||
problem = DC.ProblemDC_CC(mesh)
|
||||
problem.pair(survey)
|
||||
try:
|
||||
from pymatsolver import MumpsSolver
|
||||
problem.Solver = MumpsSolver
|
||||
except Exception, e:
|
||||
pass
|
||||
data = survey.dpred(sigma)
|
||||
|
||||
def DChalf(srclocP, srclocN, rxloc, sigma, I=1.):
|
||||
rp = (srclocP.reshape([1,-1])).repeat(rxloc.shape[0], axis = 0)
|
||||
rn = (srclocN.reshape([1,-1])).repeat(rxloc.shape[0], axis = 0)
|
||||
rP = np.sqrt(((rxloc-rp)**2).sum(axis=1))
|
||||
rN = np.sqrt(((rxloc-rn)**2).sum(axis=1))
|
||||
return I/(sigma*2.*np.pi)*(1/rP-1/rN)
|
||||
|
||||
data_anaP = DChalf(np.r_[-200, 0, 0.],np.r_[+200, 0, 0.], xyz_rxP, sighalf)
|
||||
data_anaN = DChalf(np.r_[-200, 0, 0.],np.r_[+200, 0, 0.], xyz_rxN, sighalf)
|
||||
data_ana = data_anaP-data_anaN
|
||||
Data_ana = data_ana.reshape((21, 21), order = 'F')
|
||||
Data = data.reshape((21, 21), order = 'F')
|
||||
X = xyz_rxM[:,0].reshape((21, 21), order = 'F')
|
||||
Y = xyz_rxM[:,1].reshape((21, 21), order = 'F')
|
||||
|
||||
if plotIt:
|
||||
import matplotlib.pyplot as plt
|
||||
fig, ax = plt.subplots(1,2, figsize = (12, 5))
|
||||
vmin = np.r_[data, data_ana].min()
|
||||
vmax = np.r_[data, data_ana].max()
|
||||
dat1 = ax[1].contourf(X, Y, Data, 60, vmin = vmin, vmax = vmax)
|
||||
dat0 = ax[0].contourf(X, Y, Data_ana, 60, vmin = vmin, vmax = vmax)
|
||||
cb0 = plt.colorbar(dat1, orientation = 'horizontal', ax = ax[0])
|
||||
cb1 = plt.colorbar(dat1, orientation = 'horizontal', ax = ax[1])
|
||||
ax[1].set_title('Analytic')
|
||||
ax[0].set_title('Computed')
|
||||
plt.show()
|
||||
|
||||
return np.linalg.norm(data-data_ana)/np.linalg.norm(data_ana)
|
||||
|
||||
|
||||
if __name__ == '__main__':
|
||||
print run(plotIt=True)
|
||||
@@ -1,208 +0,0 @@
|
||||
from SimPEG import Mesh, Utils, np, sp
|
||||
import SimPEG.DCIP as DC
|
||||
import time
|
||||
|
||||
def run(loc=None, sig=None, radi=None, param=None, surveyType='dipole-dipole', unitType='appConductivity', plotIt=True):
|
||||
"""
|
||||
DC Forward Simulation
|
||||
=====================
|
||||
|
||||
Forward model two conductive spheres in a half-space and plot a
|
||||
pseudo-section. Assumes an infinite line source and measures along the
|
||||
center of the spheres.
|
||||
|
||||
INPUT:
|
||||
loc = Location of spheres [[x1,y1,z1],[x2,y2,z2]]
|
||||
radi = Radius of spheres [r1,r2]
|
||||
param = Conductivity of background and two spheres [m0,m1,m2]
|
||||
surveyType = survey type 'pole-dipole' or 'dipole-dipole'
|
||||
unitType = Data type "appResistivity" | "appConductivity" | "volt"
|
||||
Created by @fourndo
|
||||
|
||||
"""
|
||||
|
||||
assert surveyType in ['pole-dipole', 'dipole-dipole'], "Source type (surveyType) must be pdp or dpdp (pole dipole or dipole dipole)"
|
||||
assert unitType in ['appResistivity', 'appConductivity', 'volt'], "Unit type (unitType) must be appResistivity or appConductivity or volt (potential)"
|
||||
|
||||
if loc is None:
|
||||
loc = np.c_[[-50.,0.,-50.],[50.,0.,-50.]]
|
||||
if sig is None:
|
||||
sig = np.r_[1e-2,1e-1,1e-3]
|
||||
if radi is None:
|
||||
radi = np.r_[25.,25.]
|
||||
if param is None:
|
||||
param = np.r_[30.,30.,5]
|
||||
|
||||
|
||||
# First we need to create a mesh and a model.
|
||||
# This is our mesh
|
||||
dx = 5.
|
||||
|
||||
hxind = [(dx,15,-1.3), (dx, 75), (dx,15,1.3)]
|
||||
hyind = [(dx,15,-1.3), (dx, 10), (dx,15,1.3)]
|
||||
hzind = [(dx,15,-1.3),(dx, 15)]
|
||||
|
||||
mesh = Mesh.TensorMesh([hxind, hyind, hzind], 'CCN')
|
||||
|
||||
|
||||
# Set background conductivity
|
||||
model = np.ones(mesh.nC) * sig[0]
|
||||
|
||||
# First anomaly
|
||||
ind = Utils.ModelBuilder.getIndicesSphere(loc[:,0],radi[0],mesh.gridCC)
|
||||
model[ind] = sig[1]
|
||||
|
||||
# Second anomaly
|
||||
ind = Utils.ModelBuilder.getIndicesSphere(loc[:,1],radi[1],mesh.gridCC)
|
||||
model[ind] = sig[2]
|
||||
|
||||
# Get index of the center
|
||||
indy = int(mesh.nCy/2)
|
||||
|
||||
# Plot the model for reference
|
||||
# Define core mesh extent
|
||||
xlim = 200
|
||||
zlim = 100
|
||||
|
||||
# Then specify the end points of the survey. Let's keep it simple for now and survey above the anomalies, top of the mesh
|
||||
ends = [(-175,0),(175,0)]
|
||||
ends = np.c_[np.asarray(ends),np.ones(2).T*mesh.vectorNz[-1]]
|
||||
|
||||
# Snap the endpoints to the grid. Easier to create 2D section.
|
||||
indx = Utils.closestPoints(mesh, ends )
|
||||
locs = np.c_[mesh.gridCC[indx,0],mesh.gridCC[indx,1],np.ones(2).T*mesh.vectorNz[-1]]
|
||||
|
||||
# We will handle the geometry of the survey for you and create all the combination of tx-rx along line
|
||||
# [Tx, Rx] = DC.gen_DCIPsurvey(locs, mesh, surveyType, param[0], param[1], param[2])
|
||||
survey, Tx, Rx = DC.gen_DCIPsurvey(locs, mesh, surveyType, param[0], param[1], param[2])
|
||||
|
||||
# Define some global geometry
|
||||
dl_len = np.sqrt( np.sum((locs[0,:] - locs[1,:])**2) )
|
||||
dl_x = ( Tx[-1][0,1] - Tx[0][0,0] ) / dl_len
|
||||
dl_y = ( Tx[-1][1,1] - Tx[0][1,0] ) / dl_len
|
||||
#azm = np.arctan(dl_y/dl_x)
|
||||
|
||||
#Set boundary conditions
|
||||
mesh.setCellGradBC('neumann')
|
||||
|
||||
# Define the linear system needed for the DC problem. We assume an infitite
|
||||
# line source for simplicity.
|
||||
Div = mesh.faceDiv
|
||||
Grad = mesh.cellGrad
|
||||
Msig = Utils.sdiag(1./(mesh.aveF2CC.T*(1./model)))
|
||||
|
||||
A = Div*Msig*Grad
|
||||
|
||||
# Change one corner to deal with nullspace
|
||||
A[0,0] = 1
|
||||
A = sp.csc_matrix(A)
|
||||
|
||||
# We will solve the system iteratively, so a pre-conditioner is helpful
|
||||
# This is simply a Jacobi preconditioner (inverse of the main diagonal)
|
||||
dA = A.diagonal()
|
||||
P = sp.spdiags(1/dA,0,A.shape[0],A.shape[0])
|
||||
|
||||
# Now we can solve the system for all the transmitters
|
||||
# We want to store the data
|
||||
data = []
|
||||
|
||||
# There is probably a more elegant way to do this, but we can just for-loop through the transmitters
|
||||
for ii in range(len(Tx)):
|
||||
|
||||
start_time = time.time() # Let's time the calculations
|
||||
|
||||
#print("Transmitter %i / %i\r" % (ii+1,len(Tx)))
|
||||
|
||||
# Select dipole locations for receiver
|
||||
rxloc_M = np.asarray(Rx[ii][:,0:3])
|
||||
rxloc_N = np.asarray(Rx[ii][:,3:])
|
||||
|
||||
|
||||
# For usual cases 'dipole-dipole' or "gradient"
|
||||
if surveyType == 'pole-dipole':
|
||||
# Create an "inifinity" pole
|
||||
tx = np.squeeze(Tx[ii][:,0:1])
|
||||
tinf = tx + np.array([dl_x,dl_y,0])*dl_len*2
|
||||
inds = Utils.closestPoints(mesh, np.c_[tx,tinf].T)
|
||||
RHS = mesh.getInterpolationMat(np.asarray(Tx[ii]).T, 'CC').T*( [-1] / mesh.vol[inds] )
|
||||
else:
|
||||
inds = Utils.closestPoints(mesh, np.asarray(Tx[ii]).T )
|
||||
RHS = mesh.getInterpolationMat(np.asarray(Tx[ii]).T, 'CC').T*( [-1,1] / mesh.vol[inds] )
|
||||
|
||||
# Iterative Solve
|
||||
Ainvb = sp.linalg.bicgstab(P*A,P*RHS, tol=1e-5)
|
||||
|
||||
# We now have the potential everywhere
|
||||
phi = Utils.mkvc(Ainvb[0])
|
||||
|
||||
# Solve for phi on pole locations
|
||||
P1 = mesh.getInterpolationMat(rxloc_M, 'CC')
|
||||
P2 = mesh.getInterpolationMat(rxloc_N, 'CC')
|
||||
|
||||
# Compute the potential difference
|
||||
dtemp = (P1*phi - P2*phi)*np.pi
|
||||
|
||||
data.append( dtemp )
|
||||
print '\rTransmitter {0} of {1} -> Time:{2} sec'.format(ii,len(Tx),time.time()- start_time),
|
||||
|
||||
print 'Transmitter {0} of {1}'.format(ii,len(Tx))
|
||||
print 'Forward completed'
|
||||
|
||||
# Let's just convert the 3D format into 2D (distance along line) and plot
|
||||
survey2D = DC.convertObs_DC3D_to_2D(survey, np.ones(survey.nSrc) , 'Xloc')
|
||||
survey2D.dobs =np.hstack(data)
|
||||
|
||||
if plotIt:
|
||||
import matplotlib.pyplot as plt
|
||||
fig = plt.figure(figsize=(7,7))
|
||||
ax = plt.subplot(2,1,1, aspect='equal')
|
||||
# Plot the location of the spheres for reference
|
||||
circle1=plt.Circle((loc[0,0], loc[2,0]), radi[0], color='w', fill=False, lw=3)
|
||||
circle2=plt.Circle((loc[0,1], loc[2,1]), radi[1], color='k', fill=False, lw=3)
|
||||
ax.add_artist(circle1)
|
||||
ax.add_artist(circle2)
|
||||
|
||||
dat = mesh.plotSlice(np.log10(model), ax = ax, normal = 'Y',
|
||||
ind = indy,grid=True, clim = np.log10([sig.min(),sig.max()]))
|
||||
|
||||
ax.set_title('3-D model')
|
||||
plt.gca().set_aspect('equal', adjustable='box')
|
||||
|
||||
plt.scatter(Tx[0][0,:],Tx[0][2,:],s=40,c='g', marker='v')
|
||||
plt.scatter(Rx[0][:,0::3],Rx[0][:,2::3],s=40,c='y')
|
||||
plt.xlim([-xlim,xlim])
|
||||
plt.ylim([-zlim,mesh.vectorNz[-1]+dx])
|
||||
|
||||
|
||||
pos = ax.get_position()
|
||||
ax.set_position([pos.x0 , pos.y0 + 0.025 , pos.width, pos.height])
|
||||
pos = ax.get_position()
|
||||
cbarax = fig.add_axes([pos.x0 , pos.y0 + 0.025 , pos.width, pos.height * 0.04]) ## the parameters are the specified position you set
|
||||
cb = fig.colorbar(dat[0],cax=cbarax, orientation="horizontal",
|
||||
ax = ax, ticks=np.linspace(np.log10(sig.min()),
|
||||
np.log10(sig.max()), 3), format="$10^{%.1f}$")
|
||||
cb.set_label("Conductivity (S/m)",size=12)
|
||||
cb.ax.tick_params(labelsize=12)
|
||||
|
||||
# Second plot for the predicted apparent resistivity data
|
||||
ax2 = plt.subplot(2,1,2, aspect='equal')
|
||||
|
||||
# Plot the location of the spheres for reference
|
||||
circle1=plt.Circle((loc[0,0], loc[2,0]), radi[0], color='w', fill=False, lw=3)
|
||||
circle2=plt.Circle((loc[0,1], loc[2,1]), radi[1], color='k', fill=False, lw=3)
|
||||
ax2.add_artist(circle1)
|
||||
ax2.add_artist(circle2)
|
||||
|
||||
# Add the speudo section
|
||||
dat = DC.plot_pseudoSection(survey2D, ax2, surveyType=surveyType, unitType=unitType) # plt.scatter(Tx2d[0][:],Tx[0][2,:],s=40,c='g', marker='v')
|
||||
# plt.scatter(Rx2d[0][:],Rx[0][:,2::3],s=40,c='y')
|
||||
# plt.plot(np.r_[Tx2d[0][0],Rx2d[-1][-1,-1]],np.ones(2)*mesh.vectorNz[-1], color='k')
|
||||
ax2.set_title('Apparent Conductivity data')
|
||||
|
||||
plt.ylim([-zlim,mesh.vectorNz[-1]+dx])
|
||||
plt.show()
|
||||
|
||||
return fig, ax
|
||||
|
||||
if __name__ == '__main__':
|
||||
run()
|
||||
@@ -21,8 +21,8 @@ def run(plotIt=True):
|
||||
|
||||
active = mesh.vectorCCz<0.
|
||||
layer = (mesh.vectorCCz<0.) & (mesh.vectorCCz>=layerz)
|
||||
actMap = Maps.InjectActiveCells(mesh, active, np.log(1e-8), nC=mesh.nCz)
|
||||
mapping = Maps.ExpMap(mesh) * Maps.SurjectVertical1D(mesh) * actMap
|
||||
actMap = Maps.ActiveCells(mesh, active, np.log(1e-8), nC=mesh.nCz)
|
||||
mapping = Maps.ExpMap(mesh) * Maps.Vertical1DMap(mesh) * actMap
|
||||
sig_half = 2e-2
|
||||
sig_air = 1e-8
|
||||
sig_layer = 1e-2
|
||||
@@ -42,16 +42,17 @@ def run(plotIt=True):
|
||||
ax.grid(color='k', alpha=0.5, linestyle='dashed', linewidth=0.5)
|
||||
|
||||
|
||||
rxOffset=10.
|
||||
bzi = EM.FDEM.Rx.Point_b(np.array([[rxOffset, 0., 1e-3]]), orientation='z', component='imag')
|
||||
rxOffset=10.
|
||||
bzi = EM.FDEM.Rx(np.array([[rxOffset, 0., 1e-3]]), 'bzi')
|
||||
|
||||
freqs = np.logspace(1,3,10)
|
||||
srcLoc = np.array([0., 0., 10.])
|
||||
|
||||
srcList = [EM.FDEM.Src.MagDipole([bzi],freq, srcLoc,orientation='Z') for freq in freqs]
|
||||
srcList = []
|
||||
[srcList.append(EM.FDEM.Src.MagDipole([bzi],freq, srcLoc,orientation='Z')) for freq in freqs]
|
||||
|
||||
survey = EM.FDEM.Survey(srcList)
|
||||
prb = EM.FDEM.Problem3D_b(mesh, mapping=mapping)
|
||||
prb = EM.FDEM.Problem_b(mesh, mapping=mapping)
|
||||
|
||||
try:
|
||||
from pymatsolver import MumpsSolver
|
||||
|
||||
@@ -0,0 +1,154 @@
|
||||
from SimPEG import *
|
||||
from SimPEG import EM
|
||||
from scipy.constants import mu_0
|
||||
|
||||
def run(plotIt=True):
|
||||
"""
|
||||
EM: FDEM: Effects of susceptibility
|
||||
===================================
|
||||
|
||||
When airborne freqeuncy domain EM (AFEM) survey is flown over
|
||||
the earth including significantly susceptible bodies (magnetite-rich rocks),
|
||||
negative data is often observed in the real part of the lowest frequency
|
||||
(e.g. Dighem system 900 Hz). This phenomenon mostly based upon magnetization
|
||||
occurs due to a susceptible body when the magnetic field is applied.
|
||||
|
||||
To clarify what is happening in the earth when we are exciting the earth with
|
||||
a loop source in the frequency domain we run three forward modelling:
|
||||
|
||||
- F[:math:`\sigma`, :math:`\mu`]: Anomalous conductivity and susceptibility
|
||||
- F[:math:`\sigma`, :math:`\mu_0`]: Anomalous conductivity
|
||||
- F[:math:`\sigma_{air}`, :math:`\mu_0`]: primary field
|
||||
|
||||
We plot vector magnetic fields in the earth. For secondary fields we provide
|
||||
F[:math:`\sigma`, :math:`\mu`]-F[:math:`\sigma`, :math:`\mu_0`]. Following
|
||||
figure show both real and parts.
|
||||
|
||||
"""
|
||||
# Generate Cylindrical mesh
|
||||
cs, ncx, ncz, npad = 5, 25, 24, 20.
|
||||
hx = [(cs,ncx), (cs,npad,1.3)]
|
||||
hz = [(cs,npad,-1.3), (cs,ncz), (cs,npad,1.3)]
|
||||
mesh = Mesh.CylMesh([hx,1,hz], '00C')
|
||||
sighalf = 1e-3
|
||||
sigma = np.ones(mesh.nC)*1e-8
|
||||
sigmahomo = sigma.copy()
|
||||
mu = np.ones(mesh.nC)*mu_0
|
||||
sigma[mesh.gridCC[:,-1]<0.] = sighalf
|
||||
blkind = np.logical_and(mesh.gridCC[:,0]<30., (mesh.gridCC[:,2]<0)&(mesh.gridCC[:,2]>-150)&(mesh.gridCC[:,2]<-50))
|
||||
sigma[blkind] = 1e-1
|
||||
mu[blkind] = mu_0*1.1
|
||||
offset = 0.
|
||||
frequency = np.r_[10., 100., 1000.]
|
||||
rx0 = EM.FDEM.Rx(np.array([[8., 0., 30.]]), 'bzr')
|
||||
rx1 = EM.FDEM.Rx(np.array([[8., 0., 30.]]), 'bzi')
|
||||
srcLists = []
|
||||
nfreq = frequency.size
|
||||
for ifreq in range(nfreq):
|
||||
src = EM.FDEM.Src.CircularLoop([rx0, rx1], frequency[ifreq], np.array([[0., 0., 30.]]), radius=5.)
|
||||
srcLists.append(src)
|
||||
survey = EM.FDEM.Survey(srcLists)
|
||||
iMap = Maps.IdentityMap(nP=int(mesh.nC))
|
||||
# Use PhysPropMap
|
||||
maps = [('sigma', iMap), ('mu', iMap)]
|
||||
prob = EM.FDEM.Problem_b(mesh, mapping=maps)
|
||||
prob.Solver = MumpsSolver
|
||||
survey.pair(prob)
|
||||
m = np.r_[sigma, mu]
|
||||
survey0 = EM.FDEM.Survey(srcLists)
|
||||
prob0 = EM.FDEM.Problem_b(mesh, mapping=maps)
|
||||
|
||||
|
||||
try:
|
||||
from pymatsolver import MumpsSolver
|
||||
prb.Solver = MumpsSolver
|
||||
except ImportError, e:
|
||||
prb.Solver = SolverLU
|
||||
|
||||
survey0.pair(prob0)
|
||||
m = np.r_[sigma, mu]
|
||||
m0 = np.r_[sigma, np.ones(mesh.nC)*mu_0]
|
||||
m00 = np.r_[np.ones(mesh.nC)*1e-8, np.ones(mesh.nC)*mu_0]
|
||||
# Anomalous conductivity and susceptibility
|
||||
F = prob.fields(m)
|
||||
# Only anomalous conductivity
|
||||
F0 = prob.fields(m0)
|
||||
# Primary field
|
||||
F00 = prob.fields(m00)
|
||||
|
||||
if plotIt:
|
||||
import matplotlib.pyplot as plt
|
||||
def vizfields(ifreq=0, primsec="secondary",realimag="real"):
|
||||
|
||||
titles = ["F[$\sigma$, $\mu$]", "F[$\sigma$, $\mu_0$]", "F[$\sigma$, $\mu$]-F[$\sigma$, $\mu_0$]"]
|
||||
actind = np.logical_and(mesh.gridCC[:,0]<200., (mesh.gridCC[:,2]>-400)&(mesh.gridCC[:,2]<200))
|
||||
|
||||
if primsec=="secondary":
|
||||
bCCprim = (mesh.aveF2CCV*F00[:,'b'][:,ifreq]).reshape(mesh.nC, 2, order='F')
|
||||
bCC = (mesh.aveF2CCV*F[:,'b'][:,ifreq]).reshape(mesh.nC, 2, order='F')-bCCprim
|
||||
bCC0 = (mesh.aveF2CCV*F0[:,'b'][:,ifreq]).reshape(mesh.nC, 2, order='F')-bCCprim
|
||||
elif primsec=="primary":
|
||||
bCC = (mesh.aveF2CCV*F[:,'b'][:,ifreq]).reshape(mesh.nC, 2, order='F')
|
||||
bCC0 = (mesh.aveF2CCV*F0[:,'b'][:,ifreq]).reshape(mesh.nC, 2, order='F')
|
||||
|
||||
XYZ = mesh.gridCC[actind,:]
|
||||
X = XYZ[:,0].reshape((31,43), order='F')
|
||||
Z = XYZ[:,2].reshape((31,43), order='F')
|
||||
bx = bCC[actind,0].reshape((31,43), order='F')
|
||||
bz = bCC[actind,1].reshape((31,43), order='F')
|
||||
bx0 = bCC0[actind,0].reshape((31,43), order='F')
|
||||
bz0 = bCC0[actind,1].reshape((31,43), order='F')
|
||||
|
||||
bxsec = (bCC[actind,0]-bCC0[actind,0]).reshape((31,43), order='F')
|
||||
bzsec = (bCC[actind,1]-bCC0[actind,1]).reshape((31,43), order='F')
|
||||
|
||||
absbreal = np.sqrt(bx.real**2+bz.real**2)
|
||||
absbimag = np.sqrt(bx.imag**2+bz.imag**2)
|
||||
absb0real = np.sqrt(bx0.real**2+bz0.real**2)
|
||||
absb0imag = np.sqrt(bx0.imag**2+bz0.imag**2)
|
||||
|
||||
absbrealsec = np.sqrt(bxsec.real**2+bzsec.real**2)
|
||||
absbimagsec = np.sqrt(bxsec.imag**2+bzsec.imag**2)
|
||||
|
||||
fig = plt.figure(figsize=(15,5))
|
||||
ax1 = plt.subplot(131)
|
||||
ax2 = plt.subplot(132)
|
||||
ax3 = plt.subplot(133)
|
||||
typefield="real"
|
||||
scale=20
|
||||
if realimag=="real":
|
||||
ax1.contourf(X, Z,np.log10(absbreal), 100)
|
||||
ax1.quiver(X, Z,bx.real/absbreal,bz.real/absbreal,scale=scale,width=0.005, alpha = 0.5)
|
||||
ax2.contourf(X, Z,np.log10(absb0real), 100)
|
||||
ax2.quiver(X, Z,bx0.real/absb0real,bz0.real/absb0real,scale=scale,width=0.005, alpha = 0.5)
|
||||
ax3.contourf(X, Z,np.log10(absbrealsec), 100)
|
||||
ax3.quiver(X, Z,bxsec.real/absbrealsec,bzsec.real/absbrealsec,scale=scale,width=0.005, alpha = 0.5)
|
||||
elif realimag=="imag":
|
||||
ax1.contourf(X, Z,np.log10(absbimag), 100)
|
||||
ax1.quiver(X, Z,bx.imag/absbimag,bz.imag/absbimag,scale=scale,width=0.005, alpha = 0.5)
|
||||
ax2.contourf(X, Z,np.log10(absb0imag), 100)
|
||||
ax2.quiver(X, Z,bx0.imag/absb0imag,bz0.imag/absb0imag,scale=scale,width=0.005, alpha = 0.5)
|
||||
ax3.contourf(X, Z,np.log10(absbimagsec), 100)
|
||||
ax3.quiver(X, Z,bxsec.imag/absbimagsec,bzsec.imag/absbimagsec,scale=scale,width=0.005, alpha = 0.5)
|
||||
|
||||
ax = [ax1, ax2, ax3]
|
||||
ax3.text(30, 50, ("Frequency=%5.2f Hz")%(frequency[ifreq]), color="k", fontsize=18)
|
||||
ax2.text(30, 50, primsec, color="k", fontsize=18)
|
||||
ax1.text(30, 50, realimag, color="k", fontsize=18)
|
||||
for i, axtemp in enumerate(ax):
|
||||
axtemp.plot(np.r_[0, 29.75], np.r_[-50, -50], 'w', lw=3)
|
||||
|
||||
axtemp.plot(np.r_[29.5, 29.5], np.r_[-50, -142.5], 'w', lw=3)
|
||||
axtemp.plot(np.r_[0, 29.5], np.r_[-142.5, -142.5], 'w', lw=3)
|
||||
axtemp.plot(np.r_[0, 100.], np.r_[0, 0], 'w', lw=3)
|
||||
axtemp.set_ylim(-200, 100.)
|
||||
axtemp.set_xlim(10, 100.)
|
||||
axtemp.set_title(titles[i])
|
||||
plt.show()
|
||||
return fig, ax
|
||||
fig1, ax1 = vizfields(1, primsec="primary", realimag="real")
|
||||
fig2, ax2 = vizfields(1, primsec="secondary", realimag="real")
|
||||
fig4, ax4 = vizfields(1, primsec="secondary", realimag="imag")
|
||||
|
||||
if __name__ == '__main__':
|
||||
run()
|
||||
@@ -1,275 +0,0 @@
|
||||
from SimPEG import *
|
||||
from SimPEG.EM import FDEM, Analytics, mu_0
|
||||
import time
|
||||
|
||||
try:
|
||||
from pymatsolver import MumpsSolver
|
||||
solver = MumpsSolver
|
||||
except Exception:
|
||||
solver = SolverLU
|
||||
pass
|
||||
|
||||
def run(plotIt=True):
|
||||
"""
|
||||
EM: Schenkel and Morrison Casing Model
|
||||
======================================
|
||||
|
||||
Here we create and run a FDEM forward simulation to calculate the vertical
|
||||
current inside a steel-cased. The model is based on the Schenkel and
|
||||
Morrison Casing Model, and the results are used in a 2016 SEG abstract by
|
||||
Yang et al.
|
||||
|
||||
- Schenkel, C.J., and H.F. Morrison, 1990, Effects of well casing on potential field measurements using downhole current sources: Geophysical prospecting, 38, 663-686.
|
||||
|
||||
|
||||
The model consists of:
|
||||
- Air: Conductivity 1e-8 S/m, above z = 0
|
||||
- Background: conductivity 1e-2 S/m, below z = 0
|
||||
- Casing: conductivity 1e6 S/m
|
||||
- 300m long
|
||||
- radius of 0.1m
|
||||
- thickness of 6e-3m
|
||||
|
||||
Inside the casing, we take the same conductivity as the background.
|
||||
|
||||
We are using an EM code to simulate DC, so we use frequency low enough
|
||||
that the skin depth inside the casing is longer than the casing length (f
|
||||
= 1e-6 Hz). The plot produced is of the current inside the casing.
|
||||
|
||||
These results are shown in the SEG abstract by Yang et al., 2016: 3D DC
|
||||
resistivity modeling of steel casing for reservoir monitoring using
|
||||
equivalent resistor network. The solver used to produce these results and
|
||||
achieve the CPU time of ~30s is Mumps, which was installed using pymatsolver_
|
||||
|
||||
.. _pymatsolver: https://github.com/rowanc1/pymatsolver
|
||||
|
||||
This example is on figshare: https://dx.doi.org/10.6084/m9.figshare.3126961.v1
|
||||
|
||||
If you would use this example for a code comparison, or build upon it, a
|
||||
citation would be much appreciated!
|
||||
|
||||
"""
|
||||
|
||||
if plotIt:
|
||||
import matplotlib.pylab as plt
|
||||
|
||||
# ------------------ MODEL ------------------
|
||||
sigmaair = 1e-8 # air
|
||||
sigmaback = 1e-2 # background
|
||||
sigmacasing = 1e6 # casing
|
||||
sigmainside = sigmaback # inside the casing
|
||||
|
||||
|
||||
casing_t = 0.006 # 1cm thickness
|
||||
casing_l = 300 # length of the casing
|
||||
|
||||
casing_r = 0.1
|
||||
casing_a = casing_r - casing_t/2. # inner radius
|
||||
casing_b = casing_r + casing_t/2. # outer radius
|
||||
casing_z = np.r_[-casing_l,0.]
|
||||
|
||||
|
||||
# ------------------ SURVEY PARAMETERS ------------------
|
||||
freqs = np.r_[1e-6] #[1e-1, 1, 5] # frequencies
|
||||
dsz = -300 # down-hole z source location
|
||||
src_loc = np.r_[0.,0.,dsz]
|
||||
inf_loc = np.r_[0.,0.,1e4]
|
||||
|
||||
print 'Skin Depth: ', [(500./np.sqrt(sigmaback*_)) for _ in freqs]
|
||||
|
||||
|
||||
# ------------------ MESH ------------------
|
||||
# fine cells near well bore
|
||||
csx1, csx2 = 2e-3, 60.
|
||||
pfx1, pfx2 = 1.3, 1.3
|
||||
ncx1 = np.ceil(casing_b/csx1+2)
|
||||
|
||||
# pad nicely to second cell size
|
||||
npadx1 = np.floor(np.log(csx2/csx1) / np.log(pfx1))
|
||||
hx1a,hx1b = Utils.meshTensor([(csx1,ncx1)]),Utils.meshTensor([(csx1,npadx1,pfx1)])
|
||||
dx1 = sum(hx1a)+sum(hx1b)
|
||||
dx1 = np.floor(dx1/csx2)
|
||||
hx1b *= (dx1*csx2 - sum(hx1a))/sum(hx1b)
|
||||
|
||||
# second chunk of mesh
|
||||
dx2 = 300. # uniform mesh out to here
|
||||
ncx2 = np.ceil((dx2 - dx1)/csx2)
|
||||
npadx2 = 45
|
||||
hx2a, hx2b = Utils.meshTensor([(csx2,ncx2)]), Utils.meshTensor([(csx2,npadx2,pfx2)])
|
||||
hx = np.hstack([hx1a,hx1b,hx2a,hx2b])
|
||||
|
||||
# z-direction
|
||||
csz = 0.05
|
||||
nza = 10
|
||||
ncz, npadzu, npadzd = np.int(np.ceil(np.diff(casing_z)[0]/csz))+10, 68, 68 # cell size, number of core cells, number of padding cells in the x- direction
|
||||
hz = Utils.meshTensor([(csz,npadzd,-1.3), (csz,ncz), (csz,npadzu,1.3)]) # vector of cell widths in the z-direction
|
||||
|
||||
# Mesh
|
||||
mesh = Mesh.CylMesh([hx,1.,hz], [0.,0.,-np.sum(hz[:npadzu+ncz-nza])])
|
||||
|
||||
print 'Mesh Extent xmax: %f,: zmin: %f, zmax: %f'%(mesh.vectorCCx.max(), mesh.vectorCCz.min(), mesh.vectorCCz.max())
|
||||
print 'Number of cells', mesh.nC
|
||||
|
||||
if plotIt is True:
|
||||
fig, ax = plt.subplots(1, 1, figsize=(6, 4))
|
||||
ax.set_title('Simulation Mesh')
|
||||
mesh.plotGrid(ax=ax)
|
||||
plt.show()
|
||||
|
||||
# Put the model on the mesh
|
||||
sigWholespace = sigmaback*np.ones((mesh.nC))
|
||||
|
||||
sigBack = sigWholespace.copy()
|
||||
sigBack[mesh.gridCC[:,2] > 0.] = sigmaair
|
||||
|
||||
sigCasing = sigBack.copy()
|
||||
iCasingZ = (mesh.gridCC[:,2] <= casing_z[1]) & (mesh.gridCC[:,2] >= casing_z[0])
|
||||
iCasingX = (mesh.gridCC[:,0] >= casing_a) & (mesh.gridCC[:,0] <= casing_b)
|
||||
iCasing = iCasingX & iCasingZ
|
||||
sigCasing[iCasing] = sigmacasing
|
||||
|
||||
|
||||
if plotIt is True:
|
||||
|
||||
# plotting parameters
|
||||
xlim = np.r_[0., 0.2]
|
||||
zlim = np.r_[-350., 10.]
|
||||
clim_sig = np.r_[-8,6]
|
||||
|
||||
# plot models
|
||||
fig, ax = plt.subplots(1,1,figsize=(4,4))
|
||||
|
||||
f = plt.colorbar(mesh.plotImage(np.log10(sigCasing),ax=ax)[0], ax=ax)
|
||||
ax.grid(which='both')
|
||||
ax.set_title('Log_10 (Sigma)')
|
||||
ax.set_xlim(xlim)
|
||||
ax.set_ylim(zlim)
|
||||
f.set_clim(clim_sig)
|
||||
|
||||
plt.show()
|
||||
|
||||
|
||||
# -------------- Sources --------------------
|
||||
# Define Custom Current Sources
|
||||
|
||||
# surface source
|
||||
sg_x = np.zeros(mesh.vnF[0],dtype=complex)
|
||||
sg_y = np.zeros(mesh.vnF[1],dtype=complex)
|
||||
sg_z = np.zeros(mesh.vnF[2],dtype=complex)
|
||||
|
||||
nza = 2 # put the wire two cells above the surface
|
||||
ncin = 2
|
||||
|
||||
# vertically directed wire
|
||||
sgv_indx = (mesh.gridFz[:,0] > casing_a) & (mesh.gridFz[:,0] < casing_a + csx1) # hook it up to casing at the surface
|
||||
sgv_indz = (mesh.gridFz[:,2] <= +csz*nza) & (mesh.gridFz[:,2] >= -csz*2)
|
||||
sgv_ind = sgv_indx & sgv_indz
|
||||
sg_z[sgv_ind] = -1.
|
||||
|
||||
# horizontally directed wire
|
||||
sgh_indx = (mesh.gridFx[:,0] > casing_a) & (mesh.gridFx[:,0] <= inf_loc[2])
|
||||
sgh_indz = (mesh.gridFx[:,2] > csz*(nza-0.5)) & (mesh.gridFx[:,2] < csz*(nza+0.5))
|
||||
sgh_ind = sgh_indx & sgh_indz
|
||||
sg_x[sgh_ind] = -1.
|
||||
|
||||
sgv2_indx = (mesh.gridFz[:,0] >= mesh.gridFx[sgh_ind,0].max()) & (mesh.gridFz[:,0] <= inf_loc[2]*1.2) # hook it up to casing at the surface
|
||||
sgv2_indz = (mesh.gridFz[:,2] <= +csz*nza) & (mesh.gridFz[:,2] >= -csz*2)
|
||||
sgv2_ind = sgv2_indx & sgv2_indz
|
||||
sg_z[sgv2_ind] = 1.
|
||||
|
||||
# assemble the source
|
||||
sg = np.hstack([sg_x,sg_y,sg_z])
|
||||
sg_p = [FDEM.Src.RawVec_e([],_,sg/mesh.area) for _ in freqs]
|
||||
|
||||
# downhole source
|
||||
dg_x = np.zeros(mesh.vnF[0],dtype=complex)
|
||||
dg_y = np.zeros(mesh.vnF[1],dtype=complex)
|
||||
dg_z = np.zeros(mesh.vnF[2],dtype=complex)
|
||||
|
||||
# vertically directed wire
|
||||
dgv_indx = (mesh.gridFz[:,0] < csx1) # go through the center of the well
|
||||
dgv_indz = (mesh.gridFz[:,2] <= +csz*nza) & (mesh.gridFz[:,2] > dsz + csz/2.)
|
||||
dgv_ind = dgv_indx & dgv_indz
|
||||
dg_z[dgv_ind] = -1.
|
||||
|
||||
# couple to the casing downhole
|
||||
dgh_indx = mesh.gridFx[:,0] < casing_a + csx1
|
||||
dgh_indz = (mesh.gridFx[:,2] < dsz + csz) & (mesh.gridFx[:,2] >= dsz)
|
||||
dgh_ind = dgh_indx & dgh_indz
|
||||
dg_x[dgh_ind] = 1.
|
||||
|
||||
# horizontal part at surface
|
||||
dgh2_indx = mesh.gridFx[:,0] <= inf_loc[2]*1.2
|
||||
dgh2_indz = sgh_indz.copy()
|
||||
dgh2_ind = dgh2_indx & dgh2_indz
|
||||
dg_x[dgh2_ind] = -1.
|
||||
|
||||
# vertical part at surface
|
||||
dgv2_ind = sgv2_ind.copy()
|
||||
dg_z[dgv2_ind] = 1.
|
||||
|
||||
# assemble the source
|
||||
dg = np.hstack([dg_x,dg_y,dg_z])
|
||||
dg_p = [FDEM.Src.RawVec_e([],_,dg/mesh.area) for _ in freqs]
|
||||
|
||||
# ------------ Problem and Survey ---------------
|
||||
survey = FDEM.Survey(sg_p + dg_p)
|
||||
mapping = [('sigma', Maps.IdentityMap(mesh))]
|
||||
problem = FDEM.Problem3D_h(mesh, mapping=mapping)
|
||||
problem.pair(survey)
|
||||
|
||||
# ------------- Solve ---------------------------
|
||||
t0 = time.time()
|
||||
fieldsCasing = problem.fields(sigCasing)
|
||||
print 'Time to solve 2 sources', time.time() - t0
|
||||
|
||||
# Plot current
|
||||
|
||||
# current density
|
||||
jn0 = fieldsCasing[dg_p,'j']
|
||||
jn1 = fieldsCasing[sg_p,'j']
|
||||
|
||||
# current
|
||||
in0 = [mesh.area*fieldsCasing[dg_p,'j'][:,i] for i in range(len(freqs))]
|
||||
in1 = [mesh.area*fieldsCasing[sg_p,'j'][:,i] for i in range(len(freqs))]
|
||||
|
||||
in0 = np.vstack(in0).T
|
||||
in1 = np.vstack(in1).T
|
||||
|
||||
# integrate to get z-current inside casing
|
||||
inds_inx = (mesh.gridFz[:,0] >= casing_a) & (mesh.gridFz[:,0] <= casing_b)
|
||||
inds_inz = (mesh.gridFz[:,2] >= dsz ) & (mesh.gridFz[:,2] <= 0)
|
||||
inds_fz = inds_inx & inds_inz
|
||||
|
||||
indsx = [False]*mesh.nFx
|
||||
inds = list(indsx) + list(inds_fz)
|
||||
|
||||
in0_in = in0[np.r_[inds]]
|
||||
in1_in = in1[np.r_[inds]]
|
||||
z_in = mesh.gridFz[inds_fz,2]
|
||||
|
||||
in0_in = in0_in.reshape([in0_in.shape[0]/3,3])
|
||||
in1_in = in1_in.reshape([in1_in.shape[0]/3,3])
|
||||
z_in = z_in.reshape([z_in.shape[0]/3,3])
|
||||
|
||||
I0 = in0_in.sum(1).real
|
||||
I1 = in1_in.sum(1).real
|
||||
z_in = z_in[:,0]
|
||||
|
||||
if plotIt is True:
|
||||
fig, ax = plt.subplots(1,2,figsize=(12,4))
|
||||
|
||||
ax[0].plot(z_in,np.absolute(I0), z_in,np.absolute(I1))
|
||||
ax[0].legend(['top casing', 'bottom casing'],loc='best')
|
||||
ax[0].set_title('Magnitude of Vertical Current in Casing')
|
||||
|
||||
ax[1].semilogy(z_in,np.absolute(I0), z_in,np.absolute(I1))
|
||||
ax[1].legend(['top casing', 'bottom casing'],loc='best')
|
||||
ax[1].set_title('Magnitude of Vertical Current in Casing')
|
||||
ax[1].set_ylim([1e-2, 1.])
