xref: /petsc/src/snes/tutorials/ex48.c (revision 28b400f66ebc7ae0049166a2294dfcd3df27e64b) !
1c4762a1bSJed Brown static const char help[] = "Toy hydrostatic ice flow with multigrid in 3D.\n\
2c4762a1bSJed Brown \n\
3c4762a1bSJed Brown Solves the hydrostatic (aka Blatter/Pattyn/First Order) equations for ice sheet flow\n\
4c4762a1bSJed Brown using multigrid.  The ice uses a power-law rheology with \"Glen\" exponent 3 (corresponds\n\
5c4762a1bSJed Brown to p=4/3 in a p-Laplacian).  The focus is on ISMIP-HOM experiments which assume periodic\n\
6c4762a1bSJed Brown boundary conditions in the x- and y-directions.\n\
7c4762a1bSJed Brown \n\
8c4762a1bSJed Brown Equations are rescaled so that the domain size and solution are O(1), details of this scaling\n\
9c4762a1bSJed Brown can be controlled by the options -units_meter, -units_second, and -units_kilogram.\n\
10c4762a1bSJed Brown \n\
11c4762a1bSJed Brown A VTK StructuredGrid output file can be written using the option -o filename.vts\n\
12c4762a1bSJed Brown \n\n";
13c4762a1bSJed Brown 
14c4762a1bSJed Brown /*
15c4762a1bSJed Brown The equations for horizontal velocity (u,v) are
16c4762a1bSJed Brown 
17c4762a1bSJed Brown   - [eta (4 u_x + 2 v_y)]_x - [eta (u_y + v_x)]_y - [eta u_z]_z + rho g s_x = 0
18c4762a1bSJed Brown   - [eta (4 v_y + 2 u_x)]_y - [eta (u_y + v_x)]_x - [eta v_z]_z + rho g s_y = 0
19c4762a1bSJed Brown 
20c4762a1bSJed Brown where
21c4762a1bSJed Brown 
22c4762a1bSJed Brown   eta = B/2 (epsilon + gamma)^((p-2)/2)
23c4762a1bSJed Brown 
24c4762a1bSJed Brown is the nonlinear effective viscosity with regularization epsilon and hardness parameter B,
25c4762a1bSJed Brown written in terms of the second invariant
26c4762a1bSJed Brown 
27c4762a1bSJed Brown   gamma = u_x^2 + v_y^2 + u_x v_y + (1/4) (u_y + v_x)^2 + (1/4) u_z^2 + (1/4) v_z^2
28c4762a1bSJed Brown 
29c4762a1bSJed Brown The surface boundary conditions are the natural conditions.  The basal boundary conditions
30c4762a1bSJed Brown are either no-slip, or Navier (linear) slip with spatially variant friction coefficient beta^2.
31c4762a1bSJed Brown 
32c4762a1bSJed Brown In the code, the equations for (u,v) are multiplied through by 1/(rho g) so that residuals are O(1).
33c4762a1bSJed Brown 
34c4762a1bSJed Brown The discretization is Q1 finite elements, managed by a DMDA.  The grid is never distorted in the
35c4762a1bSJed Brown map (x,y) plane, but the bed and surface may be bumpy.  This is handled as usual in FEM, through
36c4762a1bSJed Brown the Jacobian of the coordinate transformation from a reference element to the physical element.
37c4762a1bSJed Brown 
38c4762a1bSJed Brown Since ice-flow is tightly coupled in the z-direction (within columns), the DMDA is managed
39c4762a1bSJed Brown specially so that columns are never distributed, and are always contiguous in memory.
40c4762a1bSJed Brown This amounts to reversing the meaning of X,Y,Z compared to the DMDA's internal interpretation,
41c4762a1bSJed Brown and then indexing as vec[i][j][k].  The exotic coarse spaces require 2D DMDAs which are made to
42c4762a1bSJed Brown use compatible domain decomposition relative to the 3D DMDAs.
43c4762a1bSJed Brown 
44c4762a1bSJed Brown There are two compile-time options:
45c4762a1bSJed Brown 
46c4762a1bSJed Brown   NO_SSE2:
47c4762a1bSJed Brown     If the host supports SSE2, we use integration code that has been vectorized with SSE2
48c4762a1bSJed Brown     intrinsics, unless this macro is defined.  The intrinsics speed up integration by about
49c4762a1bSJed Brown     30% on my architecture (P8700, gcc-4.5 snapshot).
50c4762a1bSJed Brown 
51c4762a1bSJed Brown   COMPUTE_LOWER_TRIANGULAR:
52c4762a1bSJed Brown     The element matrices we assemble are lower-triangular so it is not necessary to compute
53c4762a1bSJed Brown     all entries explicitly.  If this macro is defined, the lower-triangular entries are
54c4762a1bSJed Brown     computed explicitly.
55c4762a1bSJed Brown 
56c4762a1bSJed Brown */
57c4762a1bSJed Brown 
58c4762a1bSJed Brown #if defined(PETSC_APPLE_FRAMEWORK)
59c4762a1bSJed Brown #import <PETSc/petscsnes.h>
60c4762a1bSJed Brown #import <PETSc/petsc/private/dmdaimpl.h>     /* There is not yet a public interface to manipulate dm->ops */
61c4762a1bSJed Brown #else
62c4762a1bSJed Brown 
63c4762a1bSJed Brown #include <petscsnes.h>
64c4762a1bSJed Brown #include <petsc/private/dmdaimpl.h>     /* There is not yet a public interface to manipulate dm->ops */
65c4762a1bSJed Brown #endif
66c4762a1bSJed Brown #include <ctype.h>              /* toupper() */
67c4762a1bSJed Brown 
68c4762a1bSJed Brown #if defined(__cplusplus) || defined (PETSC_HAVE_WINDOWS_COMPILERS) || defined (__PGI)
69c4762a1bSJed Brown /*  c++ cannot handle  [_restrict_] notation like C does */
70c4762a1bSJed Brown #undef PETSC_RESTRICT
71c4762a1bSJed Brown #define PETSC_RESTRICT
72c4762a1bSJed Brown #endif
73c4762a1bSJed Brown 
74c4762a1bSJed Brown #if defined __SSE2__
75c4762a1bSJed Brown #  include <emmintrin.h>
76c4762a1bSJed Brown #endif
77c4762a1bSJed Brown 
78c4762a1bSJed Brown /* The SSE2 kernels are only for PetscScalar=double on architectures that support it */
79c4762a1bSJed Brown #if !defined NO_SSE2                           \
80c4762a1bSJed Brown      && !defined PETSC_USE_COMPLEX             \
81c4762a1bSJed Brown      && !defined PETSC_USE_REAL_SINGLE         \
82c4762a1bSJed Brown      && !defined PETSC_USE_REAL___FLOAT128     \
83c4762a1bSJed Brown      && !defined PETSC_USE_REAL___FP16         \
84c4762a1bSJed Brown      && defined __SSE2__
85c4762a1bSJed Brown #define USE_SSE2_KERNELS 1
86c4762a1bSJed Brown #else
87c4762a1bSJed Brown #define USE_SSE2_KERNELS 0
88c4762a1bSJed Brown #endif
89c4762a1bSJed Brown 
90c4762a1bSJed Brown static PetscClassId THI_CLASSID;
91c4762a1bSJed Brown 
92c4762a1bSJed Brown typedef enum {QUAD_GAUSS,QUAD_LOBATTO} QuadratureType;
93c4762a1bSJed Brown static const char      *QuadratureTypes[] = {"gauss","lobatto","QuadratureType","QUAD_",0};
94c4762a1bSJed Brown PETSC_UNUSED static const PetscReal HexQWeights[8]     = {1,1,1,1,1,1,1,1};
95c4762a1bSJed Brown PETSC_UNUSED static const PetscReal HexQNodes[]        = {-0.57735026918962573, 0.57735026918962573};
96c4762a1bSJed Brown #define G 0.57735026918962573
97c4762a1bSJed Brown #define H (0.5*(1.+G))
98c4762a1bSJed Brown #define L (0.5*(1.-G))
99c4762a1bSJed Brown #define M (-0.5)
100c4762a1bSJed Brown #define P (0.5)
101c4762a1bSJed Brown /* Special quadrature: Lobatto in horizontal, Gauss in vertical */
102c4762a1bSJed Brown static const PetscReal HexQInterp_Lobatto[8][8] = {{H,0,0,0,L,0,0,0},
103c4762a1bSJed Brown                                                    {0,H,0,0,0,L,0,0},
104c4762a1bSJed Brown                                                    {0,0,H,0,0,0,L,0},
105c4762a1bSJed Brown                                                    {0,0,0,H,0,0,0,L},
106c4762a1bSJed Brown                                                    {L,0,0,0,H,0,0,0},
107c4762a1bSJed Brown                                                    {0,L,0,0,0,H,0,0},
108c4762a1bSJed Brown                                                    {0,0,L,0,0,0,H,0},
109c4762a1bSJed Brown                                                    {0,0,0,L,0,0,0,H}};
110c4762a1bSJed Brown static const PetscReal HexQDeriv_Lobatto[8][8][3] = {
111c4762a1bSJed Brown   {{M*H,M*H,M},{P*H,0,0}  ,{0,0,0}    ,{0,P*H,0}  ,{M*L,M*L,P},{P*L,0,0}  ,{0,0,0}    ,{0,P*L,0}  },
112c4762a1bSJed Brown   {{M*H,0,0}  ,{P*H,M*H,M},{0,P*H,0}  ,{0,0,0}    ,{M*L,0,0}  ,{P*L,M*L,P},{0,P*L,0}  ,{0,0,0}    },
113c4762a1bSJed Brown   {{0,0,0}    ,{0,M*H,0}  ,{P*H,P*H,M},{M*H,0,0}  ,{0,0,0}    ,{0,M*L,0}  ,{P*L,P*L,P},{M*L,0,0}  },
114c4762a1bSJed Brown   {{0,M*H,0}  ,{0,0,0}    ,{P*H,0,0}  ,{M*H,P*H,M},{0,M*L,0}  ,{0,0,0}    ,{P*L,0,0}  ,{M*L,P*L,P}},
115c4762a1bSJed Brown   {{M*L,M*L,M},{P*L,0,0}  ,{0,0,0}    ,{0,P*L,0}  ,{M*H,M*H,P},{P*H,0,0}  ,{0,0,0}    ,{0,P*H,0}  },
116c4762a1bSJed Brown   {{M*L,0,0}  ,{P*L,M*L,M},{0,P*L,0}  ,{0,0,0}    ,{M*H,0,0}  ,{P*H,M*H,P},{0,P*H,0}  ,{0,0,0}    },
117c4762a1bSJed Brown   {{0,0,0}    ,{0,M*L,0}  ,{P*L,P*L,M},{M*L,0,0}  ,{0,0,0}    ,{0,M*H,0}  ,{P*H,P*H,P},{M*H,0,0}  },
118c4762a1bSJed Brown   {{0,M*L,0}  ,{0,0,0}    ,{P*L,0,0}  ,{M*L,P*L,M},{0,M*H,0}  ,{0,0,0}    ,{P*H,0,0}  ,{M*H,P*H,P}}};
119c4762a1bSJed Brown /* Stanndard Gauss */
120c4762a1bSJed Brown static const PetscReal HexQInterp_Gauss[8][8] = {{H*H*H,L*H*H,L*L*H,H*L*H, H*H*L,L*H*L,L*L*L,H*L*L},
121c4762a1bSJed Brown                                                  {L*H*H,H*H*H,H*L*H,L*L*H, L*H*L,H*H*L,H*L*L,L*L*L},
122c4762a1bSJed Brown                                                  {L*L*H,H*L*H,H*H*H,L*H*H, L*L*L,H*L*L,H*H*L,L*H*L},
123c4762a1bSJed Brown                                                  {H*L*H,L*L*H,L*H*H,H*H*H, H*L*L,L*L*L,L*H*L,H*H*L},
124c4762a1bSJed Brown                                                  {H*H*L,L*H*L,L*L*L,H*L*L, H*H*H,L*H*H,L*L*H,H*L*H},
125c4762a1bSJed Brown                                                  {L*H*L,H*H*L,H*L*L,L*L*L, L*H*H,H*H*H,H*L*H,L*L*H},
126c4762a1bSJed Brown                                                  {L*L*L,H*L*L,H*H*L,L*H*L, L*L*H,H*L*H,H*H*H,L*H*H},
127c4762a1bSJed Brown                                                  {H*L*L,L*L*L,L*H*L,H*H*L, H*L*H,L*L*H,L*H*H,H*H*H}};
128c4762a1bSJed Brown static const PetscReal HexQDeriv_Gauss[8][8][3] = {
129c4762a1bSJed Brown   {{M*H*H,H*M*H,H*H*M},{P*H*H,L*M*H,L*H*M},{P*L*H,L*P*H,L*L*M},{M*L*H,H*P*H,H*L*M}, {M*H*L,H*M*L,H*H*P},{P*H*L,L*M*L,L*H*P},{P*L*L,L*P*L,L*L*P},{M*L*L,H*P*L,H*L*P}},
130c4762a1bSJed Brown   {{M*H*H,L*M*H,L*H*M},{P*H*H,H*M*H,H*H*M},{P*L*H,H*P*H,H*L*M},{M*L*H,L*P*H,L*L*M}, {M*H*L,L*M*L,L*H*P},{P*H*L,H*M*L,H*H*P},{P*L*L,H*P*L,H*L*P},{M*L*L,L*P*L,L*L*P}},
131c4762a1bSJed Brown   {{M*L*H,L*M*H,L*L*M},{P*L*H,H*M*H,H*L*M},{P*H*H,H*P*H,H*H*M},{M*H*H,L*P*H,L*H*M}, {M*L*L,L*M*L,L*L*P},{P*L*L,H*M*L,H*L*P},{P*H*L,H*P*L,H*H*P},{M*H*L,L*P*L,L*H*P}},
132c4762a1bSJed Brown   {{M*L*H,H*M*H,H*L*M},{P*L*H,L*M*H,L*L*M},{P*H*H,L*P*H,L*H*M},{M*H*H,H*P*H,H*H*M}, {M*L*L,H*M*L,H*L*P},{P*L*L,L*M*L,L*L*P},{P*H*L,L*P*L,L*H*P},{M*H*L,H*P*L,H*H*P}},
133c4762a1bSJed Brown   {{M*H*L,H*M*L,H*H*M},{P*H*L,L*M*L,L*H*M},{P*L*L,L*P*L,L*L*M},{M*L*L,H*P*L,H*L*M}, {M*H*H,H*M*H,H*H*P},{P*H*H,L*M*H,L*H*P},{P*L*H,L*P*H,L*L*P},{M*L*H,H*P*H,H*L*P}},
134c4762a1bSJed Brown   {{M*H*L,L*M*L,L*H*M},{P*H*L,H*M*L,H*H*M},{P*L*L,H*P*L,H*L*M},{M*L*L,L*P*L,L*L*M}, {M*H*H,L*M*H,L*H*P},{P*H*H,H*M*H,H*H*P},{P*L*H,H*P*H,H*L*P},{M*L*H,L*P*H,L*L*P}},
135c4762a1bSJed Brown   {{M*L*L,L*M*L,L*L*M},{P*L*L,H*M*L,H*L*M},{P*H*L,H*P*L,H*H*M},{M*H*L,L*P*L,L*H*M}, {M*L*H,L*M*H,L*L*P},{P*L*H,H*M*H,H*L*P},{P*H*H,H*P*H,H*H*P},{M*H*H,L*P*H,L*H*P}},
136c4762a1bSJed Brown   {{M*L*L,H*M*L,H*L*M},{P*L*L,L*M*L,L*L*M},{P*H*L,L*P*L,L*H*M},{M*H*L,H*P*L,H*H*M}, {M*L*H,H*M*H,H*L*P},{P*L*H,L*M*H,L*L*P},{P*H*H,L*P*H,L*H*P},{M*H*H,H*P*H,H*H*P}}};
137c4762a1bSJed Brown static const PetscReal (*HexQInterp)[8],(*HexQDeriv)[8][3];
