import numpy as np from scipy import sparse as sp from SimPEG.utils import mkvc, sdiag, speye, kron3, spzeros, ddx, av def checkBC(bc): """ Checks if boundary condition 'bc' is valid. """ if(type(bc) is str): bc = [bc, bc] assert type(bc) is list, 'bc must be a list' assert len(bc) == 2, 'bc must have two elements' for bc_i in bc: assert type(bc_i) is str, "each bc must be a string" assert bc_i in ['dirichlet', 'neumann'], "each bc must be either, 'dirichlet' or 'neumann'" return bc def ddxCellGrad(n, bc): """Create 1D derivative operator from cell-centres to nodes this means we go from n to n+1""" bc = checkBC(bc) D = sp.spdiags((np.ones((n+1, 1))*[-1, 1]).T, [-1, 0], n+1, n, format="csr") # Set the first side if(bc[0] == 'dirichlet'): D[0, 0] = 2 elif(bc[0] == 'neumann'): D[0, 0] = 0 # Set the second side if(bc[1] == 'dirichlet'): D[-1, -1] = -2 elif(bc[1] == 'neumann'): D[-1, -1] = 0 return D class DiffOperators(object): """ Class creates the differential operators that you need! """ def __init__(self): raise Exception('DiffOperators is a base class providing differential operators on meshes and cannot run on its own. Inherit to your favorite Mesh class.') def faceDiv(): doc = "Construct divergence operator (face-stg to cell-centres)." def fget(self): if(self._faceDiv is None): # The number of cell centers in each direction n = self.n # Compute faceDivergence operator on faces if(self.dim == 1): D = ddx(n[0]) elif(self.dim == 2): D1 = sp.kron(speye(n[1]), ddx(n[0])) D2 = sp.kron(ddx(n[1]), speye(n[0])) D = sp.hstack((D1, D2), format="csr") elif(self.dim == 3): D1 = kron3(speye(n[2]), speye(n[1]), ddx(n[0])) D2 = kron3(speye(n[2]), ddx(n[1]), speye(n[0])) D3 = kron3(ddx(n[2]), speye(n[1]), speye(n[0])) D = sp.hstack((D1, D2, D3), format="csr") # Compute areas of cell faces & volumes S = self.area V = self.vol self._faceDiv = sdiag(1/V)*D*sdiag(S) return self._faceDiv return locals() _faceDiv = None faceDiv = property(**faceDiv()) def nodalGrad(): doc = "Construct gradient operator (nodes to edges)." def fget(self): if(self._nodalGrad is None): # The number of cell centers in each direction n = self.n # Compute divergence operator on faces if(self.dim == 1): G = ddx(n[0]) elif(self.dim == 2): D1 = sp.kron(speye(n[1]+1), ddx(n[0])) D2 = sp.kron(ddx(n[1]), speye(n[0]+1)) G = sp.vstack((D1, D2), format="csr") elif(self.dim == 3): D1 = kron3(speye(n[2]+1), speye(n[1]+1), ddx(n[0])) D2 = kron3(speye(n[2]+1), ddx(n[1]), speye(n[0]+1)) D3 = kron3(ddx(n[2]), speye(n[1]+1), speye(n[0]+1)) G = sp.vstack((D1, D2, D3), format="csr") # Compute lengths of cell edges L = self.edge self._nodalGrad = sdiag(1/L)*G return self._nodalGrad return locals() _nodalGrad = None nodalGrad = property(**nodalGrad()) def nodalLaplacian(): doc = "Construct laplacian operator (nodes to edges)." def fget(self): if(self._nodalLaplacian is None): print 'Warning: Laplacian has not been tested rigorously.' # The number of cell centers in each direction n = self.n # Compute divergence operator on faces if(self.dim == 1): D1 = sdiag(1./self.hx) * ddx(mesh.nCx) L = - D1.T*D1 elif(self.dim == 2): D1 = sdiag(1./self.hx) * ddx(n[0]) D2 = sdiag(1./self.hy) * ddx(n[1]) L1 = sp.kron(speye(n[1]+1), - D1.T * D1) L2 = sp.kron(- D2.T * D2, speye(n[0]+1)) L = L1 + L2 elif(self.dim == 3): D1 = sdiag(1./self.hx) * ddx(n[0]) D2 = sdiag(1./self.hy) * ddx(n[1]) D3 = sdiag(1./self.hz) * ddx(n[2]) L1 = kron3(speye(n[2]+1), speye(n[1]+1), - D1.T * D1) L2 = kron3(speye(n[2]+1), - D2.T * D2, speye(n[0]+1)) L3 = kron3(- D3.T * D3, speye(n[1]+1), speye(n[0]+1)) L = L1 + L2 + L3 self._nodalLaplacian = L return self._nodalLaplacian return locals() _nodalLaplacian = None nodalLaplacian = property(**nodalLaplacian()) def setCellGradBC(self, BC): """ Function that sets the boundary conditions for cell-centred derivative