|
||||
|
||||
plt.show()
|
||||
|
||||
if __name__ == '__main__':
|
||||
run()
|
||||
|
||||
@@ -19,8 +19,8 @@ def run(plotIt=True):
|
||||
|
||||
active = mesh.vectorCCz<0.
|
||||
layer = (mesh.vectorCCz<0.) & (mesh.vectorCCz>=-100.)
|
||||
actMap = Maps.InjectActiveCells(mesh, active, np.log(1e-8), nC=mesh.nCz)
|
||||
mapping = Maps.ExpMap(mesh) * Maps.SurjectVertical1D(mesh) * actMap
|
||||
actMap = Maps.ActiveCells(mesh, active, np.log(1e-8), nC=mesh.nCz)
|
||||
mapping = Maps.ExpMap(mesh) * Maps.Vertical1DMap(mesh) * actMap
|
||||
sig_half = 2e-3
|
||||
sig_air = 1e-8
|
||||
sig_layer = 1e-3
|
||||
|
||||
+31
-12
@@ -1,25 +1,22 @@
|
||||
from SimPEG import Mesh, Utils, np, SolverLU
|
||||
|
||||
## 2D DC forward modeling example with Tensor and Curvilinear Meshes
|
||||
|
||||
def run(plotIt=True):
|
||||
|
||||
"""
|
||||
Mesh: Basic Forward 2D DC Resistivity
|
||||
=====================================
|
||||
|
||||
2D DC forward modeling example with Tensor and Curvilinear Meshes
|
||||
"""
|
||||
|
||||
# Step1: Generate Tensor and Curvilinear Mesh
|
||||
sz = [40,40]
|
||||
# Tensor Mesh
|
||||
tM = Mesh.TensorMesh(sz)
|
||||
# Curvilinear Mesh
|
||||
rM = Mesh.CurvilinearMesh(Utils.meshutils.exampleLrmGrid(sz,'rotate'))
|
||||
|
||||
# Step2: Direct Current (DC) operator
|
||||
def DCfun(mesh, pts):
|
||||
D = mesh.faceDiv
|
||||
G = D.T
|
||||
sigma = 1e-2*np.ones(mesh.nC)
|
||||
MsigI = mesh.getFaceInnerProduct(sigma, invProp=True, invMat=True)
|
||||
A = -D*MsigI*D.T
|
||||
Msigi = mesh.getFaceInnerProduct(1./sigma)
|
||||
MsigI = Utils.sdInv(Msigi)
|
||||
A = D*MsigI*G
|
||||
A[-1,-1] /= mesh.vol[-1] # Remove null space
|
||||
rhs = np.zeros(mesh.nC)
|
||||
txind = Utils.meshutils.closestPoints(mesh, pts)
|
||||
@@ -40,17 +37,39 @@ def run(plotIt=True):
|
||||
if not plotIt: return
|
||||
|
||||
import matplotlib.pyplot as plt
|
||||
import matplotlib
|
||||
from matplotlib.mlab import griddata
|
||||
|
||||
#Step4: Making Figure
|
||||
fig, axes = plt.subplots(1,2,figsize=(12*1.2,4*1.2))
|
||||
label = ["(a)", "(b)"]
|
||||
opts = {}
|
||||
vmin, vmax = phitM.min(), phitM.max()
|
||||
dat = tM.plotImage(phitM, ax=axes[0], clim=(vmin, vmax), grid=True)
|
||||
dat = rM.plotImage(phirM, ax=axes[1], clim=(vmin, vmax), grid=True)
|
||||
|
||||
#TODO: At the moment Curvilinear Mesh do not have plotimage
|
||||
|
||||
Xi = tM.gridCC[:,0].reshape(sz[0], sz[1], order='F')
|
||||
Yi = tM.gridCC[:,1].reshape(sz[0], sz[1], order='F')
|
||||
PHIrM = griddata(rM.gridCC[:,0], rM.gridCC[:,1], phirM, Xi, Yi, interp='linear')
|
||||
axes[1].contourf(Xi, Yi, PHIrM, 100, vmin=vmin, vmax=vmax)
|
||||
|
||||
cb = plt.colorbar(dat[0], ax=axes[0]); cb.set_label("Voltage (V)")
|
||||
cb = plt.colorbar(dat[0], ax=axes[1]); cb.set_label("Voltage (V)")
|
||||
|
||||
tM.plotGrid(ax=axes[0], **opts)
|
||||
axes[0].set_title('TensorMesh')
|
||||
rM.plotGrid(ax=axes[1], **opts)
|
||||
axes[1].set_title('CurvilinearMesh')
|
||||
for i in range(2):
|
||||
axes[i].set_xlim(0.025, 0.975)
|
||||
axes[i].set_ylim(0.025, 0.975)
|
||||
axes[i].text(0., 1.0, label[i], fontsize=20)
|
||||
if i==0:
|
||||
axes[i].set_ylabel("y")
|
||||
else:
|
||||
axes[i].set_ylabel(" ")
|
||||
axes[i].set_xlabel("x")
|
||||
plt.show()
|
||||
|
||||
|
||||
@@ -1,124 +0,0 @@
|
||||
from SimPEG import *
|
||||
|
||||
|
||||
def run(N=100, plotIt=True):
|
||||
"""
|
||||
Inversion: Linear Problem
|
||||
=========================
|
||||
|
||||
Here we go over the basics of creating a linear problem and inversion.
|
||||
|
||||
"""
|
||||
|
||||
|
||||
np.random.seed(1)
|
||||
|
||||
std_noise = 1e-2
|
||||
|
||||
mesh = Mesh.TensorMesh([N])
|
||||
|
||||
m0 = np.ones(mesh.nC) * 1e-4
|
||||
mref = np.zeros(mesh.nC)
|
||||
|
||||
nk = 10
|
||||
jk = np.linspace(1.,nk,nk)
|
||||
p = -2.
|
||||
q = 1.
|
||||
|
||||
g = lambda k: np.exp(p*jk[k]*mesh.vectorCCx)*np.cos(np.pi*q*jk[k]*mesh.vectorCCx)
|
||||
|
||||
G = np.empty((nk, mesh.nC))
|
||||
|
||||
for i in range(nk):
|
||||
G[i,:] = g(i)
|
||||
|
||||
mtrue = np.zeros(mesh.nC)
|
||||
mtrue[mesh.vectorCCx > 0.3] = 1.
|
||||
mtrue[mesh.vectorCCx > 0.45] = -0.5
|
||||
mtrue[mesh.vectorCCx > 0.6] = 0
|
||||
|
||||
|
||||
prob = Problem.LinearProblem(mesh, G)
|
||||
survey = Survey.LinearSurvey()
|
||||
survey.pair(prob)
|
||||
survey.dobs = prob.fields(mtrue) + std_noise * np.random.randn(nk)
|
||||
#survey.makeSyntheticData(mtrue, std=std_noise)
|
||||
|
||||
wd = np.ones(nk) * std_noise
|
||||
|
||||
#print survey.std[0]
|
||||
#M = prob.mesh
|
||||
# Distance weighting
|
||||
wr = np.sum(prob.G**2.,axis=0)**0.5
|
||||
wr = ( wr/np.max(wr) )
|
||||
|
||||
# reg = Regularization.Simple(mesh)
|
||||
# reg.mref = mref
|
||||
# reg.cell_weights = wr
|
||||
#
|
||||
dmis = DataMisfit.l2_DataMisfit(survey)
|
||||
dmis.Wd = 1./wd
|
||||
#
|
||||
# opt = Optimization.ProjectedGNCG(maxIter=20,lower=-2.,upper=2., maxIterCG= 10, tolCG = 1e-4)
|
||||
# invProb = InvProblem.BaseInvProblem(dmis, reg, opt)
|
||||
# invProb.curModel = m0
|
||||
#
|
||||
# beta = Directives.BetaSchedule(coolingFactor=2, coolingRate=1)
|
||||
# target = Directives.TargetMisfit()
|
||||
#
|
||||
betaest = Directives.BetaEstimate_ByEig()
|
||||
# inv = Inversion.BaseInversion(invProb, directiveList=[beta, betaest, target])
|
||||
#
|
||||
#
|
||||
# mrec = inv.run(m0)
|
||||
# ml2 = mrec
|
||||
# print "Final misfit:" + str(invProb.dmisfit.eval(mrec))
|
||||
#
|
||||
# # Switch regularization to sparse
|
||||
# phim = invProb.phi_m_last
|
||||
# phid = invProb.phi_d
|
||||
|
||||
reg = Regularization.Sparse(mesh)
|
||||
reg.mref = mref
|
||||
reg.cell_weights = wr
|
||||
|
||||
reg.mref = np.zeros(mesh.nC)
|
||||
eps_p = 5e-2
|
||||
eps_q = 5e-2
|
||||
norms = [0., 0., 2., 2.]
|
||||
|
||||
opt = Optimization.ProjectedGNCG(maxIter=100 ,lower=-2.,upper=2., maxIterLS = 20, maxIterCG= 10, tolCG = 1e-3)
|
||||
invProb = InvProblem.BaseInvProblem(dmis, reg, opt)
|
||||
update_Jacobi = Directives.Update_lin_PreCond()
|
||||
IRLS = Directives.Update_IRLS( norms=norms, eps_p=eps_p, eps_q=eps_q)
|
||||
|
||||
inv = Inversion.BaseInversion(invProb, directiveList=[IRLS,betaest,update_Jacobi])
|
||||
|
||||
# Run inversion
|
||||
mrec = inv.run(m0)
|
||||
|
||||
print "Final misfit:" + str(invProb.dmisfit.eval(mrec))
|
||||
|
||||
|
||||
if plotIt:
|
||||
import matplotlib.pyplot as plt
|
||||
|
||||
fig, axes = plt.subplots(1,2,figsize=(12*1.2,4*1.2))
|
||||
for i in range(prob.G.shape[0]):
|
||||
axes[0].plot(prob.G[i,:])
|
||||
axes[0].set_title('Columns of matrix G')
|
||||
|
||||
axes[1].plot(mesh.vectorCCx, mtrue, 'b-')
|
||||
axes[1].plot(mesh.vectorCCx, reg.l2model, 'r-')
|
||||
#axes[1].legend(('True Model', 'Recovered Model'))
|
||||
axes[1].set_ylim(-1.0,1.25)
|
||||
|
||||
axes[1].plot(mesh.vectorCCx, mrec, 'k-',lw = 2)
|
||||
axes[1].legend(('True Model', 'Smooth l2-l2',
|
||||
'Sparse lp:' + str(reg.norms[0]) + ', lqx:' + str(reg.norms[1]) ), fontsize = 12)
|
||||
plt.show()
|
||||
|
||||
return prob, survey, mesh, mrec
|
||||
|
||||
if __name__ == '__main__':
|
||||
run()
|
||||
@@ -10,6 +10,28 @@ def run(N=100, plotIt=True):
|
||||
|
||||
"""
|
||||
|
||||
class LinearSurvey(Survey.BaseSurvey):
|
||||
def projectFields(self, u):
|
||||
return u
|
||||
|
||||
class LinearProblem(Problem.BaseProblem):
|
||||
|
||||
surveyPair = LinearSurvey
|
||||
|
||||
def __init__(self, mesh, G, **kwargs):
|
||||
Problem.BaseProblem.__init__(self, mesh, **kwargs)
|
||||
self.G = G
|
||||
|
||||
def fields(self, m, u=None):
|
||||
return self.G.dot(m)
|
||||
|
||||
def Jvec(self, m, v, u=None):
|
||||
return self.G.dot(v)
|
||||
|
||||
def Jtvec(self, m, v, u=None):
|
||||
return self.G.T.dot(v)
|
||||
|
||||
|
||||
np.random.seed(1)
|
||||
|
||||
mesh = Mesh.TensorMesh([N])
|
||||
@@ -31,8 +53,8 @@ def run(N=100, plotIt=True):
|
||||
mtrue[mesh.vectorCCx > 0.45] = -0.5
|
||||
mtrue[mesh.vectorCCx > 0.6] = 0
|
||||
|
||||
prob = Problem.LinearProblem(mesh, G)
|
||||
survey = Survey.LinearSurvey()
|
||||
prob = LinearProblem(mesh, G)
|
||||
survey = LinearSurvey()
|
||||
survey.pair(prob)
|
||||
survey.makeSyntheticData(mtrue, std=0.01)
|
||||
|
||||
|
||||
@@ -1,129 +0,0 @@
|
||||
import SimPEG as simpeg
|
||||
import numpy as np
|
||||
import SimPEG.MT as MT
|
||||
from scipy.constants import mu_0
|
||||
import matplotlib.pyplot as plt
|
||||
|
||||
def run(plotIt=True):
|
||||
"""
|
||||
MT: 1D: Inversion
|
||||
=======================
|
||||
|
||||
Forward model 1D MT data.
|
||||
Setup and run a MT 1D inversion.
|
||||
|
||||
"""
|
||||
|
||||
## Setup the forward modeling
|
||||
# Setting up 1D mesh and conductivity models to forward model data.
|
||||
# Frequency
|
||||
nFreq = 31
|
||||
freqs = np.logspace(3,-3,nFreq)
|
||||
# Set mesh parameters
|
||||
ct = 20
|
||||
air = simpeg.Utils.meshTensor([(ct,16,1.4)])
|
||||
core = np.concatenate( ( np.kron(simpeg.Utils.meshTensor([(ct,10,-1.3)]),np.ones((5,))) , simpeg.Utils.meshTensor([(ct,5)]) ) )
|
||||
bot = simpeg.Utils.meshTensor([(core[0],10,-1.4)])
|
||||
x0 = -np.array([np.sum(np.concatenate((core,bot)))])
|
||||
# Make the model
|
||||
m1d = simpeg.Mesh.TensorMesh([np.concatenate((bot,core,air))], x0=x0)
|
||||
|
||||
# Setup model varibles
|
||||
active = m1d.vectorCCx<0.
|
||||
layer1 = (m1d.vectorCCx<-500.) & (m1d.vectorCCx>=-800.)
|
||||
layer2 = (m1d.vectorCCx<-3500.) & (m1d.vectorCCx>=-5000.)
|
||||
# Set the conductivity values
|
||||
sig_half = 2e-3
|
||||
sig_air = 1e-8
|
||||
sig_layer1 = .2
|
||||
sig_layer2 = .2
|
||||
# Make the true model
|
||||
sigma_true = np.ones(m1d.nCx)*sig_air
|
||||
sigma_true[active] = sig_half
|
||||
sigma_true[layer1] = sig_layer1
|
||||
sigma_true[layer2] = sig_layer2
|
||||
# Extract the model
|
||||
m_true = np.log(sigma_true[active])
|
||||
# Make the background model
|
||||
sigma_0 = np.ones(m1d.nCx)*sig_air
|
||||
sigma_0[active] = sig_half
|
||||
m_0 = np.log(sigma_0[active])
|
||||
|
||||
# Set the mapping
|
||||
actMap = simpeg.Maps.ActiveCells(m1d, active, np.log(1e-8), nC=m1d.nCx)
|
||||
mappingExpAct = simpeg.Maps.ExpMap(m1d) * actMap
|
||||
|
||||
## Setup the layout of the survey, set the sources and the connected receivers
|
||||
# Receivers
|
||||
rxList = []
|
||||
for rxType in ['z1dr','z1di']:
|
||||
rxList.append(MT.Rx(simpeg.mkvc(np.array([0.0]),2).T,rxType))
|
||||
# Source list
|
||||
srcList =[]
|
||||
for freq in freqs:
|
||||
srcList.append(MT.SrcMT.polxy_1Dprimary(rxList,freq))
|
||||
# Make the survey
|
||||
survey = MT.Survey(srcList)
|
||||
survey.mtrue = m_true
|
||||
|
||||
## Set the problem
|
||||
problem = MT.Problem1D.eForm_psField(m1d,sigmaPrimary=sigma_0,mapping=mappingExpAct)
|
||||
problem.pair(survey)
|
||||
|
||||
## Forward model data
|
||||
# Project the data
|
||||
survey.dtrue = survey.dpred(m_true)
|
||||
survey.dobs = survey.dtrue + 0.025*abs(survey.dtrue)*np.random.randn(*survey.dtrue.shape)
|
||||
|
||||
if plotIt:
|
||||
fig = MT.Utils.dataUtils.plotMT1DModelData(problem)
|
||||
fig.suptitle('Target - smooth true')
|
||||
|
||||
|
||||
# Assign uncertainties
|
||||
std = 0.05 # 5% std
|
||||
survey.std = np.abs(survey.dobs*std)
|
||||
# Assign the data weight
|
||||
Wd = 1./survey.std
|
||||
|
||||
## Setup the inversion proceedure
|
||||
# Define a counter
|
||||
C = simpeg.Utils.Counter()
|
||||
# Set the optimization
|
||||
opt = simpeg.Optimization.InexactGaussNewton(maxIter = 30)
|
||||
opt.counter = C
|
||||
opt.LSshorten = 0.5
|
||||
opt.remember('xc')
|
||||
# Data misfit
|
||||
dmis = simpeg.DataMisfit.l2_DataMisfit(survey)
|
||||
dmis.Wd = Wd
|
||||
# Regularization - with a regularization mesh
|
||||
regMesh = simpeg.Mesh.TensorMesh([m1d.hx[problem.mapping.sigmaMap.maps[-1].indActive]],m1d.x0)
|
||||
reg = simpeg.Regularization.Tikhonov(regMesh)
|
||||
reg.mrefInSmooth = True
|
||||
reg.alpha_s = 1e-7
|
||||
reg.alpha_x = 1.
|
||||
# Inversion problem
|
||||
invProb = simpeg.InvProblem.BaseInvProblem(dmis, reg, opt)
|
||||
invProb.counter = C
|
||||
# Beta cooling
|
||||
beta = simpeg.Directives.BetaSchedule()
|
||||
beta.coolingRate = 4
|
||||
betaest = simpeg.Directives.BetaEstimate_ByEig(beta0_ratio=0.75)
|
||||
targmis = simpeg.Directives.TargetMisfit()
|
||||
targmis.target = survey.nD
|
||||
saveModel = simpeg.Directives.SaveModelEveryIteration()
|
||||
saveModel.fileName = 'Inversion_TargMisEqnD_smoothTrue'
|
||||
# Create an inversion object
|
||||
inv = simpeg.Inversion.BaseInversion(invProb, directiveList=[beta,betaest,targmis])
|
||||
|
||||
## Run the inversion
|
||||
mopt = inv.run(m_0)
|
||||
|
||||
if plotIt:
|
||||
fig = MT.Utils.dataUtils.plotMT1DModelData(problem,[mopt])
|
||||
fig.suptitle('Target - smooth true')
|
||||
plt.show()
|
||||
|
||||
if __name__ == '__main__':
|
||||
run()
|
||||
@@ -1,64 +0,0 @@
|
||||
# Test script to use SimPEG.MT platform to forward model synthetic data.
|
||||
|
||||
# Import
|
||||
import SimPEG as simpeg
|
||||
from SimPEG import MT
|
||||
import numpy as np
|
||||
try:
|
||||
from pymatsolver import MumpsSolver as Solver
|
||||
except:
|
||||
from SimPEG import Solver
|
||||
|
||||
def run(plotIt=True, nFreq=1):
|
||||
"""
|
||||
MT: 3D: Forward
|
||||
=======================
|
||||
|
||||
Forward model 3D MT data.
|
||||
|
||||
"""
|
||||
|
||||
# Make a mesh
|
||||
M = simpeg.Mesh.TensorMesh([[(100,5,-1.5),(100.,10),(100,5,1.5)],[(100,5,-1.5),(100.,10),(100,5,1.5)],[(100,5,1.6),(100.,10),(100,3,2)]], x0=['C','C',-3529.5360])
|
||||
# Setup the model
|
||||
conds = [1e-2,1]
|
||||
sig = simpeg.Utils.ModelBuilder.defineBlock(M.gridCC,[-1000,-1000,-400],[1000,1000,-200],conds)
|
||||
sig[M.gridCC[:,2]>0] = 1e-8
|
||||
sig[M.gridCC[:,2]<-600] = 1e-1
|
||||
sigBG = np.zeros(M.nC) + conds[0]
|
||||
sigBG[M.gridCC[:,2]>0] = 1e-8
|
||||
|
||||
## Setup the the survey object
|
||||
# Receiver locations
|
||||
rx_x, rx_y = np.meshgrid(np.arange(-500,501,50),np.arange(-500,501,50))
|
||||
rx_loc = np.hstack((simpeg.Utils.mkvc(rx_x,2),simpeg.Utils.mkvc(rx_y,2),np.zeros((np.prod(rx_x.shape),1))))
|
||||
# Make a receiver list
|
||||
rxList = []
|
||||
for loc in rx_loc:
|
||||
# NOTE: loc has to be a (1,3) np.ndarray otherwise errors accure
|
||||
for rxType in ['zxxr','zxxi','zxyr','zxyi','zyxr','zyxi','zyyr','zyyi','tzxr','tzxi','tzyr','tzyi']:
|
||||
rxList.append(MT.Rx(simpeg.mkvc(loc,2).T,rxType))
|
||||
# Source list
|
||||
srcList =[]
|
||||
for freq in np.logspace(3,-3,nFreq):
|
||||
srcList.append(MT.SrcMT.polxy_1Dprimary(rxList,freq))
|
||||
# Survey MT
|
||||
survey = MT.Survey(srcList)
|
||||
|
||||
## Setup the problem object
|
||||
problem = MT.Problem3D.eForm_ps(M, sigmaPrimary=sigBG)
|
||||
problem.pair(survey)
|
||||
problem.Solver = Solver
|
||||
|
||||
# Calculate the data
|
||||
fields = problem.fields(sig)
|
||||
dataVec = survey.eval(fields)
|
||||
|
||||
# Make the data
|
||||
mtData = MT.Data(survey,dataVec)
|
||||
# Add plots
|
||||
if plotIt:
|
||||
pass
|
||||
|
||||
if __name__ == '__main__':
|
||||
run()
|
||||
@@ -1,41 +0,0 @@
|
||||
from SimPEG import *
|
||||
from SimPEG.Utils import surface2ind_topo
|
||||
|
||||
|
||||
def run(plotIt=False, nx = 5, ny = 5):
|
||||
"""
|
||||
Here we show how to use :code:`Utils.surface2ind_topo` to identify cells below
|
||||
a topographic surface.
|
||||
|
||||
"""
|
||||
|
||||
mesh = Mesh.TensorMesh([nx,ny], x0='CC') # 2D mesh
|
||||
xtopo = np.linspace(mesh.gridN[:,0].min(), mesh.gridN[:,0].max())
|
||||
topo = 0.4*np.sin(xtopo*5) # define a topographic surface
|
||||
|
||||
Topo = np.hstack([Utils.mkvc(xtopo,2),Utils.mkvc(topo,2)]) #make it an array
|
||||
|
||||
indcc = surface2ind_topo(mesh, Topo,'CC')
|
||||
|
||||
if plotIt:
|
||||
from matplotlib.pylab import plt
|
||||
from scipy.interpolate import interp1d
|
||||
fig, ax = plt.subplots(1,1,figsize=(6,6))
|
||||
mesh.plotGrid(ax=ax, nodes=True, centers=True)
|
||||
ax.plot(xtopo,topo,'k',linewidth=1)
|
||||
# ax.plot(mesh.vectorNx, interp1d(xtopo,topo)(mesh.vectorNx),'--k',linewidth=3)
|
||||
ax.plot(mesh.vectorCCx, interp1d(xtopo,topo)(mesh.vectorCCx),'--k',linewidth=3)
|
||||
|
||||
|
||||
aveN2CC = Utils.sdiag(mesh.aveN2CC.T.sum(1))*mesh.aveN2CC.T
|
||||
a = aveN2CC * indcc
|
||||
a[a > 0] = 1.
|
||||
a[a < 0.25] = np.nan
|
||||
a = a.reshape(mesh.vnN, order='F')
|
||||
masked_array = np.ma.array(a, mask=np.isnan(a))
|
||||
ax.pcolor(mesh.vectorNx,mesh.vectorNy,masked_array.T, cmap = plt.cm.gray,alpha=0.2)
|
||||
plt.show()
|
||||
|
||||
|
||||
if __name__ == '__main__':
|
||||
run(plotIt=True)
|
||||
@@ -1,16 +1,13 @@
|
||||
# Run this file to add imports.
|
||||
|
||||
##### AUTOIMPORTS #####
|
||||
import DC_Analytic_Dipole
|
||||
import DC_Forward_PseudoSection
|
||||
import EM_FDEM_1D_Inversion
|
||||
import EM_FDEM_Analytic_MagDipoleWholespace
|
||||
import EM_Schenkel_Morrison_Casing
|
||||
import EM_FDEM_SusEffects
|
||||
import EM_TDEM_1D_Inversion
|
||||
import FLOW_Richards_1D_Celia1990
|
||||
import Inversion_IRLS
|
||||
import Forward_BasicDirectCurrent
|
||||
import Inversion_Linear
|
||||
import Mesh_Basic_ForwardDC
|
||||
import Mesh_Basic_PlotImage
|
||||
import Mesh_Basic_Types
|
||||
import Mesh_Operators_CahnHilliard
|
||||
@@ -18,11 +15,9 @@ import Mesh_QuadTree_Creation
|
||||
import Mesh_QuadTree_FaceDiv
|
||||
import Mesh_QuadTree_HangingNodes
|
||||
import Mesh_Tensor_Creation
|
||||
import MT_1D_ForwardAndInversion
|
||||
import MT_3D_Foward
|
||||
import Utils_surface2ind_topo
|
||||
import MT_1D_analytic_nlayer_Earth
|
||||
|
||||
__examples__ = ["DC_Analytic_Dipole", "DC_Forward_PseudoSection", "EM_FDEM_1D_Inversion", "EM_FDEM_Analytic_MagDipoleWholespace", "EM_Schenkel_Morrison_Casing", "EM_TDEM_1D_Inversion", "FLOW_Richards_1D_Celia1990", "Inversion_IRLS", "Inversion_Linear", "Mesh_Basic_ForwardDC", "Mesh_Basic_PlotImage", "Mesh_Basic_Types", "Mesh_Operators_CahnHilliard", "Mesh_QuadTree_Creation", "Mesh_QuadTree_FaceDiv", "Mesh_QuadTree_HangingNodes", "Mesh_Tensor_Creation", "MT_1D_ForwardAndInversion", "MT_3D_Foward", "Utils_surface2ind_topo"]
|
||||
__examples__ = ["EM_FDEM_1D_Inversion", "EM_FDEM_Analytic_MagDipoleWholespace", "EM_FDEM_SusEffects", "EM_TDEM_1D_Inversion", "FLOW_Richards_1D_Celia1990", "Forward_BasicDirectCurrent", "Inversion_Linear", "Mesh_Basic_PlotImage", "Mesh_Basic_Types", "Mesh_Operators_CahnHilliard", "Mesh_QuadTree_Creation", "Mesh_QuadTree_FaceDiv", "Mesh_QuadTree_HangingNodes", "Mesh_Tensor_Creation", "MT_1D_analytic_nlayer_Earth"]
|
||||
|
||||
##### AUTOIMPORTS #####
|
||||
|
||||
|
||||
@@ -8,7 +8,7 @@ class RichardsRx(Survey.BaseTimeRx):
|
||||
|
||||
knownRxTypes = ['saturation','pressureHead']
|
||||
|
||||
def eval(self, U, m, mapping, mesh, timeMesh):
|
||||
def projectFields(self, U, m, mapping, mesh, timeMesh):
|
||||
|
||||
if self.rxType == 'pressureHead':
|
||||
u = np.concatenate(U)
|
||||
@@ -17,7 +17,7 @@ class RichardsRx(Survey.BaseTimeRx):
|
||||
|
||||
return self.getP(mesh, timeMesh) * u
|
||||
|
||||
def evalDeriv(self, U, m, mapping, mesh, timeMesh):
|
||||
def projectFieldsDeriv(self, U, m, mapping, mesh, timeMesh):
|
||||
|
||||
P = self.getP(mesh, timeMesh)
|
||||
if self.rxType == 'pressureHead':
|
||||
@@ -45,25 +45,25 @@ class RichardsSurvey(Survey.BaseSurvey):
|
||||
|
||||
@Utils.count
|
||||
@Utils.requires('prob')
|
||||
def dpred(self, m, f=None):
|
||||
def dpred(self, m, u=None):
|
||||
"""
|
||||
Create the projected data from a model.
|
||||
The field, f, (if provided) will be used for the predicted data
|
||||
The field, u, (if provided) will be used for the predicted data
|
||||
instead of recalculating the fields (which may be expensive!).
|
||||
|
||||
.. math::
|
||||
d_\\text{pred} = P(f(m), m)
|
||||
d_\\text{pred} = P(u(m), m)
|
||||
|
||||
Where P is a projection of the fields onto the data space.
|
||||
"""
|
||||
if f is None: f = self.prob.fields(m)
|
||||
return Utils.mkvc(self.eval(f, m))
|
||||
if u is None: u = self.prob.fields(m)
|
||||
return Utils.mkvc(self.projectFields(u, m))
|
||||
|
||||
@Utils.requires('prob')
|
||||
def eval(self, U, m):
|
||||
def projectFields(self, U, m):
|
||||
Ds = range(len(self.rxList))
|
||||
for ii, rx in enumerate(self.rxList):
|
||||
Ds[ii] = rx.eval(U, m,
|
||||
Ds[ii] = rx.projectFields(U, m,
|
||||
self.prob.mapping,
|
||||
self.prob.mesh,
|
||||
self.prob.timeMesh)
|
||||
@@ -71,11 +71,11 @@ class RichardsSurvey(Survey.BaseSurvey):
|
||||
return np.concatenate(Ds)
|
||||
|
||||
@Utils.requires('prob')
|
||||
def evalDeriv(self, U, m):
|
||||
def projectFieldsDeriv(self, U, m):
|
||||
"""The Derivative with respect to the fields."""
|
||||
Ds = range(len(self.rxList))
|
||||
for ii, rx in enumerate(self.rxList):
|
||||
Ds[ii] = rx.evalDeriv(U, m,
|
||||
Ds[ii] = rx.projectFieldsDeriv(U, m,
|
||||
self.prob.mapping,
|
||||
self.prob.mesh,
|
||||
self.prob.timeMesh)
|
||||
@@ -233,16 +233,16 @@ class RichardsProblem(Problem.BaseTimeProblem):
|
||||
return r, J
|
||||
|
||||
@Utils.timeIt
|
||||
def Jfull(self, m, f=None):
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
def Jfull(self, m, u=None):
|
||||
if u is None:
|
||||
u = self.fields(m)
|
||||
|
||||
nn = len(f)-1
|
||||
nn = len(u)-1
|
||||
Asubs, Adiags, Bs = range(nn), range(nn), range(nn)
|
||||
for ii in range(nn):
|
||||
dt = self.timeSteps[ii]
|
||||
bc = self.getBoundaryConditions(ii, f[ii])
|
||||
Asubs[ii], Adiags[ii], Bs[ii] = self.diagsJacobian(m, f[ii], f[ii+1], dt, bc)
|
||||
bc = self.getBoundaryConditions(ii, u[ii])
|
||||
Asubs[ii], Adiags[ii], Bs[ii] = self.diagsJacobian(m, u[ii], u[ii+1], dt, bc)
|
||||
Ad = sp.block_diag(Adiags)
|
||||
zRight = Utils.spzeros((len(Asubs)-1)*Asubs[0].shape[0],Adiags[0].shape[1])
|
||||
zTop = Utils.spzeros(Adiags[0].shape[0], len(Adiags)*Adiags[0].shape[1])
|
||||
@@ -251,7 +251,7 @@ class RichardsProblem(Problem.BaseTimeProblem):
|
||||
B = np.array(sp.vstack(Bs).todense())
|
||||
|
||||
Ainv = self.Solver(A, **self.solverOpts)
|
||||
P = self.survey.evalDeriv(f, m)
|
||||
P = self.survey.projectFieldsDeriv(u, m)
|
||||
AinvB = Ainv * B
|
||||
z = np.zeros((self.mesh.nC, B.shape[1]))
|
||||
zAinvB = np.vstack((z, AinvB))
|
||||
@@ -259,41 +259,41 @@ class RichardsProblem(Problem.BaseTimeProblem):
|
||||
return J
|
||||
|
||||
@Utils.timeIt
|
||||
def Jvec(self, m, v, f=None):
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
def Jvec(self, m, v, u=None):
|
||||
if u is None:
|
||||
u = self.fields(m)
|
||||
|
||||
JvC = range(len(f)-1) # Cell to hold each row of the long vector.
|
||||
JvC = range(len(u)-1) # Cell to hold each row of the long vector.
|
||||
|
||||
# This is done via forward substitution.
|
||||
bc = self.getBoundaryConditions(0, f[0])
|
||||
temp, Adiag, B = self.diagsJacobian(m, f[0], f[1], self.timeSteps[0], bc)
|
||||
bc = self.getBoundaryConditions(0, u[0])
|
||||
temp, Adiag, B = self.diagsJacobian(m, u[0], u[1], self.timeSteps[0], bc)
|
||||
Adiaginv = self.Solver(Adiag, **self.solverOpts)
|
||||
JvC[0] = Adiaginv * (B*v)
|
||||
|
||||
for ii in range(1,len(f)-1):
|
||||
bc = self.getBoundaryConditions(ii, f[ii])
|
||||
Asub, Adiag, B = self.diagsJacobian(m, f[ii], f[ii+1], self.timeSteps[ii], bc)
|
||||
for ii in range(1,len(u)-1):
|
||||
bc = self.getBoundaryConditions(ii, u[ii])
|
||||
Asub, Adiag, B = self.diagsJacobian(m, u[ii], u[ii+1], self.timeSteps[ii], bc)
|
||||
Adiaginv = self.Solver(Adiag, **self.solverOpts)
|
||||
JvC[ii] = Adiaginv * (B*v - Asub*JvC[ii-1])
|
||||
|
||||
P = self.survey.evalDeriv(f, m)
|
||||
P = self.survey.projectFieldsDeriv(u, m)
|
||||
return P * np.concatenate([np.zeros(self.mesh.nC)] + JvC)
|
||||
|
||||
@Utils.timeIt
|
||||
def Jtvec(self, m, v, f=None):
|
||||
if f is None:
|
||||
f = self.field(m)
|
||||
def Jtvec(self, m, v, u=None):
|
||||
if u is None:
|
||||
u = self.field(m)
|
||||
|
||||
P = self.survey.evalDeriv(f, m)
|
||||
P = self.survey.projectFieldsDeriv(u, m)
|
||||
PTv = P.T*v
|
||||
|
||||
# This is done via backward substitution.
|
||||
minus = 0
|
||||
BJtv = 0
|
||||
for ii in range(len(f)-1,0,-1):
|
||||
bc = self.getBoundaryConditions(ii-1, f[ii-1])
|
||||
Asub, Adiag, B = self.diagsJacobian(m, f[ii-1], f[ii], self.timeSteps[ii-1], bc)
|
||||
for ii in range(len(u)-1,0,-1):
|
||||
bc = self.getBoundaryConditions(ii-1, u[ii-1])
|
||||
Asub, Adiag, B = self.diagsJacobian(m, u[ii-1], u[ii], self.timeSteps[ii-1], bc)
|
||||
#select the correct part of v
|
||||
vpart = range((ii)*Adiag.shape[0], (ii+1)*Adiag.shape[0])
|
||||
AdiaginvT = self.Solver(Adiag.T, **self.solverOpts)
|
||||
|
||||
+13
-13
@@ -82,23 +82,23 @@ class BaseInvProblem(object):
|
||||
self._warmstart = value
|
||||
|
||||
def getFields(self, m, store=False, deleteWarmstart=True):
|
||||
f = None
|
||||
u = None
|
||||
|
||||
for mtest, u_ofmtest in self.warmstart:
|
||||
if m is mtest:
|
||||
f = u_ofmtest
|
||||
u = u_ofmtest
|
||||
if self.debug: print 'InvProb is Warm Starting!'
|
||||
break
|
||||
|
||||
if f is None:
|
||||
f = self.prob.fields(m)
|
||||
if u is None:
|
||||
u = self.prob.fields(m)
|
||||
|
||||
if deleteWarmstart:
|
||||
self.warmstart = []
|
||||
if store:
|
||||
self.warmstart += [(m,f)]
|
||||
self.warmstart += [(m,u)]
|
||||
|
||||
return f
|
||||
return u
|
||||
|
||||
@Utils.timeIt
|
||||
def evalFunction(self, m, return_g=True, return_H=True):
|
||||
@@ -109,21 +109,21 @@ class BaseInvProblem(object):
|
||||
gc.collect()
|
||||
|
||||
# Store fields if doing a line-search
|
||||
f = self.getFields(m, store=(return_g==False and return_H==False))
|
||||
u = self.getFields(m, store=(return_g==False and return_H==False))
|
||||
|
||||
phi_d = self.dmisfit.eval(m, f=f)
|
||||
phi_d = self.dmisfit.eval(m, u=u)
|
||||
phi_m = self.reg.eval(m)
|
||||
|
||||
self.dpred = self.survey.dpred(m, f=f) # This is a cheap matrix vector calculation.
|
||||
self.dpred = self.survey.dpred(m, u=u) # This is a cheap matrix vector calculation.
|
||||
|
||||
self.phi_d, self.phi_d_last = phi_d, self.phi_d
|
||||
self.phi_m, self.phi_m_last = phi_m, self.phi_m
|
||||
|
||||
phi = phi_d + self.beta * phi_m
|
||||
f = phi_d + self.beta * phi_m
|
||||
|
||||
out = (phi,)
|
||||
out = (f,)
|
||||
if return_g:
|
||||
phi_dDeriv = self.dmisfit.evalDeriv(m, f=f)
|
||||
phi_dDeriv = self.dmisfit.evalDeriv(m, u=u)
|
||||
phi_mDeriv = self.reg.evalDeriv(m)
|
||||
|
||||
g = phi_dDeriv + self.beta * phi_mDeriv
|
||||
@@ -131,7 +131,7 @@ class BaseInvProblem(object):
|
||||
|
||||
if return_H:
|
||||
def H_fun(v):
|
||||
phi_d2Deriv = self.dmisfit.eval2Deriv(m, v, f=f)
|
||||
phi_d2Deriv = self.dmisfit.eval2Deriv(m, v, u=u)
|
||||
phi_m2Deriv = self.reg.eval2Deriv(m, v=v)
|
||||
|
||||
return phi_d2Deriv + self.beta * phi_m2Deriv
|
||||
|
||||
+1
-3
@@ -33,9 +33,7 @@ class BaseInversion(object):
|
||||
self._directiveList = value
|
||||
self._directiveList.inversion = self
|
||||
|
||||
def __init__(self, invProb, directiveList=None, **kwargs):
|
||||
if directiveList is None:
|
||||
directiveList = []
|
||||
def __init__(self, invProb, directiveList=[], **kwargs):
|
||||
self.directiveList = directiveList
|
||||
Utils.setKwargs(self, **kwargs)
|
||||
|
||||
|
||||
@@ -1,132 +0,0 @@
|
||||
from SimPEG import SolverLU as SimpegSolver, PropMaps, Utils, mkvc, sp, np
|
||||
from SimPEG.EM.FDEM.ProblemFDEM import BaseFDEMProblem
|
||||
from SurveyMT import Survey, Data
|
||||
from FieldsMT import BaseMTFields
|
||||
|
||||
|
||||
class BaseMTProblem(BaseFDEMProblem):
|
||||
"""
|
||||
Base class for all Natural source problems.
|
||||
"""
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseFDEMProblem.__init__(self, mesh, **kwargs)
|
||||
Utils.setKwargs(self, **kwargs)
|
||||
# Set the default pairs of the problem
|
||||
surveyPair = Survey
|
||||
dataPair = Data
|
||||
fieldsPair = BaseMTFields
|
||||
|
||||
# Set the solver
|
||||
Solver = SimpegSolver
|
||||
solverOpts = {}
|
||||
|
||||
verbose = False
|
||||
# Notes:
|
||||
# Use the forward and devs from BaseFDEMProblem
|
||||
# Might need to add more stuff here.
|
||||
|
||||
## NEED to clean up the Jvec and Jtvec to use Zero and Identities for None components.
|
||||
def Jvec(self, m, v, f=None):
|
||||
"""
|
||||
Function to calculate the data sensitivities dD/dm times a vector.