138c4762a1bSJed Brown /* Standard 2x2 Gauss quadrature for the bottom layer. */
139c4762a1bSJed Brown static const PetscReal QuadQInterp[4][4] = {{H*H,L*H,L*L,H*L},
140c4762a1bSJed Brown                                             {L*H,H*H,H*L,L*L},
141c4762a1bSJed Brown                                             {L*L,H*L,H*H,L*H},
142c4762a1bSJed Brown                                             {H*L,L*L,L*H,H*H}};
143c4762a1bSJed Brown static const PetscReal QuadQDeriv[4][4][2] = {
144c4762a1bSJed Brown   {{M*H,M*H},{P*H,M*L},{P*L,P*L},{M*L,P*H}},
145c4762a1bSJed Brown   {{M*H,M*L},{P*H,M*H},{P*L,P*H},{M*L,P*L}},
146c4762a1bSJed Brown   {{M*L,M*L},{P*L,M*H},{P*H,P*H},{M*H,P*L}},
147c4762a1bSJed Brown   {{M*L,M*H},{P*L,M*L},{P*H,P*L},{M*H,P*H}}};
148c4762a1bSJed Brown #undef G
149c4762a1bSJed Brown #undef H
150c4762a1bSJed Brown #undef L
151c4762a1bSJed Brown #undef M
152c4762a1bSJed Brown #undef P
153c4762a1bSJed Brown 
154c4762a1bSJed Brown #define HexExtract(x,i,j,k,n) do {              \
155c4762a1bSJed Brown     (n)[0] = (x)[i][j][k];                      \
156c4762a1bSJed Brown     (n)[1] = (x)[i+1][j][k];                    \
157c4762a1bSJed Brown     (n)[2] = (x)[i+1][j+1][k];                  \
158c4762a1bSJed Brown     (n)[3] = (x)[i][j+1][k];                    \
159c4762a1bSJed Brown     (n)[4] = (x)[i][j][k+1];                    \
160c4762a1bSJed Brown     (n)[5] = (x)[i+1][j][k+1];                  \
161c4762a1bSJed Brown     (n)[6] = (x)[i+1][j+1][k+1];                \
162c4762a1bSJed Brown     (n)[7] = (x)[i][j+1][k+1];                  \
163c4762a1bSJed Brown   } while (0)
164c4762a1bSJed Brown 
165c4762a1bSJed Brown #define HexExtractRef(x,i,j,k,n) do {           \
166c4762a1bSJed Brown     (n)[0] = &(x)[i][j][k];                     \
167c4762a1bSJed Brown     (n)[1] = &(x)[i+1][j][k];                   \
168c4762a1bSJed Brown     (n)[2] = &(x)[i+1][j+1][k];                 \
169c4762a1bSJed Brown     (n)[3] = &(x)[i][j+1][k];                   \
170c4762a1bSJed Brown     (n)[4] = &(x)[i][j][k+1];                   \
171c4762a1bSJed Brown     (n)[5] = &(x)[i+1][j][k+1];                 \
172c4762a1bSJed Brown     (n)[6] = &(x)[i+1][j+1][k+1];               \
173c4762a1bSJed Brown     (n)[7] = &(x)[i][j+1][k+1];                 \
174c4762a1bSJed Brown   } while (0)
175c4762a1bSJed Brown 
176c4762a1bSJed Brown #define QuadExtract(x,i,j,n) do {               \
177c4762a1bSJed Brown     (n)[0] = (x)[i][j];                         \
178c4762a1bSJed Brown     (n)[1] = (x)[i+1][j];                       \
179c4762a1bSJed Brown     (n)[2] = (x)[i+1][j+1];                     \
180c4762a1bSJed Brown     (n)[3] = (x)[i][j+1];                       \
181c4762a1bSJed Brown   } while (0)
182c4762a1bSJed Brown 
183c4762a1bSJed Brown static void HexGrad(const PetscReal dphi[][3],const PetscReal zn[],PetscReal dz[])
184c4762a1bSJed Brown {
185c4762a1bSJed Brown   PetscInt i;
186c4762a1bSJed Brown   dz[0] = dz[1] = dz[2] = 0;
187c4762a1bSJed Brown   for (i=0; i<8; i++) {
188c4762a1bSJed Brown     dz[0] += dphi[i][0] * zn[i];
189c4762a1bSJed Brown     dz[1] += dphi[i][1] * zn[i];
190c4762a1bSJed Brown     dz[2] += dphi[i][2] * zn[i];
191c4762a1bSJed Brown   }
192c4762a1bSJed Brown }
193c4762a1bSJed Brown 
194c4762a1bSJed Brown static void HexComputeGeometry(PetscInt q,PetscReal hx,PetscReal hy,const PetscReal dz[PETSC_RESTRICT],PetscReal phi[PETSC_RESTRICT],PetscReal dphi[PETSC_RESTRICT][3],PetscReal *PETSC_RESTRICT jw)
195c4762a1bSJed Brown {
196c4762a1bSJed Brown   const PetscReal jac[3][3]  = {{hx/2,0,0}, {0,hy/2,0}, {dz[0],dz[1],dz[2]}};
197c4762a1bSJed Brown   const PetscReal ijac[3][3] = {{1/jac[0][0],0,0}, {0,1/jac[1][1],0}, {-jac[2][0]/(jac[0][0]*jac[2][2]),-jac[2][1]/(jac[1][1]*jac[2][2]),1/jac[2][2]}};
198c4762a1bSJed Brown   const PetscReal jdet       = jac[0][0]*jac[1][1]*jac[2][2];
199c4762a1bSJed Brown   PetscInt        i;
200c4762a1bSJed Brown 
201c4762a1bSJed Brown   for (i=0; i<8; i++) {
202c4762a1bSJed Brown     const PetscReal *dphir = HexQDeriv[q][i];
203c4762a1bSJed Brown     phi[i]     = HexQInterp[q][i];
204c4762a1bSJed Brown     dphi[i][0] = dphir[0]*ijac[0][0] + dphir[1]*ijac[1][0] + dphir[2]*ijac[2][0];
205c4762a1bSJed Brown     dphi[i][1] = dphir[0]*ijac[0][1] + dphir[1]*ijac[1][1] + dphir[2]*ijac[2][1];
206c4762a1bSJed Brown     dphi[i][2] = dphir[0]*ijac[0][2] + dphir[1]*ijac[1][2] + dphir[2]*ijac[2][2];
207c4762a1bSJed Brown   }
208c4762a1bSJed Brown   *jw = 1.0 * jdet;
209c4762a1bSJed Brown }
210c4762a1bSJed Brown 
211c4762a1bSJed Brown typedef struct _p_THI   *THI;
212c4762a1bSJed Brown typedef struct _n_Units *Units;
213c4762a1bSJed Brown 
214c4762a1bSJed Brown typedef struct {
215c4762a1bSJed Brown   PetscScalar u,v;
216c4762a1bSJed Brown } Node;
217c4762a1bSJed Brown 
218c4762a1bSJed Brown typedef struct {
219c4762a1bSJed Brown   PetscScalar b;                /* bed */
220c4762a1bSJed Brown   PetscScalar h;                /* thickness */
221c4762a1bSJed Brown   PetscScalar beta2;            /* friction */
222c4762a1bSJed Brown } PrmNode;
223c4762a1bSJed Brown 
224c4762a1bSJed Brown typedef struct {
225c4762a1bSJed Brown   PetscReal min,max,cmin,cmax;
226c4762a1bSJed Brown } PRange;
227c4762a1bSJed Brown 
228c4762a1bSJed Brown typedef enum {THIASSEMBLY_TRIDIAGONAL,THIASSEMBLY_FULL} THIAssemblyMode;
229c4762a1bSJed Brown 
230c4762a1bSJed Brown struct _p_THI {
231c4762a1bSJed Brown   PETSCHEADER(int);
232c4762a1bSJed Brown   void      (*initialize)(THI,PetscReal x,PetscReal y,PrmNode *p);
233c4762a1bSJed Brown   PetscInt  zlevels;
234c4762a1bSJed Brown   PetscReal Lx,Ly,Lz;           /* Model domain */
235c4762a1bSJed Brown   PetscReal alpha;              /* Bed angle */
236c4762a1bSJed Brown   Units     units;
237c4762a1bSJed Brown   PetscReal dirichlet_scale;
238c4762a1bSJed Brown   PetscReal ssa_friction_scale;
239c4762a1bSJed Brown   PRange    eta;
240c4762a1bSJed Brown   PRange    beta2;
241c4762a1bSJed Brown   struct {
242c4762a1bSJed Brown     PetscReal Bd2,eps,exponent;
243c4762a1bSJed Brown   } viscosity;
244c4762a1bSJed Brown   struct {
245c4762a1bSJed Brown     PetscReal irefgam,eps2,exponent,refvel,epsvel;
246c4762a1bSJed Brown   } friction;
247c4762a1bSJed Brown   PetscReal rhog;
248c4762a1bSJed Brown   PetscBool no_slip;
249c4762a1bSJed Brown   PetscBool tridiagonal;
250c4762a1bSJed Brown   PetscBool coarse2d;
251c4762a1bSJed Brown   PetscBool verbose;
252c4762a1bSJed Brown   MatType   mattype;
253c4762a1bSJed Brown };
254c4762a1bSJed Brown 
255c4762a1bSJed Brown struct _n_Units {
256c4762a1bSJed Brown   /* fundamental */
257c4762a1bSJed Brown   PetscReal meter;
258c4762a1bSJed Brown   PetscReal kilogram;
259c4762a1bSJed Brown   PetscReal second;
260c4762a1bSJed Brown   /* derived */
261c4762a1bSJed Brown   PetscReal Pascal;
262c4762a1bSJed Brown   PetscReal year;
263c4762a1bSJed Brown };
264c4762a1bSJed Brown 
265c4762a1bSJed Brown static PetscErrorCode THIJacobianLocal_3D_Full(DMDALocalInfo*,Node***,Mat,Mat,THI);
266c4762a1bSJed Brown static PetscErrorCode THIJacobianLocal_3D_Tridiagonal(DMDALocalInfo*,Node***,Mat,Mat,THI);
267c4762a1bSJed Brown static PetscErrorCode THIJacobianLocal_2D(DMDALocalInfo*,Node**,Mat,Mat,THI);
268c4762a1bSJed Brown 
269c4762a1bSJed Brown static void PrmHexGetZ(const PrmNode pn[],PetscInt k,PetscInt zm,PetscReal zn[])
270c4762a1bSJed Brown {
271c4762a1bSJed Brown   const PetscScalar zm1    = zm-1,
272c4762a1bSJed Brown                     znl[8] = {pn[0].b + pn[0].h*(PetscScalar)k/zm1,
273c4762a1bSJed Brown                               pn[1].b + pn[1].h*(PetscScalar)k/zm1,
274c4762a1bSJed Brown                               pn[2].b + pn[2].h*(PetscScalar)k/zm1,
275c4762a1bSJed Brown                               pn[3].b + pn[3].h*(PetscScalar)k/zm1,
276c4762a1bSJed Brown                               pn[0].b + pn[0].h*(PetscScalar)(k+1)/zm1,
277c4762a1bSJed Brown                               pn[1].b + pn[1].h*(PetscScalar)(k+1)/zm1,
278c4762a1bSJed Brown                               pn[2].b + pn[2].h*(PetscScalar)(k+1)/zm1,
279c4762a1bSJed Brown                               pn[3].b + pn[3].h*(PetscScalar)(k+1)/zm1};
280c4762a1bSJed Brown   PetscInt i;
281c4762a1bSJed Brown   for (i=0; i<8; i++) zn[i] = PetscRealPart(znl[i]);
282c4762a1bSJed Brown }
283c4762a1bSJed Brown 
284c4762a1bSJed Brown /* Tests A and C are from the ISMIP-HOM paper (Pattyn et al. 2008) */
285c4762a1bSJed Brown static void THIInitialize_HOM_A(THI thi,PetscReal x,PetscReal y,PrmNode *p)
286c4762a1bSJed Brown {
287c4762a1bSJed Brown   Units     units = thi->units;
288c4762a1bSJed Brown   PetscReal s     = -x*PetscSinReal(thi->alpha);
289c4762a1bSJed Brown 
290c4762a1bSJed Brown   p->b     = s - 1000*units->meter + 500*units->meter * PetscSinReal(x*2*PETSC_PI/thi->Lx) * PetscSinReal(y*2*PETSC_PI/thi->Ly);
291c4762a1bSJed Brown   p->h     = s - p->b;
292c4762a1bSJed Brown   p->beta2 = 1e30;
293c4762a1bSJed Brown }
294c4762a1bSJed Brown 
295c4762a1bSJed Brown static void THIInitialize_HOM_C(THI thi,PetscReal x,PetscReal y,PrmNode *p)
296c4762a1bSJed Brown {
297c4762a1bSJed Brown   Units     units = thi->units;
298c4762a1bSJed Brown   PetscReal s     = -x*PetscSinReal(thi->alpha);
299c4762a1bSJed Brown 
300c4762a1bSJed Brown   p->b = s - 1000*units->meter;
301c4762a1bSJed Brown   p->h = s - p->b;
302c4762a1bSJed Brown   /* tau_b = beta2 v   is a stress (Pa) */
303c4762a1bSJed Brown   p->beta2 = 1000 * (1 + PetscSinReal(x*2*PETSC_PI/thi->Lx)*PetscSinReal(y*2*PETSC_PI/thi->Ly)) * units->Pascal * units->year / units->meter;
304c4762a1bSJed Brown }
305c4762a1bSJed Brown 
306c4762a1bSJed Brown /* These are just toys */
307c4762a1bSJed Brown 
308c4762a1bSJed Brown /* Same bed as test A, free slip everywhere except for a discontinuous jump to a circular sticky region in the middle. */
309c4762a1bSJed Brown static void THIInitialize_HOM_X(THI thi,PetscReal xx,PetscReal yy,PrmNode *p)
310c4762a1bSJed Brown {
311c4762a1bSJed Brown   Units     units = thi->units;
312c4762a1bSJed Brown   PetscReal x     = xx*2*PETSC_PI/thi->Lx - PETSC_PI,y = yy*2*PETSC_PI/thi->Ly - PETSC_PI; /* [-pi,pi] */
313c4762a1bSJed Brown   PetscReal r     = PetscSqrtReal(x*x + y*y),s = -x*PetscSinReal(thi->alpha);
314c4762a1bSJed Brown   p->b     = s - 1000*units->meter + 500*units->meter*PetscSinReal(x + PETSC_PI) * PetscSinReal(y + PETSC_PI);
315c4762a1bSJed Brown   p->h     = s - p->b;
316c4762a1bSJed Brown   p->beta2 = 1000 * (r < 1 ? 2 : 0) * units->Pascal * units->year / units->meter;
317c4762a1bSJed Brown }
318c4762a1bSJed Brown 
319c4762a1bSJed Brown /* Like Z, but with 200 meter cliffs */
320c4762a1bSJed Brown static void THIInitialize_HOM_Y(THI thi,PetscReal xx,PetscReal yy,PrmNode *p)
321c4762a1bSJed Brown {
322c4762a1bSJed Brown   Units     units = thi->units;
323c4762a1bSJed Brown   PetscReal x     = xx*2*PETSC_PI/thi->Lx - PETSC_PI,y = yy*2*PETSC_PI/thi->Ly - PETSC_PI; /* [-pi,pi] */