operators. Examples:: BC = 'neumann' # Neumann in all directions BC = ['neumann', 'dirichlet', 'neumann'] # 3D, Dirichlet in y Neumann else BC = [['neumann', 'dirichlet'], 'dirichlet', 'dirichlet'] # 3D, Neumann in x on bottom of domain, # Dirichlet else """ if(type(BC) is str): BC = [BC for _ in self.n] # Repeat the str self.dim times elif(type(BC) is list): assert len(BC) == self.dim, 'BC list must be the size of your mesh' else: raise Exception("BC must be a str or a list.") for i, bc_i in enumerate(BC): BC[i] = checkBC(bc_i) self._cellGrad = None # ensure we create a new gradient next time we call it self._cellGradBC = BC return BC _cellGradBC = 'neumann' def cellGrad(): doc = "The cell centered Gradient, takes you to cell faces." def fget(self): if(self._cellGrad is None): BC = self.setCellGradBC(self._cellGradBC) n = self.n 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.vol self._cellGrad = sdiag(S)*G*sdiag(1/V) return self._cellGrad return locals() _cellGrad = None cellGrad = property(**cellGrad()) def cellGradx(): doc = "Cell centered Gradient in the x dimension. Has neumann boundary conditions." def fget(self): if getattr(self, '_cellGradx', None) is None: BC = ['neumann', 'neumann'] n = self.n 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 S = self.r(self.area, 'F','Fx', 'V') V = self.vol self._cellGradx = sdiag(S)*G1*sdiag(1/V) return self._cellGradx return locals() cellGradx = property(**cellGradx()) 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: BC = ['neumann', 'neumann'] n = self.n 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 S = self.r(self.area, 'F','Fy', 'V') V = self.vol self._cellGrady = sdiag(S)*G2*sdiag(1/V) return self._cellGrady return locals() cellGrady = property(**cellGrady()) 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: BC = ['neumann', 'neumann'] n = self.n G3 = kron3(ddxCellGrad(n[2], BC), speye(n[1]), speye(n[0])) # Compute areas of cell faces & volumes S = self.r(self.area, 'F','Fz', 'V') V = self.vol self._cellGradz = sdiag(S)*G3*sdiag(1/V) return self._cellGradz return locals() cellGradz = property(**cellGradz()) def edgeCurl(): doc = "Construct the 3D curl operator." def fget(self): if(self._edgeCurl is None): # The number of cell centers in each direction n1 = self.nCx n2 = self.nCy n3 = self.nCz # Compute lengths of cell edges L = self.edge # Compute areas of cell faces S = self.area # Compute divergence operator on faces d1 = ddx(n1) d2 = ddx(n2) d3 = ddx(n3) D32 = kron3(d3, speye(n2), speye(n1+1)) D23 = kron3(speye(n3), d2, speye(n1+1)) D31 = kron3(d3, speye(n2+1), speye(n1)) D13 = kron3(speye(n3), speye(n2+1), d1) D21 = kron3(speye(n3+1), d2, speye(n1)) D12 = kron3(speye(n3+1), speye(n2), d1) O1 = spzeros(np.shape(D32)[0], np.shape(D31)[1]) O2 = spzeros(np.shape(D31)[0], np.shape(D32)[1]) O3 = spzeros(np.shape(D21)[0], np.shape(D13)[1]) C = sp.vstack((sp.hstack((O1, -D32, D23)), sp.hstack((D31, O2, -D13)), sp.hstack((-D21, D12, O3))), format="csr") self._edgeCurl = sdiag(1/S)*(C*sdiag(L)) return self._edgeCurl return locals() _edgeCurl = None edgeCurl = property(**edgeCurl()) # --------------- Averaging --------------------- def aveF2CC(): doc = "Construct the averaging operator on cell faces to cell centers." def fget(self): if(self._aveF2CC is None): n = self.n if(self.dim == 1): self._aveF2CC = av(n[0]) elif(self.dim == 2): self._aveF2CC = (0.5)*sp.hstack((sp.kron(speye(n[1]), av(n[0])), sp.kron(av(n[1]), speye(n[0]))), format="csr") elif(self.dim == 3): self._aveF2CC = (1./3.)