|
||||
|
||||
:param numpy.ndarray m (nC, 1) - conductive model
|
||||
:param numpy.ndarray v (nC, 1) - random vector
|
||||
:param MTfields object (optional) - MT fields object, if not given it is calculated
|
||||
:rtype: MTdata object
|
||||
:return: Data sensitivities wrt m
|
||||
"""
|
||||
|
||||
# Calculate the fields
|
||||
if f is None:
|
||||
f= self.fields(m)
|
||||
# Set current model
|
||||
self.curModel = m
|
||||
# Initiate the Jv object
|
||||
Jv = self.dataPair(self.survey)
|
||||
|
||||
# Loop all the frequenies
|
||||
for freq in self.survey.freqs:
|
||||
dA_du = self.getA(freq) #
|
||||
|
||||
dA_duI = self.Solver(dA_du, **self.solverOpts)
|
||||
|
||||
for src in self.survey.getSrcByFreq(freq):
|
||||
# We need fDeriv_m = df/du*du/dm + df/dm
|
||||
# Construct du/dm, it requires a solve
|
||||
# NOTE: need to account for the 2 polarizations in the derivatives.
|
||||
f_src = f[src,:]
|
||||
# dA_dm and dRHS_dm should be of size nE,2, so that we can multiply by dA_duI. The 2 columns are each of the polarizations.
|
||||
dA_dm = self.getADeriv_m(freq, f_src, v) # Size: nE,2 (u_px,u_py) in the columns.
|
||||
dRHS_dm = self.getRHSDeriv_m(freq, v) # Size: nE,2 (u_px,u_py) in the columns.
|
||||
if dRHS_dm is None:
|
||||
du_dm = dA_duI * ( -dA_dm )
|
||||
else:
|
||||
du_dm = dA_duI * ( -dA_dm + dRHS_dm )
|
||||
# Calculate the projection derivatives
|
||||
for rx in src.rxList:
|
||||
# Get the projection derivative
|
||||
# v should be of size 2*nE (for 2 polarizations)
|
||||
PDeriv_u = lambda t: rx.evalDeriv(src, self.mesh, f, t) # wrt u, we don't have have PDeriv wrt m
|
||||
Jv[src, rx] = PDeriv_u(mkvc(du_dm))
|
||||
dA_duI.clean()
|
||||
# Return the vectorized sensitivities
|
||||
return mkvc(Jv)
|
||||
|
||||
def Jtvec(self, m, v, f=None):
|
||||
"""
|
||||
Function to calculate the transpose of the data sensitivities (dD/dm)^T times a vector.
|
||||
|
||||
:param numpy.ndarray m (nC, 1) - conductive model
|
||||
:param numpy.ndarray v (nD, 1) - vector
|
||||
:param MTfields object u (optional) - MT fields object, if not given it is calculated
|
||||
:rtype: MTdata object
|
||||
:return: Data sensitivities wrt m
|
||||
"""
|
||||
|
||||
if f is None:
|
||||
f = self.fields(m)
|
||||
|
||||
self.curModel = m
|
||||
|
||||
# Ensure v is a data object.
|
||||
if not isinstance(v, self.dataPair):
|
||||
v = self.dataPair(self.survey, v)
|
||||
|
||||
Jtv = np.zeros(m.size)
|
||||
|
||||
for freq in self.survey.freqs:
|
||||
AT = self.getA(freq).T
|
||||
|
||||
ATinv = self.Solver(AT, **self.solverOpts)
|
||||
|
||||
for src in self.survey.getSrcByFreq(freq):
|
||||
ftype = self._fieldType + 'Solution'
|
||||
f_src = f[src, :]
|
||||
|
||||
for rx in src.rxList:
|
||||
# Get the adjoint evalDeriv
|
||||
# PTv needs to be nE,
|
||||
PTv = rx.evalDeriv(src, self.mesh, f, mkvc(v[src, rx],2), adjoint=True) # wrt u, need possibility wrt m
|
||||
# Get the
|
||||
dA_duIT = ATinv * PTv
|
||||
dA_dmT = self.getADeriv_m(freq, f_src, mkvc(dA_duIT), adjoint=True)
|
||||
dRHS_dmT = self.getRHSDeriv_m(freq, mkvc(dA_duIT), adjoint=True)
|
||||
# Make du_dmT
|
||||
if dRHS_dmT is None:
|
||||
du_dmT = -dA_dmT
|
||||
else:
|
||||
du_dmT = -dA_dmT + dRHS_dmT
|
||||
# Select the correct component
|
||||
# du_dmT needs to be of size nC,
|
||||
real_or_imag = rx.projComp
|
||||
if real_or_imag == 'real':
|
||||
Jtv += du_dmT.real
|
||||
elif real_or_imag == 'imag':
|
||||
Jtv += -du_dmT.real
|
||||
else:
|
||||
raise Exception('Must be real or imag')
|
||||
# Clean the factorization, clear memory.
|
||||
ATinv.clean()
|
||||
return Jtv
|
||||
@@ -1,351 +0,0 @@
|
||||
from SimPEG import Survey, Utils, Problem, np, sp, mkvc
|
||||
from scipy.constants import mu_0
|
||||
import sys
|
||||
from numpy.lib import recfunctions as recFunc
|
||||
from SimPEG.EM.Utils import omega
|
||||
|
||||
##############
|
||||
### Fields ###
|
||||
##############
|
||||
class BaseMTFields(Problem.Fields):
|
||||
"""Field Storage for a MT survey."""
|
||||
knownFields = {}
|
||||
dtype = complex
|
||||
|
||||
|
||||
class Fields1D_e(BaseMTFields):
|
||||
"""
|
||||
Fields storage for the 1D MT solution.
|
||||
"""
|
||||
knownFields = {'e_1dSolution':'F'}
|
||||
aliasFields = {
|
||||
'e_1d' : ['e_1dSolution','F','_e'],
|
||||
'e_1dPrimary' : ['e_1dSolution','F','_ePrimary'],
|
||||
'e_1dSecondary' : ['e_1dSolution','F','_eSecondary'],
|
||||
'b_1d' : ['e_1dSolution','E','_b'],
|
||||
'b_1dPrimary' : ['e_1dSolution','E','_bPrimary'],
|
||||
'b_1dSecondary' : ['e_1dSolution','E','_bSecondary']
|
||||
}
|
||||
|
||||
def __init__(self,mesh,survey,**kwargs):
|
||||
BaseMTFields.__init__(self,mesh,survey,**kwargs)
|
||||
|
||||
def _ePrimary(self, eSolution, srcList):
|
||||
ePrimary = np.zeros_like(eSolution)
|
||||
for i, src in enumerate(srcList):
|
||||
ep = src.ePrimary(self.survey.prob)
|
||||
if ep is not None:
|
||||
ePrimary[:,i] = ep[:,-1]
|
||||
return ePrimary
|
||||
|
||||
def _eSecondary(self, eSolution, srcList):
|
||||
return eSolution
|
||||
|
||||
def _e(self, eSolution, srcList):
|
||||
return self._ePrimary(eSolution,srcList) + self._eSecondary(eSolution,srcList)
|
||||
|
||||
def _eDeriv_u(self, src, v, adjoint = False):
|
||||
return v
|
||||
|
||||
def _eDeriv_m(self, src, v, adjoint = False):
|
||||
# assuming primary does not depend on the model
|
||||
return None
|
||||
|
||||
def _bPrimary(self, eSolution, srcList):
|
||||
bPrimary = np.zeros([self.survey.mesh.nE,eSolution.shape[1]], dtype = complex)
|
||||
for i, src in enumerate(srcList):
|
||||
bp = src.bPrimary(self.survey.prob)
|
||||
if bp is not None:
|
||||
bPrimary[:,i] += bp[:,-1]
|
||||
return bPrimary
|
||||
|
||||
def _bSecondary(self, eSolution, srcList):
|
||||
C = self.mesh.nodalGrad
|
||||
b = (C * eSolution)
|
||||
for i, src in enumerate(srcList):
|
||||
b[:,i] *= - 1./(1j*omega(src.freq))
|
||||
# There is no magnetic source in the MT problem
|
||||
# S_m, _ = src.eval(self.survey.prob)
|
||||
# if S_m is not None:
|
||||
# b[:,i] += 1./(1j*omega(src.freq)) * S_m
|
||||
return b
|
||||
|
||||
def _b(self, eSolution, srcList):
|
||||
return self._bPrimary(eSolution, srcList) + self._bSecondary(eSolution, srcList)
|
||||
|
||||
def _bSecondaryDeriv_u(self, src, v, adjoint = False):
|
||||
C = self.mesh.nodalGrad
|
||||
if adjoint:
|
||||
return - 1./(1j*omega(src.freq)) * (C.T * v)
|
||||
return - 1./(1j*omega(src.freq)) * (C * v)
|
||||
|
||||
def _bSecondaryDeriv_m(self, src, v, adjoint = False):
|
||||
# Doesn't depend on m
|
||||
# _, S_eDeriv = src.evalDeriv(self.survey.prob, adjoint)
|
||||
# S_eDeriv = S_eDeriv(v)
|
||||
# if S_eDeriv is not None:
|
||||
# return 1./(1j * omega(src.freq)) * S_eDeriv
|
||||
return None
|
||||
|
||||
def _bDeriv_u(self, src, v, adjoint=False):
|
||||
# Primary does not depend on u
|
||||
return self._bSecondaryDeriv_u(src, v, adjoint)
|
||||
|
||||
def _bDeriv_m(self, src, v, adjoint=False):
|
||||
# Assuming the primary does not depend on the model
|
||||
return self._bSecondaryDeriv_m(src, v, adjoint)
|
||||
|
||||
def _fDeriv_u(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the fields object wrt u.
|
||||
|
||||
:param MTsrc src: MT source
|
||||
:param numpy.ndarray v: random vector of f_sol.size
|
||||
This function stacks the fields derivatives appropriately
|
||||
|
||||
return a vector of size (nreEle+nrbEle)
|
||||
"""
|
||||
|
||||
de_du = v #Utils.spdiag(np.ones((self.nF,)))
|
||||
db_du = self._bDeriv_u(src, v, adjoint)
|
||||
# Return the stack
|
||||
# This doesn't work...
|
||||
return np.vstack((de_du,db_du))
|
||||
|
||||
def _fDeriv_m(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the fields object wrt m.
|
||||
|
||||
This function stacks the fields derivatives appropriately
|
||||
"""
|
||||
return None
|
||||
|
||||
class Fields3D_e(BaseMTFields):
|
||||
"""
|
||||
Fields storage for the 3D MT solution. Labels polarizations by px and py.
|
||||
|
||||
:param SimPEG object mesh: The solution mesh
|
||||
:param SimPEG object survey: A survey object
|
||||
"""
|
||||
# Define the known the alias fields
|
||||
# Assume that the solution of e on the E.
|
||||
## NOTE: Need to make this more general, to allow for other solutions formats.
|
||||
knownFields = {'e_pxSolution':'E','e_pySolution':'E'}
|
||||
aliasFields = {
|
||||
'e_px' : ['e_pxSolution','E','_e_px'],
|
||||
'e_pxPrimary' : ['e_pxSolution','E','_e_pxPrimary'],
|
||||
'e_pxSecondary' : ['e_pxSolution','E','_e_pxSecondary'],
|
||||
'e_py' : ['e_pySolution','E','_e_py'],
|
||||
'e_pyPrimary' : ['e_pySolution','E','_e_pyPrimary'],
|
||||
'e_pySecondary' : ['e_pySolution','E','_e_pySecondary'],
|
||||
'b_px' : ['e_pxSolution','F','_b_px'],
|
||||
'b_pxPrimary' : ['e_pxSolution','F','_b_pxPrimary'],
|
||||
'b_pxSecondary' : ['e_pxSolution','F','_b_pxSecondary'],
|
||||
'b_py' : ['e_pySolution','F','_b_py'],
|
||||
'b_pyPrimary' : ['e_pySolution','F','_b_pyPrimary'],
|
||||
'b_pySecondary' : ['e_pySolution','F','_b_pySecondary']
|
||||
}
|
||||
|
||||
def __init__(self,mesh,survey,**kwargs):
|
||||
BaseMTFields.__init__(self,mesh,survey,**kwargs)
|
||||
|
||||
def _e_pxPrimary(self, e_pxSolution, srcList):
|
||||
e_pxPrimary = np.zeros_like(e_pxSolution)
|
||||
for i, src in enumerate(srcList):
|
||||
ep = src.ePrimary(self.survey.prob)
|
||||
if ep is not None:
|
||||
e_pxPrimary[:,i] = ep[:,0]
|
||||
return e_pxPrimary
|
||||
|
||||
def _e_pyPrimary(self, e_pySolution, srcList):
|
||||
e_pyPrimary = np.zeros_like(e_pySolution)
|
||||
for i, src in enumerate(srcList):
|
||||
ep = src.ePrimary(self.survey.prob)
|
||||
if ep is not None:
|
||||
e_pyPrimary[:,i] = ep[:,1]
|
||||
return e_pyPrimary
|
||||
|
||||
def _e_pxSecondary(self, e_pxSolution, srcList):
|
||||
return e_pxSolution
|
||||
|
||||
def _e_pySecondary(self, e_pySolution, srcList):
|
||||
return e_pySolution
|
||||
|
||||
def _e_px(self, e_pxSolution, srcList):
|
||||
return self._e_pxPrimary(e_pxSolution,srcList) + self._e_pxSecondary(e_pxSolution,srcList)
|
||||
|
||||
def _e_py(self, e_pySolution, srcList):
|
||||
return self._e_pyPrimary(e_pySolution,srcList) + self._e_pySecondary(e_pySolution,srcList)
|
||||
|
||||
#NOTE: For e_p?Deriv_u,
|
||||
# v has to be u(2*nE) long for the not adjoint and nE long for adjoint.
|
||||
# Returns nE long for not adjoint and 2*nE long for adjoint
|
||||
def _e_pxDeriv_u(self, src, v, adjoint = False):
|
||||
'''
|
||||
Takes the derivative of e_px wrt u
|
||||
'''
|
||||
if adjoint:
|
||||
# adjoint: returns a 2*nE long vector with zero's for py
|
||||
return np.vstack((v,np.zeros_like(v)))
|
||||
# Not adjoint: return only the px part of the vector
|
||||
return v[:len(v)/2]
|
||||
|
||||
def _e_pyDeriv_u(self, src, v, adjoint = False):
|
||||
'''
|
||||
Takes the derivative of e_py wrt u
|
||||
'''
|
||||
if adjoint:
|
||||
# adjoint: returns a 2*nE long vector with zero's for px
|
||||
return np.vstack((np.zeros_like(v),v))
|
||||
# Not adjoint: return only the px part of the vector
|
||||
return v[len(v)/2::]
|
||||
|
||||
def _e_pxDeriv_m(self, src, v, adjoint = False):
|
||||
# assuming primary does not depend on the model
|
||||
return None
|
||||
def _e_pyDeriv_m(self, src, v, adjoint = False):
|
||||
# assuming primary does not depend on the model
|
||||
return None
|
||||
|
||||
def _b_pxPrimary(self, e_pxSolution, srcList):
|
||||
b_pxPrimary = np.zeros([self.survey.mesh.nF,e_pxSolution.shape[1]], dtype = complex)
|
||||
for i, src in enumerate(srcList):
|
||||
bp = src.bPrimary(self.survey.prob)
|
||||
if bp is not None:
|
||||
b_pxPrimary[:,i] += bp[:,0]
|
||||
return b_pxPrimary
|
||||
|
||||
def _b_pyPrimary(self, e_pySolution, srcList):
|
||||
b_pyPrimary = np.zeros([self.survey.mesh.nF,e_pySolution.shape[1]], dtype = complex)
|
||||
for i, src in enumerate(srcList):
|
||||
bp = src.bPrimary(self.survey.prob)
|
||||
if bp is not None:
|
||||
b_pyPrimary[:,i] += bp[:,1]
|
||||
return b_pyPrimary
|
||||
|
||||
def _b_pxSecondary(self, e_pxSolution, srcList):
|
||||
C = self.mesh.edgeCurl
|
||||
b = (C * e_pxSolution)
|
||||
for i, src in enumerate(srcList):
|
||||
b[:,i] *= - 1./(1j*omega(src.freq))
|
||||
# There is no magnetic source in the MT problem
|
||||
# S_m, _ = src.eval(self.survey.prob)
|
||||
# if S_m is not None:
|
||||
# b[:,i] += 1./(1j*omega(src.freq)) * S_m
|
||||
return b
|
||||
|
||||
def _b_pySecondary(self, e_pySolution, srcList):
|
||||
C = self.mesh.edgeCurl
|
||||
b = (C * e_pySolution)
|
||||
for i, src in enumerate(srcList):
|
||||
b[:,i] *= - 1./(1j*omega(src.freq))
|
||||
# There is no magnetic source in the MT problem
|
||||
# S_m, _ = src.eval(self.survey.prob)
|
||||
# if S_m is not None:
|
||||
# b[:,i] += 1./(1j*omega(src.freq)) * S_m
|
||||
return b
|
||||
|
||||
def _b_px(self, eSolution, srcList):
|
||||
return self._b_pxPrimary(eSolution, srcList) + self._b_pxSecondary(eSolution, srcList)
|
||||
|
||||
def _b_py(self, eSolution, srcList):
|
||||
return self._b_pyPrimary(eSolution, srcList) + self._b_pySecondary(eSolution, srcList)
|
||||
|
||||
# NOTE: v needs to be length 2*nE to account for both polarizations
|
||||
def _b_pxSecondaryDeriv_u(self, src, v, adjoint = False):
|
||||
# C = sp.kron(self.mesh.edgeCurl,[[1,0],[0,0]])
|
||||
C = sp.hstack((self.mesh.edgeCurl,Utils.spzeros(self.mesh.nF,self.mesh.nE))) # This works for adjoint = None
|
||||
if adjoint:
|
||||
return - 1./(1j*omega(src.freq)) * (C.T * v)
|
||||
return - 1./(1j*omega(src.freq)) * (C * v)
|
||||
|
||||
def _b_pySecondaryDeriv_u(self, src, v, adjoint = False):
|
||||
# C = sp.kron(self.mesh.edgeCurl,[[0,0],[0,1]])
|
||||
C = sp.hstack((Utils.spzeros(self.mesh.nF,self.mesh.nE),self.mesh.edgeCurl)) # This works for adjoint = None
|
||||
if adjoint:
|
||||
return - 1./(1j*omega(src.freq)) * (C.T * v)
|
||||
return - 1./(1j*omega(src.freq)) * (C * v)
|
||||
|
||||
def _b_pxSecondaryDeriv_m(self, src, v, adjoint = False):
|
||||
# Doesn't depend on m
|
||||
# _, S_eDeriv = src.evalDeriv(self.survey.prob, adjoint)
|
||||
# S_eDeriv = S_eDeriv(v)
|
||||
# if S_eDeriv is not None:
|
||||
# return 1./(1j * omega(src.freq)) * S_eDeriv
|
||||
return None
|
||||
|
||||
def _b_pySecondaryDeriv_m(self, src, v, adjoint = False):
|
||||
# Doesn't depend on m
|
||||
# _, S_eDeriv = src.evalDeriv(self.survey.prob, adjoint)
|
||||
# S_eDeriv = S_eDeriv(v)
|
||||
# if S_eDeriv is not None:
|
||||
# return 1./(1j * omega(src.freq)) * S_eDeriv
|
||||
return None
|
||||
|
||||
def _b_pxDeriv_u(self, src, v, adjoint=False):
|
||||
# Primary does not depend on u
|
||||
return self._b_pxSecondaryDeriv_u(src, v, adjoint)
|
||||
|
||||
def _b_pyDeriv_u(self, src, v, adjoint=False):
|
||||
# Primary does not depend on u
|
||||
return self._b_pySecondaryDeriv_u(src, v, adjoint)
|
||||
|
||||
def _b_pxDeriv_m(self, src, v, adjoint=False):
|
||||
# Assuming the primary does not depend on the model
|
||||
return self._b_pxSecondaryDeriv_m(src, v, adjoint)
|
||||
|
||||
def _b_pyDeriv_m(self, src, v, adjoint=False):
|
||||
# Assuming the primary does not depend on the model
|
||||
return self._b_pySecondaryDeriv_m(src, v, adjoint)
|
||||
|
||||
def _f_pxDeriv_u(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the fields object wrt u.
|
||||
|
||||
:param MTsrc src: MT source
|
||||
:param numpy.ndarray v: random vector of f_sol.size
|
||||
This function stacks the fields derivatives appropriately
|
||||
|
||||
return a vector of size (nreEle+nrbEle)
|
||||
"""
|
||||
|
||||
de_du = v #Utils.spdiag(np.ones((self.nF,)))
|
||||
db_du = self._b_pxDeriv_u(src, v, adjoint)
|
||||
# Return the stack
|
||||
# This doesn't work...
|
||||
return np.vstack((de_du,db_du))
|
||||
|
||||
def _f_pyDeriv_u(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the fields object wrt u.
|
||||
|
||||
:param MTsrc src: MT source
|
||||
:param numpy.ndarray v: random vector of f_sol.size
|
||||
This function stacks the fields derivatives appropriately
|
||||
|
||||
return a vector of size (nreEle+nrbEle)
|
||||
"""
|
||||
|
||||
de_du = v #Utils.spdiag(np.ones((self.nF,)))
|
||||
db_du = self._b_pyDeriv_u(src, v, adjoint)
|
||||
# Return the stack
|
||||
# This doesn't work...
|
||||
return np.vstack((de_du,db_du))
|
||||
|
||||
def _f_pxDeriv_m(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the fields object wrt m.
|
||||
|
||||
This function stacks the fields derivatives appropriately
|
||||
"""
|
||||
# The fields have no dependance to the model.
|
||||
return None
|
||||
|
||||
def _f_pyDeriv_m(self, src, v, adjoint=False):
|
||||
"""
|
||||
Derivative of the fields object wrt m.
|
||||
|
||||
This function stacks the fields derivatives appropriately
|
||||
"""
|
||||
# The fields have no dependance to the model.
|
||||
return None
|
||||
@@ -1,291 +0,0 @@
|
||||
from SimPEG.EM.Utils import omega
|
||||
from SimPEG import mkvc
|
||||
from scipy.constants import mu_0
|
||||
from SimPEG.MT.BaseMT import BaseMTProblem
|
||||
from SimPEG.MT.SurveyMT import Survey, Data
|
||||
from SimPEG.MT.FieldsMT import Fields1D_e
|
||||
from SimPEG.MT.Utils.MT1Danalytic import getEHfields
|
||||
import numpy as np
|
||||
import multiprocessing, sys, time
|
||||
|
||||
|
||||
class eForm_psField(BaseMTProblem):
|
||||
"""
|
||||
A MT problem soving a e formulation and primary/secondary fields decomposion.
|
||||
|
||||
By eliminating the magnetic flux density using
|
||||
|
||||
.. math ::
|
||||
|
||||
\mathbf{b} = \\frac{1}{i \omega}\\left(-\mathbf{C} \mathbf{e} \\right)
|
||||
|
||||
|
||||
we can write Maxwell's equations as a second order system in \\\(\\\mathbf{e}\\\) only:
|
||||
|
||||
.. math ::
|
||||
\\left(\mathbf{C}^T \mathbf{M^e_{\mu^{-1}}} \mathbf{C} + i \omega \mathbf{M^f_\sigma}] \mathbf{e}_{s} =& i \omega \mathbf{M^f_{\delta \sigma}} \mathbf{e}_{p}
|
||||
which we solve for \\\(\\\mathbf{e_s}\\\). The total field \\\mathbf{e}\\ = \\\mathbf{e_p}\\ + \\\mathbf{e_s}\\.
|
||||
|
||||
The primary field is estimated from a background model (commonly half space ).
|
||||
|
||||
|
||||
"""
|
||||
# From FDEMproblem: Used to project the fields. Currently not used for MTproblem.
|
||||
_fieldType = 'e_1d'
|
||||
_eqLocs = 'EF'
|
||||
_sigmaPrimary = None
|
||||
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseMTProblem.__init__(self, mesh, **kwargs)
|
||||
self.fieldsPair = Fields1D_e
|
||||
# self._sigmaPrimary = sigmaPrimary
|
||||
@property
|
||||
def MeMui(self):
|
||||
"""
|
||||
Edge inner product matrix
|
||||
"""
|
||||
if getattr(self, '_MeMui', None) is None:
|
||||
self._MeMui = self.mesh.getEdgeInnerProduct(1.0/mu_0)
|
||||
return self._MeMui
|
||||
|
||||
@property
|
||||
def MfSigma(self):
|
||||
"""
|
||||
Edge inner product matrix
|
||||
"""
|
||||
if getattr(self, '_MfSigma', None) is None:
|
||||
self._MfSigma = self.mesh.getFaceInnerProduct(self.curModel.sigma)
|
||||
return self._MfSigma
|
||||
|
||||
@property
|
||||
def sigmaPrimary(self):
|
||||
"""
|
||||
A background model, use for the calculation of the primary fields.
|
||||
|
||||
"""
|
||||
return self._sigmaPrimary
|
||||
|
||||
@sigmaPrimary.setter
|
||||
def sigmaPrimary(self, val):
|
||||
# Note: TODO add logic for val, make sure it is the correct size.
|
||||
self._sigmaPrimary = val
|
||||
|
||||
def getA(self, freq):
|
||||
"""
|
||||
Function to get the A matrix.
|
||||
|
||||
:param float freq: Frequency
|
||||
:rtype: scipy.sparse.csr_matrix
|
||||
:return: A
|
||||
"""
|
||||
|
||||
# Note: need to use the code above since in the 1D problem I want
|
||||
# e to live on Faces(nodes) and h on edges(cells). Might need to rethink this
|
||||
# Possible that _fieldType and _eqLocs can fix this
|
||||
MeMui = self.MeMui
|
||||
MfSigma = self.MfSigma
|
||||
C = self.mesh.nodalGrad
|
||||
# Make A
|
||||
A = C.T*MeMui*C + 1j*omega(freq)*MfSigma
|
||||
# Either return full or only the inner part of A
|
||||
return A
|
||||
|
||||
def getADeriv_m(self, freq, u, v, adjoint=False):
|
||||
"""
|
||||
The derivative of A wrt sigma
|
||||
"""
|
||||
|
||||
dsig_dm = self.curModel.sigmaDeriv
|
||||
MeMui = self.MeMui
|
||||
#
|
||||
u_src = u['e_1dSolution']
|
||||
dMfSigma_dm = self.mesh.getFaceInnerProductDeriv(self.curModel.sigma)(u_src) * self.curModel.sigmaDeriv
|
||||
if adjoint:
|
||||
return 1j * omega(freq) * ( dMfSigma_dm.T * v )
|
||||
# Note: output has to be nN/nF, not nC/nE.
|
||||
# v should be nC
|
||||
return 1j * omega(freq) * ( dMfSigma_dm * v )
|
||||
|
||||
def getRHS(self, freq):
|
||||
"""
|
||||
Function to return the right hand side for the system.
|
||||
:param float freq: Frequency
|
||||
:rtype: numpy.ndarray (nF, 1), numpy.ndarray (nF, 1)
|
||||
:return: RHS for 1 polarizations, primary fields
|
||||
"""
|
||||
|
||||
# Get sources for the frequncy(polarizations)
|
||||
Src = self.survey.getSrcByFreq(freq)[0]
|
||||
S_e = Src.S_e(self)
|
||||
return -1j * omega(freq) * S_e
|
||||
|
||||
def getRHSDeriv_m(self, freq, v, adjoint=False):
|
||||
"""
|
||||
The derivative of the RHS wrt sigma
|
||||
"""
|
||||
|
||||
Src = self.survey.getSrcByFreq(freq)[0]
|
||||
S_eDeriv = Src.S_eDeriv_m(self, v, adjoint)
|
||||
return -1j * omega(freq) * S_eDeriv
|
||||
|
||||
def fields(self, m):
|
||||
'''
|
||||
Function to calculate all the fields for the model m.
|
||||
|
||||
:param np.ndarray (nC,) m: Conductivity model
|
||||
'''
|
||||
# Set the current model
|
||||
self.curModel = m
|
||||
|
||||
F = Fields1D_e(self.mesh, self.survey)
|
||||
for freq in self.survey.freqs:
|
||||
if self.verbose:
|
||||
startTime = time.time()
|
||||
print 'Starting work for {:.3e}'.format(freq)
|
||||
sys.stdout.flush()
|
||||
A = self.getA(freq)
|
||||
rhs = self.getRHS(freq)
|
||||
Ainv = self.Solver(A, **self.solverOpts)
|
||||
e_s = Ainv * rhs
|
||||
|
||||
# Store the fields
|
||||
Src = self.survey.getSrcByFreq(freq)[0]
|
||||
# NOTE: only store the e_solution(secondary), all other components calculated in the fields object
|
||||
F[Src, 'e_1dSolution'] = e_s[:,-1] # Only storing the yx polarization as 1d
|
||||
|
||||
# Note curl e = -iwb so b = -curl e /iw
|
||||
# b = -( self.mesh.nodalGrad * e )/( 1j*omega(freq) )
|
||||
# F[Src, 'b_1d'] = b[:,1]
|
||||
if self.verbose:
|
||||
print 'Ran for {:f} seconds'.format(time.time()-startTime)
|
||||
sys.stdout.flush()
|
||||
return F
|
||||
|
||||
# Note this is not fully functional.
|
||||
# Missing:
|
||||
# Fields class corresponding to the fields
|
||||
# Update Jvec and Jtvec to include all the derivatives components
|
||||
# Other things ...
|
||||
class eForm_TotalField(BaseMTProblem):
|
||||
"""
|
||||
A MT problem solving a e formulation and a Total bondary domain decompostion.
|
||||
|
||||
Solves the equation:
|
||||
|
||||
Math:
|
||||
|
||||
|
||||
"""
|
||||
|
||||
# From FDEMproblem: Used to project the fields. Currently not used for MTproblem.
|
||||
_fieldType = 'e'
|
||||
_eqLocs = 'EF'
|
||||
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseMTProblem.__init__(self, mesh, **kwargs)
|
||||
@property
|
||||
def MeMui(self):
|
||||
"""
|
||||
Edge inner product matrix
|
||||
"""
|
||||
if getattr(self, '_MeMui', None) is None:
|
||||
self._MeMui = self.mesh.getEdgeInnerProduct(1.0/mu_0)
|
||||
return self._MeMui
|
||||
|
||||
@property
|
||||
def MfSigma(self):
|
||||
"""
|
||||
Edge inner product matrix
|
||||
"""
|
||||
if getattr(self, '_MfSigma', None) is None:
|
||||
self._MfSigma = self.mesh.getFaceInnerProduct(self.curModel.sigma)
|
||||
return self._MfSigma
|
||||
|
||||
def getA(self, freq, full=False):
|
||||
"""
|
||||
Function to get the A matrix.
|
||||
|
||||
:param float freq: Frequency
|
||||
:param logic full: Return full A or the inner part
|
||||
:rtype: scipy.sparse.csr_matrix
|
||||
:return: A
|
||||
"""
|
||||
|
||||
MeMui = self.MeMui
|
||||
MfSigma = self.MfSigma
|
||||
# Note: need to use the code above since in the 1D problem I want
|
||||
# e to live on Faces(nodes) and h on edges(cells). Might need to rethink this
|
||||
# Possible that _fieldType and _eqLocs can fix this
|
||||
# MeMui = self.MfMui
|
||||
# MfSigma = self.MfSigma
|
||||
C = self.mesh.nodalGrad
|
||||
# Make A
|
||||
A = C.T*MeMui*C + 1j*omega(freq)*MfSigma
|
||||
# Either return full or only the inner part of A
|
||||
if full:
|
||||
return A
|
||||
else:
|
||||
return A[1:-1,1:-1]
|
||||
|
||||
def getADeriv_m(self, freq, u, v, adjoint=False):
|
||||
raise NotImplementedError('getADeriv is not implemented')
|
||||
|
||||
def getRHS(self, freq):
|
||||
"""
|
||||
Function to return the right hand side for the system.
|
||||
:param float freq: Frequency
|
||||
:rtype: numpy.ndarray (nE, 2), numpy.ndarray (nE, 2)
|
||||
:return: RHS for both polarizations, primary fields
|
||||
"""
|
||||
# Get sources for the frequency
|
||||
# NOTE: Need to use the source information, doesn't really apply in 1D
|
||||
src = self.survey.getSrcByFreq(freq)
|
||||
# Get the full A
|
||||
A = self.getA(freq,full=True)
|
||||
# Define the outer part of the solution matrix
|
||||
Aio = A[1:-1,[0,-1]]
|
||||
Ed, Eu, Hd, Hu = getEHfields(self.mesh,self.curModel.sigma,freq,self.mesh.vectorNx)
|
||||
Etot = (Ed + Eu)
|
||||
sourceAmp = 1.0
|
||||
Etot = ((Etot/Etot[-1])*sourceAmp) # Scale the fields to be equal to sourceAmp at the top
|
||||
## Note: The analytic solution is derived with e^iwt
|
||||
eBC = np.r_[Etot[0],Etot[-1]]
|
||||
# The right hand side
|
||||
|
||||
return -Aio*eBC, eBC
|
||||
|
||||
def getRHSderiv_m(self, freq, backSigma, u, v, adjoint=False):
|
||||
raise NotImplementedError('getRHSDeriv not implemented yet')
|
||||
return None
|
||||
|
||||
def fields(self, m):
|
||||
'''
|
||||
Function to calculate all the fields for the model m.
|
||||
|
||||
:param np.ndarray (nC,) m: Conductivity model
|
||||
:param np.ndarray (nC,) m_back: Background conductivity model
|
||||
'''
|
||||
self.curModel = m
|
||||
# RHS, CalcFields = self.getRHS(freq,m_back), self.calcFields
|
||||
|
||||
F = Fields1D_e(self.mesh, self.survey)
|
||||
for freq in self.survey.freqs:
|
||||
if self.verbose:
|
||||
startTime = time.time()
|
||||
print 'Starting work for {:.3e}'.format(freq)
|
||||
sys.stdout.flush()
|
||||
A = self.getA(freq)
|
||||
rhs, e_o = self.getRHS(freq)
|
||||
Ainv = self.Solver(A, **self.solverOpts)
|
||||
e_i = Ainv * rhs
|
||||
e = mkvc(np.r_[e_o[0], e_i, e_o[1]],2)
|
||||
# Store the fields
|
||||
Src = self.survey.getSrcByFreq(freq)
|
||||
# NOTE: only store e fields
|
||||
F[Src, 'e_1dSolution'] = e[:,0]
|
||||
if self.verbose:
|
||||
print 'Ran for {:f} seconds'.format(time.time()-startTime)
|
||||
sys.stdout.flush()
|
||||
return F
|
||||
@@ -1 +0,0 @@
|
||||
from Probs import eForm_TotalField, eForm_psField
|
||||
@@ -1 +0,0 @@
|
||||
pass
|
||||
@@ -1,138 +0,0 @@
|
||||
from SimPEG import Survey, Problem, Utils, Models, np, sp, mkvc, SolverLU as SimpegSolver
|
||||
from SimPEG.EM.Utils import omega
|
||||
from scipy.constants import mu_0
|
||||
from SimPEG.MT.BaseMT import BaseMTProblem
|
||||
from SimPEG.MT.SurveyMT import Survey, Data
|
||||
from SimPEG.MT.FieldsMT import Fields3D_e
|
||||
import multiprocessing, sys, time
|
||||
|
||||
|
||||
|
||||
class eForm_ps(BaseMTProblem):
|
||||
"""
|
||||
A MT problem solving a e formulation and a primary/secondary fields decompostion.
|
||||
|
||||
By eliminating the magnetic flux density using
|
||||
|
||||
.. math ::
|
||||
|
||||
\mathbf{b} = \\frac{1}{i \omega}\\left(-\mathbf{C} \mathbf{e} \\right)
|
||||
|
||||
|
||||
we can write Maxwell's equations as a second order system in \\\(\\\mathbf{e}\\\) only:
|
||||
|
||||
.. math ::
|
||||
\\left(\mathbf{C}^T \mathbf{M^f_{\mu^{-1}}} \mathbf{C} + i \omega \mathbf{M^e_\sigma}] \mathbf{e}_{s} =& i \omega \mathbf{M^e_{\delta \sigma}} \mathbf{e}_{p}
|
||||
which we solve for \\\(\\\mathbf{e_s}\\\). The total field \\\mathbf{e}\\ = \\\mathbf{e_p}\\ + \\\mathbf{e_s}\\.
|
||||
|
||||
The primary field is estimated from a background model (commonly as a 1D model).
|
||||
|
||||
"""
|
||||
|
||||
# From FDEMproblem: Used to project the fields. Currently not used for MTproblem.
|
||||
_fieldType = 'e'
|
||||
_eqLocs = 'FE'
|
||||
fieldsPair = Fields3D_e
|
||||
_sigmaPrimary = None
|
||||
|
||||
def __init__(self, mesh, **kwargs):
|
||||
BaseMTProblem.__init__(self, mesh, **kwargs)
|
||||
|
||||
@property
|
||||
def sigmaPrimary(self):
|
||||
"""
|
||||
A background model, use for the calculation of the primary fields.
|
||||
|
||||
"""
|
||||
return self._sigmaPrimary
|
||||
@sigmaPrimary.setter
|
||||
def sigmaPrimary(self, val):
|
||||
# Note: TODO add logic for val, make sure it is the correct size.
|
||||
self._sigmaPrimary = val
|
||||
|
||||
def getA(self, freq):
|
||||
"""
|
||||
Function to get the A system.
|
||||
|
||||
:param float freq: Frequency
|
||||
:rtype: scipy.sparse.csr_matrix
|
||||
:return: A
|
||||
"""
|
||||
Mmui = self.MfMui
|
||||
Msig = self.MeSigma
|
||||
C = self.mesh.edgeCurl
|
||||
|
||||
return C.T*Mmui*C + 1j*omega(freq)*Msig
|
||||
|
||||
def getADeriv_m(self, freq, u, v, adjoint=False):
|
||||
"""
|
||||
Calculate the derivative of A wrt m.
|
||||
|
||||
"""
|
||||
|
||||
# This considers both polarizations and returns a nE,2 matrix for each polarization
|
||||
if adjoint:
|
||||
dMe_dsigV = sp.hstack(( self.MeSigmaDeriv( u['e_pxSolution'] ).T, self.MeSigmaDeriv(u['e_pySolution'] ).T ))*v
|
||||
else:
|
||||
# Need a nE,2 matrix to be returned
|
||||
dMe_dsigV = np.hstack(( mkvc(self.MeSigmaDeriv( u['e_pxSolution'] )*v,2), mkvc( self.MeSigmaDeriv(u['e_pySolution'] )*v,2) ))
|
||||
return 1j * omega(freq) * dMe_dsigV
|
||||
|
||||
|
||||
def getRHS(self, freq):
|
||||
"""
|
||||
Function to return the right hand side for the system.
|
||||
|
||||
:param float freq: Frequency
|
||||
:rtype: numpy.ndarray (nE, 2), numpy.ndarray (nE, 2)
|
||||
:return: RHS for both polarizations, primary fields
|
||||
"""
|
||||
|
||||
# Get sources for the frequncy(polarizations)
|
||||
Src = self.survey.getSrcByFreq(freq)[0]
|
||||
S_e = Src.S_e(self)
|
||||
return -1j * omega(freq) * S_e
|
||||
|
||||
def getRHSDeriv_m(self, freq, v, adjoint=False):
|
||||
"""
|
||||
The derivative of the RHS with respect to sigma
|
||||
"""
|
||||
|
||||
Src = self.survey.getSrcByFreq(freq)[0]
|
||||
S_eDeriv = Src.S_eDeriv_m(self, v, adjoint)
|
||||
return -1j * omega(freq) * S_eDeriv
|
||||
|
||||
def fields(self, m):
|
||||
'''
|
||||
Function to calculate all the fields for the model m.