324c4762a1bSJed Brown   PetscReal r     = PetscSqrtReal(x*x + y*y),s = -x*PetscSinReal(thi->alpha);
325c4762a1bSJed Brown 
326c4762a1bSJed Brown   p->b = s - 1000*units->meter + 500*units->meter * PetscSinReal(x + PETSC_PI) * PetscSinReal(y + PETSC_PI);
327c4762a1bSJed Brown   if (PetscRealPart(p->b) > -700*units->meter) p->b += 200*units->meter;
328c4762a1bSJed Brown   p->h     = s - p->b;
329c4762a1bSJed Brown   p->beta2 = 1000 * (1. + PetscSinReal(PetscSqrtReal(16*r))/PetscSqrtReal(1e-2 + 16*r)*PetscCosReal(x*3/2)*PetscCosReal(y*3/2)) * units->Pascal * units->year / units->meter;
330c4762a1bSJed Brown }
331c4762a1bSJed Brown 
332c4762a1bSJed Brown /* Same bed as A, smoothly varying slipperiness, similar to MATLAB's "sombrero" (uncorrelated with bathymetry) */
333c4762a1bSJed Brown static void THIInitialize_HOM_Z(THI thi,PetscReal xx,PetscReal yy,PrmNode *p)
334c4762a1bSJed Brown {
335c4762a1bSJed Brown   Units     units = thi->units;
336c4762a1bSJed Brown   PetscReal x     = xx*2*PETSC_PI/thi->Lx - PETSC_PI,y = yy*2*PETSC_PI/thi->Ly - PETSC_PI; /* [-pi,pi] */
337c4762a1bSJed Brown   PetscReal r     = PetscSqrtReal(x*x + y*y),s = -x*PetscSinReal(thi->alpha);
338c4762a1bSJed Brown 
339c4762a1bSJed Brown   p->b     = s - 1000*units->meter + 500*units->meter * PetscSinReal(x + PETSC_PI) * PetscSinReal(y + PETSC_PI);
340c4762a1bSJed Brown   p->h     = s - p->b;
341c4762a1bSJed Brown   p->beta2 = 1000 * (1. + PetscSinReal(PetscSqrtReal(16*r))/PetscSqrtReal(1e-2 + 16*r)*PetscCosReal(x*3/2)*PetscCosReal(y*3/2)) * units->Pascal * units->year / units->meter;
342c4762a1bSJed Brown }
343c4762a1bSJed Brown 
344c4762a1bSJed Brown static void THIFriction(THI thi,PetscReal rbeta2,PetscReal gam,PetscReal *beta2,PetscReal *dbeta2)
345c4762a1bSJed Brown {
346c4762a1bSJed Brown   if (thi->friction.irefgam == 0) {
347c4762a1bSJed Brown     Units units = thi->units;
348c4762a1bSJed Brown     thi->friction.irefgam = 1./(0.5*PetscSqr(thi->friction.refvel * units->meter / units->year));
349c4762a1bSJed Brown     thi->friction.eps2    = 0.5*PetscSqr(thi->friction.epsvel * units->meter / units->year) * thi->friction.irefgam;
350c4762a1bSJed Brown   }
351c4762a1bSJed Brown   if (thi->friction.exponent == 0) {
352c4762a1bSJed Brown     *beta2  = rbeta2;
353c4762a1bSJed Brown     *dbeta2 = 0;
354c4762a1bSJed Brown   } else {
355c4762a1bSJed Brown     *beta2  = rbeta2 * PetscPowReal(thi->friction.eps2 + gam*thi->friction.irefgam,thi->friction.exponent);
356c4762a1bSJed Brown     *dbeta2 = thi->friction.exponent * *beta2 / (thi->friction.eps2 + gam*thi->friction.irefgam) * thi->friction.irefgam;
357c4762a1bSJed Brown   }
358c4762a1bSJed Brown }
359c4762a1bSJed Brown 
360c4762a1bSJed Brown static void THIViscosity(THI thi,PetscReal gam,PetscReal *eta,PetscReal *deta)
361c4762a1bSJed Brown {
362c4762a1bSJed Brown   PetscReal Bd2,eps,exponent;
363c4762a1bSJed Brown   if (thi->viscosity.Bd2 == 0) {
364c4762a1bSJed Brown     Units units = thi->units;
365c4762a1bSJed Brown     const PetscReal
366c4762a1bSJed Brown       n = 3.,                                           /* Glen exponent */
367c4762a1bSJed Brown       p = 1. + 1./n,                                    /* for Stokes */
368c4762a1bSJed Brown       A = 1.e-16 * PetscPowReal(units->Pascal,-n) / units->year, /* softness parameter (Pa^{-n}/s) */
369c4762a1bSJed Brown       B = PetscPowReal(A,-1./n);                                 /* hardness parameter */
370c4762a1bSJed Brown     thi->viscosity.Bd2      = B/2;
371c4762a1bSJed Brown     thi->viscosity.exponent = (p-2)/2;
372c4762a1bSJed Brown     thi->viscosity.eps      = 0.5*PetscSqr(1e-5 / units->year);
373c4762a1bSJed Brown   }
374c4762a1bSJed Brown   Bd2      = thi->viscosity.Bd2;
375c4762a1bSJed Brown   exponent = thi->viscosity.exponent;
376c4762a1bSJed Brown   eps      = thi->viscosity.eps;
377c4762a1bSJed Brown   *eta     = Bd2 * PetscPowReal(eps + gam,exponent);
378c4762a1bSJed Brown   *deta    = exponent * (*eta) / (eps + gam);
379c4762a1bSJed Brown }
380c4762a1bSJed Brown 
381c4762a1bSJed Brown static void RangeUpdate(PetscReal *min,PetscReal *max,PetscReal x)
382c4762a1bSJed Brown {
383c4762a1bSJed Brown   if (x < *min) *min = x;
384c4762a1bSJed Brown   if (x > *max) *max = x;
385c4762a1bSJed Brown }
386c4762a1bSJed Brown 
387c4762a1bSJed Brown static void PRangeClear(PRange *p)
388c4762a1bSJed Brown {
389c4762a1bSJed Brown   p->cmin = p->min = 1e100;
390c4762a1bSJed Brown   p->cmax = p->max = -1e100;
391c4762a1bSJed Brown }
392c4762a1bSJed Brown 
393c4762a1bSJed Brown static PetscErrorCode PRangeMinMax(PRange *p,PetscReal min,PetscReal max)
394c4762a1bSJed Brown {
395c4762a1bSJed Brown   PetscFunctionBeginUser;
396c4762a1bSJed Brown   p->cmin = min;
397c4762a1bSJed Brown   p->cmax = max;
398c4762a1bSJed Brown   if (min < p->min) p->min = min;
399c4762a1bSJed Brown   if (max > p->max) p->max = max;
400c4762a1bSJed Brown   PetscFunctionReturn(0);
401c4762a1bSJed Brown }
402c4762a1bSJed Brown 
403c4762a1bSJed Brown static PetscErrorCode THIDestroy(THI *thi)
404c4762a1bSJed Brown {
405c4762a1bSJed Brown   PetscFunctionBeginUser;
406c4762a1bSJed Brown   if (!*thi) PetscFunctionReturn(0);
407c4762a1bSJed Brown   if (--((PetscObject)(*thi))->refct > 0) {*thi = 0; PetscFunctionReturn(0);}
4085f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscFree((*thi)->units));
4095f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscFree((*thi)->mattype));
4105f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscHeaderDestroy(thi));
411c4762a1bSJed Brown   PetscFunctionReturn(0);
412c4762a1bSJed Brown }
413c4762a1bSJed Brown 
414c4762a1bSJed Brown static PetscErrorCode THICreate(MPI_Comm comm,THI *inthi)
415c4762a1bSJed Brown {
416c4762a1bSJed Brown   static PetscBool registered = PETSC_FALSE;
417c4762a1bSJed Brown   THI              thi;
418c4762a1bSJed Brown   Units            units;
419c4762a1bSJed Brown   PetscErrorCode   ierr;
420c4762a1bSJed Brown 
421c4762a1bSJed Brown   PetscFunctionBeginUser;
422c4762a1bSJed Brown   *inthi = 0;
423c4762a1bSJed Brown   if (!registered) {
4245f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscClassIdRegister("Toy Hydrostatic Ice",&THI_CLASSID));
425c4762a1bSJed Brown     registered = PETSC_TRUE;
426c4762a1bSJed Brown   }
4275f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscHeaderCreate(thi,THI_CLASSID,"THI","Toy Hydrostatic Ice","",comm,THIDestroy,0));
428c4762a1bSJed Brown 
4295f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscNew(&thi->units));
430c4762a1bSJed Brown   units           = thi->units;
431c4762a1bSJed Brown   units->meter    = 1e-2;
432c4762a1bSJed Brown   units->second   = 1e-7;
433c4762a1bSJed Brown   units->kilogram = 1e-12;
434c4762a1bSJed Brown 
435c4762a1bSJed Brown   ierr = PetscOptionsBegin(comm,NULL,"Scaled units options","");CHKERRQ(ierr);
436c4762a1bSJed Brown   {
4375f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-units_meter","1 meter in scaled length units","",units->meter,&units->meter,NULL));
4385f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-units_second","1 second in scaled time units","",units->second,&units->second,NULL));
4395f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-units_kilogram","1 kilogram in scaled mass units","",units->kilogram,&units->kilogram,NULL));
440c4762a1bSJed Brown   }
441c4762a1bSJed Brown   ierr          = PetscOptionsEnd();CHKERRQ(ierr);
442c4762a1bSJed Brown   units->Pascal = units->kilogram / (units->meter * PetscSqr(units->second));
443c4762a1bSJed Brown   units->year   = 31556926. * units->second; /* seconds per year */
444c4762a1bSJed Brown 
445c4762a1bSJed Brown   thi->Lx              = 10.e3;
446c4762a1bSJed Brown   thi->Ly              = 10.e3;
447c4762a1bSJed Brown   thi->Lz              = 1000;
448c4762a1bSJed Brown   thi->dirichlet_scale = 1;
449c4762a1bSJed Brown   thi->verbose         = PETSC_FALSE;
450c4762a1bSJed Brown 
451c4762a1bSJed Brown   ierr = PetscOptionsBegin(comm,NULL,"Toy Hydrostatic Ice options","");CHKERRQ(ierr);
452c4762a1bSJed Brown   {
453c4762a1bSJed Brown     QuadratureType quad       = QUAD_GAUSS;
454c4762a1bSJed Brown     char           homexp[]   = "A";
455c4762a1bSJed Brown     char           mtype[256] = MATSBAIJ;
456c4762a1bSJed Brown     PetscReal      L,m = 1.0;
457c4762a1bSJed Brown     PetscBool      flg;
458c4762a1bSJed Brown     L    = thi->Lx;
4595f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-thi_L","Domain size (m)","",L,&L,&flg));
460c4762a1bSJed Brown     if (flg) thi->Lx = thi->Ly = L;
4615f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-thi_Lx","X Domain size (m)","",thi->Lx,&thi->Lx,NULL));
4625f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-thi_Ly","Y Domain size (m)","",thi->Ly,&thi->Ly,NULL));
4635f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-thi_Lz","Z Domain size (m)","",thi->Lz,&thi->Lz,NULL));
4645f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsString("-thi_hom","ISMIP-HOM experiment (A or C)","",homexp,homexp,sizeof(homexp),NULL));
465c4762a1bSJed Brown     switch (homexp[0] = toupper(homexp[0])) {
466c4762a1bSJed Brown     case 'A':
467c4762a1bSJed Brown       thi->initialize = THIInitialize_HOM_A;
468c4762a1bSJed Brown       thi->no_slip    = PETSC_TRUE;
469c4762a1bSJed Brown       thi->alpha      = 0.5;
470c4762a1bSJed Brown       break;
471c4762a1bSJed Brown     case 'C':
472c4762a1bSJed Brown       thi->initialize = THIInitialize_HOM_C;
473c4762a1bSJed Brown       thi->no_slip    = PETSC_FALSE;
474c4762a1bSJed Brown       thi->alpha      = 0.1;
475c4762a1bSJed Brown       break;
476c4762a1bSJed Brown     case 'X':
477c4762a1bSJed Brown       thi->initialize = THIInitialize_HOM_X;
478c4762a1bSJed Brown       thi->no_slip    = PETSC_FALSE;
479c4762a1bSJed Brown       thi->alpha      = 0.3;
480c4762a1bSJed Brown       break;
481c4762a1bSJed Brown     case 'Y':
482c4762a1bSJed Brown       thi->initialize = THIInitialize_HOM_Y;
483c4762a1bSJed Brown       thi->no_slip    = PETSC_FALSE;
484c4762a1bSJed Brown       thi->alpha      = 0.5;
485c4762a1bSJed Brown       break;
486c4762a1bSJed Brown     case 'Z':
487c4762a1bSJed Brown       thi->initialize = THIInitialize_HOM_Z;
488c4762a1bSJed Brown       thi->no_slip    = PETSC_FALSE;
489c4762a1bSJed Brown       thi->alpha      = 0.5;
490c4762a1bSJed Brown       break;
491c4762a1bSJed Brown     default:
49298921bdaSJacob Faibussowitsch       SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"HOM experiment '%c' not implemented",homexp[0]);
493c4762a1bSJed Brown     }
4945f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsEnum("-thi_quadrature","Quadrature to use for 3D elements","",QuadratureTypes,(PetscEnum)quad,(PetscEnum*)&quad,NULL));
495c4762a1bSJed Brown     switch (quad) {
496c4762a1bSJed Brown     case QUAD_GAUSS:
497c4762a1bSJed Brown       HexQInterp = HexQInterp_Gauss;
498c4762a1bSJed Brown       HexQDeriv  = HexQDeriv_Gauss;