*sp.hstack((kron3(speye(n[2]), speye(n[1]), av(n[0])), kron3(speye(n[2]), av(n[1]), speye(n[0])), kron3(av(n[2]), speye(n[1]), speye(n[0]))), format="csr") return self._aveF2CC return locals() _aveF2CC = None aveF2CC = property(**aveF2CC()) def aveE2CC(): doc = "Construct the averaging operator on cell edges to cell centers." def fget(self): if(self._aveE2CC is None): # The number of cell centers in each direction n = self.n if(self.dim == 1): raise Exception('Edge Averaging does not make sense in 1D: Use Identity?') elif(self.dim == 2): self._aveE2CC = 0.5*sp.hstack((sp.kron(av(n[1]), speye(n[0])), sp.kron(speye(n[1]), av(n[0]))), format="csr") elif(self.dim == 3): self._aveE2CC = (1./3)*sp.hstack((kron3(av(n[2]), av(n[1]), speye(n[0])), kron3(av(n[2]), speye(n[1]), av(n[0])), kron3(speye(n[2]), av(n[1]), av(n[0]))), format="csr") return self._aveE2CC return locals() _aveE2CC = None aveE2CC = property(**aveE2CC()) def aveN2CC(): doc = "Construct the averaging operator on cell nodes to cell centers." def fget(self): if(self._aveN2CC is None): # The number of cell centers in each direction n = self.n if(self.dim == 1): self._aveN2CC = av(n[0]) elif(self.dim == 2): self._aveN2CC = sp.kron(av(n[1]), av(n[0])).tocsr() elif(self.dim == 3): self._aveN2CC = kron3(av(n[2]), av(n[1]), av(n[0])).tocsr() return self._aveN2CC return locals() _aveN2CC = None aveN2CC = property(**aveN2CC()) def aveN2E(): doc = "Construct the averaging operator on cell nodes to cell edges, keeping each dimension separate." def fget(self): if(self._aveN2E is None): # The number of cell centers in each direction n = self.n if(self.dim == 1): self._aveN2E = av(n[0]) elif(self.dim == 2): self._aveN2E = sp.vstack((sp.kron(speye(n[1]+1), av(n[0])), sp.kron(av(n[1]), speye(n[0]+1))), format="csr") elif(self.dim == 3): self._aveN2E = sp.vstack((kron3(speye(n[2]+1), speye(n[1]+1), av(n[0])), kron3(speye(n[2]+1), av(n[1]), speye(n[0]+1)), kron3(av(n[2]), speye(n[1]+1), speye(n[0]+1))), format="csr") return self._aveN2E return locals() _aveN2E = None aveN2E = property(**aveN2E()) def aveN2F(): doc = "Construct the averaging operator on cell nodes to cell faces, keeping each dimension separate." def fget(self): if(self._aveN2F is None): # The number of cell centers in each direction n = self.n if(self.dim == 1): self._aveN2F = av(n[0]) elif(self.dim == 2): self._aveN2F = sp.vstack((sp.kron(av(n[1]), speye(n[0]+1)), sp.kron(speye(n[1]+1), av(n[0]))), format="csr") elif(self.dim == 3): self._aveN2F = sp.vstack((kron3(av(n[2]), av(n[1]), speye(n[0]+1)), 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 return locals() _aveN2F = None aveN2F = property(**aveN2F()) # --------------- Methods --------------------- def getMass(self, materialProp=None, loc='e'): """ Produces mass matricies. :param str loc: Average to location: 'e'-edges, 'f'-faces :param None,float,numpy.ndarray materialProp: property to be averaged (see below) :rtype: scipy.sparse.csr.csr_matrix :return: M, the mass matrix materialProp can be:: None -> takes materialProp = 1 (default) float -> a constant value for entire domain numpy.ndarray -> if materialProp.size == self.nC 3D property model if materialProp.size = self.nCz 1D (layered eath) property model """ if materialProp is None: materialProp = np.ones(self.nC) elif type(materialProp) is float: materialProp = np.ones(self.nC)*materialProp elif materialProp.shape == (self.nCz,): materialProp = materialProp.repeat(self.nCx*self.nCy) materialProp = mkvc(materialProp) assert materialProp.shape == (self.nC,), "materialProp incorrect shape" if loc=='e': Av = self.aveE2CC elif loc=='f': Av = self.aveF2CC else: raise ValueError('Invalid loc') diag = Av.T * (self.vol * mkvc(materialProp)) return sdiag(diag) def getEdgeMass(self, materialProp=None): """mass matrix for products of edge functions w'*M(materialProp)*e""" return self.getMass(loc='e', materialProp=materialProp) def getFaceMass(self, materialProp=None): """mass matrix for products of face functions w'*M(materialProp)*f""" return self.getMass(loc='f', materialProp=materialProp) def getFaceMassDeriv(self): Av = self.aveF2CC return Av.T * sdiag(self.vol)