|
||||
|
||||
:param np.ndarray (nC,) m: Conductivity model
|
||||
'''
|
||||
# Set the current model
|
||||
self.curModel = m
|
||||
|
||||
F = Fields3D_e(self.mesh, self.survey)
|
||||
for freq in self.survey.freqs:
|
||||
if self.verbose:
|
||||
startTime = time.time()
|
||||
print 'Starting work for {:.3e}'.format(freq)
|
||||
sys.stdout.flush()
|
||||
A = self.getA(freq)
|
||||
rhs = self.getRHS(freq)
|
||||
# Solve the system
|
||||
Ainv = self.Solver(A, **self.solverOpts)
|
||||
e_s = Ainv * rhs
|
||||
|
||||
# Store the fields
|
||||
Src = self.survey.getSrcByFreq(freq)[0]
|
||||
# Store the fieldss
|
||||
F[Src, 'e_pxSolution'] = e_s[:,0]
|
||||
F[Src, 'e_pySolution'] = e_s[:,1]
|
||||
# Note curl e = -iwb so b = -curl/iw
|
||||
|
||||
if self.verbose:
|
||||
print 'Ran for {:f} seconds'.format(time.time()-startTime)
|
||||
sys.stdout.flush()
|
||||
Ainv.clean()
|
||||
return F
|
||||
|
||||
@@ -1 +0,0 @@
|
||||
from Probs import eForm_ps
|
||||
@@ -1,206 +0,0 @@
|
||||
from SimPEG import Utils, Problem, Maps, np, sp, mkvc
|
||||
from SimPEG.EM.FDEM.SrcFDEM import BaseSrc as FDEMBaseSrc
|
||||
from SimPEG.EM.Utils import omega
|
||||
from scipy.constants import mu_0
|
||||
from numpy.lib import recfunctions as recFunc
|
||||
from Utils.sourceUtils import homo1DModelSource
|
||||
from Utils import rec2ndarr
|
||||
import sys
|
||||
|
||||
#################
|
||||
### Sources ###
|
||||
#################
|
||||
|
||||
class BaseMTSrc(FDEMBaseSrc):
|
||||
'''
|
||||
Sources for the MT problem.
|
||||
Use the SimPEG BaseSrc, since the source fields share properties with the transmitters.
|
||||
|
||||
:param float freq: The frequency of the source
|
||||
:param list rxList: A list of receivers associated with the source
|
||||
'''
|
||||
|
||||
freq = None #: Frequency (float)
|
||||
|
||||
|
||||
def __init__(self, rxList, freq):
|
||||
|
||||
self.freq = float(freq)
|
||||
FDEMBaseSrc.__init__(self, rxList)
|
||||
|
||||
# 1D sources
|
||||
class polxy_1DhomotD(BaseMTSrc):
|
||||
"""
|
||||
MT source for both polarizations (x and y) for the total Domain.
|
||||
|
||||
It calculates fields calculated based on conditions on the boundary of the domain.
|
||||
"""
|
||||
def __init__(self, rxList, freq):
|
||||
BaseMTSrc.__init__(self, rxList, freq)
|
||||
|
||||
|
||||
# TODO: need to add the primary fields calc and source terms into the problem.
|
||||
|
||||
# Need to implement such that it works for all dims.
|
||||
class polxy_1Dprimary(BaseMTSrc):
|
||||
"""
|
||||
MT source for both polarizations (x and y) given a 1D primary models.
|
||||
It assigns fields calculated from the 1D model as fields in the full space of the problem.
|
||||
"""
|
||||
def __init__(self, rxList, freq):
|
||||
# assert mkvc(self.mesh.hz.shape,1) == mkvc(sigma1d.shape,1),'The number of values in the 1D background model does not match the number of vertical cells (hz).'
|
||||
self.sigma1d = None
|
||||
BaseMTSrc.__init__(self, rxList, freq)
|
||||
# Hidden property of the ePrimary
|
||||
self._ePrimary = None
|
||||
|
||||
def ePrimary(self,problem):
|
||||
# Get primary fields for both polarizations
|
||||
if self.sigma1d is None:
|
||||
# Set the sigma1d as the 1st column in the background model
|
||||
if len(problem._sigmaPrimary) == problem.mesh.nC:
|
||||
if problem.mesh.dim == 1:
|
||||
self.sigma1d = problem.mesh.r(problem._sigmaPrimary,'CC','CC','M')[:]
|
||||
elif problem.mesh.dim == 3:
|
||||
self.sigma1d = problem.mesh.r(problem._sigmaPrimary,'CC','CC','M')[0,0,:]
|
||||
# Or as the 1D model that matches the vertical cell number
|
||||
elif len(problem._sigmaPrimary) == problem.mesh.nCz:
|
||||
self.sigma1d = problem._sigmaPrimary
|
||||
|
||||
if self._ePrimary is None:
|
||||
self._ePrimary = homo1DModelSource(problem.mesh,self.freq,self.sigma1d)
|
||||
return self._ePrimary
|
||||
|
||||
def bPrimary(self,problem):
|
||||
# Project ePrimary to bPrimary
|
||||
# Satisfies the primary(background) field conditions
|
||||
if problem.mesh.dim == 1:
|
||||
C = problem.mesh.nodalGrad
|
||||
elif problem.mesh.dim == 3:
|
||||
C = problem.mesh.edgeCurl
|
||||
bBG_bp = (- C * self.ePrimary(problem) )*(1/( 1j*omega(self.freq) ))
|
||||
return bBG_bp
|
||||
|
||||
def S_e(self,problem):
|
||||
"""
|
||||
Get the electrical field source
|
||||
"""
|
||||
e_p = self.ePrimary(problem)
|
||||
Map_sigma_p = Maps.Vertical1DMap(problem.mesh)
|
||||
sigma_p = Map_sigma_p._transform(self.sigma1d)
|
||||
# Make mass matrix
|
||||
# Note: M(sig) - M(sig_p) = M(sig - sig_p)
|
||||
# Need to deal with the edge/face discrepencies between 1d/2d/3d
|
||||
if problem.mesh.dim == 1:
|
||||
Mesigma = problem.mesh.getFaceInnerProduct(problem.curModel.sigma)
|
||||
Mesigma_p = problem.mesh.getFaceInnerProduct(sigma_p)
|
||||
if problem.mesh.dim == 2:
|
||||
pass
|
||||
if problem.mesh.dim == 3:
|
||||
Mesigma = problem.MeSigma
|
||||
Mesigma_p = problem.mesh.getEdgeInnerProduct(sigma_p)
|
||||
return (Mesigma - Mesigma_p) * e_p
|
||||
|
||||
def S_eDeriv_m(self, problem, v, adjoint = False):
|
||||
'''
|
||||
Get the derivative of S_e wrt to sigma (m)
|
||||
'''
|
||||
# Need to deal with
|
||||
if problem.mesh.dim == 1:
|
||||
# Need to use the faceInnerProduct
|
||||
MsigmaDeriv = problem.mesh.getFaceInnerProductDeriv(problem.curModel.sigma)(self.ePrimary(problem)[:,1]) * problem.curModel.sigmaDeriv
|
||||
# MsigmaDeriv = ( MsigmaDeriv * MsigmaDeriv.T)**2
|
||||
if problem.mesh.dim == 2:
|
||||
pass
|
||||
if problem.mesh.dim == 3:
|
||||
# Need to take the derivative of both u_px and u_py
|
||||
ePri = self.ePrimary(problem)
|
||||
# MsigmaDeriv = problem.MeSigmaDeriv(ePri[:,0]) + problem.MeSigmaDeriv(ePri[:,1])
|
||||
# MsigmaDeriv = problem.MeSigmaDeriv(np.sum(ePri,axis=1))
|
||||
if adjoint:
|
||||
return sp.hstack(( problem.MeSigmaDeriv(ePri[:,0]).T, problem.MeSigmaDeriv(ePri[:,1]).T ))*v
|
||||
else:
|
||||
return np.hstack(( mkvc(problem.MeSigmaDeriv(ePri[:,0]) * v,2), mkvc(problem.MeSigmaDeriv(ePri[:,1])*v,2) ))
|
||||
if adjoint:
|
||||
#
|
||||
return MsigmaDeriv.T * v
|
||||
else:
|
||||
# v should be nC size
|
||||
return MsigmaDeriv * v
|
||||
|
||||
class polxy_3Dprimary(BaseMTSrc):
|
||||
"""
|
||||
MT source for both polarizations (x and y) given a 3D primary model. It assigns fields calculated from the 1D model
|
||||
as fields in the full space of the problem.
|
||||
"""
|
||||
def __init__(self, rxList, freq):
|
||||
# assert mkvc(self.mesh.hz.shape,1) == mkvc(sigma1d.shape,1),'The number of values in the 1D background model does not match the number of vertical cells (hz).'
|
||||
self.sigmaPrimary = None
|
||||
BaseMTSrc.__init__(self, rxList, freq)
|
||||
# Hidden property of the ePrimary
|
||||
self._ePrimary = None
|
||||
|
||||
def ePrimary(self,problem):
|
||||
# Get primary fields for both polarizations
|
||||
self.sigmaPrimary = problem._sigmaPrimary
|
||||
|
||||
if self._ePrimary is None:
|
||||
self._ePrimary = homo3DModelSource(problem.mesh,self.sigmaPrimary,self.freq)
|
||||
return self._ePrimary
|
||||
|
||||
def bPrimary(self,problem):
|
||||
# Project ePrimary to bPrimary
|
||||
# Satisfies the primary(background) field conditions
|
||||
if problem.mesh.dim == 1:
|
||||
C = problem.mesh.nodalGrad
|
||||
elif problem.mesh.dim == 3:
|
||||
C = problem.mesh.edgeCurl
|
||||
bBG_bp = (- C * self.ePrimary(problem) )*(1/( 1j*omega(self.freq) ))
|
||||
return bBG_bp
|
||||
|
||||
def S_e(self,problem):
|
||||
"""
|
||||
Get the electrical field source
|
||||
"""
|
||||
e_p = self.ePrimary(problem)
|
||||
Map_sigma_p = Maps.Vertical1DMap(problem.mesh)
|
||||
sigma_p = Map_sigma_p._transform(self.sigma1d)
|
||||
# Make mass matrix
|
||||
# Note: M(sig) - M(sig_p) = M(sig - sig_p)
|
||||
# Need to deal with the edge/face discrepencies between 1d/2d/3d
|
||||
if problem.mesh.dim == 1:
|
||||
Mesigma = problem.mesh.getFaceInnerProduct(problem.curModel.sigma)
|
||||
Mesigma_p = problem.mesh.getFaceInnerProduct(sigma_p)
|
||||
if problem.mesh.dim == 2:
|
||||
pass
|
||||
if problem.mesh.dim == 3:
|
||||
Mesigma = problem.MeSigma
|
||||
Mesigma_p = problem.mesh.getEdgeInnerProduct(sigma_p)
|
||||
return (Mesigma - Mesigma_p) * e_p
|
||||
|
||||
def S_eDeriv_m(self, problem, v, adjoint = False):
|
||||
'''
|
||||
Get the derivative of S_e wrt to sigma (m)
|
||||
'''
|
||||
# Need to deal with
|
||||
if problem.mesh.dim == 1:
|
||||
# Need to use the faceInnerProduct
|
||||
MsigmaDeriv = problem.mesh.getFaceInnerProductDeriv(problem.curModel.sigma)(self.ePrimary(problem)[:,1]) * problem.curModel.sigmaDeriv
|
||||
# MsigmaDeriv = ( MsigmaDeriv * MsigmaDeriv.T)**2
|
||||
if problem.mesh.dim == 2:
|
||||
pass
|
||||
if problem.mesh.dim == 3:
|
||||
# Need to take the derivative of both u_px and u_py
|
||||
ePri = self.ePrimary(problem)
|
||||
# MsigmaDeriv = problem.MeSigmaDeriv(ePri[:,0]) + problem.MeSigmaDeriv(ePri[:,1])
|
||||
# MsigmaDeriv = problem.MeSigmaDeriv(np.sum(ePri,axis=1))
|
||||
if adjoint:
|
||||
return sp.hstack(( problem.MeSigmaDeriv(ePri[:,0]).T, problem.MeSigmaDeriv(ePri[:,1]).T ))*v
|
||||
else:
|
||||
return np.hstack(( mkvc(problem.MeSigmaDeriv(ePri[:,0]) * v,2), mkvc(problem.MeSigmaDeriv(ePri[:,1])*v,2) ))
|
||||
if adjoint:
|
||||
#
|
||||
return MsigmaDeriv.T * v
|
||||
else:
|
||||
# v should be nC size
|
||||
return MsigmaDeriv * v
|
||||
@@ -1,562 +0,0 @@
|
||||
from SimPEG import Survey as SimPEGsurvey, Utils, Problem, Maps, np, sp, mkvc
|
||||
from SimPEG.EM.FDEM.SrcFDEM import BaseSrc as FDEMBaseSrc
|
||||
from SimPEG.EM.Utils import omega
|
||||
from scipy.constants import mu_0
|
||||
from numpy.lib import recfunctions as recFunc
|
||||
from Utils import rec2ndarr
|
||||
import SrcMT
|
||||
import sys
|
||||
|
||||
#################
|
||||
### Receivers ###
|
||||
#################
|
||||
class Rx(SimPEGsurvey.BaseRx):
|
||||
"""
|
||||
Class that defines natural source receivers.
|
||||
|
||||
See knownRxTypes for types of allowed receivers.
|
||||
|
||||
:param ndArray locs: Locations of the receivers
|
||||
:param str rxType: The type of receiver
|
||||
|
||||
"""
|
||||
|
||||
knownRxTypes = {
|
||||
# 3D impedance
|
||||
'zxxr':['Z3D', 'real'],
|
||||
'zxyr':['Z3D', 'real'],
|
||||
'zyxr':['Z3D', 'real'],
|
||||
'zyyr':['Z3D', 'real'],
|
||||
'zxxi':['Z3D', 'imag'],
|
||||
'zxyi':['Z3D', 'imag'],
|
||||
'zyxi':['Z3D', 'imag'],
|
||||
'zyyi':['Z3D', 'imag'],
|
||||
# 2D impedance
|
||||
# TODO:
|
||||
# 1D impedance
|
||||
'z1dr':['Z1D', 'real'],
|
||||
'z1di':['Z1D', 'imag'],
|
||||
# Tipper
|
||||
'tzxr':['T3D','real'],
|
||||
'tzxi':['T3D','imag'],
|
||||
'tzyr':['T3D','real'],
|
||||
'tzyi':['T3D','imag']
|
||||
}
|
||||
# TODO: Have locs as single or double coordinates for both or numerator and denominator separately, respectively.
|
||||
def __init__(self, locs, rxType):
|
||||
SimPEGsurvey.BaseRx.__init__(self, locs, rxType)
|
||||
|
||||
@property
|
||||
def projType(self):
|
||||
"""
|
||||
Receiver type for projection.
|
||||
|
||||
"""
|
||||
return self.knownRxTypes[self.rxType][0]
|
||||
|
||||
@property
|
||||
def projComp(self):
|
||||
"""Component projection (real/imag)"""
|
||||
return self.knownRxTypes[self.rxType][1]
|
||||
|
||||
def eval(self, src, mesh, f):
|
||||
'''
|
||||
Project the fields to natural source data.
|
||||
|
||||
:param SrcMT src: The source of the fields to project
|
||||
:param SimPEG.Mesh mesh:
|
||||
:param FieldsMT f: Natural source fields object to project
|
||||
'''
|
||||
|
||||
## NOTE: Assumes that e is on t
|
||||
if self.projType is 'Z1D':
|
||||
Pex = mesh.getInterpolationMat(self.locs[:,-1],'Fx')
|
||||
Pbx = mesh.getInterpolationMat(self.locs[:,-1],'Ex')
|
||||
ex = Pex*mkvc(f[src,'e_1d'],2)
|
||||
bx = Pbx*mkvc(f[src,'b_1d'],2)/mu_0
|
||||
# Note: Has a minus sign in front, to comply with quadrant calculations.
|
||||
# Can be derived from zyx case for the 3D case.
|
||||
f_part_complex = -ex/bx
|
||||
# elif self.projType is 'Z2D':
|
||||
elif self.projType is 'Z3D':
|
||||
## NOTE: Assumes that e is on edges and b on the faces. Need to generalize that or use a prop of fields to determine that.
|
||||
if self.locs.ndim == 3:
|
||||
eFLocs = self.locs[:,:,0]
|
||||
bFLocs = self.locs[:,:,1]
|
||||
else:
|
||||
eFLocs = self.locs
|
||||
bFLocs = self.locs
|
||||
# Get the projection
|
||||
Pex = mesh.getInterpolationMat(eFLocs,'Ex')
|
||||
Pey = mesh.getInterpolationMat(eFLocs,'Ey')
|
||||
Pbx = mesh.getInterpolationMat(bFLocs,'Fx')
|
||||
Pby = mesh.getInterpolationMat(bFLocs,'Fy')
|
||||
# Get the fields at location
|
||||
# px: x-polaration and py: y-polaration.
|
||||
ex_px = Pex*f[src,'e_px']
|
||||
ey_px = Pey*f[src,'e_px']
|
||||
ex_py = Pex*f[src,'e_py']
|
||||
ey_py = Pey*f[src,'e_py']
|
||||
hx_px = Pbx*f[src,'b_px']/mu_0
|
||||
hy_px = Pby*f[src,'b_px']/mu_0
|
||||
hx_py = Pbx*f[src,'b_py']/mu_0
|
||||
hy_py = Pby*f[src,'b_py']/mu_0
|
||||
# Make the complex data
|
||||
if 'zxx' in self.rxType:
|
||||
f_part_complex = ( ex_px*hy_py - ex_py*hy_px)/(hx_px*hy_py - hx_py*hy_px)
|
||||
elif 'zxy' in self.rxType:
|
||||
f_part_complex = (-ex_px*hx_py + ex_py*hx_px)/(hx_px*hy_py - hx_py*hy_px)
|
||||
elif 'zyx' in self.rxType:
|
||||
f_part_complex = ( ey_px*hy_py - ey_py*hy_px)/(hx_px*hy_py - hx_py*hy_px)
|
||||
elif 'zyy' in self.rxType:
|
||||
f_part_complex = (-ey_px*hx_py + ey_py*hx_px)/(hx_px*hy_py - hx_py*hy_px)
|
||||
elif self.projType is 'T3D':
|
||||
if self.locs.ndim == 3:
|
||||
horLoc = self.locs[:,:,0]
|
||||
vertLoc = self.locs[:,:,1]
|
||||
else:
|
||||
horLoc = self.locs
|
||||
vertLoc = self.locs
|
||||
Pbx = mesh.getInterpolationMat(horLoc,'Fx')
|
||||
Pby = mesh.getInterpolationMat(horLoc,'Fy')
|
||||
Pbz = mesh.getInterpolationMat(vertLoc,'Fz')
|
||||
bx_px = Pbx*f[src,'b_px']
|
||||
by_px = Pby*f[src,'b_px']
|
||||
bz_px = Pbz*f[src,'b_px']
|
||||
bx_py = Pbx*f[src,'b_py']
|
||||
by_py = Pby*f[src,'b_py']
|
||||
bz_py = Pbz*f[src,'b_py']
|
||||
if 'tzx' in self.rxType:
|
||||
f_part_complex = (- by_px*bz_py + by_py*bz_px)/(bx_px*by_py - bx_py*by_px)
|
||||
if 'tzy' in self.rxType:
|
||||
f_part_complex = ( bx_px*bz_py - bx_py*bz_px)/(bx_px*by_py - bx_py*by_px)
|
||||
|
||||
else:
|
||||
NotImplementedError('Projection of {:s} receiver type is not implemented.'.format(self.rxType))
|
||||
# Get the real or imag component
|
||||
real_or_imag = self.projComp
|
||||
f_part = getattr(f_part_complex, real_or_imag)
|
||||
# print f_part
|
||||
return f_part
|
||||
|
||||
def evalDeriv(self, src, mesh, f, v, adjoint=False):
|
||||
"""
|
||||
The derivative of the projection wrt u
|
||||
|
||||
:param MTsrc src: MT source
|
||||
:param TensorMesh mesh: Mesh defining the topology of the problem
|
||||
:param MTfields f: MT fields object of the source
|
||||
:param numpy.ndarray v: Random vector of size
|
||||
"""
|
||||
|
||||
real_or_imag = self.projComp
|
||||
|
||||
if not adjoint:
|
||||
if self.projType is 'Z1D':
|
||||
Pex = mesh.getInterpolationMat(self.locs[:,-1],'Fx')
|
||||
Pbx = mesh.getInterpolationMat(self.locs[:,-1],'Ex')
|
||||
# ex = Pex*mkvc(f[src,'e_1d'],2)
|
||||
# bx = Pbx*mkvc(f[src,'b_1d'],2)/mu_0
|
||||
dP_de = -mkvc(Utils.sdiag(1./(Pbx*mkvc(f[src,'b_1d'],2)/mu_0))*(Pex*v),2)
|
||||
dP_db = mkvc( Utils.sdiag(Pex*mkvc(f[src,'e_1d'],2))*(Utils.sdiag(1./(Pbx*mkvc(f[src,'b_1d'],2)/mu_0)).T*Utils.sdiag(1./(Pbx*mkvc(f[src,'b_1d'],2)/mu_0)))*(Pbx*f._bDeriv_u(src,v)/mu_0),2)
|
||||
PDeriv_complex = np.sum(np.hstack((dP_de,dP_db)),1)
|
||||
elif self.projType is 'Z2D':
|
||||
raise NotImplementedError('Has not been implement for 2D impedance tensor')
|
||||
elif self.projType is 'Z3D':
|
||||
if self.locs.ndim == 3:
|
||||
eFLocs = self.locs[:,:,0]
|
||||
bFLocs = self.locs[:,:,1]
|
||||
else:
|
||||
eFLocs = self.locs
|
||||
bFLocs = self.locs
|
||||
# Get the projection
|
||||
Pex = mesh.getInterpolationMat(eFLocs,'Ex')
|
||||
Pey = mesh.getInterpolationMat(eFLocs,'Ey')
|
||||
Pbx = mesh.getInterpolationMat(bFLocs,'Fx')
|
||||
Pby = mesh.getInterpolationMat(bFLocs,'Fy')
|
||||
# Get the fields at location
|
||||
# px: x-polaration and py: y-polaration.
|
||||
ex_px = Pex*f[src,'e_px']
|
||||
ey_px = Pey*f[src,'e_px']
|
||||
ex_py = Pex*f[src,'e_py']
|
||||
ey_py = Pey*f[src,'e_py']
|
||||
hx_px = Pbx*f[src,'b_px']/mu_0
|
||||
hy_px = Pby*f[src,'b_px']/mu_0
|
||||
hx_py = Pbx*f[src,'b_py']/mu_0
|
||||
hy_py = Pby*f[src,'b_py']/mu_0
|
||||
# Derivatives as lambda functions
|
||||
# The size of the diratives should be nD,nU
|
||||
ex_px_u = lambda vec: Pex*f._e_pxDeriv_u(src,vec)
|
||||
ey_px_u = lambda vec: Pey*f._e_pxDeriv_u(src,vec)
|
||||
ex_py_u = lambda vec: Pex*f._e_pyDeriv_u(src,vec)
|
||||
ey_py_u = lambda vec: Pey*f._e_pyDeriv_u(src,vec)
|
||||
# NOTE: Think b_p?Deriv_u should return a 2*nF size matrix
|
||||
hx_px_u = lambda vec: Pbx*f._b_pxDeriv_u(src,vec)/mu_0
|
||||
hy_px_u = lambda vec: Pby*f._b_pxDeriv_u(src,vec)/mu_0
|
||||
hx_py_u = lambda vec: Pbx*f._b_pyDeriv_u(src,vec)/mu_0
|
||||
hy_py_u = lambda vec: Pby*f._b_pyDeriv_u(src,vec)/mu_0
|
||||
# Update the input vector
|
||||
sDiag = lambda t: Utils.sdiag(mkvc(t,2))
|
||||
# Define the components of the derivative
|
||||
Hd = sDiag(1./(sDiag(hx_px)*hy_py - sDiag(hx_py)*hy_px))
|
||||
Hd_uV = sDiag(hy_py)*hx_px_u(v) + sDiag(hx_px)*hy_py_u(v) - sDiag(hx_py)*hy_px_u(v) - sDiag(hy_px)*hx_py_u(v)
|
||||
# Calculate components
|
||||
if 'zxx' in self.rxType:
|
||||
Zij = sDiag(Hd*( sDiag(ex_px)*hy_py - sDiag(ex_py)*hy_px ))
|
||||
ZijN_uV = sDiag(hy_py)*ex_px_u(v) + sDiag(ex_px)*hy_py_u(v) - sDiag(ex_py)*hy_px_u(v) - sDiag(hy_px)*ex_py_u(v)
|
||||
elif 'zxy' in self.rxType:
|
||||
Zij = sDiag(Hd*(-sDiag(ex_px)*hx_py + sDiag(ex_py)*hx_px ))
|
||||
ZijN_uV = -sDiag(hx_py)*ex_px_u(v) - sDiag(ex_px)*hx_py_u(v) + sDiag(ex_py)*hx_px_u(v) + sDiag(hx_px)*ex_py_u(v)
|
||||
elif 'zyx' in self.rxType:
|
||||
Zij = sDiag(Hd*( sDiag(ey_px)*hy_py - sDiag(ey_py)*hy_px ))
|
||||
ZijN_uV = sDiag(hy_py)*ey_px_u(v) + sDiag(ey_px)*hy_py_u(v) - sDiag(ey_py)*hy_px_u(v) - sDiag(hy_px)*ey_py_u(v)
|
||||
elif 'zyy' in self.rxType:
|
||||
Zij = sDiag(Hd*(-sDiag(ey_px)*hx_py + sDiag(ey_py)*hx_px ))
|
||||
ZijN_uV = -sDiag(hx_py)*ey_px_u(v) - sDiag(ey_px)*hx_py_u(v) + sDiag(ey_py)*hx_px_u(v) + sDiag(hx_px)*ey_py_u(v)
|
||||
|
||||
# Calculate the complex derivative
|
||||
PDeriv_complex = Hd * (ZijN_uV - Zij * Hd_uV )
|
||||
elif self.projType is 'T3D':
|
||||
if self.locs.ndim == 3:
|
||||
eFLocs = self.locs[:,:,0]
|
||||
bFLocs = self.locs[:,:,1]
|
||||
else:
|
||||
eFLocs = self.locs
|
||||
bFLocs = self.locs
|
||||
# Get the projection
|
||||
Pbx = mesh.getInterpolationMat(bFLocs,'Fx')
|
||||
Pby = mesh.getInterpolationMat(bFLocs,'Fy')
|
||||
Pbz = mesh.getInterpolationMat(bFLocs,'Fz')
|
||||
|
||||
# Get the fields at location
|
||||
# px: x-polaration and py: y-polaration.
|
||||
bx_px = Pbx*f[src,'b_px']
|
||||
by_px = Pby*f[src,'b_px']
|
||||
bz_px = Pbz*f[src,'b_px']
|
||||
bx_py = Pbx*f[src,'b_py']
|
||||
by_py = Pby*f[src,'b_py']
|
||||
bz_py = Pbz*f[src,'b_py']
|
||||
# Derivatives as lambda functions
|
||||
# NOTE: Think b_p?Deriv_u should return a 2*nF size matrix
|
||||
bx_px_u = lambda vec: Pbx*f._b_pxDeriv_u(src,vec)
|
||||
by_px_u = lambda vec: Pby*f._b_pxDeriv_u(src,vec)
|
||||
bz_px_u = lambda vec: Pbz*f._b_pxDeriv_u(src,vec)
|
||||
bx_py_u = lambda vec: Pbx*f._b_pyDeriv_u(src,vec)
|
||||
by_py_u = lambda vec: Pby*f._b_pyDeriv_u(src,vec)
|
||||
bz_py_u = lambda vec: Pbz*f._b_pyDeriv_u(src,vec)
|
||||
# Update the input vector
|
||||
sDiag = lambda t: Utils.sdiag(mkvc(t,2))
|
||||
# Define the components of the derivative
|
||||
Hd = sDiag(1./(sDiag(bx_px)*by_py - sDiag(bx_py)*by_px))
|
||||
Hd_uV = sDiag(by_py)*bx_px_u(v) + sDiag(bx_px)*by_py_u(v) - sDiag(bx_py)*by_px_u(v) - sDiag(by_px)*bx_py_u(v)
|
||||
if 'tzx' in self.rxType:
|
||||
Tij = sDiag(Hd*( - sDiag(by_px)*bz_py + sDiag(by_py)*bz_px ))
|
||||
TijN_uV = -sDiag(by_px)*bz_py_u(v) - sDiag(bz_py)*by_px_u(v) + sDiag(by_py)*bz_px_u(v) + sDiag(bz_px)*by_py_u(v)
|
||||
elif 'tzy' in self.rxType:
|
||||
Tij = sDiag(Hd*( sDiag(bx_px)*bz_py - sDiag(bx_py)*bz_px ))
|
||||
TijN_uV = sDiag(bz_py)*bx_px_u(v) + sDiag(bx_px)*bz_py_u(v) - sDiag(bx_py)*bz_px_u(v) - sDiag(bz_px)*bx_py_u(v)
|
||||
# Calculate the complex derivative
|
||||
PDeriv_complex = Hd * (TijN_uV - Tij * Hd_uV )
|
||||
|
||||
# Extract the real number for the real/imag components.
|
||||
Pv = np.array(getattr(PDeriv_complex, real_or_imag))
|
||||
elif adjoint:
|
||||
# Note: The v vector is real and the return should be complex
|
||||
if self.projType is 'Z1D':
|
||||
Pex = mesh.getInterpolationMat(self.locs[:,-1],'Fx')
|
||||
Pbx = mesh.getInterpolationMat(self.locs[:,-1],'Ex')
|
||||
# ex = Pex*mkvc(f[src,'e_1d'],2)
|
||||
# bx = Pbx*mkvc(f[src,'b_1d'],2)/mu_0
|
||||
dP_deTv = -mkvc(Pex.T*Utils.sdiag(1./(Pbx*mkvc(f[src,'b_1d'],2)/mu_0)).T*v,2)
|
||||
db_duv = Pbx.T/mu_0*Utils.sdiag(1./(Pbx*mkvc(f[src,'b_1d'],2)/mu_0))*(Utils.sdiag(1./(Pbx*mkvc(f[src,'b_1d'],2)/mu_0))).T*Utils.sdiag(Pex*mkvc(f[src,'e_1d'],2)).T*v
|
||||
dP_dbTv = mkvc(f._bDeriv_u(src,db_duv,adjoint=True),2)
|
||||
PDeriv_real = np.sum(np.hstack((dP_deTv,dP_dbTv)),1)
|
||||
elif self.projType is 'Z2D':
|
||||
raise NotImplementedError('Has not be implement for 2D impedance tensor')
|
||||
elif self.projType is 'Z3D':
|
||||
if self.locs.ndim == 3:
|
||||
eFLocs = self.locs[:,:,0]
|
||||
bFLocs = self.locs[:,:,1]
|
||||
else:
|
||||
eFLocs = self.locs
|
||||
bFLocs = self.locs
|
||||
# Get the projection
|
||||
Pex = mesh.getInterpolationMat(eFLocs,'Ex')
|
||||
Pey = mesh.getInterpolationMat(eFLocs,'Ey')
|
||||
Pbx = mesh.getInterpolationMat(bFLocs,'Fx')
|
||||
Pby = mesh.getInterpolationMat(bFLocs,'Fy')
|
||||
# Get the fields at location
|
||||
# px: x-polaration and py: y-polaration.
|
||||
aex_px = mkvc(mkvc(f[src,'e_px'],2).T*Pex.T)
|
||||
aey_px = mkvc(mkvc(f[src,'e_px'],2).T*Pey.T)
|
||||
aex_py = mkvc(mkvc(f[src,'e_py'],2).T*Pex.T)
|
||||
aey_py = mkvc(mkvc(f[src,'e_py'],2).T*Pey.T)
|
||||
ahx_px = mkvc(mkvc(f[src,'b_px'],2).T/mu_0*Pbx.T)
|
||||
ahy_px = mkvc(mkvc(f[src,'b_px'],2).T/mu_0*Pby.T)
|
||||
ahx_py = mkvc(mkvc(f[src,'b_py'],2).T/mu_0*Pbx.T)
|
||||
ahy_py = mkvc(mkvc(f[src,'b_py'],2).T/mu_0*Pby.T)
|
||||
# Derivatives as lambda functions
|
||||
aex_px_u = lambda vec: f._e_pxDeriv_u(src,Pex.T*vec,adjoint=True)
|
||||
aey_px_u = lambda vec: f._e_pxDeriv_u(src,Pey.T*vec,adjoint=True)
|
||||
aex_py_u = lambda vec: f._e_pyDeriv_u(src,Pex.T*vec,adjoint=True)
|
||||
aey_py_u = lambda vec: f._e_pyDeriv_u(src,Pey.T*vec,adjoint=True)
|
||||
ahx_px_u = lambda vec: f._b_pxDeriv_u(src,Pbx.T*vec,adjoint=True)/mu_0
|
||||
ahy_px_u = lambda vec: f._b_pxDeriv_u(src,Pby.T*vec,adjoint=True)/mu_0
|
||||
ahx_py_u = lambda vec: f._b_pyDeriv_u(src,Pbx.T*vec,adjoint=True)/mu_0
|
||||
ahy_py_u = lambda vec: f._b_pyDeriv_u(src,Pby.T*vec,adjoint=True)/mu_0
|
||||
|
||||
# Update the input vector
|
||||
# Define shortcuts
|
||||
sDiag = lambda t: Utils.sdiag(mkvc(t,2))
|
||||
sVec = lambda t: Utils.sp.csr_matrix(mkvc(t,2))
|
||||
# Define the components of the derivative
|
||||
aHd = sDiag(1./(sDiag(ahx_px)*ahy_py - sDiag(ahx_py)*ahy_px))
|
||||
aHd_uV = lambda x: ahx_px_u(sDiag(ahy_py)*x) + ahx_px_u(sDiag(ahy_py)*x) - ahy_px_u(sDiag(ahx_py)*x) - ahx_py_u(sDiag(ahy_px)*x)
|
||||
# Need to fix this to reflect the adjoint
|
||||
if 'zxx' in self.rxType:
|
||||
Zij = sDiag(aHd*( sDiag(ahy_py)*aex_px - sDiag(ahy_px)*aex_py))
|
||||
ZijN_uV = lambda x: aex_px_u(sDiag(ahy_py)*x) + ahy_py_u(sDiag(aex_px)*x) - ahy_px_u(sDiag(aex_py)*x) - aex_py_u(sDiag(ahy_px)*x)
|
||||
elif 'zxy' in self.rxType:
|
||||
Zij = sDiag(aHd*(-sDiag(ahx_py)*aex_px + sDiag(ahx_px)*aex_py))
|
||||
ZijN_uV = lambda x:-aex_px_u(sDiag(ahx_py)*x) - ahx_py_u(sDiag(aex_px)*x) + ahx_px_u(sDiag(aex_py)*x) + aex_py_u(sDiag(ahx_px)*x)
|
||||
elif 'zyx' in self.rxType:
|
||||
Zij = sDiag(aHd*( sDiag(ahy_py)*aey_px - sDiag(ahy_px)*aey_py))
|
||||
ZijN_uV = lambda x: aey_px_u(sDiag(ahy_py)*x) + ahy_py_u(sDiag(aey_px)*x) - ahy_px_u(sDiag(aey_py)*x) - aey_py_u(sDiag(ahy_px)*x)
|
||||
elif 'zyy' in self.rxType:
|
||||
Zij = sDiag(aHd*(-sDiag(ahx_py)*aey_px + sDiag(ahx_px)*aey_py))
|
||||
ZijN_uV = lambda x:-aey_px_u(sDiag(ahx_py)*x) - ahx_py_u(sDiag(aey_px)*x) + ahx_px_u(sDiag(aey_py)*x) + aey_py_u(sDiag(ahx_px)*x)
|
||||
|
||||
# Calculate the complex derivative
|
||||
PDeriv_real = ZijN_uV(aHd*v) - aHd_uV(Zij.T*aHd*v)#
|
||||
# NOTE: Need to reshape the output to go from 2*nU array to a (nU,2) matrix for each polarization
|
||||
# PDeriv_real = np.hstack((mkvc(PDeriv_real[:len(PDeriv_real)/2],2),mkvc(PDeriv_real[len(PDeriv_real)/2::],2)))
|
||||
PDeriv_real = PDeriv_real.reshape((2,mesh.nE)).T
|
||||
|
||||
elif self.projType is 'T3D':
|
||||
if self.locs.ndim == 3:
|
||||
bFLocs = self.locs[:,:,1]
|
||||
else:
|
||||
bFLocs = self.locs
|
||||
# Get the projection
|
||||
Pbx = mesh.getInterpolationMat(bFLocs,'Fx')
|
||||
Pby = mesh.getInterpolationMat(bFLocs,'Fy')
|
||||
Pbz = mesh.getInterpolationMat(bFLocs,'Fz')
|
||||
# Get the fields at location
|
||||
# px: x-polaration and py: y-polaration.
|
||||
abx_px = mkvc(mkvc(f[src,'b_px'],2).T*Pbx.T)
|
||||
aby_px = mkvc(mkvc(f[src,'b_px'],2).T*Pby.T)
|
||||
abz_px = mkvc(mkvc(f[src,'b_px'],2).T*Pbz.T)
|
||||
abx_py = mkvc(mkvc(f[src,'b_py'],2).T*Pbx.T)
|
||||
aby_py = mkvc(mkvc(f[src,'b_py'],2).T*Pby.T)
|
||||
abz_py = mkvc(mkvc(f[src,'b_py'],2).T*Pbz.T)
|
||||
# Derivatives as lambda functions
|
||||
abx_px_u = lambda vec: f._b_pxDeriv_u(src,Pbx.T*vec,adjoint=True)
|
||||
aby_px_u = lambda vec: f._b_pxDeriv_u(src,Pby.T*vec,adjoint=True)
|
||||
abz_px_u = lambda vec: f._b_pxDeriv_u(src,Pbz.T*vec,adjoint=True)
|
||||
abx_py_u = lambda vec: f._b_pyDeriv_u(src,Pbx.T*vec,adjoint=True)
|
||||
aby_py_u = lambda vec: f._b_pyDeriv_u(src,Pby.T*vec,adjoint=True)
|
||||
abz_py_u = lambda vec: f._b_pyDeriv_u(src,Pbz.T*vec,adjoint=True)
|
||||
|
||||
# Update the input vector
|
||||
# Define shortcuts
|
||||
sDiag = lambda t: Utils.sdiag(mkvc(t,2))
|
||||
sVec = lambda t: Utils.sp.csr_matrix(mkvc(t,2))
|
||||
# Define the components of the derivative
|
||||
aHd = sDiag(1./(sDiag(abx_px)*aby_py - sDiag(abx_py)*aby_px))
|
||||
aHd_uV = lambda x: abx_px_u(sDiag(aby_py)*x) + abx_px_u(sDiag(aby_py)*x) - aby_px_u(sDiag(abx_py)*x) - abx_py_u(sDiag(aby_px)*x)
|
||||
# Need to fix this to reflect the adjoint
|
||||
if 'tzx' in self.rxType:
|
||||
Tij = sDiag(aHd*( -sDiag(abz_py)*aby_px + sDiag(abz_px)*aby_py))
|
||||
TijN_uV = lambda x: -abz_py_u(sDiag(aby_px)*x) - aby_px_u(sDiag(abz_py)*x) + aby_py_u(sDiag(abz_px)*x) + abz_px_u(sDiag(aby_py)*x)
|
||||
elif 'tzy' in self.rxType:
|
||||
Tij = sDiag(aHd*( sDiag(abz_py)*abx_px - sDiag(abz_px)*abx_py))
|
||||
TijN_uV = lambda x: abx_px_u(sDiag(abz_py)*x) + abz_py_u(sDiag(abx_px)*x) - abx_py_u(sDiag(abz_px)*x) - abz_px_u(sDiag(abx_py)*x)
|
||||
# Calculate the complex derivative
|
||||
PDeriv_real = TijN_uV(aHd*v) - aHd_uV(Tij.T*aHd*v)#
|
||||
# NOTE: Need to reshape the output to go from 2*nU array to a (nU,2) matrix for each polarization
|
||||
# PDeriv_real = np.hstack((mkvc(PDeriv_real[:len(PDeriv_real)/2],2),mkvc(PDeriv_real[len(PDeriv_real)/2::],2)))
|
||||
PDeriv_real = PDeriv_real.reshape((2,mesh.nE)).T
|
||||
# Extract the data
|
||||
if real_or_imag == 'imag':
|
||||
Pv = 1j*PDeriv_real
|
||||
elif real_or_imag == 'real':
|
||||
Pv = PDeriv_real.astype(complex)
|
||||
|
||||
|
||||
return Pv
|
||||
|
||||
#################
|
||||
### Survey ###
|
||||
#################
|
||||
class Survey(SimPEGsurvey.BaseSurvey):
|
||||
"""
|
||||
Survey class for MT. Contains all the sources associated with the survey.