499c4762a1bSJed Brown       break;
500c4762a1bSJed Brown     case QUAD_LOBATTO:
501c4762a1bSJed Brown       HexQInterp = HexQInterp_Lobatto;
502c4762a1bSJed Brown       HexQDeriv  = HexQDeriv_Lobatto;
503c4762a1bSJed Brown       break;
504c4762a1bSJed Brown     }
5055f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-thi_alpha","Bed angle (degrees)","",thi->alpha,&thi->alpha,NULL));
506c4762a1bSJed Brown 
507c4762a1bSJed Brown     thi->friction.refvel = 100.;
508c4762a1bSJed Brown     thi->friction.epsvel = 1.;
509c4762a1bSJed Brown 
5105f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-thi_friction_refvel","Reference velocity for sliding","",thi->friction.refvel,&thi->friction.refvel,NULL));
5115f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-thi_friction_epsvel","Regularization velocity for sliding","",thi->friction.epsvel,&thi->friction.epsvel,NULL));
5125f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-thi_friction_m","Friction exponent, 0=Coulomb, 1=Navier","",m,&m,NULL));
513c4762a1bSJed Brown 
514c4762a1bSJed Brown     thi->friction.exponent = (m-1)/2;
515c4762a1bSJed Brown 
5165f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-thi_dirichlet_scale","Scale Dirichlet boundary conditions by this factor","",thi->dirichlet_scale,&thi->dirichlet_scale,NULL));
5175f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsReal("-thi_ssa_friction_scale","Scale slip boundary conditions by this factor in SSA (2D) assembly","",thi->ssa_friction_scale,&thi->ssa_friction_scale,NULL));
5185f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsBool("-thi_coarse2d","Use a 2D coarse space corresponding to SSA","",thi->coarse2d,&thi->coarse2d,NULL));
5195f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsBool("-thi_tridiagonal","Assemble a tridiagonal system (column coupling only) on the finest level","",thi->tridiagonal,&thi->tridiagonal,NULL));
5205f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsFList("-thi_mat_type","Matrix type","MatSetType",MatList,mtype,(char*)mtype,sizeof(mtype),NULL));
5215f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscStrallocpy(mtype,(char**)&thi->mattype));
5225f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsBool("-thi_verbose","Enable verbose output (like matrix sizes and statistics)","",thi->verbose,&thi->verbose,NULL));
523c4762a1bSJed Brown   }
524c4762a1bSJed Brown   ierr = PetscOptionsEnd();CHKERRQ(ierr);
525c4762a1bSJed Brown 
526c4762a1bSJed Brown   /* dimensionalize */
527c4762a1bSJed Brown   thi->Lx    *= units->meter;
528c4762a1bSJed Brown   thi->Ly    *= units->meter;
529c4762a1bSJed Brown   thi->Lz    *= units->meter;
530c4762a1bSJed Brown   thi->alpha *= PETSC_PI / 180;
531c4762a1bSJed Brown 
532c4762a1bSJed Brown   PRangeClear(&thi->eta);
533c4762a1bSJed Brown   PRangeClear(&thi->beta2);
534c4762a1bSJed Brown 
535c4762a1bSJed Brown   {
536c4762a1bSJed Brown     PetscReal u       = 1000*units->meter/(3e7*units->second),
537c4762a1bSJed Brown               gradu   = u / (100*units->meter),eta,deta,
538c4762a1bSJed Brown               rho     = 910 * units->kilogram/PetscPowReal(units->meter,3),
539c4762a1bSJed Brown               grav    = 9.81 * units->meter/PetscSqr(units->second),
540c4762a1bSJed Brown               driving = rho * grav * PetscSinReal(thi->alpha) * 1000*units->meter;
541c4762a1bSJed Brown     THIViscosity(thi,0.5*gradu*gradu,&eta,&deta);
542c4762a1bSJed Brown     thi->rhog = rho * grav;
543c4762a1bSJed Brown     if (thi->verbose) {
5445f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscPrintf(PetscObjectComm((PetscObject)thi),"Units: meter %8.2g  second %8.2g  kg %8.2g  Pa %8.2g\n",(double)units->meter,(double)units->second,(double)units->kilogram,(double)units->Pascal));
5455f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscPrintf(PetscObjectComm((PetscObject)thi),"Domain (%6.2g,%6.2g,%6.2g), pressure %8.2g, driving stress %8.2g\n",(double)thi->Lx,(double)thi->Ly,(double)thi->Lz,(double)(rho*grav*1e3*units->meter),(double)driving));
5465f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscPrintf(PetscObjectComm((PetscObject)thi),"Large velocity 1km/a %8.2g, velocity gradient %8.2g, eta %8.2g, stress %8.2g, ratio %8.2g\n",(double)u,(double)gradu,(double)eta,(double)(2*eta*gradu),(double)(2*eta*gradu/driving)));
547c4762a1bSJed Brown       THIViscosity(thi,0.5*PetscSqr(1e-3*gradu),&eta,&deta);
5485f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscPrintf(PetscObjectComm((PetscObject)thi),"Small velocity 1m/a  %8.2g, velocity gradient %8.2g, eta %8.2g, stress %8.2g, ratio %8.2g\n",(double)(1e-3*u),(double)(1e-3*gradu),(double)eta,(double)(2*eta*1e-3*gradu),(double)(2*eta*1e-3*gradu/driving)));
549c4762a1bSJed Brown     }
550c4762a1bSJed Brown   }
551c4762a1bSJed Brown 
552c4762a1bSJed Brown   *inthi = thi;
553c4762a1bSJed Brown   PetscFunctionReturn(0);
554c4762a1bSJed Brown }
555c4762a1bSJed Brown 
556c4762a1bSJed Brown static PetscErrorCode THIInitializePrm(THI thi,DM da2prm,Vec prm)
557c4762a1bSJed Brown {
558c4762a1bSJed Brown   PrmNode        **p;
559c4762a1bSJed Brown   PetscInt       i,j,xs,xm,ys,ym,mx,my;
560c4762a1bSJed Brown 
561c4762a1bSJed Brown   PetscFunctionBeginUser;
5625f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetGhostCorners(da2prm,&ys,&xs,0,&ym,&xm,0));
5635f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetInfo(da2prm,0, &my,&mx,0, 0,0,0, 0,0,0,0,0,0));
5645f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAVecGetArray(da2prm,prm,&p));
565c4762a1bSJed Brown   for (i=xs; i<xs+xm; i++) {
566c4762a1bSJed Brown     for (j=ys; j<ys+ym; j++) {
567c4762a1bSJed Brown       PetscReal xx = thi->Lx*i/mx,yy = thi->Ly*j/my;
568c4762a1bSJed Brown       thi->initialize(thi,xx,yy,&p[i][j]);
569c4762a1bSJed Brown     }
570c4762a1bSJed Brown   }
5715f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAVecRestoreArray(da2prm,prm,&p));
572c4762a1bSJed Brown   PetscFunctionReturn(0);
573c4762a1bSJed Brown }
574c4762a1bSJed Brown 
575c4762a1bSJed Brown static PetscErrorCode THISetUpDM(THI thi,DM dm)
576c4762a1bSJed Brown {
577c4762a1bSJed Brown   PetscInt        refinelevel,coarsenlevel,level,dim,Mx,My,Mz,mx,my,s;
578c4762a1bSJed Brown   DMDAStencilType st;
579c4762a1bSJed Brown   DM              da2prm;
580c4762a1bSJed Brown   Vec             X;
581c4762a1bSJed Brown 
582c4762a1bSJed Brown   PetscFunctionBeginUser;
5835f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetInfo(dm,&dim, &Mz,&My,&Mx, 0,&my,&mx, 0,&s,0,0,0,&st));
584c4762a1bSJed Brown   if (dim == 2) {
5855f80ce2aSJacob Faibussowitsch     CHKERRQ(DMDAGetInfo(dm,&dim, &My,&Mx,0, &my,&mx,0, 0,&s,0,0,0,&st));
586c4762a1bSJed Brown   }
5875f80ce2aSJacob Faibussowitsch   CHKERRQ(DMGetRefineLevel(dm,&refinelevel));
5885f80ce2aSJacob Faibussowitsch   CHKERRQ(DMGetCoarsenLevel(dm,&coarsenlevel));
589c4762a1bSJed Brown   level = refinelevel - coarsenlevel;
5905f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDACreate2d(PetscObjectComm((PetscObject)thi),DM_BOUNDARY_PERIODIC,DM_BOUNDARY_PERIODIC,st,My,Mx,my,mx,sizeof(PrmNode)/sizeof(PetscScalar),s,0,0,&da2prm));
5915f80ce2aSJacob Faibussowitsch   CHKERRQ(DMSetUp(da2prm));
5925f80ce2aSJacob Faibussowitsch   CHKERRQ(DMCreateLocalVector(da2prm,&X));
593c4762a1bSJed Brown   {
594c4762a1bSJed Brown     PetscReal Lx = thi->Lx / thi->units->meter,Ly = thi->Ly / thi->units->meter,Lz = thi->Lz / thi->units->meter;
595c4762a1bSJed Brown     if (dim == 2) {
5965f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscPrintf(PetscObjectComm((PetscObject)thi),"Level %D domain size (m) %8.2g x %8.2g, num elements %D x %D (%D), size (m) %g x %g\n",level,(double)Lx,(double)Ly,Mx,My,Mx*My,(double)(Lx/Mx),(double)(Ly/My)));
597c4762a1bSJed Brown     } else {
5985f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscPrintf(PetscObjectComm((PetscObject)thi),"Level %D domain size (m) %8.2g x %8.2g x %8.2g, num elements %D x %D x %D (%D), size (m) %g x %g x %g\n",level,(double)Lx,(double)Ly,(double)Lz,Mx,My,Mz,Mx*My*Mz,(double)(Lx/Mx),(double)(Ly/My),(double)(1000./(Mz-1))));
599c4762a1bSJed Brown     }
600c4762a1bSJed Brown   }
6015f80ce2aSJacob Faibussowitsch   CHKERRQ(THIInitializePrm(thi,da2prm,X));
602c4762a1bSJed Brown   if (thi->tridiagonal) {       /* Reset coarse Jacobian evaluation */
6035f80ce2aSJacob Faibussowitsch     CHKERRQ(DMDASNESSetJacobianLocal(dm,(DMDASNESJacobian)THIJacobianLocal_3D_Full,thi));
604c4762a1bSJed Brown   }
605c4762a1bSJed Brown   if (thi->coarse2d) {
6065f80ce2aSJacob Faibussowitsch     CHKERRQ(DMDASNESSetJacobianLocal(dm,(DMDASNESJacobian)THIJacobianLocal_2D,thi));
607c4762a1bSJed Brown   }
6085f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscObjectCompose((PetscObject)dm,"DMDA2Prm",(PetscObject)da2prm));
6095f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscObjectCompose((PetscObject)dm,"DMDA2Prm_Vec",(PetscObject)X));
6105f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDestroy(&da2prm));
6115f80ce2aSJacob Faibussowitsch   CHKERRQ(VecDestroy(&X));
612c4762a1bSJed Brown   PetscFunctionReturn(0);
613c4762a1bSJed Brown }
614c4762a1bSJed Brown 
615c4762a1bSJed Brown static PetscErrorCode DMCoarsenHook_THI(DM dmf,DM dmc,void *ctx)
616c4762a1bSJed Brown {
617c4762a1bSJed Brown   THI            thi = (THI)ctx;
618c4762a1bSJed Brown   PetscInt       rlevel,clevel;
619c4762a1bSJed Brown 
620c4762a1bSJed Brown   PetscFunctionBeginUser;
6215f80ce2aSJacob Faibussowitsch   CHKERRQ(THISetUpDM(thi,dmc));
6225f80ce2aSJacob Faibussowitsch   CHKERRQ(DMGetRefineLevel(dmc,&rlevel));
6235f80ce2aSJacob Faibussowitsch   CHKERRQ(DMGetCoarsenLevel(dmc,&clevel));
6245f80ce2aSJacob Faibussowitsch   if (rlevel-clevel == 0) CHKERRQ(DMSetMatType(dmc,MATAIJ));
6255f80ce2aSJacob Faibussowitsch   CHKERRQ(DMCoarsenHookAdd(dmc,DMCoarsenHook_THI,NULL,thi));
626c4762a1bSJed Brown   PetscFunctionReturn(0);
627c4762a1bSJed Brown }
628c4762a1bSJed Brown 
629c4762a1bSJed Brown static PetscErrorCode DMRefineHook_THI(DM dmc,DM dmf,void *ctx)
630c4762a1bSJed Brown {
631c4762a1bSJed Brown   THI            thi = (THI)ctx;
632c4762a1bSJed Brown 
633c4762a1bSJed Brown   PetscFunctionBeginUser;
6345f80ce2aSJacob Faibussowitsch   CHKERRQ(THISetUpDM(thi,dmf));
6355f80ce2aSJacob Faibussowitsch   CHKERRQ(DMSetMatType(dmf,thi->mattype));
6365f80ce2aSJacob Faibussowitsch   CHKERRQ(DMRefineHookAdd(dmf,DMRefineHook_THI,NULL,thi));
637c4762a1bSJed Brown   /* With grid sequencing, a formerly-refined DM will later be coarsened by PCSetUp_MG */
6385f80ce2aSJacob Faibussowitsch   CHKERRQ(DMCoarsenHookAdd(dmf,DMCoarsenHook_THI,NULL,thi));
639c4762a1bSJed Brown   PetscFunctionReturn(0);
640c4762a1bSJed Brown }
641c4762a1bSJed Brown 
642c4762a1bSJed Brown static PetscErrorCode THIDAGetPrm(DM da,PrmNode ***prm)
643c4762a1bSJed Brown {
644c4762a1bSJed Brown   DM             da2prm;
645c4762a1bSJed Brown   Vec            X;
646c4762a1bSJed Brown 
647c4762a1bSJed Brown   PetscFunctionBeginUser;
6485f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscObjectQuery((PetscObject)da,"DMDA2Prm",(PetscObject*)&da2prm));
649*28b400f6SJacob Faibussowitsch   PetscCheck(da2prm,PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"No DMDA2Prm composed with given DMDA");
6505f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscObjectQuery((PetscObject)da,"DMDA2Prm_Vec",(PetscObject*)&X));
651*28b400f6SJacob Faibussowitsch   PetscCheck(X,PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"No DMDA2Prm_Vec composed with given DMDA");
6525f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAVecGetArray(da2prm,X,prm));
653c4762a1bSJed Brown   PetscFunctionReturn(0);
654c4762a1bSJed Brown }
655c4762a1bSJed Brown 
656c4762a1bSJed Brown static PetscErrorCode THIDARestorePrm(DM da,PrmNode ***prm)
657c4762a1bSJed Brown {
658c4762a1bSJed Brown   DM             da2prm;
659c4762a1bSJed Brown   Vec            X;
660c4762a1bSJed Brown 
661c4762a1bSJed Brown   PetscFunctionBeginUser;
6625f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscObjectQuery((PetscObject)da,"DMDA2Prm",(PetscObject*)&da2prm));
663*28b400f6SJacob Faibussowitsch   PetscCheck(da2prm,PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"No DMDA2Prm composed with given DMDA");
6645f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscObjectQuery((PetscObject)da,"DMDA2Prm_Vec",(PetscObject*)&X));
665*28b400f6SJacob Faibussowitsch   PetscCheck(X,PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"No DMDA2Prm_Vec composed with given DMDA");
6665f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAVecRestoreArray(da2prm,X,prm));
667c4762a1bSJed Brown   PetscFunctionReturn(0);
668c4762a1bSJed Brown }
669c4762a1bSJed Brown 
670c4762a1bSJed Brown static PetscErrorCode THIInitial(SNES snes,Vec X,void *ctx)
671c4762a1bSJed Brown {
672c4762a1bSJed Brown   THI            thi;
673c4762a1bSJed Brown   PetscInt       i,j,k,xs,xm,ys,ym,zs,zm,mx,my;
674c4762a1bSJed Brown   PetscReal      hx,hy;
675c4762a1bSJed Brown   PrmNode        **prm;
676c4762a1bSJed Brown   Node           ***x;
677c4762a1bSJed Brown   DM             da;
678c4762a1bSJed Brown 
679c4762a1bSJed Brown   PetscFunctionBeginUser;
6805f80ce2aSJacob Faibussowitsch   CHKERRQ(SNESGetDM(snes,&da));
6815f80ce2aSJacob Faibussowitsch   CHKERRQ(DMGetApplicationContext(da,&thi));
6825f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetInfo(da,0, 0,&my,&mx, 0,0,0, 0,0,0,0,0,0));
6835f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetCorners(da,&zs,&ys,&xs,&zm,&ym,&xm));
6845f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAVecGetArray(da,X,&x));
6855f80ce2aSJacob Faibussowitsch   CHKERRQ(THIDAGetPrm(da,&prm));
686c4762a1bSJed Brown   hx   = thi->Lx / mx;
687c4762a1bSJed Brown   hy   = thi->Ly / my;
688c4762a1bSJed Brown   for (i=xs; i<xs+xm; i++) {
689c4762a1bSJed Brown     for (j=ys; j<ys+ym; j++) {
690c4762a1bSJed Brown       for (k=zs; k<zs+zm; k++) {
691c4762a1bSJed Brown         const PetscScalar zm1      = zm-1,
692c4762a1bSJed Brown                           drivingx = thi->rhog * (prm[i+1][j].b+prm[i+1][j].h - prm[i-1][j].b-prm[i-1][j].h) / (2*hx),
693c4762a1bSJed Brown                           drivingy = thi->rhog * (prm[i][j+1].b+prm[i][j+1].h - prm[i][j-1].b-prm[i][j-1].h) / (2*hy);
694c4762a1bSJed Brown         x[i][j][k].u = 0. * drivingx * prm[i][j].h*(PetscScalar)k/zm1;
695c4762a1bSJed Brown         x[i][j][k].v = 0. * drivingy * prm[i][j].h*(PetscScalar)k/zm1;
696c4762a1bSJed Brown       }
697c4762a1bSJed Brown     }
698c4762a1bSJed Brown   }
6995f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAVecRestoreArray(da,X,&x));
7005f80ce2aSJacob Faibussowitsch   CHKERRQ(THIDARestorePrm(da,&prm));
701c4762a1bSJed Brown   PetscFunctionReturn(0);
702c4762a1bSJed Brown }
703c4762a1bSJed Brown 
704c4762a1bSJed Brown static void PointwiseNonlinearity(THI thi,const Node n[PETSC_RESTRICT],const PetscReal phi[PETSC_RESTRICT],PetscReal dphi[PETSC_RESTRICT][3],PetscScalar *PETSC_RESTRICT u,PetscScalar *PETSC_RESTRICT v,PetscScalar du[PETSC_RESTRICT],PetscScalar dv[PETSC_RESTRICT],PetscReal *eta,PetscReal *deta)
705c4762a1bSJed Brown {
706c4762a1bSJed Brown   PetscInt    l,ll;
707c4762a1bSJed Brown   PetscScalar gam;
708c4762a1bSJed Brown 
709c4762a1bSJed Brown   du[0] = du[1] = du[2] = 0;
710c4762a1bSJed Brown   dv[0] = dv[1] = dv[2] = 0;
711c4762a1bSJed Brown   *u    = 0;
712c4762a1bSJed Brown   *v    = 0;
713c4762a1bSJed Brown   for (l=0; l<8; l++) {
714c4762a1bSJed Brown     *u += phi[l] * n[l].u;
715c4762a1bSJed Brown     *v += phi[l] * n[l].v;
716c4762a1bSJed Brown     for (ll=0; ll<3; ll++) {
717c4762a1bSJed Brown       du[ll] += dphi[l][ll] * n[l].u;
718c4762a1bSJed Brown       dv[ll] += dphi[l][ll] * n[l].v;
719c4762a1bSJed Brown     }
720c4762a1bSJed Brown   }
721c4762a1bSJed Brown   gam = PetscSqr(du[0]) + PetscSqr(dv[1]) + du[0]*dv[1] + 0.25*PetscSqr(du[1]+dv[0]) + 0.25*PetscSqr(du[2]) + 0.25*PetscSqr(dv[2]);
722c4762a1bSJed Brown   THIViscosity(thi,PetscRealPart(gam),eta,deta);
723c4762a1bSJed Brown }
724c4762a1bSJed Brown 
725c4762a1bSJed Brown static void PointwiseNonlinearity2D(THI thi,Node n[],PetscReal phi[],PetscReal dphi[4][2],PetscScalar *u,PetscScalar *v,PetscScalar du[],PetscScalar dv[],PetscReal *eta,PetscReal *deta)
726c4762a1bSJed Brown {
727c4762a1bSJed Brown   PetscInt    l,ll;
728c4762a1bSJed Brown   PetscScalar gam;
729c4762a1bSJed Brown 
730c4762a1bSJed Brown   du[0] = du[1] = 0;
731c4762a1bSJed Brown   dv[0] = dv[1] = 0;
732c4762a1bSJed Brown   *u    = 0;
733c4762a1bSJed Brown   *v    = 0;
734c4762a1bSJed Brown   for (l=0; l<4; l++) {
735c4762a1bSJed Brown     *u += phi[l] * n[l].u;
736c4762a1bSJed Brown     *v += phi[l] * n[l].v;
737c4762a1bSJed Brown     for (ll=0; ll<2; ll++) {
738c4762a1bSJed Brown       du[ll] += dphi[l][ll] * n[l].u;
739c4762a1bSJed Brown       dv[ll] += dphi[l][ll] * n[l].v;
740c4762a1bSJed Brown     }
741c4762a1bSJed Brown   }
742c4762a1bSJed Brown   gam = PetscSqr(du[0]) + PetscSqr(dv[1]) + du[0]*dv[1] + 0.25*PetscSqr(du[1]+dv[0]);
743c4762a1bSJed Brown   THIViscosity(thi,PetscRealPart(gam),eta,deta);
744c4762a1bSJed Brown }
745c4762a1bSJed Brown 
746c4762a1bSJed Brown static PetscErrorCode THIFunctionLocal(DMDALocalInfo *info,Node ***x,Node ***f,THI thi)
747c4762a1bSJed Brown {
748c4762a1bSJed Brown   PetscInt       xs,ys,xm,ym,zm,i,j,k,q,l;
749c4762a1bSJed Brown   PetscReal      hx,hy,etamin,etamax,beta2min,beta2max;
750c4762a1bSJed Brown   PrmNode        **prm;
751c4762a1bSJed Brown 
752c4762a1bSJed Brown   PetscFunctionBeginUser;
753c4762a1bSJed Brown   xs = info->zs;
754c4762a1bSJed Brown   ys = info->ys;
755c4762a1bSJed Brown   xm = info->zm;
756c4762a1bSJed Brown   ym = info->ym;
757c4762a1bSJed Brown   zm = info->xm;
758c4762a1bSJed Brown   hx = thi->Lx / info->mz;
759c4762a1bSJed Brown   hy = thi->Ly / info->my;
760c4762a1bSJed Brown 
761c4762a1bSJed Brown   etamin   = 1e100;
762c4762a1bSJed Brown   etamax   = 0;
763c4762a1bSJed Brown   beta2min = 1e100;
764c4762a1bSJed Brown   beta2max = 0;
765c4762a1bSJed Brown 
7665f80ce2aSJacob Faibussowitsch   CHKERRQ(THIDAGetPrm(info->da,&prm));
767c4762a1bSJed Brown 
768c4762a1bSJed Brown   for (i=xs; i<xs+xm; i++) {
769c4762a1bSJed Brown     for (j=ys; j<ys+ym; j++) {
770c4762a1bSJed Brown       PrmNode pn[4];
771c4762a1bSJed Brown       QuadExtract(prm,i,j,pn);
772c4762a1bSJed Brown       for (k=0; k<zm-1; k++) {
773c4762a1bSJed Brown         PetscInt  ls = 0;
774c4762a1bSJed Brown         Node      n[8],*fn[8];
775c4762a1bSJed Brown         PetscReal zn[8],etabase = 0;
776c4762a1bSJed Brown         PrmHexGetZ(pn,k,zm,zn);
777c4762a1bSJed Brown         HexExtract(x,i,j,k,n);
778c4762a1bSJed Brown         HexExtractRef(f,i,j,k,fn);
779c4762a1bSJed Brown         if (thi->no_slip && k == 0) {
780c4762a1bSJed Brown           for (l=0; l<4; l++) n[l].u = n[l].v = 0;
781c4762a1bSJed Brown           /* The first 4 basis functions lie on the bottom layer, so their contribution is exactly 0, hence we can skip them */
782c4762a1bSJed Brown           ls = 4;
783c4762a1bSJed Brown         }
784c4762a1bSJed Brown         for (q=0; q<8; q++) {
785c4762a1bSJed Brown           PetscReal   dz[3],phi[8],dphi[8][3],jw,eta,deta;
786c4762a1bSJed Brown           PetscScalar du[3],dv[3],u,v;
787c4762a1bSJed Brown           HexGrad(HexQDeriv[q],zn,dz);
788c4762a1bSJed Brown           HexComputeGeometry(q,hx,hy,dz,phi,dphi,&jw);
789c4762a1bSJed Brown           PointwiseNonlinearity(thi,n,phi,dphi,&u,&v,du,dv,&eta,&deta);
790c4762a1bSJed Brown           jw /= thi->rhog;      /* scales residuals to be O(1) */
791c4762a1bSJed Brown           if (q == 0) etabase = eta;
792c4762a1bSJed Brown           RangeUpdate(&etamin,&etamax,eta);
793c4762a1bSJed Brown           for (l=ls; l<8; l++) { /* test functions */
794c4762a1bSJed Brown             const PetscReal ds[2] = {-PetscSinReal(thi->alpha),0};
795c4762a1bSJed Brown             const PetscReal pp    = phi[l],*dp = dphi[l];
796c4762a1bSJed Brown             fn[l]->u += dp[0]*jw*eta*(4.*du[0]+2.*dv[1]) + dp[1]*jw*eta*(du[1]+dv[0]) + dp[2]*jw*eta*du[2] + pp*jw*thi->rhog*ds[0];
797c4762a1bSJed Brown             fn[l]->v += dp[1]*jw*eta*(2.*du[0]+4.*dv[1]) + dp[0]*jw*eta*(du[1]+dv[0]) + dp[2]*jw*eta*dv[2] + pp*jw*thi->rhog*ds[1];
798c4762a1bSJed Brown           }
799c4762a1bSJed Brown         }
800c4762a1bSJed Brown         if (k == 0) { /* we are on a bottom face */
801c4762a1bSJed Brown           if (thi->no_slip) {
802c4762a1bSJed Brown             /* Note: Non-Galerkin coarse grid operators are very sensitive to the scaling of Dirichlet boundary
803c4762a1bSJed Brown             * conditions.  After shenanigans above, etabase contains the effective viscosity at the closest quadrature
804c4762a1bSJed Brown             * point to the bed.  We want the diagonal entry in the Dirichlet condition to have similar magnitude to the
805c4762a1bSJed Brown             * diagonal entry corresponding to the adjacent node.  The fundamental scaling of the viscous part is in
806c4762a1bSJed Brown             * diagu, diagv below.  This scaling is easy to recognize by considering the finite difference operator after
807c4762a1bSJed Brown             * scaling by element size.  The no-slip Dirichlet condition is scaled by this factor, and also in the
808c4762a1bSJed Brown             * assembled matrix (see the similar block in THIJacobianLocal).
809c4762a1bSJed Brown             *
810c4762a1bSJed Brown             * Note that the residual at this Dirichlet node is linear in the state at this node, but also depends
811c4762a1bSJed Brown             * (nonlinearly in general) on the neighboring interior nodes through the local viscosity.  This will make
812c4762a1bSJed Brown             * a matrix-free Jacobian have extra entries in the corresponding row.  We assemble only the diagonal part,
813c4762a1bSJed Brown             * so the solution will exactly satisfy the boundary condition after the first linear iteration.