|
||||
|
||||
:param list srcList: List of sources associated with the survey
|
||||
|
||||
"""
|
||||
srcPair = SrcMT.BaseMTSrc
|
||||
|
||||
def __init__(self, srcList, **kwargs):
|
||||
# Sort these by frequency
|
||||
self.srcList = srcList
|
||||
SimPEGsurvey.BaseSurvey.__init__(self, **kwargs)
|
||||
|
||||
_freqDict = {}
|
||||
for src in srcList:
|
||||
if src.freq not in _freqDict:
|
||||
_freqDict[src.freq] = []
|
||||
_freqDict[src.freq] += [src]
|
||||
|
||||
self._freqDict = _freqDict
|
||||
self._freqs = sorted([f for f in self._freqDict])
|
||||
|
||||
@property
|
||||
def freqs(self):
|
||||
"""Frequencies"""
|
||||
return self._freqs
|
||||
|
||||
@property
|
||||
def nFreq(self):
|
||||
"""Number of frequencies"""
|
||||
return len(self._freqDict)
|
||||
|
||||
# TODO: Rename to getSources
|
||||
def getSrcByFreq(self, freq):
|
||||
"""Returns the sources associated with a specific frequency."""
|
||||
assert freq in self._freqDict, "The requested frequency is not in this survey."
|
||||
return self._freqDict[freq]
|
||||
|
||||
def eval(self, f):
|
||||
data = Data(self)
|
||||
for src in self.srcList:
|
||||
sys.stdout.flush()
|
||||
for rx in src.rxList:
|
||||
data[src, rx] = rx.eval(src, self.mesh, f)
|
||||
return data
|
||||
|
||||
def evalDeriv(self, f):
|
||||
raise Exception('Use Transmitters to project fields deriv.')
|
||||
|
||||
#################
|
||||
### Data ###
|
||||
#################
|
||||
class Data(SimPEGsurvey.Data):
|
||||
'''
|
||||
Data class for MTdata. Stores the data vector indexed by the survey.
|
||||
|
||||
:param SimPEG survey object survey:
|
||||
:param v vector of the data in order matching of the survey
|
||||
|
||||
|
||||
'''
|
||||
def __init__(self, survey, v=None):
|
||||
# Pass the variables to the "parent" method
|
||||
SimPEGsurvey.Data.__init__(self, survey, v)
|
||||
|
||||
# # Import data
|
||||
# @classmethod
|
||||
# def fromEDIFiles():
|
||||
# pass
|
||||
|
||||
def toRecArray(self,returnType='RealImag'):
|
||||
'''
|
||||
Function that returns a numpy.recarray for a SimpegMT impedance data object.
|
||||
|
||||
:param str returnType: Switches between returning a rec array where the impedance is split to real and imaginary ('RealImag') or is a complex ('Complex')
|
||||
|
||||
'''
|
||||
|
||||
# Define the record fields
|
||||
dtRI = [('freq',float),('x',float),('y',float),('z',float),('zxxr',float),('zxxi',float),('zxyr',float),('zxyi',float),
|
||||
('zyxr',float),('zyxi',float),('zyyr',float),('zyyi',float),('tzxr',float),('tzxi',float),('tzyr',float),('tzyi',float)]
|
||||
dtCP = [('freq',float),('x',float),('y',float),('z',float),('zxx',complex),('zxy',complex),('zyx',complex),('zyy',complex),('tzx',complex),('tzy',complex)]
|
||||
impList = ['zxxr','zxxi','zxyr','zxyi','zyxr','zyxi','zyyr','zyyi']
|
||||
for src in self.survey.srcList:
|
||||
# Temp array for all the receivers of the source.
|
||||
# Note: needs to be written more generally, using diffterent rxTypes and not all the data at the locaitons
|
||||
# Assume the same locs for all RX
|
||||
locs = src.rxList[0].locs
|
||||
if locs.shape[1] == 1:
|
||||
locs = np.hstack((np.array([[0.0,0.0]]),locs))
|
||||
elif locs.shape[1] == 2:
|
||||
locs = np.hstack((np.array([[0.0]]),locs))
|
||||
tArrRec = np.concatenate((src.freq*np.ones((locs.shape[0],1)),locs,np.nan*np.ones((locs.shape[0],12))),axis=1).view(dtRI)
|
||||
# np.array([(src.freq,rx.locs[0,0],rx.locs[0,1],rx.locs[0,2],np.nan ,np.nan ,np.nan ,np.nan ,np.nan ,np.nan ,np.nan ,np.nan ) for rx in src.rxList],dtype=dtRI)
|
||||
# Get the type and the value for the DataMT object as a list
|
||||
typeList = [[rx.rxType.replace('z1d','zyx'),self[src,rx]] for rx in src.rxList]
|
||||
# Insert the values to the temp array
|
||||
for nr,(key,val) in enumerate(typeList):
|
||||
tArrRec[key] = mkvc(val,2)
|
||||
# Masked array
|
||||
mArrRec = np.ma.MaskedArray(rec2ndarr(tArrRec),mask=np.isnan(rec2ndarr(tArrRec))).view(dtype=tArrRec.dtype)
|
||||
# Unique freq and loc of the masked array
|
||||
uniFLmarr = np.unique(mArrRec[['freq','x','y','z']]).copy()
|
||||
|
||||
try:
|
||||
outTemp = recFunc.stack_arrays((outTemp,mArrRec))
|
||||
#outTemp = np.concatenate((outTemp,dataBlock),axis=0)
|
||||
except NameError as e:
|
||||
outTemp = mArrRec
|
||||
|
||||
if 'RealImag' in returnType:
|
||||
outArr = outTemp
|
||||
elif 'Complex' in returnType:
|
||||
# Add the real and imaginary to a complex number
|
||||
outArr = np.empty(outTemp.shape,dtype=dtCP)
|
||||
for comp in ['freq','x','y','z']:
|
||||
outArr[comp] = outTemp[comp].copy()
|
||||
for comp in ['zxx','zxy','zyx','zyy','tzx','tzy']:
|
||||
outArr[comp] = outTemp[comp+'r'].copy() + 1j*outTemp[comp+'i'].copy()
|
||||
else:
|
||||
raise NotImplementedError('{:s} is not implemented, as to be RealImag or Complex.')
|
||||
|
||||
# Return
|
||||
return outArr
|
||||
|
||||
@classmethod
|
||||
def fromRecArray(cls, recArray, srcType='primary'):
|
||||
"""
|
||||
Class method that reads in a numpy record array to MTdata object.
|
||||
|
||||
Only imports the impedance data.
|
||||
|
||||
"""
|
||||
if srcType=='primary':
|
||||
src = SrcMT.polxy_1Dprimary
|
||||
elif srcType=='total':
|
||||
src = SrcMT.polxy_1DhomotD
|
||||
else:
|
||||
raise NotImplementedError('{:s} is not a valid source type for MTdata')
|
||||
|
||||
# Find all the frequencies in recArray
|
||||
uniFreq = np.unique(recArray['freq'])
|
||||
srcList = []
|
||||
dataList = []
|
||||
for freq in uniFreq:
|
||||
# Initiate rxList
|
||||
rxList = []
|
||||
# Find that data for freq
|
||||
dFreq = recArray[recArray['freq'] == freq].copy()
|
||||
# Find the impedance rxTypes in the recArray.
|
||||
rxTypes = [ comp for comp in recArray.dtype.names if (len(comp)==4 or len(comp)==3) and 'z' in comp]
|
||||
for rxType in rxTypes:
|
||||
# Find index of not nan values in rxType
|
||||
notNaNind = ~np.isnan(dFreq[rxType])
|
||||
if np.any(notNaNind): # Make sure that there is any data to add.
|
||||
locs = rec2ndarr(dFreq[['x','y','z']][notNaNind].copy())
|
||||
if dFreq[rxType].dtype.name in 'complex128':
|
||||
rxList.append(Rx(locs,rxType+'r'))
|
||||
dataList.append(dFreq[rxType][notNaNind].real.copy())
|
||||
rxList.append(Rx(locs,rxType+'i'))
|
||||
dataList.append(dFreq[rxType][notNaNind].imag.copy())
|
||||
else:
|
||||
rxList.append(Rx(locs,rxType))
|
||||
dataList.append(dFreq[rxType][notNaNind].copy())
|
||||
srcList.append(src(rxList,freq))
|
||||
|
||||
# Make a survey
|
||||
survey = Survey(srcList)
|
||||
dataVec = np.hstack(dataList)
|
||||
return cls(survey,dataVec)
|
||||
|
||||
@@ -1,108 +0,0 @@
|
||||
# Analytic solution of EM fields due to a plane wave
|
||||
|
||||
import numpy as np, SimPEG as simpeg
|
||||
from scipy.constants import mu_0, epsilon_0 as eps_0
|
||||
|
||||
def getEHfields(m1d,sigma,freq,zd,scaleUD=True):
|
||||
'''Analytic solution for MT 1D layered earth. Returns E and H fields.
|
||||
|
||||
:param SimPEG.mesh, object m1d: Mesh object with the 1D spatial information.
|
||||
:param numpy.array, vector sigma: Physical property of conductivity corresponding with the mesh.
|
||||
:param float, freq: Frequency to calculate data at.
|
||||
:param numpy array, vector zd: location to calculate EH fields at
|
||||
:param bollean, scaleUD: scales the output to be 1 at the top, increases numeracal stability.
|
||||
|
||||
Assumes a halfspace with the same conductive as the last cell below.
|
||||
|
||||
'''
|
||||
# Note add an error check for the mesh and sigma are the same size.
|
||||
|
||||
# Constants: Assume constant
|
||||
mu = mu_0*np.ones((m1d.nC+1))
|
||||
eps = eps_0*np.ones((m1d.nC+1))
|
||||
# Angular freq
|
||||
w = 2*np.pi*freq
|
||||
# Add the halfspace value to the property
|
||||
sig = np.concatenate((np.array([sigma[0]]),sigma))
|
||||
# Calculate the wave number
|
||||
k = np.sqrt(eps*mu*w**2-1j*mu*sig*w)
|
||||
|
||||
# Initiate the propagation matrix, in the order down up.
|
||||
UDp = np.zeros((2,m1d.nC+1),dtype=complex)
|
||||
UDp[1,0] = 1. # Set the wave amplitude as 1 into the half-space at the bottom of the mesh
|
||||
# Loop over all the layers, starting at the bottom layer
|
||||
for lnr, h in enumerate(m1d.hx): # lnr-number of layer, h-thickness of the layer
|
||||
# Calculate
|
||||
yp1 = k[lnr]/(w*mu[lnr]) # Admittance of the layer below the current layer
|
||||
zp = (w*mu[lnr+1])/k[lnr+1] # Impedance in the current layer
|
||||
# Build the propagation matrix
|
||||
|
||||
# Convert fields to down/up going components in layer below current layer
|
||||
Pj1 = np.array([[1,1],[yp1,-yp1]])
|
||||
# Convert fields to down/up going components in current layer
|
||||
Pjinv = 1./2*np.array([[1,zp],[1,-zp]])
|
||||
# Propagate down and up components through the current layer
|
||||
elamh = np.array([[np.exp(-1j*k[lnr+1]*h),0],[0,np.exp(1j*k[lnr+1]*h)]])
|
||||
|
||||
# The down and up component in current layer.
|
||||
UDp[:,lnr+1] = elamh.dot(Pjinv.dot(Pj1)).dot(UDp[:,lnr])
|
||||
|
||||
if scaleUD:
|
||||
UDp[:,lnr+1::-1] = UDp[:,lnr+1::-1]/UDp[1,lnr+1]
|
||||
|
||||
# Calculate the fields
|
||||
Ed = np.empty((zd.size,),dtype=complex)
|
||||
Eu = np.empty((zd.size,),dtype=complex)
|
||||
Hd = np.empty((zd.size,),dtype=complex)
|
||||
Hu = np.empty((zd.size,),dtype=complex)
|
||||
|
||||
# Loop over the layers and calculate the fields
|
||||
# In the halfspace below the mesh
|
||||
dup = m1d.vectorNx[0]
|
||||
dind = dup >= zd
|
||||
Ed[dind] = UDp[1,0]*np.exp(-1j*k[0]*(dup-zd[dind]))
|
||||
Eu[dind] = UDp[0,0]*np.exp(1j*k[0]*(dup-zd[dind]))
|
||||
Hd[dind] = (k[0]/(w*mu[0]))*UDp[1,0]*np.exp(-1j*k[0]*(dup-zd[dind]))
|
||||
Hu[dind] = -(k[0]/(w*mu[0]))*UDp[0,0]*np.exp(1j*k[0]*(dup-zd[dind]))
|
||||
for ki,mui,epsi,dlow,dup,Up,Dp in zip(k[1::],mu[1::],eps[1::],m1d.vectorNx[:-1],m1d.vectorNx[1::],UDp[0,1::],UDp[1,1::]):
|
||||
dind = np.logical_and(dup >= zd, zd > dlow)
|
||||
Ed[dind] = Dp*np.exp(-1j*ki*(dup-zd[dind]))
|
||||
Eu[dind] = Up*np.exp(1j*ki*(dup-zd[dind]))
|
||||
Hd[dind] = (ki/(w*mui))*Dp*np.exp(-1j*ki*(dup-zd[dind]))
|
||||
Hu[dind] = -(ki/(w*mui))*Up*np.exp(1j*ki*(dup-zd[dind]))
|
||||
|
||||
# Return return the fields
|
||||
return Ed, Eu, Hd, Hu
|
||||
|
||||
def getImpedance(m1d,sigma,freq):
|
||||
"""Analytic solution for MT 1D layered earth. Returns the impedance at the surface.
|
||||
|
||||
:param SimPEG.mesh, object m1d: Mesh object with the 1D spatial information.
|
||||
:param numpy.array, vector sigma: Physical property corresponding with the mesh.
|
||||
:param numpy.array, vector freq: Frequencies to calculate data at.
|
||||
|
||||
|
||||
"""
|
||||
|
||||
# Initiate the impedances
|
||||
Z1d = np.empty(len(freq) , dtype='complex')
|
||||
h = m1d.hx #vectorNx[:-1]
|
||||
# Start the process
|
||||
for nrFr, fr in enumerate(freq):
|
||||
om = 2*np.pi*fr
|
||||
Zall = np.empty(len(h)+1,dtype='complex')
|
||||
# Calculate the impedance for the bottom layer
|
||||
Zall[0] = (mu_0*om)/np.sqrt(mu_0*eps_0*(om)**2 - 1j*mu_0*sigma[0]*om)
|
||||
|
||||
for nr,hi in enumerate(h):
|
||||
# Calculate the wave number
|
||||
# print nr,sigma[nr]
|
||||
k = np.sqrt(mu_0*eps_0*om**2 - 1j*mu_0*sigma[nr]*om)
|
||||
Z = (mu_0*om)/k
|
||||
|
||||
Zall[nr+1] = Z *((Zall[nr] + Z*np.tanh(1j*k*hi))/(Z + Zall[nr]*np.tanh(1j*k*hi)))
|
||||
|
||||
#pdb.set_trace()
|
||||
Z1d[nrFr] = Zall[-1]
|
||||
|
||||
return Z1d
|
||||
@@ -1,45 +0,0 @@
|
||||
import numpy as np, SimPEG as simpeg
|
||||
from MT1Danalytic import getEHfields
|
||||
from scipy.constants import mu_0
|
||||
|
||||
def get1DEfields(m1d,sigma,freq,sourceAmp=1.0):
|
||||
"""Function to get 1D electrical fields"""
|
||||
|
||||
# Get the gradient
|
||||
G = m1d.nodalGrad
|
||||
# Mass matrices
|
||||
# Magnetic permeability
|
||||
Mmu = simpeg.Utils.sdiag(m1d.vol*(1.0/mu_0))
|
||||
# Conductivity
|
||||
Msig = m1d.getFaceInnerProduct(sigma)
|
||||
# Set up the solution matrix
|
||||
A = G.T*Mmu*G + 1j*2.*np.pi*freq*Msig
|
||||
# Define the inner part of the solution matrix
|
||||
Aii = A[1:-1,1:-1]
|
||||
# Define the outer part of the solution matrix
|
||||
Aio = A[1:-1,[0,-1]]
|
||||
|
||||
# Set the boundary conditions
|
||||
Ed, Eu, Hd, Hu = getEHfields(m1d,sigma,freq,m1d.vectorNx)
|
||||
Etot = (Ed + Eu)
|
||||
if sourceAmp is not None:
|
||||
Etot = ((Etot/Etot[-1])*sourceAmp) # Scale the fields to be equal to sourceAmp at the top
|
||||
## Note: The analytic solution is derived with e^iwt
|
||||
bc = np.r_[Etot[0],Etot[-1]]
|
||||
# The right hand side
|
||||
rhs = Aio*bc
|
||||
# Solve the system
|
||||
Aii_inv = simpeg.Solver(Aii)
|
||||
eii = Aii_inv*rhs
|
||||
# Assign the boundary conditions
|
||||
e = np.r_[bc[0],eii,bc[1]]
|
||||
# Return the electrical fields
|
||||
return e
|
||||
|
||||
|
||||
if __name__ == '__main__':
|
||||
|
||||
hz = [(100.,18)]
|
||||
M = simpeg.Mesh.TensorMesh([hz],'C')
|
||||
sig = np.zeros(M.nC) + 1e-8
|
||||
sig[M.vectorCCx<=0] = sigHalf
|
||||
@@ -1,4 +0,0 @@
|
||||
from MT1Dsolutions import * # Add the names of the functions
|
||||
from MT1Danalytic import *
|
||||
from dataUtils import *
|
||||
from ediFilesUtils import *
|
||||
@@ -1,245 +0,0 @@
|
||||
# Utils used for the data,
|
||||
import numpy as np, matplotlib.pyplot as plt, sys
|
||||
import SimPEG as simpeg
|
||||
import numpy.lib.recfunctions as recFunc
|
||||
from scipy.constants import mu_0
|
||||
from scipy import interpolate as sciint
|
||||
|
||||
def getAppRes(MTdata):
|
||||
# Make impedance
|
||||
zList = []
|
||||
for src in MTdata.survey.srcList:
|
||||
zc = [src.freq]
|
||||
for rx in src.rxList:
|
||||
if 'i' in rx.rxType:
|
||||
m=1j
|
||||
else:
|
||||
m = 1
|
||||
zc.append(m*MTdata[src,rx])
|
||||
zList.append(zc)
|
||||
return [appResPhs(zList[i][0],np.sum(zList[i][1:3])) for i in np.arange(len(zList))]
|
||||
|
||||
def rotateData(MTdata,rotAngle):
|
||||
'''
|
||||
Function that rotates clockwist by rotAngle (- negative for a counter-clockwise rotation)
|
||||
'''
|
||||
recData = MTdata.toRecArray('Complex')
|
||||
impData = rec2ndarr(recData[['zxx','zxy','zyx','zyy']],complex)
|
||||
# Make the rotation matrix
|
||||
# c,s,zxx,zxy,zyx,zyy = sympy.symbols('c,s,zxx,zxy,zyx,zyy')
|
||||
# rotM = sympy.Matrix([[c,-s],[s, c]])
|
||||
# zM = sympy.Matrix([[zxx,zxy],[zyx,zyy]])
|
||||
# rotM*zM*rotM.T
|
||||
# [c*(c*zxx - s*zyx) - s*(c*zxy - s*zyy), c*(c*zxy - s*zyy) + s*(c*zxx - s*zyx)],
|
||||
# [c*(c*zyx + s*zxx) - s*(c*zyy + s*zxy), c*(c*zyy + s*zxy) + s*(c*zyx + s*zxx)]])
|
||||
s = np.sin(-np.deg2rad(rotAngle))
|
||||
c = np.cos(-np.deg2rad(rotAngle))
|
||||
rotMat = np.array([[c,-s],[s,c]])
|
||||
rotData = (rotMat.dot(impData.reshape(-1,2,2).dot(rotMat.T))).transpose(1,0,2).reshape(-1,4)
|
||||
outRec = recData.copy()
|
||||
for nr,comp in enumerate(['zxx','zxy','zyx','zyy']):
|
||||
outRec[comp] = rotData[:,nr]
|
||||
|
||||
from SimPEG import MT
|
||||
return MT.Data.fromRecArray(outRec)
|
||||
|
||||
|
||||
def appResPhs(freq,z):
|
||||
app_res = ((1./(8e-7*np.pi**2))/freq)*np.abs(z)**2
|
||||
app_phs = np.arctan2(z.imag,z.real)*(180/np.pi)
|
||||
return app_res, app_phs
|
||||
|
||||
def skindepth(rho,freq):
|
||||
''' Function to calculate the skindepth of EM waves'''
|
||||
return np.sqrt( (rho*((1/(freq * mu_0 * np.pi )))))
|
||||
|
||||
def rec2ndarr(x,dt=float):
|
||||
return x.view((dt, len(x.dtype.names)))
|
||||
|
||||
def makeAnalyticSolution(mesh,model,elev,freqs):
|
||||
from SimPEG import MT
|
||||
data1D = []
|
||||
for freq in freqs:
|
||||
anaEd, anaEu, anaHd, anaHu = MT.Utils.MT1Danalytic.getEHfields(mesh,model,freq,elev)
|
||||
anaE = anaEd+anaEu
|
||||
anaH = anaHd+anaHu
|
||||
|
||||
anaZ = anaE/anaH
|
||||
# Add to the list
|
||||
data1D.append((freq,0,0,elev,anaZ[0]))
|
||||
dataRec = np.array(data1D,dtype=[('freq',float),('x',float),('y',float),('z',float),('zyx',complex)])
|
||||
return dataRec
|
||||
|
||||
def plotMT1DModelData(problem,models,symList=None):
|
||||
from SimPEG import MT
|
||||
# Setup the figure
|
||||
fontSize = 15
|
||||
|
||||
fig = plt.figure(figsize=[9,7])
|
||||
axM = fig.add_axes([0.075,.1,.25,.875])
|
||||
axM.set_xlabel('Resistivity [Ohm*m]',fontsize=fontSize)
|
||||
axM.set_xlim(1e-1,1e5)
|
||||
axM.set_ylim(-10000,5000)
|
||||
axM.set_ylabel('Depth [km]',fontsize=fontSize)
|
||||
axR = fig.add_axes([0.42,.575,.5,.4])
|
||||
axR.set_xscale('log')
|
||||
axR.set_yscale('log')
|
||||
axR.invert_xaxis()
|
||||
# axR.set_xlabel('Frequency [Hz]')
|
||||
axR.set_ylabel('Apparent resistivity [Ohm m]',fontsize=fontSize)
|
||||
|
||||
axP = fig.add_axes([0.42,.1,.5,.4])
|
||||
axP.set_xscale('log')
|
||||
axP.invert_xaxis()
|
||||
axP.set_ylim(0,90)
|
||||
axP.set_xlabel('Frequency [Hz]',fontsize=fontSize)
|
||||
axP.set_ylabel('Apparent phase [deg]',fontsize=fontSize)
|
||||
|
||||
# if not symList:
|
||||
# symList = ['x']*len(models)
|
||||
import plotDataTypes as pDt
|
||||
# Loop through the models.
|
||||
modelList = [problem.survey.mtrue]
|
||||
modelList.extend(models)
|
||||
if False:
|
||||
modelList = [problem.mapping.sigmaMap*mod for mod in modelList]
|
||||
for nr, model in enumerate(modelList):
|
||||
# Calculate the data
|
||||
if nr==0:
|
||||
data1D = problem.dataPair(problem.survey,problem.survey.dobs).toRecArray('Complex')
|
||||
else:
|
||||
data1D = problem.dataPair(problem.survey,problem.survey.dpred(model)).toRecArray('Complex')
|
||||
# Plot the data and the model
|
||||
colRat = nr/((len(modelList)-1.999)*1.)
|
||||
if colRat > 1.:
|
||||
col = 'k'
|
||||
else:
|
||||
col = plt.cm.seismic(1-colRat)
|
||||
# The model - make the pts to plot
|
||||
meshPts = np.concatenate((problem.mesh.gridN[0:1],np.kron(problem.mesh.gridN[1::],np.ones(2))[:-1]))
|
||||
modelPts = np.kron(1./(problem.mapping.sigmaMap*model),np.ones(2,))
|
||||
axM.semilogx(modelPts,meshPts,color=col)
|
||||
|
||||
## Data
|
||||
# Appres
|
||||
pDt.plotIsoStaImpedance(axR,np.array([0,0]),data1D,'zyx','res',pColor=col)
|
||||
# Appphs
|
||||
pDt.plotIsoStaImpedance(axP,np.array([0,0]),data1D,'zyx','phs',pColor=col)
|
||||
try:
|
||||
allData = np.concatenate((allData,simpeg.mkvc(data1D['zyx'],2)),1)
|
||||
except:
|
||||
allData = simpeg.mkvc(data1D['zyx'],2)
|
||||
freq = simpeg.mkvc(data1D['freq'],2)
|
||||
res, phs = appResPhs(freq,allData)
|
||||
|
||||
stdCol = 'gray'
|
||||
axRtw = axR.twinx()
|
||||
axRtw.set_ylabel('Std of log10',color=stdCol)
|
||||
[(t.set_color(stdCol), t.set_rotation(-45)) for t in axRtw.get_yticklabels()]
|
||||
axPtw = axP.twinx()
|
||||
axPtw.set_ylabel('Std ',color=stdCol)
|
||||
[t.set_color(stdCol) for t in axPtw.get_yticklabels()]
|
||||
axRtw.plot(freq, np.std(np.log10(res),1),'--',color=stdCol)
|
||||
axPtw.plot(freq, np.std(phs,1),'--',color=stdCol)
|
||||
|
||||
# Fix labels and ticks
|
||||
|
||||
yMtick = [l/1000 for l in axM.get_yticks().tolist()]
|
||||
axM.set_yticklabels(yMtick)
|
||||
[ l.set_rotation(90) for l in axM.get_yticklabels()]
|
||||
[ l.set_rotation(90) for l in axR.get_yticklabels()]
|
||||
[(t.set_color(stdCol), t.set_rotation(-45)) for t in axRtw.get_yticklabels()]
|
||||
[t.set_color(stdCol) for t in axPtw.get_yticklabels()]
|
||||
for ax in [axM,axR,axP]:
|
||||
ax.xaxis.set_tick_params(labelsize=fontSize)
|
||||
ax.yaxis.set_tick_params(labelsize=fontSize)
|
||||
return fig
|
||||
|
||||
def printTime():
|
||||
import time
|
||||
print time.strftime("%a, %d %b %Y %H:%M:%S +0000", time.localtime())
|
||||
|
||||
def convert3Dto1Dobject(MTdata,rxType3D='zyx'):
|
||||
from SimPEG import MT
|
||||
# Find the unique locations
|
||||
# Need to find the locations
|
||||
recDataTemp = MTdata.toRecArray()
|
||||
# Check if survey.std has been assigned.
|
||||
## NEED TO: write this...
|
||||
# Calculte and add the DET of the tensor to the recArray
|
||||
if 'det' in rxType3D:
|
||||
Zon = (recDataTemp['zxxr']+1j*recDataTemp['zxxi'])*(recDataTemp['zyyr']+1j*recDataTemp['zyyi'])
|
||||
Zoff = (recDataTemp['zxyr']+1j*recDataTemp['zxyi'])*(recDataTemp['zyxr']+1j*recDataTemp['zyxi'])
|
||||
det = np.sqrt(Zon.data - Zoff.data)
|
||||
recData = recFunc.append_fields(recDataTemp,['zdetr','zdeti'],[det.real,det.imag] )
|
||||
else:
|
||||
recData = recDataTemp
|
||||
|
||||
uniLocs = rec2ndarr(np.unique(recData[['x','y','z']])).data
|
||||
mtData1DList = []
|
||||
if 'zxy' in rxType3D:
|
||||
corr = -1 # Shift the data to comply with the quadtrature of the 1d problem
|
||||
else:
|
||||
corr = 1
|
||||
for loc in uniLocs:
|
||||
# Make the receiver list
|
||||
rx1DList = []
|
||||
for rxType in ['z1dr','z1di']:
|
||||
rx1DList.append(MT.Rx(simpeg.mkvc(loc,2).T,rxType))
|
||||
# Source list
|
||||
locrecData = recData[np.sqrt(np.sum( (rec2ndarr(recData[['x','y','z']]).data - loc )**2,axis=1)) < 1e-5]
|
||||
dat1DList = []
|
||||
src1DList = []
|
||||
for freq in locrecData['freq']:
|
||||
src1DList.append(MT.SrcMT.src_polxy_1Dprimary(rx1DList,freq))
|
||||
for comp in ['r','i']:
|
||||
dat1DList.append( corr * locrecData[rxType3D+comp][locrecData['freq']== freq].data )
|
||||
|
||||
# Make the survey
|
||||
sur1D = MT.Survey(src1DList)
|
||||
|
||||
# Make the data
|
||||
dataVec = np.hstack(dat1DList)
|
||||
dat1D = MT.Data(sur1D,dataVec)
|
||||
sur1D.dobs = dataVec
|
||||
# Need to take MTdata.survey.std and split it as well.
|
||||
std=0.05
|
||||
sur1D.std = np.abs(sur1D.dobs*std) #+ 0.01*np.linalg.norm(sur1D.dobs)
|
||||
mtData1DList.append(dat1D)
|
||||
|
||||
# Return the the list of data.
|
||||
return mtData1DList
|
||||
|
||||
def resampleMTdataAtFreq(MTdata,freqs):
|
||||
"""
|
||||
Function to resample MTdata at set of frequencies
|
||||
|
||||
"""
|
||||
from SimPEG import MT
|
||||
# Make a rec array
|
||||
MTrec = MTdata.toRecArray().data
|
||||
|
||||
# Find unique locations
|
||||
uniLoc = np.unique(MTrec[['x','y','z']])
|
||||
uniFreq = MTdata.survey.freqs
|
||||
# Get the comps
|
||||
dNames = MTrec.dtype
|
||||
|
||||
# Loop over all the locations and interpolate
|
||||
for loc in uniLoc:
|
||||
# Find the index of the station
|
||||
ind = np.sqrt(np.sum((rec2ndarr(MTrec[['x','y','z']]) - rec2ndarr(loc))**2,axis=1)) < 1. # Find dist of 1 m accuracy
|
||||
# Make a temporary recArray and interpolate all the components
|
||||
tArrRec = np.concatenate((simpeg.mkvc(freqs,2),np.ones((len(freqs),1))*rec2ndarr(loc),np.nan*np.ones((len(freqs),12))),axis=1).view(dNames)
|
||||
for comp in ['zxxr','zxxi','zxyr','zxyi','zyxr','zyxi','zyyr','zyyi','tzxr','tzxi','tzyr','tzyi']:
|
||||
int1d = sciint.interp1d(MTrec[ind]['freq'],MTrec[ind][comp],bounds_error=False)
|
||||
tArrRec[comp] = simpeg.mkvc(int1d(freqs),2)
|
||||
|
||||
# Join together
|
||||
try:
|
||||
outRecArr = recFunc.stack_arrays((outRecArr,tArrRec))
|
||||
except NameError as e:
|
||||
outRecArr = tArrRec
|
||||
|
||||
# Make the MTdata and return
|
||||
return MT.Data.fromRecArray(outRecArr)
|
||||
@@ -1,180 +0,0 @@
|
||||
# Functions to import and export MT EDI files.
|
||||
from SimPEG import mkvc
|
||||
from scipy.constants import mu_0
|
||||
from numpy.lib import recfunctions as recFunc
|
||||
from SimPEG.MT.Utils.dataUtils import rec2ndarr
|
||||
|
||||
# Import modules
|
||||
import numpy as np
|
||||
import os, sys, re
|
||||
|
||||
|
||||
class EDIimporter:
|
||||
"""
|
||||
A class to import EDIfiles.
|
||||
|
||||
"""
|
||||
|
||||
|
||||
# Define data converters
|
||||
_impUnitEDI2SI = 4*np.pi*1e-4 # Convert Z[mV/km/nT] (as in EDI)to Z[V/A] SI unit
|
||||
_impUnitSI2EDI = 1./_impUnitEDI2SI # ConvertZ[V/A] SI unit to Z[mV/km/nT] (as in EDI)
|
||||
|
||||
# Properties
|
||||
filesList = None
|
||||
comps = None
|
||||
|
||||
# Hidden properties
|
||||
_outEPSG = None # Project info
|
||||
_2out = None # The projection operator
|
||||
|
||||
|
||||
def __init__(self, EDIfilesList, compList=None, outEPSG=None):
|
||||
|
||||
# Set the fileList
|
||||
self.filesList = EDIfilesList
|
||||
# Set the components to import
|
||||
if compList is None:
|
||||
self.comps = ['ZXXR','ZXYR','ZYXR','ZYYR','ZXXI','ZXYI','ZYXI','ZYYI','ZXX.VAR','ZXY.VAR','ZYX.VAR','ZYY.VAR']
|
||||
else:
|
||||
self.comps = compList
|
||||
if outEPSG is not None:
|
||||
self._outEPSG = outEPSG
|
||||
|
||||
def __call__(self,comps=None):
|
||||
|
||||
if comps is None:
|
||||
return self._data
|
||||
|
||||
return self._data[comps]
|
||||
|
||||
def importFiles(self):
|
||||
"""
|
||||
Function to import EDI files into a object.
|
||||
|
||||
|
||||
"""
|
||||
|
||||
# Constants that are needed for convertion of units
|
||||
|
||||
# Temp lists
|
||||
tmpStaList = []
|
||||
|
||||
tmpCompList = ['freq','x','y','z']
|
||||
tmpCompList.extend(self.comps)
|
||||
# Make the outarray
|
||||
dtRI = [(compS.lower().replace('.',''),float) for compS in tmpCompList]
|
||||
# Loop through all the files
|
||||
for nrEDI, EDIfile in enumerate(self.filesList):
|
||||
# Read the file into a list of the lines
|
||||
with open(EDIfile,'r') as fid:
|
||||
EDIlines = fid.readlines()
|
||||
# Find the location
|
||||
latD, longD, elevM = _findLatLong(EDIlines)
|
||||
# Transfrom coordinates
|
||||
transCoord = self._transfromPoints(longD,latD)
|
||||
# Extract the name of the file (station)
|
||||
EDIname = EDIfile.split(os.sep)[-1].split('.')[0]
|
||||
# Arrange the data
|
||||
staList = [EDIname, EDIfile, transCoord[0], transCoord[1], elevM[0]]
|
||||
# Add to the station list
|
||||
tmpStaList.extend(staList)
|
||||
|
||||
# Read the frequency data
|
||||
freq = _findEDIcomp('>FREQ',EDIlines)
|
||||
# Make the temporary rec array.
|
||||
tArrRec = ( np.nan*np.ones( (len(freq),len(dtRI)) ) ).view(dtRI) #np.concatenate((freq*np.ones((locs.shape[0],1)),locs,np.nan*np.ones((locs.shape[0],8))),axis=1).view(dtRI)
|
||||
# Add data to the array
|
||||
tArrRec['freq'] = mkvc(freq,2)
|
||||
tArrRec['x'] = mkvc(np.ones((len(freq),1))*transCoord[0],2)
|
||||
tArrRec['y'] = mkvc(np.ones((len(freq),1))*transCoord[1],2)
|
||||
tArrRec['z'] = mkvc(np.ones((len(freq),1))*elevM[0],2)
|
||||
for comp in self.comps:
|
||||
# Deal with converting units of the impedance tensor
|
||||
if 'Z' in comp:
|
||||
unitConvert = self._impUnitEDI2SI
|
||||
else:
|
||||
unitConvert = 1
|
||||
# Rotate the data since EDI x is *north, y *east but Simpeg uses x *east, y *north (* means internal reference frame)
|
||||
key = [comp.lower().replace('.','').replace(s,t) for s,t in [['xx','yy'],['xy','yx'],['yx','xy'],['yy','xx']] if s in comp.lower()][0]
|
||||
tArrRec[key] = mkvc(unitConvert*_findEDIcomp('>'+comp,EDIlines),2)
|
||||
# Make a masked array
|
||||
mArrRec = np.ma.MaskedArray(rec2ndarr(tArrRec),mask=np.isnan(rec2ndarr(tArrRec))).view(dtype=tArrRec.dtype)
|
||||
try:
|
||||
outTemp = recFunc.stack_arrays((outTemp,mArrRec))
|
||||
except NameError as e:
|
||||
outTemp = mArrRec
|
||||
|
||||
# Assign the data
|
||||
self._data = outTemp
|
||||
|
||||
# % Assign the data to the obj
|
||||
# nOutData=length(obj.data);
|
||||
# obj.data(nOutData+1:nOutData+length(TEMP.data),:) = TEMP.data;
|
||||
def _transfromPoints(self,longD,latD):
|
||||
# Import the coordinate projections
|
||||
try:
|
||||
import osr
|
||||
except ImportError as e:
|
||||
print 'Could not import osr, missing the gdal package\nCan not project coordinates'
|
||||
raise e
|
||||
# Coordinates convertor
|
||||
if self._2out is None:
|
||||
src = osr.SpatialReference()
|
||||
src.ImportFromEPSG(4326)
|
||||
out = osr.SpatialReference()
|
||||
if self._outEPSG is None:
|
||||
# Find the UTM EPSG number
|
||||
Nnr = 700 if latD < 0.0 else 600
|
||||
utmZ = int(1+(longD+180.0)/6.0)
|
||||
self._outEPSG = 32000 + Nnr + utmZ
|
||||
out.ImportFromEPSG(self._outEPSG)
|
||||
self._2out = osr.CoordinateTransformation(src,out)
|
||||
# Return the transfrom
|
||||
return self._2out.TransformPoint(longD,latD)
|
||||
|
||||
# Hidden functions
|
||||
def _findLatLong(fileLines):
|
||||
latDMS = np.array(fileLines[_findLine('LAT=',fileLines)[0]].split('=')[1].split()[0].split(':'),float)
|
||||
longDMS = np.array(fileLines[_findLine('LONG=',fileLines)[0]].split('=')[1].split()[0].split(':'),float)
|
||||
elevM = np.array([fileLines[_findLine('ELEV=',fileLines)[0]].split('=')[1].split()[0]],float)
|
||||
# Convert to D.ddddd values
|
||||
latS = np.sign(latDMS[0])
|
||||
longS = np.sign(longDMS[0])
|
||||
latD = latDMS[0] + latS*latDMS[1]/60 + latS*latDMS[2]/3600
|
||||
longD = longDMS[0] + longS*longDMS[1]/60 + longS*longDMS[2]/3600
|
||||
return latD, longD, elevM
|
||||
|
||||
def _findLine(comp,fileLines):
|
||||
""" Find a line number in the file"""
|
||||
# Line counter
|
||||
c = 0
|
||||
# List of indices for found lines
|
||||
found = []
|
||||
# Loop through all the lines
|
||||
for line in fileLines:
|
||||
if comp in line:
|
||||
# Append if found
|
||||
found.append(c)
|
||||
# Increse the counter
|
||||
c += 1
|
||||
# Return the found indices
|
||||
return found
|
||||
|
||||
def _findEDIcomp(comp,fileLines,dt=float):
|
||||
"""
|
||||
Extract the data vector.
|
||||
|
||||
Returns a list of the data.
|
||||
"""
|
||||
# Find the data
|
||||
headLine, indHead = [(st,nr) for nr,st in enumerate(fileLines) if re.search(comp,st)][0]
|
||||
# Extract the data
|
||||
nrVec = int(headLine.split()[-1])
|
||||
c = 0
|
||||
dataList = []
|
||||
while c < nrVec:
|
||||
indHead += 1
|
||||
dataList.extend(fileLines[indHead].split())
|
||||
c = len(dataList)
|
||||
return np.array(dataList,dt)
|
||||
@@ -1,416 +0,0 @@
|
||||
from matplotlib import pyplot as plt, colors, numpy as np
|
||||
|
||||
|
||||
def rec2nd(structArray):
|
||||
""" Converts a structured/record array to ndarray to do operations on."""