814c4762a1bSJed Brown             */
815c4762a1bSJed Brown             const PetscReal   hz    = PetscRealPart(pn[0].h)/(zm-1.);
816c4762a1bSJed Brown             const PetscScalar diagu = 2*etabase/thi->rhog*(hx*hy/hz + hx*hz/hy + 4*hy*hz/hx),diagv = 2*etabase/thi->rhog*(hx*hy/hz + 4*hx*hz/hy + hy*hz/hx);
817c4762a1bSJed Brown             fn[0]->u = thi->dirichlet_scale*diagu*x[i][j][k].u;
818c4762a1bSJed Brown             fn[0]->v = thi->dirichlet_scale*diagv*x[i][j][k].v;
819c4762a1bSJed Brown           } else {              /* Integrate over bottom face to apply boundary condition */
820c4762a1bSJed Brown             for (q=0; q<4; q++) {
821c4762a1bSJed Brown               const PetscReal jw = 0.25*hx*hy/thi->rhog,*phi = QuadQInterp[q];
822c4762a1bSJed Brown               PetscScalar     u  =0,v=0,rbeta2=0;
823c4762a1bSJed Brown               PetscReal       beta2,dbeta2;
824c4762a1bSJed Brown               for (l=0; l<4; l++) {
825c4762a1bSJed Brown                 u      += phi[l]*n[l].u;
826c4762a1bSJed Brown                 v      += phi[l]*n[l].v;
827c4762a1bSJed Brown                 rbeta2 += phi[l]*pn[l].beta2;
828c4762a1bSJed Brown               }
829c4762a1bSJed Brown               THIFriction(thi,PetscRealPart(rbeta2),PetscRealPart(u*u+v*v)/2,&beta2,&dbeta2);
830c4762a1bSJed Brown               RangeUpdate(&beta2min,&beta2max,beta2);
831c4762a1bSJed Brown               for (l=0; l<4; l++) {
832c4762a1bSJed Brown                 const PetscReal pp = phi[l];
833c4762a1bSJed Brown                 fn[ls+l]->u += pp*jw*beta2*u;
834c4762a1bSJed Brown                 fn[ls+l]->v += pp*jw*beta2*v;
835c4762a1bSJed Brown               }
836c4762a1bSJed Brown             }
837c4762a1bSJed Brown           }
838c4762a1bSJed Brown         }
839c4762a1bSJed Brown       }
840c4762a1bSJed Brown     }
841c4762a1bSJed Brown   }
842c4762a1bSJed Brown 
8435f80ce2aSJacob Faibussowitsch   CHKERRQ(THIDARestorePrm(info->da,&prm));
844c4762a1bSJed Brown 
8455f80ce2aSJacob Faibussowitsch   CHKERRQ(PRangeMinMax(&thi->eta,etamin,etamax));
8465f80ce2aSJacob Faibussowitsch   CHKERRQ(PRangeMinMax(&thi->beta2,beta2min,beta2max));
847c4762a1bSJed Brown   PetscFunctionReturn(0);
848c4762a1bSJed Brown }
849c4762a1bSJed Brown 
850c4762a1bSJed Brown static PetscErrorCode THIMatrixStatistics(THI thi,Mat B,PetscViewer viewer)
851c4762a1bSJed Brown {
852c4762a1bSJed Brown   PetscReal      nrm;
853c4762a1bSJed Brown   PetscInt       m;
854c4762a1bSJed Brown   PetscMPIInt    rank;
855c4762a1bSJed Brown 
856c4762a1bSJed Brown   PetscFunctionBeginUser;
8575f80ce2aSJacob Faibussowitsch   CHKERRQ(MatNorm(B,NORM_FROBENIUS,&nrm));
8585f80ce2aSJacob Faibussowitsch   CHKERRQ(MatGetSize(B,&m,0));
8595f80ce2aSJacob Faibussowitsch   CHKERRMPI(MPI_Comm_rank(PetscObjectComm((PetscObject)B),&rank));
860dd400576SPatrick Sanan   if (rank == 0) {
861c4762a1bSJed Brown     PetscScalar val0,val2;
8625f80ce2aSJacob Faibussowitsch     CHKERRQ(MatGetValue(B,0,0,&val0));
8635f80ce2aSJacob Faibussowitsch     CHKERRQ(MatGetValue(B,2,2,&val2));
8645f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscViewerASCIIPrintf(viewer,"Matrix dim %D norm %8.2e (0,0) %8.2e  (2,2) %8.2e %8.2e <= eta <= %8.2e %8.2e <= beta2 <= %8.2e\n",m,(double)nrm,(double)PetscRealPart(val0),(double)PetscRealPart(val2),(double)thi->eta.cmin,(double)thi->eta.cmax,(double)thi->beta2.cmin,(double)thi->beta2.cmax));
865c4762a1bSJed Brown   }
866c4762a1bSJed Brown   PetscFunctionReturn(0);
867c4762a1bSJed Brown }
868c4762a1bSJed Brown 
869c4762a1bSJed Brown static PetscErrorCode THISurfaceStatistics(DM da,Vec X,PetscReal *min,PetscReal *max,PetscReal *mean)
870c4762a1bSJed Brown {
871c4762a1bSJed Brown   Node           ***x;
872c4762a1bSJed Brown   PetscInt       i,j,xs,ys,zs,xm,ym,zm,mx,my,mz;
873c4762a1bSJed Brown   PetscReal      umin = 1e100,umax=-1e100;
874c4762a1bSJed Brown   PetscScalar    usum = 0.0,gusum;
875c4762a1bSJed Brown 
876c4762a1bSJed Brown   PetscFunctionBeginUser;
877c4762a1bSJed Brown   *min = *max = *mean = 0;
8785f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetInfo(da,0, &mz,&my,&mx, 0,0,0, 0,0,0,0,0,0));
8795f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetCorners(da,&zs,&ys,&xs,&zm,&ym,&xm));
8802c71b3e2SJacob Faibussowitsch   PetscCheckFalse(zs != 0 || zm != mz,PETSC_COMM_SELF,PETSC_ERR_PLIB,"Unexpected decomposition");
8815f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAVecGetArray(da,X,&x));
882c4762a1bSJed Brown   for (i=xs; i<xs+xm; i++) {
883c4762a1bSJed Brown     for (j=ys; j<ys+ym; j++) {
884c4762a1bSJed Brown       PetscReal u = PetscRealPart(x[i][j][zm-1].u);
885c4762a1bSJed Brown       RangeUpdate(&umin,&umax,u);
886c4762a1bSJed Brown       usum += u;
887c4762a1bSJed Brown     }
888c4762a1bSJed Brown   }
8895f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAVecRestoreArray(da,X,&x));
8905f80ce2aSJacob Faibussowitsch   CHKERRMPI(MPI_Allreduce(&umin,min,1,MPIU_REAL,MPIU_MIN,PetscObjectComm((PetscObject)da)));
8915f80ce2aSJacob Faibussowitsch   CHKERRMPI(MPI_Allreduce(&umax,max,1,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)da)));
8925f80ce2aSJacob Faibussowitsch   CHKERRMPI(MPI_Allreduce(&usum,&gusum,1,MPIU_SCALAR,MPIU_SUM,PetscObjectComm((PetscObject)da)));
893c4762a1bSJed Brown   *mean = PetscRealPart(gusum) / (mx*my);
894c4762a1bSJed Brown   PetscFunctionReturn(0);
895c4762a1bSJed Brown }
896c4762a1bSJed Brown 
897c4762a1bSJed Brown static PetscErrorCode THISolveStatistics(THI thi,SNES snes,PetscInt coarsened,const char name[])
898c4762a1bSJed Brown {
899c4762a1bSJed Brown   MPI_Comm       comm;
900c4762a1bSJed Brown   Vec            X;
901c4762a1bSJed Brown   DM             dm;
902c4762a1bSJed Brown 
903c4762a1bSJed Brown   PetscFunctionBeginUser;
9045f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscObjectGetComm((PetscObject)thi,&comm));
9055f80ce2aSJacob Faibussowitsch   CHKERRQ(SNESGetSolution(snes,&X));
9065f80ce2aSJacob Faibussowitsch   CHKERRQ(SNESGetDM(snes,&dm));
9075f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscPrintf(comm,"Solution statistics after solve: %s\n",name));
908c4762a1bSJed Brown   {
909c4762a1bSJed Brown     PetscInt            its,lits;
910c4762a1bSJed Brown     SNESConvergedReason reason;
9115f80ce2aSJacob Faibussowitsch     CHKERRQ(SNESGetIterationNumber(snes,&its));
9125f80ce2aSJacob Faibussowitsch     CHKERRQ(SNESGetConvergedReason(snes,&reason));
9135f80ce2aSJacob Faibussowitsch     CHKERRQ(SNESGetLinearSolveIterations(snes,&lits));
9145f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscPrintf(comm,"%s: Number of SNES iterations = %D, total linear iterations = %D\n",SNESConvergedReasons[reason],its,lits));
915c4762a1bSJed Brown   }
916c4762a1bSJed Brown   {
917c4762a1bSJed Brown     PetscReal         nrm2,tmin[3]={1e100,1e100,1e100},tmax[3]={-1e100,-1e100,-1e100},min[3],max[3];
918c4762a1bSJed Brown     PetscInt          i,j,m;
919c4762a1bSJed Brown     const PetscScalar *x;
9205f80ce2aSJacob Faibussowitsch     CHKERRQ(VecNorm(X,NORM_2,&nrm2));
9215f80ce2aSJacob Faibussowitsch     CHKERRQ(VecGetLocalSize(X,&m));
9225f80ce2aSJacob Faibussowitsch     CHKERRQ(VecGetArrayRead(X,&x));
923c4762a1bSJed Brown     for (i=0; i<m; i+=2) {
924c4762a1bSJed Brown       PetscReal u = PetscRealPart(x[i]),v = PetscRealPart(x[i+1]),c = PetscSqrtReal(u*u+v*v);
925c4762a1bSJed Brown       tmin[0] = PetscMin(u,tmin[0]);
926c4762a1bSJed Brown       tmin[1] = PetscMin(v,tmin[1]);
927c4762a1bSJed Brown       tmin[2] = PetscMin(c,tmin[2]);
928c4762a1bSJed Brown       tmax[0] = PetscMax(u,tmax[0]);
929c4762a1bSJed Brown       tmax[1] = PetscMax(v,tmax[1]);
930c4762a1bSJed Brown       tmax[2] = PetscMax(c,tmax[2]);
931c4762a1bSJed Brown     }
9325f80ce2aSJacob Faibussowitsch     CHKERRQ(VecRestoreArrayRead(X,&x));
9335f80ce2aSJacob Faibussowitsch     CHKERRMPI(MPI_Allreduce(tmin,min,3,MPIU_REAL,MPIU_MIN,PetscObjectComm((PetscObject)thi)));
9345f80ce2aSJacob Faibussowitsch     CHKERRMPI(MPI_Allreduce(tmax,max,3,MPIU_REAL,MPIU_MAX,PetscObjectComm((PetscObject)thi)));
935c4762a1bSJed Brown     /* Dimensionalize to meters/year */
936c4762a1bSJed Brown     nrm2 *= thi->units->year / thi->units->meter;
937c4762a1bSJed Brown     for (j=0; j<3; j++) {
938c4762a1bSJed Brown       min[j] *= thi->units->year / thi->units->meter;
939c4762a1bSJed Brown       max[j] *= thi->units->year / thi->units->meter;
940c4762a1bSJed Brown     }
941c4762a1bSJed Brown     if (min[0] == 0.0) min[0] = 0.0;
9425f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscPrintf(comm,"|X|_2 %g   %g <= u <=  %g   %g <= v <=  %g   %g <= c <=  %g \n",(double)nrm2,(double)min[0],(double)max[0],(double)min[1],(double)max[1],(double)min[2],(double)max[2]));
943c4762a1bSJed Brown     {
944c4762a1bSJed Brown       PetscReal umin,umax,umean;
9455f80ce2aSJacob Faibussowitsch       CHKERRQ(THISurfaceStatistics(dm,X,&umin,&umax,&umean));
946c4762a1bSJed Brown       umin  *= thi->units->year / thi->units->meter;
947c4762a1bSJed Brown       umax  *= thi->units->year / thi->units->meter;
948c4762a1bSJed Brown       umean *= thi->units->year / thi->units->meter;
9495f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscPrintf(comm,"Surface statistics: u in [%12.6e, %12.6e] mean %12.6e\n",(double)umin,(double)umax,(double)umean));
950c4762a1bSJed Brown     }
951c4762a1bSJed Brown     /* These values stay nondimensional */
9525f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscPrintf(comm,"Global eta range   %g to %g converged range %g to %g\n",(double)thi->eta.min,(double)thi->eta.max,(double)thi->eta.cmin,(double)thi->eta.cmax));
9535f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscPrintf(comm,"Global beta2 range %g to %g converged range %g to %g\n",(double)thi->beta2.min,(double)thi->beta2.max,(double)thi->beta2.cmin,(double)thi->beta2.cmax));
954c4762a1bSJed Brown   }
955c4762a1bSJed Brown   PetscFunctionReturn(0);
956c4762a1bSJed Brown }
957c4762a1bSJed Brown 
958c4762a1bSJed Brown static PetscErrorCode THIJacobianLocal_2D(DMDALocalInfo *info,Node **x,Mat J,Mat B,THI thi)
959c4762a1bSJed Brown {
960c4762a1bSJed Brown   PetscInt       xs,ys,xm,ym,i,j,q,l,ll;
961c4762a1bSJed Brown   PetscReal      hx,hy;
962c4762a1bSJed Brown   PrmNode        **prm;
963c4762a1bSJed Brown 
964c4762a1bSJed Brown   PetscFunctionBeginUser;
965c4762a1bSJed Brown   xs = info->ys;
966c4762a1bSJed Brown   ys = info->xs;
967c4762a1bSJed Brown   xm = info->ym;
968c4762a1bSJed Brown   ym = info->xm;
969c4762a1bSJed Brown   hx = thi->Lx / info->my;
970c4762a1bSJed Brown   hy = thi->Ly / info->mx;
971c4762a1bSJed Brown 
9725f80ce2aSJacob Faibussowitsch   CHKERRQ(MatZeroEntries(B));
9735f80ce2aSJacob Faibussowitsch   CHKERRQ(THIDAGetPrm(info->da,&prm));
974c4762a1bSJed Brown 
975c4762a1bSJed Brown   for (i=xs; i<xs+xm; i++) {
976c4762a1bSJed Brown     for (j=ys; j<ys+ym; j++) {
977c4762a1bSJed Brown       Node        n[4];
978c4762a1bSJed Brown       PrmNode     pn[4];
979c4762a1bSJed Brown       PetscScalar Ke[4*2][4*2];
980c4762a1bSJed Brown       QuadExtract(prm,i,j,pn);
981c4762a1bSJed Brown       QuadExtract(x,i,j,n);
9825f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscMemzero(Ke,sizeof(Ke)));
983c4762a1bSJed Brown       for (q=0; q<4; q++) {
984c4762a1bSJed Brown         PetscReal   phi[4],dphi[4][2],jw,eta,deta,beta2,dbeta2;
985c4762a1bSJed Brown         PetscScalar u,v,du[2],dv[2],h = 0,rbeta2 = 0;
986c4762a1bSJed Brown         for (l=0; l<4; l++) {
987c4762a1bSJed Brown           phi[l]     = QuadQInterp[q][l];
988c4762a1bSJed Brown           dphi[l][0] = QuadQDeriv[q][l][0]*2./hx;
989c4762a1bSJed Brown           dphi[l][1] = QuadQDeriv[q][l][1]*2./hy;
990c4762a1bSJed Brown           h         += phi[l] * pn[l].h;
991c4762a1bSJed Brown           rbeta2    += phi[l] * pn[l].beta2;
992c4762a1bSJed Brown         }
993c4762a1bSJed Brown         jw = 0.25*hx*hy / thi->rhog; /* rhog is only scaling */
994c4762a1bSJed Brown         PointwiseNonlinearity2D(thi,n,phi,dphi,&u,&v,du,dv,&eta,&deta);
995c4762a1bSJed Brown         THIFriction(thi,PetscRealPart(rbeta2),PetscRealPart(u*u+v*v)/2,&beta2,&dbeta2);
996c4762a1bSJed Brown         for (l=0; l<4; l++) {
997c4762a1bSJed Brown           const PetscReal pp = phi[l],*dp = dphi[l];
998c4762a1bSJed Brown           for (ll=0; ll<4; ll++) {
999c4762a1bSJed Brown             const PetscReal ppl = phi[ll],*dpl = dphi[ll];
1000c4762a1bSJed Brown             PetscScalar     dgdu,dgdv;
1001c4762a1bSJed Brown             dgdu = 2.*du[0]*dpl[0] + dv[1]*dpl[0] + 0.5*(du[1]+dv[0])*dpl[1];
1002c4762a1bSJed Brown             dgdv = 2.*dv[1]*dpl[1] + du[0]*dpl[1] + 0.5*(du[1]+dv[0])*dpl[0];
1003c4762a1bSJed Brown             /* Picard part */
1004c4762a1bSJed Brown             Ke[l*2+0][ll*2+0] += dp[0]*jw*eta*4.*dpl[0] + dp[1]*jw*eta*dpl[1] + pp*jw*(beta2/h)*ppl*thi->ssa_friction_scale;
1005c4762a1bSJed Brown             Ke[l*2+0][ll*2+1] += dp[0]*jw*eta*2.*dpl[1] + dp[1]*jw*eta*dpl[0];
1006c4762a1bSJed Brown             Ke[l*2+1][ll*2+0] += dp[1]*jw*eta*2.*dpl[0] + dp[0]*jw*eta*dpl[1];
1007c4762a1bSJed Brown             Ke[l*2+1][ll*2+1] += dp[1]*jw*eta*4.*dpl[1] + dp[0]*jw*eta*dpl[0] + pp*jw*(beta2/h)*ppl*thi->ssa_friction_scale;
1008c4762a1bSJed Brown             /* extra Newton terms */
1009c4762a1bSJed Brown             Ke[l*2+0][ll*2+0] += dp[0]*jw*deta*dgdu*(4.*du[0]+2.*dv[1]) + dp[1]*jw*deta*dgdu*(du[1]+dv[0]) + pp*jw*(dbeta2/h)*u*u*ppl*thi->ssa_friction_scale;
1010c4762a1bSJed Brown             Ke[l*2+0][ll*2+1] += dp[0]*jw*deta*dgdv*(4.*du[0]+2.*dv[1]) + dp[1]*jw*deta*dgdv*(du[1]+dv[0]) + pp*jw*(dbeta2/h)*u*v*ppl*thi->ssa_friction_scale;
1011c4762a1bSJed Brown             Ke[l*2+1][ll*2+0] += dp[1]*jw*deta*dgdu*(4.*dv[1]+2.*du[0]) + dp[0]*jw*deta*dgdu*(du[1]+dv[0]) + pp*jw*(dbeta2/h)*v*u*ppl*thi->ssa_friction_scale;
1012c4762a1bSJed Brown             Ke[l*2+1][ll*2+1] += dp[1]*jw*deta*dgdv*(4.*dv[1]+2.*du[0]) + dp[0]*jw*deta*dgdv*(du[1]+dv[0]) + pp*jw*(dbeta2/h)*v*v*ppl*thi->ssa_friction_scale;
1013c4762a1bSJed Brown           }
1014c4762a1bSJed Brown         }
1015c4762a1bSJed Brown       }
1016c4762a1bSJed Brown       {
1017c4762a1bSJed Brown         const MatStencil rc[4] = {{0,i,j,0},{0,i+1,j,0},{0,i+1,j+1,0},{0,i,j+1,0}};
10185f80ce2aSJacob Faibussowitsch         CHKERRQ(MatSetValuesBlockedStencil(B,4,rc,4,rc,&Ke[0][0],ADD_VALUES));
1019c4762a1bSJed Brown       }
1020c4762a1bSJed Brown     }
1021c4762a1bSJed Brown   }
10225f80ce2aSJacob Faibussowitsch   CHKERRQ(THIDARestorePrm(info->da,&prm));
1023c4762a1bSJed Brown 
10245f80ce2aSJacob Faibussowitsch   CHKERRQ(MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY));
10255f80ce2aSJacob Faibussowitsch   CHKERRQ(MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY));
10265f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSetOption(B,MAT_SYMMETRIC,PETSC_TRUE));
10275f80ce2aSJacob Faibussowitsch   if (thi->verbose) CHKERRQ(THIMatrixStatistics(thi,B,PETSC_VIEWER_STDOUT_WORLD));
1028c4762a1bSJed Brown   PetscFunctionReturn(0);
1029c4762a1bSJed Brown }
1030c4762a1bSJed Brown 
1031c4762a1bSJed Brown static PetscErrorCode THIJacobianLocal_3D(DMDALocalInfo *info,Node ***x,Mat B,THI thi,THIAssemblyMode amode)
1032c4762a1bSJed Brown {
1033c4762a1bSJed Brown   PetscInt       xs,ys,xm,ym,zm,i,j,k,q,l,ll;
1034c4762a1bSJed Brown   PetscReal      hx,hy;
1035c4762a1bSJed Brown   PrmNode        **prm;
1036c4762a1bSJed Brown 
1037c4762a1bSJed Brown   PetscFunctionBeginUser;
1038c4762a1bSJed Brown   xs = info->zs;
1039c4762a1bSJed Brown   ys = info->ys;
1040c4762a1bSJed Brown   xm = info->zm;
1041c4762a1bSJed Brown   ym = info->ym;
1042c4762a1bSJed Brown   zm = info->xm;
1043c4762a1bSJed Brown   hx = thi->Lx / info->mz;
1044c4762a1bSJed Brown   hy = thi->Ly / info->my;
1045c4762a1bSJed Brown 
10465f80ce2aSJacob Faibussowitsch   CHKERRQ(MatZeroEntries(B));
10475f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSetOption(B,MAT_SUBSET_OFF_PROC_ENTRIES,PETSC_TRUE));
10485f80ce2aSJacob Faibussowitsch   CHKERRQ(THIDAGetPrm(info->da,&prm));
1049c4762a1bSJed Brown 
1050c4762a1bSJed Brown   for (i=xs; i<xs+xm; i++) {
1051c4762a1bSJed Brown     for (j=ys; j<ys+ym; j++) {
1052c4762a1bSJed Brown       PrmNode pn[4];
1053c4762a1bSJed Brown       QuadExtract(prm,i,j,pn);
1054c4762a1bSJed Brown       for (k=0; k<zm-1; k++) {
1055c4762a1bSJed Brown         Node        n[8];
1056c4762a1bSJed Brown         PetscReal   zn[8],etabase = 0;
1057c4762a1bSJed Brown         PetscScalar Ke[8*2][8*2];
1058c4762a1bSJed Brown         PetscInt    ls = 0;
1059c4762a1bSJed Brown 
1060c4762a1bSJed Brown         PrmHexGetZ(pn,k,zm,zn);
1061c4762a1bSJed Brown         HexExtract(x,i,j,k,n);
10625f80ce2aSJacob Faibussowitsch         CHKERRQ(PetscMemzero(Ke,sizeof(Ke)));
1063c4762a1bSJed Brown         if (thi->no_slip && k == 0) {
1064c4762a1bSJed Brown           for (l=0; l<4; l++) n[l].u = n[l].v = 0;
1065c4762a1bSJed Brown           ls = 4;
1066c4762a1bSJed Brown         }
1067c4762a1bSJed Brown         for (q=0; q<8; q++) {
1068c4762a1bSJed Brown           PetscReal   dz[3],phi[8],dphi[8][3],jw,eta,deta;
1069c4762a1bSJed Brown           PetscScalar du[3],dv[3],u,v;
1070c4762a1bSJed Brown           HexGrad(HexQDeriv[q],zn,dz);
1071c4762a1bSJed Brown           HexComputeGeometry(q,hx,hy,dz,phi,dphi,&jw);
1072c4762a1bSJed Brown           PointwiseNonlinearity(thi,n,phi,dphi,&u,&v,du,dv,&eta,&deta);
1073c4762a1bSJed Brown           jw /= thi->rhog;      /* residuals are scaled by this factor */
1074c4762a1bSJed Brown           if (q == 0) etabase = eta;
1075c4762a1bSJed Brown           for (l=ls; l<8; l++) { /* test functions */
1076c4762a1bSJed Brown             const PetscReal *PETSC_RESTRICT dp = dphi[l];
1077c4762a1bSJed Brown #if USE_SSE2_KERNELS
1078c4762a1bSJed Brown             /* gcc (up to my 4.5 snapshot) is really bad at hoisting intrinsics so we do it manually */
1079c4762a1bSJed Brown             __m128d
1080c4762a1bSJed Brown               p4         = _mm_set1_pd(4),p2 = _mm_set1_pd(2),p05 = _mm_set1_pd(0.5),
1081c4762a1bSJed Brown               p42        = _mm_setr_pd(4,2),p24 = _mm_shuffle_pd(p42,p42,_MM_SHUFFLE2(0,1)),
1082c4762a1bSJed Brown               du0        = _mm_set1_pd(du[0]),du1 = _mm_set1_pd(du[1]),du2 = _mm_set1_pd(du[2]),
1083c4762a1bSJed Brown               dv0        = _mm_set1_pd(dv[0]),dv1 = _mm_set1_pd(dv[1]),dv2 = _mm_set1_pd(dv[2]),
1084c4762a1bSJed Brown               jweta      = _mm_set1_pd(jw*eta),jwdeta = _mm_set1_pd(jw*deta),
1085c4762a1bSJed Brown               dp0        = _mm_set1_pd(dp[0]),dp1 = _mm_set1_pd(dp[1]),dp2 = _mm_set1_pd(dp[2]),
1086c4762a1bSJed Brown               dp0jweta   = _mm_mul_pd(dp0,jweta),dp1jweta = _mm_mul_pd(dp1,jweta),dp2jweta = _mm_mul_pd(dp2,jweta),
1087c4762a1bSJed Brown               p4du0p2dv1 = _mm_add_pd(_mm_mul_pd(p4,du0),_mm_mul_pd(p2,dv1)), /* 4 du0 + 2 dv1 */
1088c4762a1bSJed Brown               p4dv1p2du0 = _mm_add_pd(_mm_mul_pd(p4,dv1),_mm_mul_pd(p2,du0)), /* 4 dv1 + 2 du0 */
1089c4762a1bSJed Brown               pdu2dv2    = _mm_unpacklo_pd(du2,dv2),                          /* [du2, dv2] */
1090c4762a1bSJed Brown               du1pdv0    = _mm_add_pd(du1,dv0),                               /* du1 + dv0 */
1091c4762a1bSJed Brown               t1         = _mm_mul_pd(dp0,p4du0p2dv1),                        /* dp0 (4 du0 + 2 dv1) */
1092c4762a1bSJed Brown               t2         = _mm_mul_pd(dp1,p4dv1p2du0);                        /* dp1 (4 dv1 + 2 du0) */
1093c4762a1bSJed Brown 
1094c4762a1bSJed Brown #endif
1095c4762a1bSJed Brown #if defined COMPUTE_LOWER_TRIANGULAR  /* The element matrices are always symmetric so computing the lower-triangular part is not necessary */
1096c4762a1bSJed Brown             for (ll=ls; ll<8; ll++) { /* trial functions */
1097c4762a1bSJed Brown #else
1098c4762a1bSJed Brown             for (ll=l; ll<8; ll++) {
1099c4762a1bSJed Brown #endif
1100c4762a1bSJed Brown               const PetscReal *PETSC_RESTRICT dpl = dphi[ll];
1101c4762a1bSJed Brown               if (amode == THIASSEMBLY_TRIDIAGONAL && (l-ll)%4) continue; /* these entries would not be inserted */
1102c4762a1bSJed Brown #if !USE_SSE2_KERNELS
1103c4762a1bSJed Brown               /* The analytic Jacobian in nice, easy-to-read form */
1104c4762a1bSJed Brown               {
1105c4762a1bSJed Brown                 PetscScalar dgdu,dgdv;
1106c4762a1bSJed Brown                 dgdu = 2.*du[0]*dpl[0] + dv[1]*dpl[0] + 0.5*(du[1]+dv[0])*dpl[1] + 0.5*du[2]*dpl[2];
1107c4762a1bSJed Brown                 dgdv = 2.*dv[1]*dpl[1] + du[0]*dpl[1] + 0.5*(du[1]+dv[0])*dpl[0] + 0.5*dv[2]*dpl[2];
1108c4762a1bSJed Brown                 /* Picard part */
1109c4762a1bSJed Brown                 Ke[l*2+0][ll*2+0] += dp[0]*jw*eta*4.*dpl[0] + dp[1]*jw*eta*dpl[1] + dp[2]*jw*eta*dpl[2];
1110c4762a1bSJed Brown                 Ke[l*2+0][ll*2+1] += dp[0]*jw*eta*2.*dpl[1] + dp[1]*jw*eta*dpl[0];
1111c4762a1bSJed Brown                 Ke[l*2+1][ll*2+0] += dp[1]*jw*eta*2.*dpl[0] + dp[0]*jw*eta*dpl[1];
1112c4762a1bSJed Brown                 Ke[l*2+1][ll*2+1] += dp[1]*jw*eta*4.*dpl[1] + dp[0]*jw*eta*dpl[0] + dp[2]*jw*eta*dpl[2];
1113c4762a1bSJed Brown                 /* extra Newton terms */
1114c4762a1bSJed Brown                 Ke[l*2+0][ll*2+0] += dp[0]*jw*deta*dgdu*(4.*du[0]+2.*dv[1]) + dp[1]*jw*deta*dgdu*(du[1]+dv[0]) + dp[2]*jw*deta*dgdu*du[2];
1115c4762a1bSJed Brown                 Ke[l*2+0][ll*2+1] += dp[0]*jw*deta*dgdv*(4.*du[0]+2.*dv[1]) + dp[1]*jw*deta*dgdv*(du[1]+dv[0]) + dp[2]*jw*deta*dgdv*du[2];
1116c4762a1bSJed Brown                 Ke[l*2+1][ll*2+0] += dp[1]*jw*deta*dgdu*(4.*dv[1]+2.*du[0]) + dp[0]*jw*deta*dgdu*(du[1]+dv[0]) + dp[2]*jw*deta*dgdu*dv[2];
1117c4762a1bSJed Brown                 Ke[l*2+1][ll*2+1] += dp[1]*jw*deta*dgdv*(4.*dv[1]+2.*du[0]) + dp[0]*jw*deta*dgdv*(du[1]+dv[0]) + dp[2]*jw*deta*dgdv*dv[2];
1118c4762a1bSJed Brown               }
1119c4762a1bSJed Brown #else
1120c4762a1bSJed Brown               /* This SSE2 code is an exact replica of above, but uses explicit packed instructions for some speed
1121c4762a1bSJed Brown               * benefit.  On my hardware, these intrinsics are almost twice as fast as above, reducing total assembly cost
1122c4762a1bSJed Brown               * by 25 to 30 percent. */
1123c4762a1bSJed Brown               {
1124c4762a1bSJed Brown                 __m128d
1125c4762a1bSJed Brown                   keu   = _mm_loadu_pd(&Ke[l*2+0][ll*2+0]),
1126c4762a1bSJed Brown                   kev   = _mm_loadu_pd(&Ke[l*2+1][ll*2+0]),
1127c4762a1bSJed Brown                   dpl01 = _mm_loadu_pd(&dpl[0]),dpl10 = _mm_shuffle_pd(dpl01,dpl01,_MM_SHUFFLE2(0,1)),dpl2 = _mm_set_sd(dpl[2]),
1128c4762a1bSJed Brown                   t0,t3,pdgduv;
1129c4762a1bSJed Brown                 keu = _mm_add_pd(keu,_mm_add_pd(_mm_mul_pd(_mm_mul_pd(dp0jweta,p42),dpl01),
1130c4762a1bSJed Brown                                                 _mm_add_pd(_mm_mul_pd(dp1jweta,dpl10),
1131c4762a1bSJed Brown                                                            _mm_mul_pd(dp2jweta,dpl2))));
1132c4762a1bSJed Brown                 kev = _mm_add_pd(kev,_mm_add_pd(_mm_mul_pd(_mm_mul_pd(dp1jweta,p24),dpl01),
1133c4762a1bSJed Brown                                                 _mm_add_pd(_mm_mul_pd(dp0jweta,dpl10),
1134c4762a1bSJed Brown                                                            _mm_mul_pd(dp2jweta,_mm_shuffle_pd(dpl2,dpl2,_MM_SHUFFLE2(0,1))))));
1135c4762a1bSJed Brown                 pdgduv = _mm_mul_pd(p05,_mm_add_pd(_mm_add_pd(_mm_mul_pd(p42,_mm_mul_pd(du0,dpl01)),
1136c4762a1bSJed Brown                                                               _mm_mul_pd(p24,_mm_mul_pd(dv1,dpl01))),
1137c4762a1bSJed Brown                                                    _mm_add_pd(_mm_mul_pd(du1pdv0,dpl10),
1138c4762a1bSJed Brown                                                               _mm_mul_pd(pdu2dv2,_mm_set1_pd(dpl[2]))))); /* [dgdu, dgdv] */
1139c4762a1bSJed Brown                 t0 = _mm_mul_pd(jwdeta,pdgduv);  /* jw deta [dgdu, dgdv] */
1140c4762a1bSJed Brown                 t3 = _mm_mul_pd(t0,du1pdv0);     /* t0 (du1 + dv0) */
1141c4762a1bSJed Brown                 _mm_storeu_pd(&Ke[l*2+0][ll*2+0],_mm_add_pd(keu,_mm_add_pd(_mm_mul_pd(t1,t0),
1142c4762a1bSJed Brown                                                                            _mm_add_pd(_mm_mul_pd(dp1,t3),