|
||||
return structArray.view((np.float,len(structArray.dtype.names)))
|
||||
|
||||
def plotIsoFreqNSimpedance(ax,freq,array,flag,par='abs',colorbar=True,colorNorm='SymLog',cLevel=True,contour=True):
|
||||
|
||||
indUniFreq = np.where(freq==array['freq'])
|
||||
|
||||
|
||||
x, y = array['x'][indUniFreq],array['y'][indUniFreq]
|
||||
if par == 'abs':
|
||||
zPlot = np.abs(array[flag][indUniFreq])
|
||||
cmap = plt.get_cmap('OrRd_r')#seismic')
|
||||
level = np.logspace(0,-5,31)
|
||||
clevel = np.logspace(0,-4,5)
|
||||
plotNorm = colors.LogNorm()
|
||||
elif par == 'real':
|
||||
zPlot = np.real(array[flag][indUniFreq])
|
||||
cmap = plt.get_cmap('RdYlBu')
|
||||
if cLevel:
|
||||
level = np.concatenate((-np.logspace(0,-10,31),np.logspace(-10,0,31)))
|
||||
clevel = np.concatenate((-np.logspace(0,-8,5),np.logspace(-8,0,5)))
|
||||
else:
|
||||
level = np.linspace(zPlot.min(),zPlot.max(),100)
|
||||
clevel = np.linspace(zPlot.min(),zPlot.max(),10)
|
||||
if colorNorm=='SymLog':
|
||||
plotNorm = colors.SymLogNorm(1e-10,linscale=2)
|
||||
else:
|
||||
plotNorm = colors.Normalize()
|
||||
elif par == 'imag':
|
||||
zPlot = np.imag(array[flag][indUniFreq])
|
||||
cmap = plt.get_cmap('RdYlBu')
|
||||
level = np.concatenate((-np.logspace(0,-10,31),np.logspace(-10,0,31)))
|
||||
clevel = np.concatenate((-np.logspace(0,-8,5),np.logspace(-8,0,5)))
|
||||
plotNorm = colors.SymLogNorm(1e-10,linscale=2)
|
||||
if cLevel:
|
||||
level = np.concatenate((-np.logspace(0,-10,31),np.logspace(-10,0,31)))
|
||||
clevel = np.concatenate((-np.logspace(0,-8,5),np.logspace(-8,0,5)))
|
||||
else:
|
||||
level = np.linspace(zPlot.min(),zPlot.max(),100)
|
||||
clevel = np.linspace(zPlot.min(),zPlot.max(),10)
|
||||
if colorNorm=='SymLog':
|
||||
plotNorm = colors.SymLogNorm(1e-10,linscale=2)
|
||||
elif colorNorm=='Lin':
|
||||
plotNorm = colors.Normalize()
|
||||
if contour:
|
||||
cs = ax.tricontourf(x,y,zPlot,levels=level,cmap=cmap,norm=plotNorm)#,extend='both')
|
||||
else:
|
||||
uniX,uniY = np.unique(x),np.unique(y)
|
||||
X,Y = np.meshgrid(np.append(uniX-25,uniX[-1]+25),np.append(uniY-25,uniY[-1]+25))
|
||||
cs = ax.pcolor(X,Y,np.reshape(zPlot,(len(uniY),len(uniX))),cmap=cmap,norm=plotNorm)
|
||||
if colorbar:
|
||||
plt.colorbar(cs,cax=ax.cax,ticks=clevel,format='%1.2e')
|
||||
ax.set_title(flag+' '+par,fontsize=8)
|
||||
return cs
|
||||
|
||||
def plotIsoFreqNSDiff(ax,freq,arrayList,flag,par='abs',colorbar=True,cLevel=True,mask=None,contourLine=True,useLog=False):
|
||||
|
||||
indUniFreq0 = np.where(freq==arrayList[0]['freq'])
|
||||
indUniFreq1 = np.where(freq==arrayList[1]['freq'])
|
||||
seicmap = plt.get_cmap('RdYlBu')#seismic')
|
||||
x, y = arrayList[0]['x'][indUniFreq0],arrayList[0]['y'][indUniFreq0]
|
||||
if par == 'abs':
|
||||
if useLog:
|
||||
zPlot = (np.log10(np.abs(arrayList[0][flag][indUniFreq0])) - np.log10(np.abs(arrayList[1][flag][indUniFreq1])))/np.log10(np.abs(arrayList[1][flag][indUniFreq1]))
|
||||
else:
|
||||
zPlot = (np.abs(arrayList[0][flag][indUniFreq0]) - np.abs(arrayList[1][flag][indUniFreq1]))/np.abs(arrayList[1][flag][indUniFreq1])
|
||||
if mask:
|
||||
maskInd = np.logical_or(np.abs(arrayList[0][flag][indUniFreq0])< 1e-3,np.abs(arrayList[1][flag][indUniFreq1]) < 1e-3)
|
||||
zPlot = np.ma.array(zPlot)
|
||||
zPlot[maskInd] = mask
|
||||
if cLevel:
|
||||
level = np.arange(-200,201,10)
|
||||
clevel = np.arange(-200,201,25)
|
||||
else:
|
||||
level = np.linspace(zPlot.min(),zPlot.max(),100)
|
||||
clevel = np.linspace(zPlot.min(),zPlot.max(),10)
|
||||
elif par == 'real':
|
||||
if useLog:
|
||||
zPlot = (np.log10(np.real(arrayList[0][flag][indUniFreq0])) -np.log10(np.real(arrayList[1][flag][indUniFreq1])))/np.log10(np.abs((np.real(arrayList[1][flag][indUniFreq1]))))
|
||||
else:
|
||||
zPlot = (np.real(arrayList[0][flag][indUniFreq0]) -np.real(arrayList[1][flag][indUniFreq1]))/np.abs((np.real(arrayList[1][flag][indUniFreq1])))
|
||||
if mask:
|
||||
maskInd = np.logical_or(np.abs(np.real(arrayList[0][flag][indUniFreq0])) < 1e-3,np.abs(np.real(arrayList[1][flag][indUniFreq1])) < 1e-3)
|
||||
zPlot = np.ma.array(zPlot)
|
||||
zPlot[maskInd] = mask
|
||||
if cLevel:
|
||||
level = np.arange(-200,201,10)
|
||||
clevel = np.arange(-200,201,25)
|
||||
else:
|
||||
level = np.linspace(zPlot.min(),zPlot.max(),100)
|
||||
clevel = np.linspace(zPlot.min(),zPlot.max(),10)
|
||||
elif par == 'imag':
|
||||
if useLog:
|
||||
zPlot = (np.log10(np.imag(arrayList[0][flag][indUniFreq0])) -np.log10(np.imag(arrayList[1][flag][indUniFreq1])))/np.log10(np.abs((np.imag(arrayList[1][flag][indUniFreq1]))))
|
||||
else:
|
||||
zPlot = (np.imag(arrayList[0][flag][indUniFreq0]) -np.imag(arrayList[1][flag][indUniFreq1]))/np.abs((np.imag(arrayList[1][flag][indUniFreq1])))
|
||||
if mask:
|
||||
maskInd = np.logical_or(np.abs(np.imag(arrayList[0][flag][indUniFreq0])) < 1e-3,np.abs(np.imag(arrayList[1][flag][indUniFreq1])) < 1e-3)
|
||||
zPlot = np.ma.array(zPlot)
|
||||
zPlot[maskInd] = mask
|
||||
if cLevel:
|
||||
level = np.arange(-200,201,10)
|
||||
clevel = np.arange(-200,201,25)
|
||||
else:
|
||||
level = np.linspace(zPlot.min(),zPlot.max(),100)
|
||||
clevel = np.linspace(zPlot.min(),zPlot.max(),10)
|
||||
cs = ax.tricontourf(x,y,zPlot*100,levels=level*100,cmap=seicmap,extend='both') #,norm=colors.SymLogNorm(1e-2,linscale=2))
|
||||
if contourLine:
|
||||
csl = ax.tricontour(x,y,zPlot*100,levels=clevel*100,colors='k')
|
||||
plt.clabel(csl, fontsize=7, inline=1,fmt='%1.1e',inline_spacing=10)
|
||||
if colorbar:
|
||||
cb = plt.colorbar(cs,cax=ax.cax,ticks=clevel*100,format='%1.1e')
|
||||
for t in cb.ax.get_yticklabels():
|
||||
t.set_rotation(60)
|
||||
t.set_fontsize(8)
|
||||
|
||||
ax.set_title(flag+' '+par,fontsize=8)
|
||||
|
||||
def plotIsoFreqNStipper(ax,freq,array,flag,par='abs',colorbar=True,colorNorm='SymLog',cLevel=True,contour=True):
|
||||
|
||||
indUniFreq = np.where(freq==array['freq'])
|
||||
|
||||
x, y = array['x'][indUniFreq],array['y'][indUniFreq]
|
||||
if par == 'abs':
|
||||
cmap = plt.get_cmap('OrRd_r')#seismic')
|
||||
zPlot = np.abs(array[flag][indUniFreq])
|
||||
if cLevel:
|
||||
level = np.logspace(-4,0,33)
|
||||
clevel = np.logspace(-4,0,5)
|
||||
else:
|
||||
level = np.linspace(zPlot.min(),zPlot.max(),100)
|
||||
clevel = np.linspace(zPlot.min(),zPlot.max(),10)
|
||||
if colorNorm=='SymLog':
|
||||
plotNorm = colors.LogNorm()
|
||||
else:
|
||||
plotNorm = colors.Normalize()
|
||||
elif par == 'real':
|
||||
cmap = plt.get_cmap('RdYlBu')
|
||||
zPlot = np.real(array[flag][indUniFreq])
|
||||
if cLevel:
|
||||
level = np.concatenate((-np.logspace(0,-4,33),np.logspace(-4,0,33)))
|
||||
clevel = np.concatenate((-np.logspace(0,-4,5),np.logspace(-4,0,5)))
|
||||
else:
|
||||
level = np.linspace(zPlot.min(),zPlot.max(),100)
|
||||
clevel = np.linspace(zPlot.min(),zPlot.max(),10)
|
||||
if colorNorm=='SymLog':
|
||||
plotNorm = colors.SymLogNorm(1e-4,linscale=2)
|
||||
else:
|
||||
plotNorm = colors.Normalize()
|
||||
elif par == 'imag':
|
||||
cmap = plt.get_cmap('RdYlBu')
|
||||
zPlot = np.imag(array[flag][indUniFreq])
|
||||
if cLevel:
|
||||
level = np.concatenate((-np.logspace(0,-4,33),np.logspace(-4,0,33)))
|
||||
clevel = np.concatenate((-np.logspace(0,-4,5),np.logspace(-4,0,5)))
|
||||
else:
|
||||
level = np.linspace(zPlot.min(),zPlot.max(),100)
|
||||
clevel = np.linspace(zPlot.min(),zPlot.max(),10)
|
||||
if colorNorm=='SymLog':
|
||||
plotNorm = colors.SymLogNorm(1e-4,linscale=2)
|
||||
else:
|
||||
plotNorm = colors.Normalize()
|
||||
if contour:
|
||||
cs = ax.tricontourf(x,y,zPlot,levels=level,cmap=cmap,norm=plotNorm)#,extend='both')
|
||||
else:
|
||||
uniX,uniY = np.unique(x),np.unique(y)
|
||||
X,Y = np.meshgrid(np.append(uniX-25,uniX[-1]+25),np.append(uniY-25,uniY[-1]+25))
|
||||
cs = ax.pcolor(X,Y,np.reshape(zPlot,(len(uniY),len(uniX))),levels=level,cmap=cmap,norm=plotNorm,edgecolors='k', linewidths=0.5)
|
||||
if colorbar:
|
||||
plt.colorbar(cs,cax=ax.cax,ticks=clevel,format='%1.2e')
|
||||
ax.set_title(flag+' '+par,fontsize=8)
|
||||
|
||||
def plotIsoStaImpedance(ax,loc,array,flag,par='abs',pSym='s',pColor=None):
|
||||
|
||||
appResFact = 1/(8*np.pi**2*10**(-7))
|
||||
treshold = 1.0 # 1 meter
|
||||
indUniSta = np.sqrt(np.sum((rec2nd(array[['x','y']])-loc)**2,axis=1)) < treshold
|
||||
freq = array['freq'][indUniSta]
|
||||
|
||||
if par == 'abs':
|
||||
zPlot = np.abs(array[flag][indUniSta])
|
||||
elif par == 'real':
|
||||
zPlot = np.real(array[flag][indUniSta])
|
||||
elif par == 'imag':
|
||||
zPlot = np.imag(array[flag][indUniSta])
|
||||
elif par == 'res':
|
||||
zPlot = (appResFact/freq)*np.abs(array[flag][indUniSta])**2
|
||||
elif par == 'phs':
|
||||
zPlot = np.arctan2(array[flag][indUniSta].imag,array[flag][indUniSta].real)*(180/np.pi)
|
||||
|
||||
if not pColor:
|
||||
if 'xx' in flag:
|
||||
lab = 'XX'
|
||||
pColor = 'g'
|
||||
elif 'xy' in flag:
|
||||
lab = 'XY'
|
||||
pColor = 'r'
|
||||
elif 'yx' in flag:
|
||||
lab = 'YX'
|
||||
pColor = 'b'
|
||||
elif 'yy' in flag:
|
||||
lab = 'YY'
|
||||
pColor = 'y'
|
||||
|
||||
ax.plot(freq,zPlot,color=pColor,marker=pSym,label=flag)
|
||||
|
||||
|
||||
def plotPsudoSectNSimpedance(ax,sectDict,array,flag,par='abs',colorbar=True,colorNorm='None',cLevel=None,contour=True):
|
||||
|
||||
indSect = np.where(sectDict.values()[0]==array[sectDict.keys()[0]])
|
||||
|
||||
# Define the plot axes
|
||||
if 'x' in sectDict.keys()[0]:
|
||||
x = array['y'][indSect]
|
||||
else:
|
||||
x = array['x'][indSect]
|
||||
y = array['freq'][indSect]
|
||||
|
||||
if par == 'abs':
|
||||
zPlot = np.abs(array[flag][indSect])
|
||||
cmap = plt.get_cmap('OrRd_r')#seismic')
|
||||
if cLevel:
|
||||
level = np.logspace(0,-5,31,endpoint=True)
|
||||
clevel = np.logspace(0,-4,5,endpoint=True)
|
||||
else:
|
||||
level = np.linspace(zPlot.min(),zPlot.max(),100,endpoint=True)
|
||||
clevel = np.linspace(zPlot.min(),zPlot.max(),10,endpoint=True)
|
||||
|
||||
elif par == 'ares':
|
||||
zPlot = np.abs(array[flag][indSect])**2/(8*np.pi**2*10**(-7)*array['freq'][indSect])
|
||||
cmap = plt.get_cmap('RdYlBu')#seismic)
|
||||
if cLevel:
|
||||
zMax = np.log10(cLevel[1])
|
||||
zMin = np.log10(cLevel[0])
|
||||
else:
|
||||
zMax = (np.ceil(np.log10(np.abs(zPlot).max())))
|
||||
zMin = (np.floor(np.log10(np.abs(zPlot).min())))
|
||||
level = np.logspace(zMin,zMax,(zMax-zMin)*8+1,endpoint=True)
|
||||
clevel = np.logspace(zMin,zMax,(zMax-zMin)*2+1,endpoint=True)
|
||||
plotNorm = colors.LogNorm()
|
||||
|
||||
elif par == 'aphs':
|
||||
zPlot = np.arctan2(array[flag][indSect].imag,array[flag][indSect].real)*(180/np.pi)
|
||||
cmap = plt.get_cmap('RdYlBu')#seismic)
|
||||
if cLevel:
|
||||
zMax = cLevel[1]
|
||||
zMin = cLevel[0]
|
||||
else:
|
||||
zMax = (np.ceil(zPlot).max())
|
||||
zMin = (np.floor(zPlot).min())
|
||||
level = np.arange(zMin,zMax+.1,1)
|
||||
clevel = np.arange(zMin,zMax+.1,10)
|
||||
plotNorm = colors.Normalize()
|
||||
|
||||
elif par == 'real':
|
||||
zPlot = np.real(array[flag][indSect])
|
||||
cmap = plt.get_cmap('Spectral') #('RdYlBu')
|
||||
if cLevel:
|
||||
zMax = np.log10(cLevel[1])
|
||||
zMin = np.log10(cLevel[0])
|
||||
else:
|
||||
zMax = (np.ceil(np.log10(np.abs(zPlot).max())))
|
||||
zMin = (np.floor(np.log10(np.abs(zPlot).min())))
|
||||
level = np.concatenate((-np.logspace(zMax,zMin-.125,(zMax-zMin)*8+1,endpoint=True),np.logspace(zMin-.125,zMax,(zMax-zMin)*8+1,endpoint=True)))
|
||||
clevel = np.concatenate((-np.logspace(zMax,zMin,(zMax-zMin)*1+1,endpoint=True),np.logspace(zMin,zMax,(zMax-zMin)*1+1,endpoint=True)))
|
||||
plotNorm = colors.SymLogNorm(np.abs(level).min(),linscale=0.1)
|
||||
elif par == 'imag':
|
||||
zPlot = np.imag(array[flag][indSect])
|
||||
cmap = plt.get_cmap('Spectral') #('RdYlBu')
|
||||
|
||||
if cLevel:
|
||||
zMax = np.log10(cLevel[1])
|
||||
zMin = np.log10(cLevel[0])
|
||||
else:
|
||||
zMax = (np.ceil(np.log10(np.abs(zPlot).max())))
|
||||
zMin = (np.floor(np.log10(np.abs(zPlot).min())))
|
||||
level = np.concatenate((-np.logspace(zMax,zMin-.125,(zMax-zMin)*8+1,endpoint=True),np.logspace(zMin-.125,zMax,(zMax-zMin)*8+1,endpoint=True)))
|
||||
clevel = np.concatenate((-np.logspace(zMax,zMin,(zMax-zMin)*1+1,endpoint=True),np.logspace(zMin,zMax,(zMax-zMin)*1+1,endpoint=True)))
|
||||
plotNorm = colors.SymLogNorm(np.abs(level).min(),linscale=0.1)
|
||||
|
||||
if colorNorm=='SymLog':
|
||||
plotNorm = colors.SymLogNorm(np.abs(level).min(),linscale=0.1)
|
||||
elif colorNorm=='Lin':
|
||||
plotNorm = colors.Normalize()
|
||||
elif colorNorm=='Log':
|
||||
plotNorm = colors.LogNorm()
|
||||
if contour:
|
||||
cs = ax.tricontourf(x,y,zPlot,levels=level,cmap=cmap,norm=plotNorm)#,extend='both')
|
||||
else:
|
||||
uniX,uniY = np.unique(x),np.unique(y)
|
||||
X,Y = np.meshgrid(np.append(uniX-25,uniX[-1]+25),np.append(uniY-25,uniY[-1]+25))
|
||||
cs = ax.pcolor(X,Y,np.reshape(zPlot,(len(uniY),len(uniX))),cmap=cmap,norm=plotNorm)
|
||||
if colorbar:
|
||||
csB = plt.colorbar(cs,cax=ax.cax,ticks=clevel,format='%1.2e')
|
||||
# csB.on_mappable_changed(cs)
|
||||
ax.set_title(flag+' '+par,fontsize=8)
|
||||
return cs, csB
|
||||
return cs,None
|
||||
|
||||
|
||||
def plotPsudoSectNSDiff(ax,sectDict,arrayList,flag,par='abs',colorbar=True,colorNorm='SymLog',cLevel=None,contour=True,mask=None,useLog=False):
|
||||
|
||||
def sortInArr(arr):
|
||||
return np.sort(arr,order=['freq','x','y','z'])
|
||||
# Find the index for the slice
|
||||
indSect0 = np.where(sectDict.values()[0]==arrayList[0][sectDict.keys()[0]])
|
||||
indSect1 = np.where(sectDict.values()[0]==arrayList[1][sectDict.keys()[0]])
|
||||
# Extract and sort the mats
|
||||
arr0 = sortInArr(arrayList[0][indSect0])
|
||||
arr1 = sortInArr(arrayList[1][indSect1])
|
||||
|
||||
# Define the plot axes
|
||||
if 'x' in sectDict.keys()[0]:
|
||||
x0 = arr0['y']
|
||||
x1 = arr1['y']
|
||||
else:
|
||||
x0 = arr0['x']
|
||||
x1 = arr1['x']
|
||||
y0 = arr0['freq']
|
||||
y1 = arr1['freq']
|
||||
|
||||
|
||||
if par == 'abs':
|
||||
if useLog:
|
||||
zPlot = (np.log10(np.abs(arr0[flag])) - np.log10(np.abs(arr1[flag])))/np.log10(np.abs(arr1[flag]))
|
||||
else:
|
||||
zPlot = (np.abs(arr0[flag]) - np.abs(arr1[flag]))/np.abs(arr1[flag])
|
||||
if mask:
|
||||
maskInd = np.logical_or(np.abs(arr0[flag])< 1e-3,np.abs(arr1[flag]) < 1e-3)
|
||||
zPlot = np.ma.array(zPlot)
|
||||
zPlot[maskInd] = mask
|
||||
cmap = plt.get_cmap('RdYlBu')#seismic)
|
||||
elif par == 'ares':
|
||||
arF = 1/(8*np.pi**2*10**(-7))
|
||||
if useLog:
|
||||
zPlot = (np.log10((arF/arr0['freq'])*np.abs(arr0[flag])**2) - np.log10((arF/arr1['freq'])*np.abs(arr1[flag])**2))/np.log10((arF/arr1['freq'])*np.abs(arr1[flag])**2)
|
||||
else:
|
||||
zPlot = ((arF/arr0['freq'])*np.abs(arr0[flag])**2 - (arF/arr1['freq'])*np.abs(arr1[flag])**2)/((arF/arr1['freq'])*np.abs(arr1[flag])**2)
|
||||
if mask:
|
||||
maskInd = np.logical_or(np.abs(arr0[flag])< 1e-3,np.abs(arr1[flag]) < 1e-3)
|
||||
zPlot = np.ma.array(zPlot)
|
||||
zPlot[maskInd] = mask
|
||||
cmap = plt.get_cmap('Spectral')#seismic)
|
||||
|
||||
elif par == 'aphs':
|
||||
if useLog:
|
||||
zPlot = (np.log10(np.arctan2(arr0[flag].imag,arr0[flag].real)*(180/np.pi)) - np.log10(np.arctan2(arr1[flag].imag,arr1[flag].real)*(180/np.pi)) )/np.log10(np.arctan2(arr1[flag].imag,arr1[flag].real)*(180/np.pi))
|
||||
else:
|
||||
zPlot = ( np.arctan2(arr0[flag].imag,arr0[flag].real)*(180/np.pi) - np.arctan2(arr1[flag].imag,arr1[flag].real)*(180/np.pi) )/(np.arctan2(arr1[flag].imag,arr1[flag].real)*(180/np.pi))
|
||||
if mask:
|
||||
maskInd = np.logical_or(np.abs(arr0[flag])< 1e-3,np.abs(arr1[flag]) < 1e-3)
|
||||
zPlot = np.ma.array(zPlot)
|
||||
zPlot[maskInd] = mask
|
||||
cmap = plt.get_cmap('Spectral')#seismic)
|
||||
elif par == 'real':
|
||||
if useLog:
|
||||
zPlot = (np.log10(arr0[flag].real) - np.log10(arr1[flag].real))/np.log10(arr1[flag].real)
|
||||
else:
|
||||
zPlot = (arr0[flag].real - arr1[flag].real)/arr1[flag].real
|
||||
if mask:
|
||||
maskInd = np.logical_or(arr0[flag].real< 1e-3,arr1[flag].real < 1e-3)
|
||||
zPlot = np.ma.array(zPlot)
|
||||
zPlot[maskInd] = mask
|
||||
cmap = plt.get_cmap('Spectral') #('Spectral')
|
||||
|
||||
elif par == 'imag':
|
||||
if useLog:
|
||||
zPlot = (np.log10(arr0[flag].imag) - np.log10(arr1[flag].imag))/np.log10(arr1[flag].imag)
|
||||
else:
|
||||
zPlot = (arr0[flag].imag - arr1[flag].imag)/arr1[flag].imag
|
||||
if mask:
|
||||
maskInd = np.logical_or(arr0[flag].imag< 1e-3,arr1[flag].imag < 1e-3)
|
||||
zPlot = np.ma.array(zPlot)
|
||||
zPlot[maskInd] = mask
|
||||
cmap = plt.get_cmap('Spectral') #('RdYlBu')
|
||||
|
||||
if cLevel:
|
||||
zMax = np.log10(cLevel[1])
|
||||
zMin = np.log10(cLevel[0])
|
||||
else:
|
||||
zMax = (np.ceil(np.log10(np.abs(zPlot).max())))
|
||||
zMin = (np.floor(np.log10(np.abs(zPlot).min())))
|
||||
|
||||
|
||||
if colorNorm=='SymLog':
|
||||
level = np.concatenate((-np.logspace(zMax,zMin-.125,(zMax-zMin)*8+1,endpoint=True),np.logspace(zMin-.125,zMax,(zMax-zMin)*8+1,endpoint=True)))
|
||||
clevel = np.concatenate((-np.logspace(zMax,zMin,(zMax-zMin)*1+1,endpoint=True),np.logspace(zMin,zMax,(zMax-zMin)*1+1,endpoint=True)))
|
||||
plotNorm = colors.SymLogNorm(np.abs(level).min(),linscale=0.1)
|
||||
elif colorNorm=='Lin':
|
||||
if cLevel:
|
||||
level = np.arange(cLevel[0],cLevel[1]+.1,(cLevel[1] - cLevel[0])/50.)
|
||||
clevel = np.arange(cLevel[0],cLevel[1]+.1,(cLevel[1] - cLevel[0])/10.)
|
||||
else:
|
||||
level = np.arange(zPlot.min(),zPlot.max(),(zPlot.max() - zPlot.min())/50.)
|
||||
clevel = np.arange(zPlot.min(),zPlot.max(),(zPlot.max() - zPlot.min())/10.)
|
||||
plotNorm = colors.Normalize()
|
||||
elif colorNorm=='Log':
|
||||
level = np.logspace(zMin-.125,zMax,(zMax-zMin)*8+1,endpoint=True)
|
||||
clevel = np.logspace(zMin,zMax,(zMax-zMin)*2+1,endpoint=True)
|
||||
plotNorm = colors.LogNorm()
|
||||
if contour:
|
||||
cs = ax.tricontourf(x0,y0,zPlot*100,levels=level*100,cmap=cmap,norm=plotNorm,extend='both')#,extend='both')
|
||||
else:
|
||||
uniX,uniY = np.unique(x0),np.unique(y0)
|
||||
X,Y = np.meshgrid(np.append(uniX-25,uniX[-1]+25),np.append(uniY-25,uniY[-1]+25))
|
||||
cs = ax.pcolor(X,Y,np.reshape(zPlot,(len(uniY),len(uniX))),cmap=cmap,norm=plotNorm)
|
||||
if colorbar:
|
||||
csB = plt.colorbar(cs,cax=ax.cax,ticks=clevel*100,format='%1.2e')
|
||||
# csB.on_mappable_changed(cs)
|
||||
ax.set_title(flag+' '+par + ' diff',fontsize=8)
|
||||
return cs, csB
|
||||
return cs,None
|
||||
@@ -1,178 +0,0 @@
|
||||
import SimPEG as simpeg, numpy as np
|
||||
|
||||
def homo1DModelSource(mesh,freq,sigma_1d):
|
||||
'''
|
||||
Function that calculates and return background fields
|
||||
|
||||
:param Simpeg mesh object mesh: Holds information on the discretization
|
||||
:param float freq: The frequency to solve at
|
||||
:param np.array sigma_1d: Background model of conductivity to base the calculations on, 1d model.
|
||||
:rtype: numpy.ndarray (mesh.nE,2)
|
||||
:return: eBG_bp, E fields for the background model at both polarizations.
|
||||
|
||||
'''
|
||||
# import
|
||||
from SimPEG.MT.Utils import get1DEfields
|
||||
# Get a 1d solution for a halfspace background
|
||||
if mesh.dim == 1:
|
||||
mesh1d = mesh
|
||||
elif mesh.dim == 2:
|
||||
mesh1d = simpeg.Mesh.TensorMesh([mesh.hy],np.array([mesh.x0[1]]))
|
||||
elif mesh.dim == 3:
|
||||
mesh1d = simpeg.Mesh.TensorMesh([mesh.hz],np.array([mesh.x0[2]]))
|
||||
|
||||
# # Note: Everything is using e^iwt
|
||||
e0_1d = get1DEfields(mesh1d,sigma_1d,freq)
|
||||
if mesh.dim == 1:
|
||||
eBG_px = simpeg.mkvc(e0_1d,2)
|
||||
eBG_py = -simpeg.mkvc(e0_1d,2) # added a minus to make the results in the correct quadrents.
|
||||
elif mesh.dim == 2:
|
||||
ex_px = np.zeros(mesh.vnEx,dtype=complex)
|
||||
ey_px = np.zeros((mesh.nEy,1),dtype=complex)
|
||||
for i in np.arange(mesh.vnEx[0]):
|
||||
ex_px[i,:] = -e0_1d
|
||||
eBG_px = np.vstack((simpeg.Utils.mkvc(ex_px,2),ey_px))
|
||||
# Setup y (north) polarization (_py)
|
||||
ex_py = np.zeros((mesh.nEx,1), dtype='complex128')
|
||||
ey_py = np.zeros(mesh.vnEy, dtype='complex128')
|
||||
# Assign the source to ey_py
|
||||
for i in np.arange(mesh.vnEy[0]):
|
||||
ey_py[i,:] = e0_1d
|
||||
# ey_py[1:-1,1:-1,1:-1] = 0
|
||||
eBG_py = np.vstack((ex_py,simpeg.Utils.mkvc(ey_py,2),ez_py))
|
||||
elif mesh.dim == 3:
|
||||
# Setup x (east) polarization (_x)
|
||||
ex_px = np.zeros(mesh.vnEx,dtype=complex)
|
||||
ey_px = np.zeros((mesh.nEy,1),dtype=complex)
|
||||
ez_px = np.zeros((mesh.nEz,1),dtype=complex)
|
||||
# Assign the source to ex_x
|
||||
for i in np.arange(mesh.vnEx[0]):
|
||||
for j in np.arange(mesh.vnEx[1]):
|
||||
ex_px[i,j,:] = -e0_1d
|
||||
eBG_px = np.vstack((simpeg.Utils.mkvc(ex_px,2),ey_px,ez_px))
|
||||
# Setup y (north) polarization (_py)
|
||||
ex_py = np.zeros((mesh.nEx,1), dtype='complex128')
|
||||
ey_py = np.zeros(mesh.vnEy, dtype='complex128')
|
||||
ez_py = np.zeros((mesh.nEz,1), dtype='complex128')
|
||||
# Assign the source to ey_py
|
||||
for i in np.arange(mesh.vnEy[0]):
|
||||
for j in np.arange(mesh.vnEy[1]):
|
||||
ey_py[i,j,:] = e0_1d
|
||||
# ey_py[1:-1,1:-1,1:-1] = 0
|
||||
eBG_py = np.vstack((ex_py,simpeg.Utils.mkvc(ey_py,2),ez_py))
|
||||
|
||||
# Return the electric fields
|
||||
eBG_bp = np.hstack((eBG_px,eBG_py))
|
||||
return eBG_bp
|
||||
|
||||
def analytic1DModelSource(mesh,freq,sigma_1d):
|
||||
'''
|
||||
Function that calculates and return background fields
|
||||
|
||||
:param Simpeg mesh object mesh: Holds information on the discretization
|
||||
:param float freq: The frequency to solve at
|
||||
:param np.array sigma_1d: Background model of conductivity to base the calculations on, 1d model.
|
||||
:rtype: numpy.ndarray (mesh.nE,2)
|
||||
:return: eBG_bp, E fields for the background model at both polarizations.
|
||||
|
||||
'''
|
||||
# import
|
||||
from SimPEG.MT.Utils import getEHfields
|
||||
# Get a 1d solution for a halfspace background
|
||||
if mesh.dim == 1:
|
||||
mesh1d = mesh
|
||||
elif mesh.dim == 2:
|
||||
mesh1d = simpeg.Mesh.TensorMesh([mesh.hy],np.array([mesh.x0[1]]))
|
||||
elif mesh.dim == 3:
|
||||
mesh1d = simpeg.Mesh.TensorMesh([mesh.hz],np.array([mesh.x0[2]]))
|
||||
|
||||
# # Note: Everything is using e^iwt
|
||||
Eu, Ed, _, _ = getEHfields(mesh1d,sigma_1d,freq,mesh.vectorNz)
|
||||
# Make the fields into a dictionary of location and the fields
|
||||
e0_1d = Eu+Ed
|
||||
E1dFieldDict = dict(zip(mesh.vectorNz,e0_1d))
|
||||
if mesh.dim == 1:
|
||||
eBG_px = simpeg.mkvc(e0_1d,2)
|
||||
eBG_py = -simpeg.mkvc(e0_1d,2) # added a minus to make the results in the correct quadrents.
|
||||
elif mesh.dim == 2:
|
||||
ex_px = np.zeros(mesh.vnEx,dtype=complex)
|
||||
ey_px = np.zeros((mesh.nEy,1),dtype=complex)
|
||||
for i in np.arange(mesh.vnEx[0]):
|
||||
ex_px[i,:] = -e0_1d
|
||||
eBG_px = np.vstack((simpeg.Utils.mkvc(ex_px,2),ey_px))
|
||||
# Setup y (north) polarization (_py)
|
||||
ex_py = np.zeros((mesh.nEx,1), dtype='complex128')
|
||||
ey_py = np.zeros(mesh.vnEy, dtype='complex128')
|
||||
# Assign the source to ey_py
|
||||
for i in np.arange(mesh.vnEy[0]):
|
||||
ey_py[i,:] = e0_1d
|
||||
# ey_py[1:-1,1:-1,1:-1] = 0
|
||||
eBG_py = np.vstack((ex_py,simpeg.Utils.mkvc(ey_py,2),ez_py))
|
||||
elif mesh.dim == 3:
|
||||
# Setup x (east) polarization (_x)
|
||||
ex_px = -np.array([E1dFieldDict[i] for i in mesh.gridEx[:,2]]).reshape(-1,1)
|
||||
ey_px = np.zeros((mesh.nEy,1),dtype=complex)
|
||||
ez_px = np.zeros((mesh.nEz,1),dtype=complex)
|
||||
# Construct the full fields
|
||||
eBG_px = np.vstack((ex_px,ey_px,ez_px))
|
||||
# Setup y (north) polarization (_py)
|
||||
ex_py = np.zeros((mesh.nEx,1), dtype='complex128')
|
||||
ey_py = np.array([E1dFieldDict[i] for i in mesh.gridEy[:,2]]).reshape(-1,1)
|
||||
ez_py = np.zeros((mesh.nEz,1), dtype='complex128')
|
||||
# Construct the full fields
|
||||
eBG_py = np.vstack((ex_py,simpeg.Utils.mkvc(ey_py,2),ez_py))
|
||||
|
||||
# Return the electric fields
|
||||
eBG_bp = np.hstack((eBG_px,eBG_py))
|
||||
return eBG_bp
|
||||
|
||||
# def homo3DModelSource(mesh,model,freq):
|
||||
# '''
|
||||
# Function that estimates 1D analytic background fields from a 3D model.
|
||||
|
||||
# :param Simpeg mesh object mesh: Holds information on the discretization
|
||||
# :param float freq: The frequency to solve at
|
||||
# :param np.array sigma_1d: Background model of conductivity to base the calculations on, 1d model.
|
||||
# :rtype: numpy.ndarray (mesh.nE,2)
|
||||
# :return: eBG_bp, E fields for the background model at both polarizations.
|
||||
|
||||
# '''
|
||||
|
||||
# if mesh.dim < 3:
|
||||
# raise IOError('Input mesh has to have 3 dimensions.')
|
||||
|
||||
|
||||
# # Get the locations
|
||||
# a = mesh.gridCC[:,0:2].copy()
|
||||
# unixy = np.unique(a.view(a.dtype.descr * a.shape[1])).view(float).reshape(-1,2)
|
||||
# uniz = np.unique(mesh.gridCC[:,2])
|
||||
# # # Note: Everything is using e^iwt
|
||||
# # Need to loop thourgh the xy locations, assess the model and calculate the fields at the phusdo cell centers.
|
||||
# # Then interpolate the cc fields to the edges.
|
||||
|
||||
# e0_1d = get1DEfields(mesh1d,sigma_1d,freq)
|
||||
|
||||
# elif mesh.dim == 3:
|
||||
# # Setup x (east) polarization (_x)
|
||||
# ex_px = np.zeros(mesh.vnEx,dtype=complex)
|
||||
# ey_px = np.zeros((mesh.nEy,1),dtype=complex)
|
||||
# ez_px = np.zeros((mesh.nEz,1),dtype=complex)
|
||||
# # Assign the source to ex_x
|
||||
# for i in np.arange(mesh.vnEx[0]):
|
||||
# for j in np.arange(mesh.vnEx[1]):
|
||||
# ex_px[i,j,:] = -e0_1d
|
||||
# eBG_px = np.vstack((simpeg.Utils.mkvc(ex_px,2),ey_px,ez_px))
|
||||
# # Setup y (north) polarization (_py)
|
||||
# ex_py = np.zeros((mesh.nEx,1), dtype='complex128')
|
||||
# ey_py = np.zeros(mesh.vnEy, dtype='complex128')
|
||||
# ez_py = np.zeros((mesh.nEz,1), dtype='complex128')
|
||||
# # Assign the source to ey_py
|
||||
# for i in np.arange(mesh.vnEy[0]):
|
||||
# for j in np.arange(mesh.vnEy[1]):
|
||||
# ey_py[i,j,:] = e0_1d
|
||||
# # ey_py[1:-1,1:-1,1:-1] = 0
|
||||
# eBG_py = np.vstack((ex_py,simpeg.Utils.mkvc(ey_py,2),ez_py))
|
||||
|
||||
# # Return the electric fields
|
||||
# eBG_bp = np.hstack((eBG_px,eBG_py))
|
||||
# return eBG_bp
|
||||
@@ -1,46 +0,0 @@
|
||||
import SimPEG as simpeg, numpy as np
|
||||
|
||||
def homo1DModelSource(mesh,freq,m_back):
|
||||
'''
|
||||
Function that calculates and return background fields for a 3D mesh and model.
|
||||
The calculuations use 1D field solution for a vertical slice throught model (south-western most column),
|
||||
which is assigned at the fields everywhere for the respective polarizations.2
|
||||
|
||||
:param Simpeg mesh object mesh: Holds information on the discretization
|
||||
:param float freq: The frequency to solve at
|
||||
:param np.array m_back: Background model of conductivity to base the calculations on.
|
||||
:rtype: numpy.ndarray (mesh.nE,2)
|
||||
:return: eBG_bp, E fields for the background model at both polarizations.
|
||||
|
||||
'''
|
||||
|
||||
# import
|
||||
from SimPEG.MT.Utils import get1DEfields
|
||||
# Get a 1d solution for a halfspace background
|
||||
mesh1d = simpeg.Mesh.TensorMesh([mesh.hz],np.array([mesh.x0[2]]))
|
||||
# Note: Everything is using e^iwt
|
||||
e0_1d = get1DEfields(mesh1d,mesh.r(m_back,'CC','CC','M')[0,0,:],freq)
|
||||
# Setup x (east) polarization (_x)
|
||||
ex_px = np.zeros(mesh.vnEx,dtype=complex)
|
||||
ey_px = np.zeros((mesh.nEy,1),dtype=complex)
|
||||
ez_px = np.zeros((mesh.nEz,1),dtype=complex)
|
||||
# Assign the source to ex_x
|
||||
for i in np.arange(mesh.vnEx[0]):
|
||||
for j in np.arange(mesh.vnEx[1]):
|
||||
ex_px[i,j,:] = -e0_1d
|
||||
eBG_px = np.vstack((simpeg.Utils.mkvc(ex_px,2),ey_px,ez_px))
|
||||
# Setup y (north) polarization (_py)
|
||||
ex_py = np.zeros((mesh.nEx,1), dtype='complex128')
|
||||
ey_py = np.zeros(mesh.vnEy, dtype='complex128')
|
||||
ez_py = np.zeros((mesh.nEz,1), dtype='complex128')
|
||||
# Assign the source to ey_py
|
||||
|
||||
for i in np.arange(mesh.vnEy[0]):
|
||||
for j in np.arange(mesh.vnEy[1]):
|
||||
ey_py[i,j,:] = e0_1d
|
||||
# ey_py[1:-1,1:-1,1:-1] = 0
|
||||
eBG_py = np.vstack((ex_py,simpeg.Utils.mkvc(ey_py,2),ez_py))
|
||||
|
||||
# Return the electric fields
|
||||
eBG_bp = np.hstack((eBG_px,eBG_py))
|
||||
return eBG_bp
|
||||
@@ -1,5 +0,0 @@
|
||||
import Utils
|
||||
from SurveyMT import Rx, Survey, Data
|
||||
from FieldsMT import Fields1D_e, Fields3D_e
|
||||
import Problem1D, Problem2D, Problem3D
|
||||
import SrcMT
|
||||
+88
-59
@@ -4,7 +4,6 @@ from Tests import checkDerivative
|
||||
from PropMaps import PropMap, Property
|
||||
from numpy.polynomial import polynomial
|
||||
from scipy.interpolate import UnivariateSpline
|
||||
import warnings
|
||||
|
||||
class IdentityMap(object):
|
||||
"""
|
||||
@@ -297,11 +296,11 @@ class LogMap(IdentityMap):
|
||||
def inverse(self, m):
|
||||
return np.exp(Utils.mkvc(m))
|
||||
|
||||
class SurjectFull(IdentityMap):
|
||||
class FullMap(IdentityMap):
|
||||
"""
|
||||
SurjectFull
|
||||
FullMap
|
||||
|
||||
Given a scalar, the SurjectFull maps the value to the
|
||||
Given a scalar, the FullMap maps the value to the
|
||||
full model space.
|
||||
"""
|
||||
|
||||
@@ -328,15 +327,9 @@ class SurjectFull(IdentityMap):
|
||||
"""
|
||||
return np.ones([self.mesh.nC,1])
|
||||
|
||||
class FullMap(SurjectFull):
|
||||
def __init__(self,mesh,**kwargs):
|
||||
warnings.warn(
|
||||
"`FullMap` is deprecated and will be removed in future versions. Use `SurjectFull` instead",
|
||||
FutureWarning)
|
||||
SurjectFull.__init__(self,mesh,**kwargs)
|
||||
|
||||
class SurjectVertical1D(IdentityMap):
|
||||
"""SurjectVertical1DMap
|
||||
class Vertical1DMap(IdentityMap):
|
||||
"""Vertical1DMap
|
||||
|
||||
Given a 1D vector through the last dimension
|
||||
of the mesh, this will extend to the full
|
||||
@@ -376,14 +369,8 @@ class SurjectVertical1D(IdentityMap):
|
||||
), shape=(repNum, 1))
|
||||
return sp.kron(sp.identity(self.nP), repVec)
|
||||
|
||||
class Vertical1DMap(SurjectVertical1D):
|
||||
def __init__(self,mesh,**kwargs):
|
||||
warnings.warn(
|
||||
"`Vertical1DMap` is deprecated and will be removed in future versions. Use `SurjectVertical1D` instead",
|
||||
FutureWarning)
|
||||
SurjectVertical1D.__init__(self,mesh,**kwargs)
|
||||
|
||||
class Surject2Dto3D(IdentityMap):
|
||||
class Map2Dto3D(IdentityMap):
|
||||
"""Map2Dto3D
|
||||
|
||||
Given a 2D vector, this will extend to the full
|
||||
@@ -438,13 +425,6 @@ class Surject2Dto3D(IdentityMap):
|
||||
), shape=(nC, nP))
|
||||
return P
|
||||
|
||||
class Map2Dto3D(Surject2Dto3D):
|
||||
def __init__(self,mesh,**kwargs):
|
||||
warnings.warn(
|
||||
"`Map2Dto3D` is deprecated and will be removed in future versions. Use `Surject2Dto3D` instead",
|
||||
FutureWarning)
|
||||
Surject2Dto3D.__init__(self,mesh,**kwargs)
|
||||
|
||||
class Mesh2Mesh(IdentityMap):
|
||||
"""
|
||||
Takes a model on one mesh are translates it to another mesh.
|
||||
@@ -478,7 +458,7 @@ class Mesh2Mesh(IdentityMap):
|
||||
return self.P
|
||||
|
||||
|
||||
class InjectActiveCells(IdentityMap):
|
||||
class ActiveCells(IdentityMap):
|
||||
"""
|
||||
Active model parameters.
|
||||
|
||||
@@ -526,12 +506,76 @@ class InjectActiveCells(IdentityMap):
|
||||
def deriv(self, m):
|
||||
return self.P
|
||||
|
||||
class ActiveCells(InjectActiveCells):
|
||||
def __init__(self, mesh, indActive, valInactive, nC=None):
|
||||
warnings.warn(
|
||||
"`ActiveCells` is deprecated and will be removed in future versions. Use `InjectActiveCells` instead",
|
||||
FutureWarning)
|
||||
InjectActiveCells.__init__(self, mesh, indActive, valInactive, nC)
|
||||
class ActiveCellsTopo(IdentityMap):
|
||||
"""
|
||||
Active model parameters. Extend for cells on topography to air cell (only works for tensor mesh)
|
||||
|
||||
"""
|
||||
|
||||
indActive = None #: Active Cells
|
||||
valInactive = None #: Values of inactive Cells
|
||||
nC = None #: Number of cells in the full model
|
||||
|
||||
def __init__(self, mesh, indActive, nC=None):
|
||||
self.mesh = mesh
|
||||
|
||||
self.nC = nC or mesh.nC
|
||||
|
||||
if indActive.dtype is not bool:
|
||||
z = np.zeros(self.nC,dtype=bool)
|
||||
z[indActive] = True
|
||||
indActive = z
|
||||
self.indActive = indActive
|
||||
|
||||
self.indInactive = np.logical_not(indActive)
|
||||
inds = np.nonzero(self.indActive)[0]
|
||||
self.P = sp.csr_matrix((np.ones(inds.size),(inds, range(inds.size))), shape=(self.nC, self.nP))
|
||||
|
||||
@property
|
||||
def shape(self):
|
||||
return (self.nC, self.nP)
|
||||
|
||||
@property
|
||||
def nP(self):
|
||||
"""Number of parameters in the model."""
|
||||
return self.indActive.sum()
|
||||
|
||||
def _transform(self, m):
|
||||
val_temp = np.zeros(self.mesh.nC)
|
||||
val_temp[self.indActive] = m
|
||||
valInactive = np.zeros(self.mesh.nC)
|
||||
#1D
|
||||
if self.mesh.dim == 1:
|
||||
z_temp = self.mesh.gridCC
|
||||
val_temp[~self.indActive] = val_temp[np.argmax(z_temp[self.indActive])]
|
||||
#2D
|
||||
elif self.mesh.dim == 2:
|
||||
act_temp = self.indActive.reshape((self.mesh.nCx, self.mesh.nCy), order = 'F')
|
||||
val_temp = val_temp.reshape((self.mesh.nCx, self.mesh.nCy), order = 'F')
|
||||
y_temp = self.mesh.gridCC[:,1].reshape((self.mesh.nCx, self.mesh.nCy), order = 'F')
|
||||
for i in range(self.mesh.nCx):
|
||||
act_tempx = act_temp[i,:] == 1
|
||||
val_temp[i,~act_tempx] = val_temp[i,np.argmax(y_temp[i,act_tempx])]
|
||||
valInactive[~self.indActive] = Utils.mkvc(val_temp)[~self.indActive]
|
||||
#3D
|
||||
elif self.mesh.dim == 3:
|
||||
act_temp = self.indActive.reshape((self.mesh.nCx*self.mesh.nCy, self.mesh.nCz), order = 'F')
|
||||
val_temp = val_temp.reshape((self.mesh.nCx*self.mesh.nCy, self.mesh.nCz), order = 'F')
|
||||
z_temp = self.mesh.gridCC[:,2].reshape((self.mesh.nCx*self.mesh.nCy, self.mesh.nCz), order = 'F')
|
||||
for i in range(self.mesh.nCx*self.mesh.nCy):
|
||||
act_tempxy = act_temp[i,:] == 1
|
||||
val_temp[i,~act_tempxy] = val_temp[i,np.argmax(z_temp[i,act_tempxy])]
|
||||
valInactive[~self.indActive] = Utils.mkvc(val_temp)[~self.indActive]
|
||||
|
||||
self.valInactive = valInactive
|
||||
|
||||
return self.P*m + self.valInactive
|
||||
|
||||
def inverse(self, D):
|
||||
return self.P.T*D
|
||||
|
||||
def deriv(self, m):
|
||||
return self.P
|
||||
|
||||
|
||||
class Weighting(IdentityMap):
|
||||
@@ -682,29 +726,15 @@ class PolyMap(IdentityMap):
|
||||
|
||||
m = [\sigma_1, \sigma_2, c]
|
||||
|
||||
Can take in an actInd vector to account for topography.
|
||||
|
||||
"""
|
||||
def __init__(self, mesh, order, logSigma=True, normal='X', actInd = None):
|
||||
def __init__(self, mesh, order, logSigma=True, normal='X'):
|
||||
IdentityMap.__init__(self, mesh)
|
||||
self.logSigma = logSigma
|
||||
self.order = order
|
||||
self.normal = normal
|
||||
self.actInd = actInd
|
||||
|
||||
if getattr(self, 'actInd', None) is None:
|
||||
self.actInd = range(self.mesh.nC)
|
||||
self.nC = self.mesh.nC
|
||||
|
||||
else:
|
||||
self.nC = len(self.actInd)
|
||||
|
||||
slope = 1e4
|
||||
|
||||
@property
|
||||
def shape(self):
|
||||
return (self.nC, self.nP)
|
||||
|
||||
@property
|
||||
def nP(self):
|
||||
if np.isscalar(self.order):
|
||||
@@ -722,8 +752,8 @@ class PolyMap(IdentityMap):
|
||||
sig1, sig2 = np.exp(sig1), np.exp(sig2)
|
||||
#2D
|
||||
if self.mesh.dim == 2:
|
||||
X = self.mesh.gridCC[self.actInd,0]
|
||||
Y = self.mesh.gridCC[self.actInd,1]
|
||||
X = self.mesh.gridCC[:,0]
|
||||
Y = self.mesh.gridCC[:,1]
|
||||
if self.normal =='X':
|
||||
f = polynomial.polyval(Y, c) - X
|
||||
elif self.normal =='Y':
|
||||
@@ -732,9 +762,9 @@ class PolyMap(IdentityMap):
|
||||
raise(Exception("Input for normal = X or Y or Z"))
|
||||
#3D
|
||||
elif self.mesh.dim == 3:
|
||||
X = self.mesh.gridCC[self.actInd,0]
|
||||
Y = self.mesh.gridCC[self.actInd,1]
|
||||
Z = self.mesh.gridCC[self.actInd,2]
|
||||
X = self.mesh.gridCC[:,0]
|
||||
Y = self.mesh.gridCC[:,1]
|
||||
Z = self.mesh.gridCC[:,2]
|
||||
if self.normal =='X':
|
||||
f = polynomial.polyval2d(Y, Z, c.reshape((self.order[0]+1,self.order[1]+1))) - X
|
||||
elif self.normal =='Y':
|
||||
@@ -743,7 +773,6 @@ class PolyMap(IdentityMap):
|
||||
f = polynomial.polyval2d(X, Y, c.reshape((self.order[0]+1,self.order[1]+1))) - Z
|
||||
else:
|
||||
raise(Exception("Input for normal = X or Y or Z"))
|
||||
|
||||
else:
|
||||
raise(Exception("Only supports 2D"))
|
||||
|
||||
@@ -757,8 +786,8 @@ class PolyMap(IdentityMap):
|
||||
sig1, sig2 = np.exp(sig1), np.exp(sig2)
|
||||
#2D
|
||||
if self.mesh.dim == 2:
|
||||
X = self.mesh.gridCC[self.actInd,0]
|
||||
Y = self.mesh.gridCC[self.actInd,1]
|
||||
X = self.mesh.gridCC[:,0]
|
||||
Y = self.mesh.gridCC[:,1]
|
||||
|
||||
if self.normal =='X':
|
||||
f = polynomial.polyval(Y, c) - X
|
||||
@@ -770,9 +799,9 @@ class PolyMap(IdentityMap):
|
||||
raise(Exception("Input for normal = X or Y or Z"))
|
||||
#3D
|
||||
elif self.mesh.dim == 3:
|
||||
X = self.mesh.gridCC[self.actInd,0]
|
||||
Y = self.mesh.gridCC[self.actInd,1]
|
||||
Z = self.mesh.gridCC[self.actInd,2]
|
||||
X = self.mesh.gridCC[:,0]
|
||||
Y = self.mesh.gridCC[:,1]
|
||||
Z = self.mesh.gridCC[:,2]
|
||||
|
||||
if self.normal =='X':
|
||||
f = polynomial.polyval2d(Y, Z, c.reshape((self.order[0]+1,self.order[1]+1))) - X
|
||||
|
||||
@@ -2,7 +2,6 @@ from SimPEG import Utils, np
|
||||
from BaseMesh import BaseRectangularMesh
|
||||
from DiffOperators import DiffOperators
|
||||
from InnerProducts import InnerProducts
|
||||
from View import CurvView
|
||||
|
||||
# Some helper functions.
|
||||
length2D = lambda x: (x[:, 0]**2 + x[:, 1]**2)**0.5
|
||||
@@ -11,7 +10,7 @@ normalize2D = lambda x: x/np.kron(np.ones((1, 2)), Utils.mkvc(length2D(x), 2))
|
||||
normalize3D = lambda x: x/np.kron(np.ones((1, 3)), Utils.mkvc(length3D(x), 2))
|
||||
|
||||
|
||||
class CurvilinearMesh(BaseRectangularMesh, DiffOperators, InnerProducts, CurvView):
|
||||
class CurvilinearMesh(BaseRectangularMesh, DiffOperators, InnerProducts):
|
||||
"""
|
||||
CurvilinearMesh is a mesh class that deals with curvilinear meshes.
|
||||
|
||||
@@ -331,6 +330,102 @@ class CurvilinearMesh(BaseRectangularMesh, DiffOperators, InnerProducts, CurvVie
|
||||
|
||||
|
||||
|
||||
#############################################
|
||||
# Plotting Functions #
|
||||
#############################################
|
||||
|
||||
def plotGrid(self, ax=None, nodes=False, faces=False, centers=False, edges=False, lines=True, showIt=False):
|
||||
"""Plot the nodal, cell-centered and staggered grids for 1,2 and 3 dimensions.
|
||||
|
||||
|
||||
.. plot::
|
||||
:include-source:
|
||||
|
||||
from SimPEG import Mesh, Utils
|
||||
X, Y = Utils.exampleLrmGrid([3,3],'rotate')
|
||||
M = Mesh.CurvilinearMesh([X, Y])
|
||||
M.plotGrid(showIt=True)
|
||||
|
||||
"""
|
||||
import matplotlib.pyplot as plt
|
||||
import matplotlib
|
||||
from mpl_toolkits.mplot3d import Axes3D
|
||||
mkvc = Utils.mkvc
|
||||
|
||||
axOpts = {'projection':'3d'} if self.dim == 3 else {}
|
||||
if ax is None: ax = plt.subplot(111, **axOpts)
|
||||
|
||||
NN = self.r(self.gridN, 'N', 'N', 'M')
|
||||
if self.dim == 2:
|
||||
|
||||
if lines:
|
||||
X1 = np.c_[mkvc(NN[0][:-1, :]), mkvc(NN[0][1:, :]), mkvc(NN[0][:-1, :])*np.nan].flatten()
|
||||
Y1 = np.c_[mkvc(NN[1][:-1, :]), mkvc(NN[1][1:, :]), mkvc(NN[1][:-1, :])*np.nan].flatten()
|
||||
|
||||
X2 = np.c_[mkvc(NN[0][:, :-1]), mkvc(NN[0][:, 1:]), mkvc(NN[0][:, :-1])*np.nan].flatten()
|
||||
Y2 = np.c_[mkvc(NN[1][:, :-1]), mkvc(NN[1][:, 1:]), mkvc(NN[1][:, :-1])*np.nan].flatten()
|
||||
|
||||
X = np.r_[X1, X2]
|
||||
Y = np.r_[Y1, Y2]
|
||||
|
||||
ax.plot(X, Y, 'b-')
|
||||
if centers:
|
||||
ax.plot(self.gridCC[:,0],self.gridCC[:,1],'ro')
|
||||
|
||||
# Nx = self.r(self.normals, 'F', 'Fx', 'V')
|
||||
# Ny = self.r(self.normals, 'F', 'Fy', 'V')
|
||||
# Tx = self.r(self.tangents, 'E', 'Ex', 'V')
|
||||
# Ty = self.r(self.tangents, 'E', 'Ey', 'V')
|
||||
|
||||
# ax.plot(self.gridN[:, 0], self.gridN[:, 1], 'bo')
|
||||
|
||||
# nX = np.c_[self.gridFx[:, 0], self.gridFx[:, 0] + Nx[0]*length, self.gridFx[:, 0]*np.nan].flatten()
|
||||
# nY = np.c_[self.gridFx[:, 1], self.gridFx[:, 1] + Nx[1]*length, self.gridFx[:, 1]*np.nan].flatten()
|
||||
# ax.plot(self.gridFx[:, 0], self.gridFx[:, 1], 'rs')
|
||||
# ax.plot(nX, nY, 'r-')
|
||||
|
||||
# nX = np.c_[self.gridFy[:, 0], self.gridFy[:, 0] + Ny[0]*length, self.gridFy[:, 0]*np.nan].flatten()
|
||||
# nY = np.c_[self.gridFy[:, 1], self.gridFy[:, 1] + Ny[1]*length, self.gridFy[:, 1]*np.nan].flatten()
|
||||
# #ax.plot(self.gridFy[:, 0], self.gridFy[:, 1], 'gs')
|
||||
# ax.plot(nX, nY, 'g-')
|
||||
|
||||
# tX = np.c_[self.gridEx[:, 0], self.gridEx[:, 0] + Tx[0]*length, self.gridEx[:, 0]*np.nan].flatten()
|
||||
# tY = np.c_[self.gridEx[:, 1], self.gridEx[:, 1] + Tx[1]*length, self.gridEx[:, 1]*np.nan].flatten()
|
||||
# ax.plot(self.gridEx[:, 0], self.gridEx[:, 1], 'r^')
|
||||
# ax.plot(tX, tY, 'r-')
|
||||
|
||||
# nX = np.c_[self.gridEy[:, 0], self.gridEy[:, 0] + Ty[0]*length, self.gridEy[:, 0]*np.nan].flatten()
|
||||
# nY = np.c_[self.gridEy[:, 1], self.gridEy[:, 1] + Ty[1]*length, self.gridEy[:, 1]*np.nan].flatten()
|
||||
# #ax.plot(self.gridEy[:, 0], self.gridEy[:, 1], 'g^')
|
||||
# ax.plot(nX, nY, 'g-')
|
||||
|
||||
elif self.dim == 3:
|
||||
X1 = np.c_[mkvc(NN[0][:-1, :, :]), mkvc(NN[0][1:, :, :]), mkvc(NN[0][:-1, :, :])*np.nan].flatten()
|
||||
Y1 = np.c_[mkvc(NN[1][:-1, :, :]), mkvc(NN[1][1:, :, :]), mkvc(NN[1][:-1, :, :])*np.nan].flatten()
|
||||
Z1 = np.c_[mkvc(NN[2][:-1, :, :]), mkvc(NN[2][1:, :, :]), mkvc(NN[2][:-1, :, :])*np.nan].flatten()
|
||||
|
||||
X2 = np.c_[mkvc(NN[0][:, :-1, :]), mkvc(NN[0][:, 1:, :]), mkvc(NN[0][:, :-1, :])*np.nan].flatten()
|
||||
Y2 = np.c_[mkvc(NN[1][:, :-1, :]), mkvc(NN[1][:, 1:, :]), mkvc(NN[1][:, :-1, :])*np.nan].flatten()
|
||||
Z2 = np.c_[mkvc(NN[2][:, :-1, :]), mkvc(NN[2][:, 1:, :]), mkvc(NN[2][:, :-1, :])*np.nan].flatten()
|
||||
|
||||
X3 = np.c_[mkvc(NN[0][:, :, :-1]), mkvc(NN[0][:, :, 1:]), mkvc(NN[0][:, :, :-1])*np.nan].flatten()
|
||||
Y3 = np.c_[mkvc(NN[1][:, :, :-1]), mkvc(NN[1][:, :, 1:]), mkvc(NN[1][:, :, :-1])*np.nan].flatten()
|
||||
Z3 = np.c_[mkvc(NN[2][:, :, :-1]), mkvc(NN[2][:, :, 1:]), mkvc(NN[2][:, :, :-1])*np.nan].flatten()
|
||||
|
||||
X = np.r_[X1, X2, X3]
|
||||
Y = np.r_[Y1, Y2, Y3]
|
||||
Z = np.r_[Z1, Z2, Z3]
|
||||
|
||||
ax.plot(X, Y, 'b', zs=Z)
|
||||
ax.set_zlabel('x3')
|
||||
|
||||
ax.grid(True)
|
||||
ax.set_xlabel('x1')
|
||||
ax.set_ylabel('x2')
|
||||
|
||||
if showIt: plt.show()
|
||||
|
||||
|
||||
if __name__ == '__main__':
|
||||
nc = 5
|
||||
h1 = np.cumsum(np.r_[0, np.ones(nc)/(nc)])
|
||||
|
||||
+9
-12
@@ -330,7 +330,7 @@ class CylMesh(BaseTensorMesh, BaseRectangularMesh, InnerProducts, CylView):
|
||||
raise NotImplementedError('wrapping in the averaging is not yet implemented')
|
||||
return self._aveF2CCV
|
||||
|
||||
def getInterpolationMatCartMesh(self, Mrect, locType='CC', locTypeTo=None):
|
||||
def getInterpolationMatCartMesh(self, Mrect, locType='CC'):
|
||||
"""
|
||||
Takes a cartesian mesh and returns a projection to translate onto the cartesian grid.
|
||||
"""
|
||||
@@ -338,22 +338,19 @@ class CylMesh(BaseTensorMesh, BaseRectangularMesh, InnerProducts, CylView):
|
||||
assert self.isSymmetric, "Currently we have not taken into account other projections for more complicated CylMeshes"
|
||||
|
||||
|
||||
if locTypeTo is None:
|
||||
locTypeTo = locType
|
||||
|
||||
if locType == 'F':
|
||||
# do this three times for each component
|
||||
X = self.getInterpolationMatCartMesh(Mrect, locType='Fx', locTypeTo=locTypeTo+'x')
|
||||
Y = self.getInterpolationMatCartMesh(Mrect, locType='Fy', locTypeTo=locTypeTo+'y')
|
||||
Z = self.getInterpolationMatCartMesh(Mrect, locType='Fz', locTypeTo=locTypeTo+'z')
|
||||
X = self.getInterpolationMatCartMesh(Mrect, locType='Fx')
|
||||
Y = self.getInterpolationMatCartMesh(Mrect, locType='Fy')
|
||||
Z = self.getInterpolationMatCartMesh(Mrect, locType='Fz')
|
||||
return sp.vstack((X,Y,Z))
|
||||
if locType == 'E':
|
||||
X = self.getInterpolationMatCartMesh(Mrect, locType='Ex', locTypeTo=locTypeTo+'x')
|
||||
Y = self.getInterpolationMatCartMesh(Mrect, locType='Ey', locTypeTo=locTypeTo+'y')
|
||||
Z = spzeros(getattr(Mrect, 'n' + locTypeTo + 'z'), self.nE)
|
||||
X = self.getInterpolationMatCartMesh(Mrect, locType='Ex')
|
||||
Y = self.getInterpolationMatCartMesh(Mrect, locType='Ey')
|
||||
Z = spzeros(Mrect.nEz, self.nE)
|
||||
return sp.vstack((X,Y,Z))
|
||||
|
||||
grid = getattr(Mrect, 'grid' + locTypeTo)
|
||||
grid = getattr(Mrect, 'grid' + locType)
|
||||
# This is unit circle stuff, 0 to 2*pi, starting at x-axis, rotating counter clockwise in an x-y slice
|
||||
theta = - np.arctan2(grid[:,0] - self.cartesianOrigin[0], grid[:,1] - self.cartesianOrigin[1]) + np.pi/2
|
||||
theta[theta < 0] += np.pi*2.0
|
||||
@@ -369,7 +366,7 @@ class CylMesh(BaseTensorMesh, BaseRectangularMesh, InnerProducts, CylView):
|
||||
'Ex': Mrect.tangents[:Mrect.nEx,:],
|
||||
'Ey': Mrect.tangents[Mrect.nEx:(Mrect.nEx+Mrect.nEy),:],
|
||||
'Ez': Mrect.tangents[-Mrect.nEz:,:],
|
||||
}[locTypeTo]
|
||||
}[locType]
|
||||
if 'F' in locType:
|
||||
normals = np.c_[np.cos(theta), np.sin(theta), np.zeros(theta.size)]
|
||||
proj = ( normals * dotMe ).sum(axis=1)
|
||||
|
||||
+31
-109
@@ -307,28 +307,24 @@ class DiffOperators(object):
|
||||
return BC
|
||||
_cellGradBC_list = 'neumann'
|
||||
|
||||
def _cellGradStencil(self):
|
||||
BC = self.setCellGradBC(self._cellGradBC_list)
|
||||
n = self.vnC
|
||||
if(self.dim == 1):
|
||||
G = ddxCellGrad(n[0], BC[0])
|
||||
elif(self.dim == 2):
|
||||
G1 = sp.kron(speye(n[1]), ddxCellGrad(n[0], BC[0]))
|
||||
G2 = sp.kron(ddxCellGrad(n[1], BC[1]), speye(n[0]))
|
||||
G = sp.vstack((G1, G2), format="csr")
|
||||
elif(self.dim == 3):
|
||||
G1 = kron3(speye(n[2]), speye(n[1]), ddxCellGrad(n[0], BC[0]))
|
||||
G2 = kron3(speye(n[2]), ddxCellGrad(n[1], BC[1]), speye(n[0]))
|
||||
G3 = kron3(ddxCellGrad(n[2], BC[2]), speye(n[1]), speye(n[0]))
|
||||
G = sp.vstack((G1, G2, G3), format="csr")
|
||||
return G
|
||||
|
||||
def cellGrad():
|
||||
doc = "The cell centered Gradient, takes you to cell faces."
|
||||
|
||||
def fget(self):
|
||||
if(self._cellGrad is None):
|
||||
G = self._cellGradStencil()
|
||||
BC = self.setCellGradBC(self._cellGradBC_list)
|
||||
n = self.vnC
|
||||
if(self.dim == 1):
|
||||
G = ddxCellGrad(n[0], BC[0])
|
||||
elif(self.dim == 2):
|
||||
G1 = sp.kron(speye(n[1]), ddxCellGrad(n[0], BC[0]))
|
||||
G2 = sp.kron(ddxCellGrad(n[1], BC[1]), speye(n[0]))
|
||||
G = sp.vstack((G1, G2), format="csr")
|
||||
elif(self.dim == 3):
|
||||
G1 = kron3(speye(n[2]), speye(n[1]), ddxCellGrad(n[0], BC[0]))
|
||||
G2 = kron3(speye(n[2]), ddxCellGrad(n[1], BC[1]), speye(n[0]))
|
||||
G3 = kron3(ddxCellGrad(n[2], BC[2]), speye(n[1]), speye(n[0]))
|
||||
G = sp.vstack((G1, G2, G3), format="csr")
|
||||
# Compute areas of cell faces & volumes
|
||||
S = self.area
|
||||
V = self.aveCC2F*self.vol # Average volume between adjacent cells
|
||||
@@ -365,24 +361,19 @@ class DiffOperators(object):
|
||||
_cellGradBC = None
|
||||
cellGradBC = property(**cellGradBC())
|
||||
|
||||
def _cellGradxStencil(self):
|
||||
BC = ['neumann', 'neumann']
|
||||
n = self.vnC
|
||||
if(self.dim == 1):
|
||||
G1 = ddxCellGrad(n[0], BC)
|
||||
elif(self.dim == 2):
|
||||
G1 = sp.kron(speye(n[1]), ddxCellGrad(n[0], BC))
|
||||
elif(self.dim == 3):
|
||||
G1 = kron3(speye(n[2]), speye(n[1]), ddxCellGrad(n[0], BC))
|
||||
return G1
|
||||
|
||||
|
||||
def cellGradx():
|
||||
doc = "Cell centered Gradient in the x dimension. Has neumann boundary conditions."
|
||||
|
||||
def fget(self):
|
||||
if getattr(self, '_cellGradx', None) is None:
|
||||
G1 = self._cellGradxStencil()
|
||||
BC = ['neumann', 'neumann']
|
||||
n = self.vnC
|
||||
if(self.dim == 1):
|
||||
G1 = ddxCellGrad(n[0], BC)
|
||||
elif(self.dim == 2):
|
||||
G1 = sp.kron(speye(n[1]), ddxCellGrad(n[0], BC))
|
||||
elif(self.dim == 3):
|
||||
G1 = kron3(speye(n[2]), speye(n[1]), ddxCellGrad(n[0], BC))
|
||||
# Compute areas of cell faces & volumes
|
||||
V = self.aveCC2F*self.vol
|
||||
L = self.r(self.area/V, 'F','Fx', 'V')
|
||||
@@ -391,22 +382,17 @@ class DiffOperators(object):
|
||||
return locals()
|
||||
cellGradx = property(**cellGradx())
|
||||
|
||||
def _cellGradyStencil(self):
|
||||
if self.dim < 2: return None
|
||||
BC = ['neumann', 'neumann']
|
||||
n = self.vnC
|
||||
if(self.dim == 2):
|
||||
G2 = sp.kron(ddxCellGrad(n[1], BC), speye(n[0]))
|
||||
elif(self.dim == 3):
|
||||
G2 = kron3(speye(n[2]), ddxCellGrad(n[1], BC), speye(n[0]))
|
||||
return G2
|
||||
|
||||
def cellGrady():
|
||||
doc = "Cell centered Gradient in the x dimension. Has neumann boundary conditions."
|
||||
def fget(self):
|
||||
if self.dim < 2: return None
|
||||
if getattr(self, '_cellGrady', None) is None:
|
||||
G2 = self._cellGradyStencil()
|
||||
BC = ['neumann', 'neumann']
|
||||
n = self.vnC
|
||||
if(self.dim == 2):
|
||||
G2 = sp.kron(ddxCellGrad(n[1], BC), speye(n[0]))
|
||||
elif(self.dim == 3):
|
||||
G2 = kron3(speye(n[2]), ddxCellGrad(n[1], BC), speye(n[0]))
|
||||
# Compute areas of cell faces & volumes
|
||||
V = self.aveCC2F*self.vol
|
||||
L = self.r(self.area/V, 'F','Fy', 'V')
|
||||
@@ -415,19 +401,14 @@ class DiffOperators(object):
|
||||
return locals()
|
||||
cellGrady = property(**cellGrady())
|
||||
|
||||
def _cellGradzStencil(self):
|
||||
if self.dim < 3: return None
|
||||
BC = ['neumann', 'neumann']
|
||||
n = self.vnC
|
||||
G3 = kron3(ddxCellGrad(n[2], BC), speye(n[1]), speye(n[0]))
|
||||
return G3
|
||||
|
||||
def cellGradz():
|
||||
doc = "Cell centered Gradient in the x dimension. Has neumann boundary conditions."
|
||||
def fget(self):
|
||||
if self.dim < 3: return None
|
||||
if getattr(self, '_cellGradz', None) is None:
|
||||
G3 = self._cellGradzStencil()
|
||||
BC = ['neumann', 'neumann']
|
||||
n = self.vnC
|
||||
G3 = kron3(ddxCellGrad(n[2], BC), speye(n[1]), speye(n[0]))
|
||||
# Compute areas of cell faces & volumes
|
||||
V = self.aveCC2F*self.vol
|
||||
L = self.r(self.area/V, 'F','Fz', 'V')
|
||||
@@ -584,67 +565,7 @@ class DiffOperators(object):
|
||||
|
||||
return Pbc, Pin, Pout
|
||||
|
||||
def getBCProjWF_simple(self, discretization='CC'):
|
||||
"""
|
||||
|
||||
The weak form boundary condition projection matrices
|
||||
when mixed boundary condition is used
|
||||
|
||||
|
||||
"""
|
||||
|
||||
if discretization is not 'CC':
|
||||
raise NotImplementedError('Boundary conditions only implemented for CC discretization.')
|
||||
|
||||
def projBC(n):
|
||||
ij = ([0,n], [0,1])
|
||||
vals = [0,0]
|
||||
vals[0] = 1
|
||||
vals[1] = 1
|
||||
return sp.csr_matrix((vals, ij), shape=(n+1,2))
|
||||
|
||||
def projDirichlet(n, bc):
|
||||
bc = checkBC(bc)
|
||||
ij = ([0,n], [0,1])
|
||||
vals = [0,0]
|
||||
if(bc[0] == 'dirichlet'):
|
||||
vals[0] = -1
|
||||
if(bc[1] == 'dirichlet'):
|
||||
vals[1] = 1
|
||||
return sp.csr_matrix((vals, ij), shape=(n+1,2))
|
||||
|
||||
BC = [['dirichlet','dirichlet'],['dirichlet','dirichlet'],['dirichlet','dirichlet']]
|
||||
n = self.vnC
|
||||
indF = self.faceBoundaryInd
|
||||
if(self.dim == 1):
|
||||
Pbc = projDirichlet(n[0], BC[0])
|
||||
B = projBC(n[0])
|
||||
indF = indF[0] | indF[1]
|
||||
Pbc = Pbc*sdiag(self.area[indF])
|
||||
|
||||
elif(self.dim == 2):
|
||||
Pbc1 = sp.kron(speye(n[1]), projDirichlet(n[0], BC[0]))
|
||||
Pbc2 = sp.kron(projDirichlet(n[1], BC[1]), speye(n[0]))
|
||||
Pbc = sp.block_diag((Pbc1, Pbc2), format="csr")
|
||||
B1 = sp.kron(speye(n[1]), projBC(n[0]))
|
||||
B2 = sp.kron(projBC(n[1]), speye(n[0]))
|
||||
B = sp.block_diag((B1, B2), format="csr")
|
||||
indF = np.r_[(indF[0] | indF[1]), (indF[2] | indF[3])]
|
||||
Pbc = Pbc*sdiag(self.area[indF])
|
||||
|
||||
elif(self.dim == 3):
|
||||
Pbc1 = kron3(speye(n[2]), speye(n[1]), projDirichlet(n[0], BC[0]))
|
||||
Pbc2 = kron3(speye(n[2]), projDirichlet(n[1], BC[1]), speye(n[0]))
|
||||
Pbc3 = kron3(projDirichlet(n[2], BC[2]), speye(n[1]), speye(n[0]))
|
||||
Pbc = sp.block_diag((Pbc1, Pbc2, Pbc3), format="csr")
|
||||
B1 = kron3(speye(n[2]), speye(n[1]), projBC(n[0]))
|
||||
B2 = kron3(speye(n[2]), projBC(n[1]), speye(n[0]))
|
||||
B3 = kron3(projBC(n[2]), speye(n[1]), speye(n[0]))
|
||||
B = sp.block_diag((B1, B2, B3), format="csr")
|
||||
indF = np.r_[(indF[0] | indF[1]), (indF[2] | indF[3]), (indF[4] | indF[5])]
|
||||
Pbc = Pbc*sdiag(self.area[indF])
|
||||
|
||||
return Pbc, B.T
|
||||
# --------------- Averaging ---------------------
|
||||
|
||||
@property
|
||||
@@ -825,3 +746,4 @@ class DiffOperators(object):
|
||||
kron3(av(n[2]), speye(n[1]+1), av(n[0])),
|
||||
kron3(speye(n[2]+1), av(n[1]), av(n[0]))), format="csr")
|
||||
return self._aveN2F
|
||||
|
||||
|
||||
@@ -21,9 +21,10 @@ class TensorMeshIO(object):
|
||||
if '*' in seg:
|
||||
st = seg
|
||||
sp = seg.split('*')
|
||||
re = int(sp[0])*(' ' + sp[1])
|
||||
re = np.array(sp[0],dtype=int)*(' ' + sp[1])
|
||||
line = line.replace(st,re.strip())
|
||||
return np.array(line.split(),dtype=float)
|
||||
|
||||
# Read the file as line strings, remove lines with comment = !
|
||||
msh = np.genfromtxt(fileName,delimiter='\n',dtype=np.str,comments='!')
|
||||
|
||||
|
||||
@@ -234,9 +234,6 @@ class BaseTensorMesh(BaseMesh):
|
||||
'Fz' -> z-component of field defined on faces
|
||||
'N' -> scalar field defined on nodes
|
||||
'CC' -> scalar field defined on cell centers
|
||||
'CCVx' -> x-component of vector field defined on cell centers
|
||||
'CCVy' -> y-component of vector field defined on cell centers
|
||||
'CCVz' -> z-component of vector field defined on cell centers
|
||||
"""
|
||||
if self._meshType == 'CYL' and self.isSymmetric and locType in ['Ex','Ez','Fy']:
|
||||
raise Exception('Symmetric CylMesh does not support %s interpolation, as this variable does not exist.' % locType)
|
||||
@@ -260,16 +257,6 @@ class BaseTensorMesh(BaseMesh):
|
||||
Q = sp.hstack(components)
|
||||
elif locType in ['CC', 'N']:
|
||||
Q = Utils.interpmat(loc, *self.getTensor(locType))
|
||||
elif locType in ['CCVx', 'CCVy', 'CCVz']:
|
||||
Q = Utils.interpmat(loc, *self.getTensor('CC'))
|
||||
Z = Utils.spzeros(loc.shape[0],self.nC)
|
||||
if locType == 'CCVx':
|
||||
Q = sp.hstack([Q,Z,Z])
|
||||
elif locType == 'CCVy':
|
||||
Q = sp.hstack([Z,Q,Z])
|
||||
elif locType == 'CCVz':
|
||||
Q = sp.hstack([Z,Z,Q])
|
||||
|
||||
else:
|
||||
raise NotImplementedError('getInterpolationMat: locType=='+locType+' and mesh.dim=='+str(self.dim))
|
||||
|
||||
|
||||
@@ -2131,16 +2131,10 @@ class TreeMesh(BaseTensorMesh, InnerProducts, TreeMeshIO):
|
||||
def plotSlice(self, v, vType='CC',
|
||||
normal='Z', ind=None, grid=True, view='real',
|
||||
ax=None, clim=None, showIt=False,
|
||||
pcolorOpts=None,
|
||||
streamOpts=None,
|
||||
gridOpts=None):
|
||||
pcolorOpts={},
|
||||
streamOpts={'color':'k'},
|
||||
gridOpts={'color':'k', 'alpha':0.5}):
|
||||
|
||||
if pcolorOpts is None:
|
||||
pcolorOpts = {}
|
||||
if streamOpts is None:
|
||||
streamOpts = {'color':'k'}
|
||||
if gridOpts is None:
|
||||
gridOpts = {'color':'k', 'alpha':0.5}
|
||||
assert vType in ['CC','F','E']
|
||||
assert self.dim == 3
|
||||
|
||||
|
||||
+50
-106
@@ -42,9 +42,9 @@ class TensorView(object):
|
||||
|
||||
def plotImage(self, v, vType='CC', grid=False, view='real',
|
||||
ax=None, clim=None, showIt=False,
|
||||
pcolorOpts=None,
|
||||
streamOpts=None,
|
||||
gridOpts=None,
|
||||
pcolorOpts={},
|
||||
streamOpts={'color':'k'},
|
||||
gridOpts={'color':'k'},
|
||||
numbering=True, annotationColor='w'
|
||||
):
|
||||
"""
|
||||
@@ -84,12 +84,6 @@ class TensorView(object):
|
||||
M.plotImage(v, annotationColor='k', showIt=True)
|
||||
|
||||
"""
|
||||
if pcolorOpts is None:
|
||||
pcolorOpts = {}
|
||||
if streamOpts is None:
|
||||
streamOpts = {'color':'k'}
|
||||
if gridOpts is None:
|
||||
gridOpts = {'color':'k'}
|
||||
|
||||
if ax is None:
|
||||
fig = plt.figure()
|
||||
@@ -180,9 +174,9 @@ class TensorView(object):
|
||||
def plotSlice(self, v, vType='CC',
|
||||
normal='Z', ind=None, grid=False, view='real',
|
||||
ax=None, clim=None, showIt=False,
|
||||
pcolorOpts=None,
|
||||
streamOpts=None,
|
||||
gridOpts=None
|
||||
pcolorOpts={},
|
||||
streamOpts={'color':'k'},
|
||||
gridOpts={'color':'k', 'alpha':0.5}
|
||||
):
|
||||
|
||||
"""
|
||||
@@ -203,12 +197,6 @@ class TensorView(object):
|
||||
M.plotSlice(M.cellGrad*b, 'F', view='vec', grid=True, showIt=True, pcolorOpts={'alpha':0.8})
|
||||
|
||||
"""
|
||||
if pcolorOpts is None:
|
||||
pcolorOpts = {}
|
||||
if streamOpts is None:
|
||||
streamOpts = {'color':'k'}
|
||||
if gridOpts is None:
|
||||
gridOpts = {'color':'k', 'alpha':0.5}
|
||||
if type(vType) in [list, tuple]:
|
||||
assert ax is None, "cannot specify an axis to plot on with this function."
|
||||
fig, axs = plt.subplots(1,len(vType))
|
||||
@@ -218,7 +206,7 @@ class TensorView(object):
|
||||
return out
|
||||
viewOpts = ['real','imag','abs','vec']
|
||||
normalOpts = ['X', 'Y', 'Z']
|
||||
vTypeOpts = ['CC', 'CCv','N','F','E','Fx','Fy','Fz','E','Ex','Ey','Ez']
|
||||
vTypeOpts = ['CC', 'CCv','F','E','Fx','Fy','Fz','E','Ex','Ey','Ez']
|
||||
|
||||
# Some user error checking
|
||||
assert vType in vTypeOpts, "vType must be in ['%s']" % "','".join(vTypeOpts)
|
||||
@@ -301,17 +289,11 @@ class TensorView(object):
|
||||
|
||||
def _plotImage2D(self, v, vType='CC', grid=False, view='real',
|
||||
ax=None, clim=None, showIt=False,
|
||||
pcolorOpts=None,
|
||||
streamOpts=None,
|
||||
gridOpts=None
|
||||
pcolorOpts={},
|
||||
streamOpts={'color':'k'},
|
||||
gridOpts={'color':'k'}
|
||||
):
|
||||
|
||||
if pcolorOpts is None:
|
||||
pcolorOpts = {}
|
||||
if streamOpts is None:
|
||||
streamOpts = {'color':'k'}
|
||||
if gridOpts is None:
|
||||
gridOpts = {'color':'k'}
|
||||
vTypeOptsCC = ['N','CC','Fx','Fy','Ex','Ey']
|
||||
vTypeOptsV = ['CCv','F','E']
|
||||
vTypeOpts = vTypeOptsCC + vTypeOptsV
|
||||
@@ -552,8 +534,7 @@ class CurvView(object):
|
||||
def __init__(self):
|
||||
pass
|
||||
|
||||
|
||||
def plotGrid(self, ax=None, nodes=False, faces=False, centers=False, edges=False, lines=True, showIt=False):
|
||||
def plotGrid(self, length=0.05, showIt=False):
|
||||
"""Plot the nodal, cell-centered and staggered grids for 1,2 and 3 dimensions.
|
||||
|
||||
|
||||
@@ -561,63 +542,60 @@ class CurvView(object):
|
||||
:include-source:
|
||||
|
||||
from SimPEG import Mesh, Utils
|
||||
X, Y = Utils.exampleLrmGrid([3,3],'rotate')
|
||||
X, Y = Utils.exampleCurvGird([3,3],'rotate')
|
||||
M = Mesh.CurvilinearMesh([X, Y])
|
||||
M.plotGrid(showIt=True)
|
||||
|
||||
"""
|
||||
import matplotlib.pyplot as plt
|
||||
import matplotlib
|
||||
from mpl_toolkits.mplot3d import Axes3D
|
||||
|
||||
axOpts = {'projection':'3d'} if self.dim == 3 else {}
|
||||
if ax is None: ax = plt.subplot(111, **axOpts)
|
||||
|
||||
NN = self.r(self.gridN, 'N', 'N', 'M')
|
||||
if self.dim == 2:
|
||||
fig = plt.figure(2)
|
||||
fig.clf()
|
||||
ax = plt.subplot(111)
|
||||
X1 = np.c_[mkvc(NN[0][:-1, :]), mkvc(NN[0][1:, :]), mkvc(NN[0][:-1, :])*np.nan].flatten()
|
||||
Y1 = np.c_[mkvc(NN[1][:-1, :]), mkvc(NN[1][1:, :]), mkvc(NN[1][:-1, :])*np.nan].flatten()
|
||||
|
||||
if lines:
|
||||
X1 = np.c_[mkvc(NN[0][:-1, :]), mkvc(NN[0][1:, :]), mkvc(NN[0][:-1, :])*np.nan].flatten()
|
||||
Y1 = np.c_[mkvc(NN[1][:-1, :]), mkvc(NN[1][1:, :]), mkvc(NN[1][:-1, :])*np.nan].flatten()
|
||||
X2 = np.c_[mkvc(NN[0][:, :-1]), mkvc(NN[0][:, 1:]), mkvc(NN[0][:, :-1])*np.nan].flatten()
|
||||
Y2 = np.c_[mkvc(NN[1][:, :-1]), mkvc(NN[1][:, 1:]), mkvc(NN[1][:, :-1])*np.nan].flatten()
|
||||
|
||||
X2 = np.c_[mkvc(NN[0][:, :-1]), mkvc(NN[0][:, 1:]), mkvc(NN[0][:, :-1])*np.nan].flatten()
|
||||
Y2 = np.c_[mkvc(NN[1][:, :-1]), mkvc(NN[1][:, 1:]), mkvc(NN[1][:, :-1])*np.nan].flatten()
|
||||
X = np.r_[X1, X2]
|
||||
Y = np.r_[Y1, Y2]
|
||||
|
||||
X = np.r_[X1, X2]
|
||||
Y = np.r_[Y1, Y2]
|
||||
plt.plot(X, Y)
|
||||
|
||||
ax.plot(X, Y, 'b-')
|
||||
if centers:
|
||||
ax.plot(self.gridCC[:,0],self.gridCC[:,1],'ro')
|
||||
plt.hold(True)
|
||||
Nx = self.r(self.normals, 'F', 'Fx', 'V')
|
||||
Ny = self.r(self.normals, 'F', 'Fy', 'V')
|
||||
Tx = self.r(self.tangents, 'E', 'Ex', 'V')
|
||||
Ty = self.r(self.tangents, 'E', 'Ey', 'V')
|
||||
|
||||
# Nx = self.r(self.normals, 'F', 'Fx', 'V')
|
||||
# Ny = self.r(self.normals, 'F', 'Fy', 'V')
|
||||
# Tx = self.r(self.tangents, 'E', 'Ex', 'V')
|
||||
# Ty = self.r(self.tangents, 'E', 'Ey', 'V')
|
||||
plt.plot(self.gridN[:, 0], self.gridN[:, 1], 'bo')
|
||||
|
||||
# ax.plot(self.gridN[:, 0], self.gridN[:, 1], 'bo')
|
||||
nX = np.c_[self.gridFx[:, 0], self.gridFx[:, 0] + Nx[0]*length, self.gridFx[:, 0]*np.nan].flatten()
|
||||
nY = np.c_[self.gridFx[:, 1], self.gridFx[:, 1] + Nx[1]*length, self.gridFx[:, 1]*np.nan].flatten()
|
||||
plt.plot(self.gridFx[:, 0], self.gridFx[:, 1], 'rs')
|
||||
plt.plot(nX, nY, 'r-')
|
||||
|
||||
# nX = np.c_[self.gridFx[:, 0], self.gridFx[:, 0] + Nx[0]*length, self.gridFx[:, 0]*np.nan].flatten()
|
||||
# nY = np.c_[self.gridFx[:, 1], self.gridFx[:, 1] + Nx[1]*length, self.gridFx[:, 1]*np.nan].flatten()
|
||||
# ax.plot(self.gridFx[:, 0], self.gridFx[:, 1], 'rs')
|
||||
# ax.plot(nX, nY, 'r-')
|
||||
nX = np.c_[self.gridFy[:, 0], self.gridFy[:, 0] + Ny[0]*length, self.gridFy[:, 0]*np.nan].flatten()
|
||||
nY = np.c_[self.gridFy[:, 1], self.gridFy[:, 1] + Ny[1]*length, self.gridFy[:, 1]*np.nan].flatten()
|
||||
#plt.plot(self.gridFy[:, 0], self.gridFy[:, 1], 'gs')
|
||||
plt.plot(nX, nY, 'g-')
|
||||
|
||||
# nX = np.c_[self.gridFy[:, 0], self.gridFy[:, 0] + Ny[0]*length, self.gridFy[:, 0]*np.nan].flatten()
|
||||
# nY = np.c_[self.gridFy[:, 1], self.gridFy[:, 1] + Ny[1]*length, self.gridFy[:, 1]*np.nan].flatten()
|
||||
# #ax.plot(self.gridFy[:, 0], self.gridFy[:, 1], 'gs')
|
||||
# ax.plot(nX, nY, 'g-')
|
||||
tX = np.c_[self.gridEx[:, 0], self.gridEx[:, 0] + Tx[0]*length, self.gridEx[:, 0]*np.nan].flatten()
|
||||
tY = np.c_[self.gridEx[:, 1], self.gridEx[:, 1] + Tx[1]*length, self.gridEx[:, 1]*np.nan].flatten()
|
||||
plt.plot(self.gridEx[:, 0], self.gridEx[:, 1], 'r^')
|
||||
plt.plot(tX, tY, 'r-')
|
||||
|
||||
# tX = np.c_[self.gridEx[:, 0], self.gridEx[:, 0] + Tx[0]*length, self.gridEx[:, 0]*np.nan].flatten()
|
||||
# tY = np.c_[self.gridEx[:, 1], self.gridEx[:, 1] + Tx[1]*length, self.gridEx[:, 1]*np.nan].flatten()
|
||||
# ax.plot(self.gridEx[:, 0], self.gridEx[:, 1], 'r^')
|
||||
# ax.plot(tX, tY, 'r-')
|
||||
|
||||
# nX = np.c_[self.gridEy[:, 0], self.gridEy[:, 0] + Ty[0]*length, self.gridEy[:, 0]*np.nan].flatten()
|
||||
# nY = np.c_[self.gridEy[:, 1], self.gridEy[:, 1] + Ty[1]*length, self.gridEy[:, 1]*np.nan].flatten()
|
||||
# #ax.plot(self.gridEy[:, 0], self.gridEy[:, 1], 'g^')
|
||||
# ax.plot(nX, nY, 'g-')
|
||||
nX = np.c_[self.gridEy[:, 0], self.gridEy[:, 0] + Ty[0]*length, self.gridEy[:, 0]*np.nan].flatten()
|
||||
nY = np.c_[self.gridEy[:, 1], self.gridEy[:, 1] + Ty[1]*length, self.gridEy[:, 1]*np.nan].flatten()
|
||||
#plt.plot(self.gridEy[:, 0], self.gridEy[:, 1], 'g^')
|
||||
plt.plot(nX, nY, 'g-')
|
||||
plt.axis('equal')
|
||||
|
||||
elif self.dim == 3:
|
||||
fig = plt.figure(3)
|
||||
fig.clf()
|
||||
ax = fig.add_subplot(111, projection='3d')
|
||||
X1 = np.c_[mkvc(NN[0][:-1, :, :]), mkvc(NN[0][1:, :, :]), mkvc(NN[0][:-1, :, :])*np.nan].flatten()
|
||||
Y1 = np.c_[mkvc(NN[1][:-1, :, :]), mkvc(NN[1][1:, :, :]), mkvc(NN[1][:-1, :, :])*np.nan].flatten()
|
||||
Z1 = np.c_[mkvc(NN[2][:-1, :, :]), mkvc(NN[2][1:, :, :]), mkvc(NN[2][:-1, :, :])*np.nan].flatten()
|
||||
@@ -634,50 +612,16 @@ class CurvView(object):
|
||||
Y = np.r_[Y1, Y2, Y3]
|
||||
Z = np.r_[Z1, Z2, Z3]
|
||||
|
||||
ax.plot(X, Y, 'b', zs=Z)
|
||||
plt.plot(X, Y, 'b', zs=Z)
|
||||
ax.set_zlabel('x3')
|
||||
|
||||
ax.grid(True)
|
||||
ax.hold(False)
|
||||
ax.set_xlabel('x1')
|
||||
ax.set_ylabel('x2')
|
||||
|
||||
if showIt: plt.show()
|
||||
|
||||
def plotImage(self, I, ax=None, showIt=False, grid=False, clim=None):
|
||||
if self.dim == 3: raise NotImplementedError('This is not yet done!')
|
||||
|
||||
import matplotlib.pyplot as plt
|
||||
import matplotlib
|
||||
from mpl_toolkits.mplot3d import Axes3D
|
||||
import matplotlib.colors as colors
|
||||
import matplotlib.cm as cmx
|
||||
|
||||
if ax is None: ax = plt.subplot(111)
|
||||
jet = cm = plt.get_cmap('jet')
|
||||
cNorm = colors.Normalize(
|
||||
vmin=I.min() if clim is None else clim[0],
|
||||
vmax=I.max() if clim is None else clim[1])
|
||||
|
||||
scalarMap = cmx.ScalarMappable(norm=cNorm, cmap=jet)
|
||||
# ax.set_xlim((self.x0[0], self.h[0].sum()))
|
||||
# ax.set_ylim((self.x0[1], self.h[1].sum()))
|
||||
|
||||
Nx = self.r(self.gridN[:,0],'N','N','M')
|
||||
Ny = self.r(self.gridN[:,1],'N','N','M')
|
||||
cell = self.r(I,'CC','CC','M')
|
||||
|
||||
for ii in range(self.nCx):
|
||||
for jj in range(self.nCy):
|
||||
I = [ii,ii+1,ii+1,ii]
|
||||
J = [jj,jj,jj+1,jj+1]
|
||||
ax.add_patch(plt.Polygon(np.c_[Nx[I,J],Ny[I,J]], facecolor=scalarMap.to_rgba(cell[ii,jj]), edgecolor='k' if grid else 'none'))
|
||||
|
||||
scalarMap._A = [] # http://stackoverflow.com/questions/8342549/matplotlib-add-colorbar-to-a-sequence-of-line-plots
|
||||
ax.set_xlabel('x')
|
||||
ax.set_ylabel('y')
|
||||
if showIt: plt.show()
|
||||
return [scalarMap]
|
||||
|
||||
|
||||
if __name__ == '__main__':
|
||||
from SimPEG import *
|
||||
|
||||
@@ -888,8 +888,6 @@ class ProjectedGNCG(BFGS, Minimize, Remember):
|
||||
maxIterCG = 5
|
||||
tolCG = 1e-1
|
||||
|
||||
stepOffBoundsFact = 0.1 # perturbation of the inactive set off the bounds
|
||||
|
||||
lower = -np.inf
|
||||
upper = np.inf
|
||||
|
||||
@@ -1000,12 +998,10 @@ class ProjectedGNCG(BFGS, Minimize, Remember):
|
||||
dm_i = max( abs( delx ) )
|
||||
dm_a = max( abs(rhs_a) )
|
||||
|
||||
# perturb inactive set off of bounds so that they are included in the step
|
||||
delx = delx + self.stepOffBoundsFact * (rhs_a * dm_i / dm_a)
|
||||
|
||||
delx = delx + rhs_a * dm_i / dm_a /10.
|
||||
|
||||
# Only keep gradients going in the right direction on the active set
|
||||
indx = ((self.xc<=self.lower) & (delx < 0)) | ((self.xc>=self.upper) & (delx > 0))
|
||||
delx[indx] = 0.
|
||||
|
||||
return delx
|
||||
return delx
|
||||
|
||||
+14
-29
@@ -88,28 +88,28 @@ class BaseProblem(object):
|
||||
return self.survey is not None
|
||||
|
||||
@Utils.timeIt
|
||||
def Jvec(self, m, v, f=None):
|
||||
"""Jvec(m, v, f=None)
|
||||
def Jvec(self, m, v, u=None):
|
||||
"""Jvec(m, v, u=None)
|
||||
|
||||
Effect of J(m) on a vector v.
|
||||
|
||||
:param numpy.array m: model
|
||||
:param numpy.array v: vector to multiply
|
||||
:param Fields f: fields
|
||||
:param numpy.array u: fields
|
||||
:rtype: numpy.array
|
||||
:return: Jv
|
||||
"""
|
||||
raise NotImplementedError('J is not yet implemented.')
|
||||
|
||||
@Utils.timeIt
|
||||
def Jtvec(self, m, v, f=None):
|
||||
"""Jtvec(m, v, f=None)
|
||||
def Jtvec(self, m, v, u=None):
|
||||
"""Jtvec(m, v, u=None)
|
||||
|
||||
Effect of transpose of J(m) on a vector v.
|
||||
|
||||
:param numpy.array m: model
|
||||
:param numpy.array v: vector to multiply
|
||||
:param Fields f: fields
|
||||
:param numpy.array u: fields
|
||||
:rtype: numpy.array
|
||||
:return: JTv
|
||||
"""
|
||||
@@ -117,32 +117,32 @@ class BaseProblem(object):
|
||||
|
||||
|
||||
@Utils.timeIt
|
||||
def Jvec_approx(self, m, v, f=None):
|
||||
"""Jvec_approx(m, v, f=None)
|
||||
def Jvec_approx(self, m, v, u=None):
|
||||
"""Jvec_approx(m, v, u=None)
|
||||
|
||||
Approximate effect of J(m) on a vector v
|
||||
|
||||
:param numpy.array m: model
|
||||
:param numpy.array v: vector to multiply
|
||||
:param Fields f: fields
|
||||
:param numpy.array u: fields
|
||||
:rtype: numpy.array
|
||||
:return: approxJv
|
||||
"""
|
||||
return self.Jvec(m, v, f)
|
||||
return self.Jvec(m, v, u)
|
||||
|
||||
@Utils.timeIt
|
||||
def Jtvec_approx(self, m, v, f=None):
|
||||
"""Jtvec_approx(m, v, f=None)
|
||||
def Jtvec_approx(self, m, v, u=None):
|
||||
"""Jtvec_approx(m, v, u=None)
|
||||
|
||||
Approximate effect of transpose of J(m) on a vector v.
|
||||
|
||||
:param numpy.array m: model
|
||||
:param numpy.array v: vector to multiply
|
||||
:param Fields f: fields
|
||||
:param numpy.array u: fields
|
||||
:rtype: numpy.array
|
||||
:return: JTv
|
||||
"""
|
||||
return self.Jtvec(m, v, f)
|
||||
return self.Jtvec(m, v, u)
|
||||
|
||||
def fields(self, m):
|
||||
"""
|
||||
@@ -213,20 +213,5 @@ class BaseTimeProblem(BaseProblem):
|
||||
if hasattr(self, '_timeMesh'):
|
||||
del self._timeMesh
|
||||
|
||||
class LinearProblem(BaseProblem):
|
||||
|
||||
surveyPair = Survey.LinearSurvey
|
||||
|
||||
def __init__(self, mesh, G, **kwargs):
|
||||
BaseProblem.__init__(self, mesh, **kwargs)
|
||||
self.G = G
|
||||
|
||||
def fields(self, m):
|
||||
return self.G.dot(m)
|
||||
|
||||
def Jvec(self, m, v, f=None):
|
||||
return self.G.dot(v)
|
||||
|
||||
def Jtvec(self, m, v, f=None):
|
||||
return self.G.T.dot(v)
|
||||
|
||||
|
||||
+2
-2
@@ -74,7 +74,7 @@ class Property(object):
|
||||
if linkedMap is None:
|
||||
return None
|
||||
linkMap = linkMapClass(None) * linkedMap
|
||||
m = getattr(self, '%sModel'%linkName)
|
||||
m = getattr(self, '%s'%linkName)
|
||||
return linkMap.deriv( m )
|
||||
|
||||
m = getattr(self, '%sModel'%prop.name)
|
||||
@@ -239,7 +239,7 @@ class PropMap(object):
|
||||
setattr(self, '%sMap'%name, mapping)
|
||||
setattr(self, '%sIndex'%name, slices.get(name, slice(nP, nP + mapping.nP)))
|
||||
nP += mapping.nP
|
||||
self.nP = nP
|
||||
self.nP = nP
|
||||
|
||||
@property
|
||||
def defaultInvProp(self):
|
||||
|
||||
+109
-827
File diff suppressed because it is too large
Load Diff
+22
-32
@@ -1,5 +1,6 @@
|
||||
import Utils, numpy as np, scipy.sparse as sp, uuid
|
||||
|
||||
|
||||
class BaseRx(object):
|
||||
"""SimPEG Receiver Object"""
|
||||
|
||||
@@ -34,7 +35,7 @@ class BaseRx(object):
|
||||
"""Number of data in the receiver."""
|
||||
return self.locs.shape[0]
|
||||
|
||||
def getP(self, mesh, projGLoc=None):
|
||||
def getP(self, mesh):
|
||||
"""
|
||||
Returns the projection matrices as a
|
||||
list for all components collected by
|
||||
@@ -47,10 +48,7 @@ class BaseRx(object):
|
||||
if mesh in self._Ps:
|
||||
return self._Ps[mesh]
|
||||
|
||||
if projGLoc is None:
|
||||
projGLoc = self.projGLoc
|
||||
|
||||
P = mesh.getInterpolationMat(self.locs, projGLoc)
|
||||
P = mesh.getInterpolationMat(self.locs, self.projGLoc)
|
||||
if self.storeProjections:
|
||||
self._Ps[mesh] = P
|
||||
return P
|
||||
@@ -295,38 +293,38 @@ class BaseSurvey(object):
|
||||
|
||||
@Utils.count
|
||||
@Utils.requires('prob')
|
||||
def dpred(self, m, f=None):
|
||||
"""dpred(m, f=None)
|
||||
def dpred(self, m, u=None):
|
||||
"""dpred(m, u=None)
|
||||
|
||||
Create the projected data from a model.
|
||||
The fields, f, (if provided) will be used for the predicted data
|
||||
The field, u, (if provided) will be used for the predicted data
|
||||
instead of recalculating the fields (which may be expensive!).
|
||||
|
||||
.. math::
|
||||
|
||||
d_\\text{pred} = P(f(m))
|
||||
d_\\text{pred} = P(u(m))
|
||||
|
||||
Where P is a projection of the fields onto the data space.
|
||||
"""
|
||||
if f is None: f = self.prob.fields(m)
|
||||
return Utils.mkvc(self.eval(f))
|
||||
if u is None: u = self.prob.fields(m)
|
||||
return Utils.mkvc(self.projectFields(u))
|
||||
|
||||
|
||||
@Utils.count
|
||||
def eval(self, f):
|
||||
"""eval(f)
|
||||
def projectFields(self, u):
|
||||
"""projectFields(u)
|
||||
|
||||
This function projects the fields onto the data space.
|
||||
|
||||
.. math::
|
||||
|
||||
d_\\text{pred} = \mathbf{P} f(m)
|
||||
d_\\text{pred} = \mathbf{P} u(m)
|
||||
"""
|
||||
raise NotImplemented('eval is not yet implemented.')
|
||||
raise NotImplemented('projectFields is not yet implemented.')
|
||||
|
||||
@Utils.count
|
||||
def evalDeriv(self, f):
|
||||
"""evalDeriv(f)
|
||||
def projectFieldsDeriv(self, u):
|
||||
"""projectFieldsDeriv(u)
|
||||
|
||||
This function s the derivative of projects the fields onto the data space.
|
||||
|
||||
@@ -334,14 +332,14 @@ class BaseSurvey(object):
|
||||
|
||||
\\frac{\partial d_\\text{pred}}{\partial u} = \mathbf{P}
|
||||
"""
|
||||
raise NotImplemented('eval is not yet implemented.')
|
||||
raise NotImplemented('projectFields is not yet implemented.')
|
||||
|
||||
@Utils.count
|
||||
def residual(self, m, f=None):
|
||||
"""residual(m, f=None)
|
||||
def residual(self, m, u=None):
|
||||
"""residual(m, u=None)
|
||||
|
||||
:param numpy.array m: geophysical model
|
||||
:param numpy.array f: fields
|
||||
:param numpy.array u: fields
|
||||
:rtype: numpy.array
|
||||
:return: data residual
|
||||
|
||||
@@ -352,14 +350,14 @@ class BaseSurvey(object):
|
||||
\mu_\\text{data} = \mathbf{d}_\\text{pred} - \mathbf{d}_\\text{obs}
|
||||
|
||||
"""
|
||||
return Utils.mkvc(self.dpred(m, f=f) - self.dobs)
|
||||
return Utils.mkvc(self.dpred(m, u=u) - self.dobs)
|
||||
|
||||
@property
|
||||
def isSynthetic(self):
|
||||
"Check if the data is synthetic."
|
||||
return self.mtrue is not None
|
||||
|
||||
def makeSyntheticData(self, m, std=0.05, f=None, force=False):
|
||||
def makeSyntheticData(self, m, std=0.05, u=None, force=False):
|
||||
"""
|
||||
Make synthetic data given a model, and a standard deviation.
|
||||
|
||||
@@ -372,16 +370,8 @@ class BaseSurvey(object):
|
||||
if getattr(self, 'dobs', None) is not None and not force:
|
||||
raise Exception('Survey already has dobs. You can use force=True to override this exception.')
|
||||
self.mtrue = m
|
||||
self.dtrue = self.dpred(m, f=f)
|
||||
self.dtrue = self.dpred(m, u=u)
|
||||
noise = std*abs(self.dtrue)*np.random.randn(*self.dtrue.shape)
|
||||
self.dobs = self.dtrue+noise
|
||||
self.std = self.dobs*0 + std
|
||||
return self.dobs
|
||||
|
||||
class LinearSurvey(BaseSurvey):
|
||||
def eval(self, f):
|
||||
return f
|
||||
|
||||
@property
|
||||
def nD(self):
|
||||
return self.prob.G.shape[0]
|
||||
|
||||
@@ -88,14 +88,12 @@ def getIndicesBlock(p0,p1,ccMesh):
|
||||
# Return a tuple
|
||||
return ind
|
||||
|
||||
def defineBlock(ccMesh,p0,p1,vals=None):
|
||||
def defineBlock(ccMesh,p0,p1,vals=[0,1]):
|
||||
"""
|
||||
Build a block with the conductivity specified by condVal. Returns an array.
|
||||
vals[0] conductivity of the block
|
||||
vals[1] conductivity of the ground
|
||||
"""
|
||||
if vals is None:
|
||||
vals = [0,1]
|
||||
sigma = np.zeros(ccMesh.shape[0]) + vals[1]
|
||||
ind = getIndicesBlock(p0,p1,ccMesh)
|
||||
|
||||
@@ -103,11 +101,7 @@ def defineBlock(ccMesh,p0,p1,vals=None):
|
||||
|
||||
return mkvc(sigma)
|
||||
|
||||
def defineElipse(ccMesh, center=None, anisotropy=None, slope=10., theta=0.):
|
||||
if center is None:
|
||||
center = [0,0,0]
|
||||
if anisotropy is None:
|
||||
anisotropy = [1,1,1]
|
||||
def defineElipse(ccMesh, center=[0,0,0], anisotropy=[1,1,1], slope=10., theta=0.):
|
||||
G = ccMesh.copy()
|
||||
dim = ccMesh.shape[1]
|
||||
for i in range(dim):
|
||||
@@ -124,45 +118,7 @@ def defineElipse(ccMesh, center=None, anisotropy=None, slope=10., theta=0.):
|
||||
D = np.sqrt(np.sum(G**2,axis=1))
|
||||
return -np.arctan((D-1)*slope)*(2./np.pi)/2.+0.5
|
||||
|
||||
def getIndicesSphere(center,radius,ccMesh):
|
||||
"""
|
||||
Creates a vector containing the sphere indices in the cell centers mesh.
|
||||
Returns a tuple
|
||||
|
||||
The sphere is defined by the points
|
||||
|
||||
p0, describe the position of the center of the cell
|
||||
|
||||
r, describe the radius of the sphere.
|
||||
|
||||
ccMesh represents the cell-centered mesh
|
||||
|
||||
The points p0 must live in the the same dimensional space as the mesh.
|
||||
|
||||
"""
|
||||
|
||||
# Validation: mesh and point (p0) live in the same dimensional space
|
||||
dimMesh = np.size(ccMesh[0,:])
|
||||
assert len(center) == dimMesh, "Dimension mismatch. len(p0) != dimMesh"
|
||||
|
||||
if dimMesh == 1:
|
||||
# Define the reference points
|
||||
|
||||
ind = np.abs(center[0] - ccMesh[:,0]) < radius
|
||||
|
||||
elif dimMesh == 2:
|
||||
# Define the reference points
|
||||
|
||||
ind = np.sqrt( ( center[0] - ccMesh[:,0] )**2 + ( center[1] - ccMesh[:,1] )**2 ) < radius
|
||||
|
||||
elif dimMesh == 3:
|
||||
# Define the points
|
||||
ind = np.sqrt( ( center[0] - ccMesh[:,0] )**2 + ( center[1] - ccMesh[:,1] )**2 + ( center[2] - ccMesh[:,2] )**2 ) < radius
|
||||
|
||||
# Return a tuple
|
||||
return ind
|
||||
|
||||
def defineTwoLayers(ccMesh,depth,vals=None):
|
||||
def defineTwoLayers(ccMesh,depth,vals=[0,1]):
|
||||
"""
|
||||
Define a two layered model. Depth of the first layer must be specified.
|
||||
CondVals vector with the conductivity values of the layers. Eg:
|
||||
@@ -173,8 +129,6 @@ def defineTwoLayers(ccMesh,depth,vals=None):
|
||||
0 depth zf
|
||||
1st layer 2nd layer
|
||||
"""
|
||||
if vals is None:
|
||||
vals = [0,1]
|
||||
sigma = np.zeros(ccMesh.shape[0]) + vals[1]
|
||||
|
||||
dim = np.size(ccMesh[0,:])
|
||||
@@ -260,7 +214,7 @@ def layeredModel(ccMesh, layerTops, layerValues):
|
||||
|
||||
|
||||
|
||||
def randomModel(shape, seed=None, anisotropy=None, its=100, bounds=None):
|
||||
def randomModel(shape, seed=None, anisotropy=None, its=100, bounds=[0,1]):
|
||||
"""
|
||||
Create a random model by convolving a kernel with a
|
||||
uniformly distributed model.
|
||||
@@ -284,8 +238,6 @@ def randomModel(shape, seed=None, anisotropy=None, its=100, bounds=None):
|
||||
|
||||
|
||||
"""
|
||||
if bounds is None:
|
||||
bounds = [0,1]
|
||||
|
||||
if seed is None:
|
||||
seed = np.random.randint(1e3)
|
||||
|
||||
@@ -7,4 +7,3 @@ from CounterUtils import *
|
||||
import ModelBuilder
|
||||
import SolverUtils
|
||||
from coordutils import *
|
||||
from modelutils import *
|
||||
|
||||
@@ -55,10 +55,8 @@ def hook(obj, method, name=None, overwrite=False, silent=False):
|
||||
print 'Method '+name+' was not overwritten.'
|
||||
|
||||
|
||||
def setKwargs(obj, ignore=None, **kwargs):
|
||||
def setKwargs(obj, ignore=[], **kwargs):
|
||||
"""Sets key word arguments (kwargs) that are present in the object, throw an error if they don't exist."""
|
||||
if ignore is None:
|
||||
ignore = []
|
||||
for attr in kwargs:
|
||||
if attr in ignore:
|
||||
continue
|
||||
|
||||
@@ -1,137 +0,0 @@
|
||||
from SimPEG import np, Mesh
|
||||
import time as tm
|
||||
import vtk, vtk.util.numpy_support as npsup
|
||||
import re
|
||||
|
||||
def read_GOCAD_ts(tsfile):
|
||||
"""
|
||||
|
||||
Read GOCAD triangulated surface (*.ts) file
|
||||
INPUT:
|
||||
tsfile: Triangulated surface
|
||||
|
||||
OUTPUT:
|
||||
vrts : Array of vertices in XYZ coordinates [n x 3]
|
||||
trgl : Array of index for triangles [m x 3]. The order of the vertices
|
||||
is important and describes the normal
|
||||
n = cross( (P2 - P1 ) , (P3 - P1) )
|
||||
|
||||
Author: @fourndo
|
||||
|
||||
|
||||
.. note::
|
||||
|
||||
Remove all attributes from the GoCAD surface before exporting it!
|
||||
|
||||
"""
|
||||
|
||||
|
||||
fid = open(tsfile,'r')
|
||||
line = fid.readline()
|
||||
|
||||
# Skip all the lines until the vertices
|
||||
while re.match('TFACE',line)==None:
|
||||
line = fid.readline()
|
||||
|
||||
line = fid.readline()
|
||||
vrtx = []
|
||||
|
||||
# Run down all the vertices and save in array
|
||||
while re.match('VRTX',line):
|
||||
l_input = re.split('[\s*]',line)
|
||||
temp = np.array(l_input[2:5])
|
||||
vrtx.append(temp.astype(np.float))
|
||||
|
||||
# Read next line
|
||||
line = fid.readline()
|
||||
|
||||
vrtx = np.asarray(vrtx)
|
||||
|
||||
# Skip lines to the triangles
|
||||
while re.match('TRGL',line)==None:
|
||||
line = fid.readline()
|
||||
|
||||
# Run down the list of triangles
|
||||
trgl = []
|
||||
|
||||
# Run down all the vertices and save in array
|
||||
while re.match('TRGL',line):
|
||||
l_input = re.split('[\s*]',line)
|
||||
temp = np.array(l_input[1:4])
|
||||
trgl.append(temp.astype(np.int))
|
||||
|
||||
# Read next line
|
||||
line = fid.readline()
|
||||
|
||||
trgl = np.asarray(trgl)
|
||||
|
||||
return vrtx, trgl
|
||||
|
||||
def surface2inds(vrtx, trgl, mesh, boundaries=True, internal=True):
|
||||
""""
|
||||
Function to read gocad polystructure file and output indexes of mesh with in the structure.
|
||||
|
||||
"""
|
||||
# Adjust the index
|
||||
trgl = trgl - 1
|
||||
|
||||
# Make vtk pts
|
||||
ptsvtk = vtk.vtkPoints()
|
||||
ptsvtk.SetData(npsup.numpy_to_vtk(vrtx,deep=1))
|
||||
|
||||
# Make the polygon connection
|
||||
polys = vtk.vtkCellArray()
|
||||
for face in trgl:
|
||||
poly = vtk.vtkPolygon()
|
||||
poly.GetPointIds().SetNumberOfIds(len(face))
|
||||
for nrv, vert in enumerate(face):
|
||||
poly.GetPointIds().SetId(nrv,vert)
|
||||
polys.InsertNextCell(poly)
|
||||
|
||||
# Make the polydata, structure of connections and vrtx
|
||||
polyData = vtk.vtkPolyData()
|
||||
polyData.SetPoints(ptsvtk)
|
||||
polyData.SetPolys(polys)
|
||||
|
||||
# Make implicit func
|
||||
ImpDistFunc = vtk.vtkImplicitPolyDataDistance()
|
||||
ImpDistFunc.SetInput(polyData)
|
||||
|
||||
# Convert the mesh
|
||||
vtkMesh = vtk.vtkRectilinearGrid()
|
||||
vtkMesh.SetDimensions(mesh.nNx,mesh.nNy,mesh.nNz)
|
||||
vtkMesh.SetXCoordinates(npsup.numpy_to_vtk(mesh.vectorNx, deep=1))
|
||||
vtkMesh.SetYCoordinates(npsup.numpy_to_vtk(mesh.vectorNy, deep=1))
|
||||
vtkMesh.SetZCoordinates(npsup.numpy_to_vtk(mesh.vectorNz, deep=1))
|
||||
# Add indexes
|
||||
vtkInd = npsup.numpy_to_vtk(np.arange(mesh.nC), deep=1)
|
||||
vtkInd.SetName('Index')
|
||||
vtkMesh.GetCellData().AddArray(vtkInd)
|
||||
|
||||
extractImpDistRectGridFilt = vtk.vtkExtractGeometry() # Object constructor
|
||||
extractImpDistRectGridFilt.SetImplicitFunction(ImpDistFunc) #
|
||||
extractImpDistRectGridFilt.SetInputData(vtkMesh)
|
||||
|
||||
if boundaries is True:
|
||||
extractImpDistRectGridFilt.ExtractBoundaryCellsOn()
|
||||
|
||||
else:
|
||||
extractImpDistRectGridFilt.ExtractBoundaryCellsOff()
|
||||
|
||||
if internal is True:
|
||||
extractImpDistRectGridFilt.ExtractInsideOn()
|
||||
|
||||
else:
|
||||
extractImpDistRectGridFilt.ExtractInsideOff()
|
||||
|
||||
print "Extracting indices from grid..."
|
||||
# Executing the pipe
|
||||
extractImpDistRectGridFilt.Update()
|
||||
|
||||
# Get index inside
|
||||
insideGrid = extractImpDistRectGridFilt.GetOutput()
|
||||
insideGrid = npsup.vtk_to_numpy(insideGrid.GetCellData().GetArray('Index'))
|
||||
|
||||
|
||||
# Return the indexes inside
|
||||
return insideGrid
|
||||
@@ -1,63 +0,0 @@
|
||||
from matutils import mkvc, ndgrid
|
||||
import numpy as np
|
||||
|
||||
def surface2ind_topo(mesh, topo, gridLoc='CC'):
|
||||
# def genActiveindfromTopo(mesh, topo):
|
||||
"""
|
||||
Get active indices from topography
|
||||
"""
|
||||
|
||||
|
||||
if mesh.dim == 3:
|
||||
from scipy.interpolate import NearestNDInterpolator
|
||||
Ftopo = NearestNDInterpolator(topo[:,:2], topo[:,2])
|
||||
|
||||
if gridLoc == 'CC':
|
||||
XY = ndgrid(mesh.vectorCCx, mesh.vectorCCy)
|
||||
Zcc = mesh.gridCC[:,2].reshape((np.prod(mesh.vnC[:2]), mesh.nCz), order='F')
|
||||
|
||||
gridTopo = Ftopo(XY)
|
||||
actind = [gridTopo[ixy] <= Zcc[ixy,:] for ixy in range(np.prod(mesh.vnC[0]))]
|
||||
actind = np.hstack(actind)
|
||||
|
||||
elif gridLoc == 'N':
|
||||
|
||||
XY = ndgrid(mesh.vectorNx, mesh.vectorNy)
|
||||
gridTopo = Ftopo(XY).reshape(mesh.vnN[:2], order='F')
|
||||
|
||||
if mesh._meshType not in ['TENSOR', 'CYL', 'BASETENSOR']:
|
||||
raise NotImplementedError('Nodal surface2ind_topo not implemented for %s mesh'%mesh._meshType)
|
||||
|
||||
Nz = mesh.vectorNz[1:] # TODO: this will only work for tensor meshes
|
||||
actind = np.array([False]*mesh.nC).reshape(mesh.vnC, order='F')
|
||||
|
||||
for ii in range(mesh.nCx):
|
||||
for jj in range(mesh.nCy):
|
||||
actind[ii,jj,:] = [np.all(gridTopo[ii:ii+2, jj:jj+2] >= Nz[kk]) for kk in range(len(Nz)) ]
|
||||
|
||||
elif mesh.dim == 2:
|
||||
from scipy.interpolate import interp1d
|
||||
Ftopo = interp1d(topo[:,0], topo[:,1])
|
||||
|
||||
if gridLoc == 'CC':
|
||||
gridTopo = Ftopo(mesh.gridCC[:,0])
|
||||
actind = mesh.gridCC[:,1] <= gridTopo
|
||||
|
||||
elif gridLoc == 'N':
|
||||
|
||||
gridTopo = Ftopo(mesh.vectorNx)
|
||||
if mesh._meshType not in ['TENSOR', 'CYL', 'BASETENSOR']:
|
||||
raise NotImplementedError('Nodal surface2ind_topo not implemented for %s mesh'%mesh._meshType)
|
||||
|
||||
Ny = mesh.vectorNy[1:] # TODO: this will only work for tensor meshes
|
||||
actind = np.array([False]*mesh.nC).reshape(mesh.vnC, order='F')
|
||||
|
||||
for ii in range(mesh.nCx):
|
||||
actind[ii,:] = [np.all(gridTopo[ii:ii+2] > Ny[kk]) for kk in range(len(Ny)) ]
|
||||
|
||||
else:
|
||||
raise NotImplementedError('surface2ind_topo not implemented for 1D mesh')
|
||||
|
||||
return mkvc(actind)
|
||||
|
||||
|
||||
Some files were not shown because too many files have changed in this diff Show More
Reference in New Issue
Block a user