1143c4762a1bSJed Brown                                                                                       _mm_mul_pd(t0,_mm_mul_pd(dp2,du2))))));
1144c4762a1bSJed Brown                 _mm_storeu_pd(&Ke[l*2+1][ll*2+0],_mm_add_pd(kev,_mm_add_pd(_mm_mul_pd(t2,t0),
1145c4762a1bSJed Brown                                                                            _mm_add_pd(_mm_mul_pd(dp0,t3),
1146c4762a1bSJed Brown                                                                                       _mm_mul_pd(t0,_mm_mul_pd(dp2,dv2))))));
1147c4762a1bSJed Brown               }
1148c4762a1bSJed Brown #endif
1149c4762a1bSJed Brown             }
1150c4762a1bSJed Brown           }
1151c4762a1bSJed Brown         }
1152c4762a1bSJed Brown         if (k == 0) { /* on a bottom face */
1153c4762a1bSJed Brown           if (thi->no_slip) {
1154c4762a1bSJed Brown             const PetscReal   hz    = PetscRealPart(pn[0].h)/(zm-1);
1155c4762a1bSJed Brown             const PetscScalar diagu = 2*etabase/thi->rhog*(hx*hy/hz + hx*hz/hy + 4*hy*hz/hx),diagv = 2*etabase/thi->rhog*(hx*hy/hz + 4*hx*hz/hy + hy*hz/hx);
1156c4762a1bSJed Brown             Ke[0][0] = thi->dirichlet_scale*diagu;
1157c4762a1bSJed Brown             Ke[1][1] = thi->dirichlet_scale*diagv;
1158c4762a1bSJed Brown           } else {
1159c4762a1bSJed Brown             for (q=0; q<4; q++) {
1160c4762a1bSJed Brown               const PetscReal jw = 0.25*hx*hy/thi->rhog,*phi = QuadQInterp[q];
1161c4762a1bSJed Brown               PetscScalar     u  =0,v=0,rbeta2=0;
1162c4762a1bSJed Brown               PetscReal       beta2,dbeta2;
1163c4762a1bSJed Brown               for (l=0; l<4; l++) {
1164c4762a1bSJed Brown                 u      += phi[l]*n[l].u;
1165c4762a1bSJed Brown                 v      += phi[l]*n[l].v;
1166c4762a1bSJed Brown                 rbeta2 += phi[l]*pn[l].beta2;
1167c4762a1bSJed Brown               }
1168c4762a1bSJed Brown               THIFriction(thi,PetscRealPart(rbeta2),PetscRealPart(u*u+v*v)/2,&beta2,&dbeta2);
1169c4762a1bSJed Brown               for (l=0; l<4; l++) {
1170c4762a1bSJed Brown                 const PetscReal pp = phi[l];
1171c4762a1bSJed Brown                 for (ll=0; ll<4; ll++) {
1172c4762a1bSJed Brown                   const PetscReal ppl = phi[ll];
1173c4762a1bSJed Brown                   Ke[l*2+0][ll*2+0] += pp*jw*beta2*ppl + pp*jw*dbeta2*u*u*ppl;
1174c4762a1bSJed Brown                   Ke[l*2+0][ll*2+1] +=                   pp*jw*dbeta2*u*v*ppl;
1175c4762a1bSJed Brown                   Ke[l*2+1][ll*2+0] +=                   pp*jw*dbeta2*v*u*ppl;
1176c4762a1bSJed Brown                   Ke[l*2+1][ll*2+1] += pp*jw*beta2*ppl + pp*jw*dbeta2*v*v*ppl;
1177c4762a1bSJed Brown                 }
1178c4762a1bSJed Brown               }
1179c4762a1bSJed Brown             }
1180c4762a1bSJed Brown           }
1181c4762a1bSJed Brown         }
1182c4762a1bSJed Brown         {
1183c4762a1bSJed Brown           const MatStencil rc[8] = {{i,j,k,0},{i+1,j,k,0},{i+1,j+1,k,0},{i,j+1,k,0},{i,j,k+1,0},{i+1,j,k+1,0},{i+1,j+1,k+1,0},{i,j+1,k+1,0}};
1184c4762a1bSJed Brown           if (amode == THIASSEMBLY_TRIDIAGONAL) {
1185c4762a1bSJed Brown             for (l=0; l<4; l++) { /* Copy out each of the blocks, discarding horizontal coupling */
1186c4762a1bSJed Brown               const PetscInt   l4     = l+4;
1187c4762a1bSJed Brown               const MatStencil rcl[2] = {{rc[l].k,rc[l].j,rc[l].i,0},{rc[l4].k,rc[l4].j,rc[l4].i,0}};
1188c4762a1bSJed Brown #if defined COMPUTE_LOWER_TRIANGULAR
1189c4762a1bSJed Brown               const PetscScalar Kel[4][4] = {{Ke[2*l+0][2*l+0] ,Ke[2*l+0][2*l+1] ,Ke[2*l+0][2*l4+0] ,Ke[2*l+0][2*l4+1]},
1190c4762a1bSJed Brown                                              {Ke[2*l+1][2*l+0] ,Ke[2*l+1][2*l+1] ,Ke[2*l+1][2*l4+0] ,Ke[2*l+1][2*l4+1]},
1191c4762a1bSJed Brown                                              {Ke[2*l4+0][2*l+0],Ke[2*l4+0][2*l+1],Ke[2*l4+0][2*l4+0],Ke[2*l4+0][2*l4+1]},
1192c4762a1bSJed Brown                                              {Ke[2*l4+1][2*l+0],Ke[2*l4+1][2*l+1],Ke[2*l4+1][2*l4+0],Ke[2*l4+1][2*l4+1]}};
1193c4762a1bSJed Brown #else
1194c4762a1bSJed Brown               /* Same as above except for the lower-left block */
1195c4762a1bSJed Brown               const PetscScalar Kel[4][4] = {{Ke[2*l+0][2*l+0] ,Ke[2*l+0][2*l+1] ,Ke[2*l+0][2*l4+0] ,Ke[2*l+0][2*l4+1]},
1196c4762a1bSJed Brown                                              {Ke[2*l+1][2*l+0] ,Ke[2*l+1][2*l+1] ,Ke[2*l+1][2*l4+0] ,Ke[2*l+1][2*l4+1]},
1197c4762a1bSJed Brown                                              {Ke[2*l+0][2*l4+0],Ke[2*l+1][2*l4+0],Ke[2*l4+0][2*l4+0],Ke[2*l4+0][2*l4+1]},
1198c4762a1bSJed Brown                                              {Ke[2*l+0][2*l4+1],Ke[2*l+1][2*l4+1],Ke[2*l4+1][2*l4+0],Ke[2*l4+1][2*l4+1]}};
1199c4762a1bSJed Brown #endif
12005f80ce2aSJacob Faibussowitsch               CHKERRQ(MatSetValuesBlockedStencil(B,2,rcl,2,rcl,&Kel[0][0],ADD_VALUES));
1201c4762a1bSJed Brown             }
1202c4762a1bSJed Brown           } else {
1203c4762a1bSJed Brown #if !defined COMPUTE_LOWER_TRIANGULAR /* fill in lower-triangular part, this is really cheap compared to computing the entries */
1204c4762a1bSJed Brown             for (l=0; l<8; l++) {
1205c4762a1bSJed Brown               for (ll=l+1; ll<8; ll++) {
1206c4762a1bSJed Brown                 Ke[ll*2+0][l*2+0] = Ke[l*2+0][ll*2+0];
1207c4762a1bSJed Brown                 Ke[ll*2+1][l*2+0] = Ke[l*2+0][ll*2+1];
1208c4762a1bSJed Brown                 Ke[ll*2+0][l*2+1] = Ke[l*2+1][ll*2+0];
1209c4762a1bSJed Brown                 Ke[ll*2+1][l*2+1] = Ke[l*2+1][ll*2+1];
1210c4762a1bSJed Brown               }
1211c4762a1bSJed Brown             }
1212c4762a1bSJed Brown #endif
12135f80ce2aSJacob Faibussowitsch             CHKERRQ(MatSetValuesBlockedStencil(B,8,rc,8,rc,&Ke[0][0],ADD_VALUES));
1214c4762a1bSJed Brown           }
1215c4762a1bSJed Brown         }
1216c4762a1bSJed Brown       }
1217c4762a1bSJed Brown     }
1218c4762a1bSJed Brown   }
12195f80ce2aSJacob Faibussowitsch   CHKERRQ(THIDARestorePrm(info->da,&prm));
1220c4762a1bSJed Brown 
12215f80ce2aSJacob Faibussowitsch   CHKERRQ(MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY));
12225f80ce2aSJacob Faibussowitsch   CHKERRQ(MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY));
12235f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSetOption(B,MAT_SYMMETRIC,PETSC_TRUE));
12245f80ce2aSJacob Faibussowitsch   if (thi->verbose) CHKERRQ(THIMatrixStatistics(thi,B,PETSC_VIEWER_STDOUT_WORLD));
1225c4762a1bSJed Brown   PetscFunctionReturn(0);
1226c4762a1bSJed Brown }
1227c4762a1bSJed Brown 
1228c4762a1bSJed Brown static PetscErrorCode THIJacobianLocal_3D_Full(DMDALocalInfo *info,Node ***x,Mat A,Mat B,THI thi)
1229c4762a1bSJed Brown {
1230c4762a1bSJed Brown   PetscFunctionBeginUser;
12315f80ce2aSJacob Faibussowitsch   CHKERRQ(THIJacobianLocal_3D(info,x,B,thi,THIASSEMBLY_FULL));
1232c4762a1bSJed Brown   PetscFunctionReturn(0);
1233c4762a1bSJed Brown }
1234c4762a1bSJed Brown 
1235c4762a1bSJed Brown static PetscErrorCode THIJacobianLocal_3D_Tridiagonal(DMDALocalInfo *info,Node ***x,Mat A,Mat B,THI thi)
1236c4762a1bSJed Brown {
1237c4762a1bSJed Brown   PetscFunctionBeginUser;
12385f80ce2aSJacob Faibussowitsch   CHKERRQ(THIJacobianLocal_3D(info,x,B,thi,THIASSEMBLY_TRIDIAGONAL));
1239c4762a1bSJed Brown   PetscFunctionReturn(0);
1240c4762a1bSJed Brown }
1241c4762a1bSJed Brown 
1242c4762a1bSJed Brown static PetscErrorCode DMRefineHierarchy_THI(DM dac0,PetscInt nlevels,DM hierarchy[])
1243c4762a1bSJed Brown {
1244c4762a1bSJed Brown   THI             thi;
1245c4762a1bSJed Brown   PetscInt        dim,M,N,m,n,s,dof;
1246c4762a1bSJed Brown   DM              dac,daf;
1247c4762a1bSJed Brown   DMDAStencilType st;
1248c4762a1bSJed Brown   DM_DA           *ddf,*ddc;
1249c4762a1bSJed Brown 
1250c4762a1bSJed Brown   PetscFunctionBeginUser;
12515f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscObjectQuery((PetscObject)dac0,"THI",(PetscObject*)&thi));
1252*28b400f6SJacob Faibussowitsch   PetscCheck(thi,PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Cannot refine this DMDA, missing composed THI instance");
1253c4762a1bSJed Brown   if (nlevels > 1) {
12545f80ce2aSJacob Faibussowitsch     CHKERRQ(DMRefineHierarchy(dac0,nlevels-1,hierarchy));
1255c4762a1bSJed Brown     dac  = hierarchy[nlevels-2];
1256c4762a1bSJed Brown   } else {
1257c4762a1bSJed Brown     dac = dac0;
1258c4762a1bSJed Brown   }
12595f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetInfo(dac,&dim, &N,&M,0, &n,&m,0, &dof,&s,0,0,0,&st));
12602c71b3e2SJacob Faibussowitsch   PetscCheckFalse(dim != 2,PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"This function can only refine 2D DMDAs");
1261c4762a1bSJed Brown 
1262c4762a1bSJed Brown   /* Creates a 3D DMDA with the same map-plane layout as the 2D one, with contiguous columns */
12635f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDACreate3d(PetscObjectComm((PetscObject)dac),DM_BOUNDARY_NONE,DM_BOUNDARY_PERIODIC,DM_BOUNDARY_PERIODIC,st,thi->zlevels,N,M,1,n,m,dof,s,NULL,NULL,NULL,&daf));
12645f80ce2aSJacob Faibussowitsch   CHKERRQ(DMSetUp(daf));
1265c4762a1bSJed Brown 
1266c4762a1bSJed Brown   daf->ops->creatematrix        = dac->ops->creatematrix;
1267c4762a1bSJed Brown   daf->ops->createinterpolation = dac->ops->createinterpolation;
1268c4762a1bSJed Brown   daf->ops->getcoloring         = dac->ops->getcoloring;
1269c4762a1bSJed Brown   ddf                           = (DM_DA*)daf->data;
1270c4762a1bSJed Brown   ddc                           = (DM_DA*)dac->data;
1271c4762a1bSJed Brown   ddf->interptype               = ddc->interptype;
1272c4762a1bSJed Brown 
12735f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDASetFieldName(daf,0,"x-velocity"));
12745f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDASetFieldName(daf,1,"y-velocity"));
1275c4762a1bSJed Brown 
1276c4762a1bSJed Brown   hierarchy[nlevels-1] = daf;
1277c4762a1bSJed Brown   PetscFunctionReturn(0);
1278c4762a1bSJed Brown }
1279c4762a1bSJed Brown 
1280c4762a1bSJed Brown static PetscErrorCode DMCreateInterpolation_DA_THI(DM dac,DM daf,Mat *A,Vec *scale)
1281c4762a1bSJed Brown {
1282c4762a1bSJed Brown   PetscInt       dim;
1283c4762a1bSJed Brown 
1284c4762a1bSJed Brown   PetscFunctionBeginUser;
1285c4762a1bSJed Brown   PetscValidHeaderSpecific(dac,DM_CLASSID,1);
1286c4762a1bSJed Brown   PetscValidHeaderSpecific(daf,DM_CLASSID,2);
1287c4762a1bSJed Brown   PetscValidPointer(A,3);
1288c4762a1bSJed Brown   if (scale) PetscValidPointer(scale,4);
12895f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetInfo(daf,&dim,0,0,0,0,0,0,0,0,0,0,0,0));
1290c4762a1bSJed Brown   if (dim  == 2) {
1291c4762a1bSJed Brown     /* We are in the 2D problem and use normal DMDA interpolation */
12925f80ce2aSJacob Faibussowitsch     CHKERRQ(DMCreateInterpolation(dac,daf,A,scale));
1293c4762a1bSJed Brown   } else {
1294c4762a1bSJed Brown     PetscInt i,j,k,xs,ys,zs,xm,ym,zm,mx,my,mz,rstart,cstart;
1295c4762a1bSJed Brown     Mat      B;
1296c4762a1bSJed Brown 
12975f80ce2aSJacob Faibussowitsch     CHKERRQ(DMDAGetInfo(daf,0, &mz,&my,&mx, 0,0,0, 0,0,0,0,0,0));
12985f80ce2aSJacob Faibussowitsch     CHKERRQ(DMDAGetCorners(daf,&zs,&ys,&xs,&zm,&ym,&xm));
1299*28b400f6SJacob Faibussowitsch     PetscCheck(!zs,PETSC_COMM_SELF,PETSC_ERR_PLIB,"unexpected");
13005f80ce2aSJacob Faibussowitsch     CHKERRQ(MatCreate(PetscObjectComm((PetscObject)daf),&B));
13015f80ce2aSJacob Faibussowitsch     CHKERRQ(MatSetSizes(B,xm*ym*zm,xm*ym,mx*my*mz,mx*my));
1302c4762a1bSJed Brown 
13035f80ce2aSJacob Faibussowitsch     CHKERRQ(MatSetType(B,MATAIJ));
13045f80ce2aSJacob Faibussowitsch     CHKERRQ(MatSeqAIJSetPreallocation(B,1,NULL));
13055f80ce2aSJacob Faibussowitsch     CHKERRQ(MatMPIAIJSetPreallocation(B,1,NULL,0,NULL));
13065f80ce2aSJacob Faibussowitsch     CHKERRQ(MatGetOwnershipRange(B,&rstart,NULL));
13075f80ce2aSJacob Faibussowitsch     CHKERRQ(MatGetOwnershipRangeColumn(B,&cstart,NULL));
1308c4762a1bSJed Brown     for (i=xs; i<xs+xm; i++) {
1309c4762a1bSJed Brown       for (j=ys; j<ys+ym; j++) {
1310c4762a1bSJed Brown         for (k=zs; k<zs+zm; k++) {
1311c4762a1bSJed Brown           PetscInt    i2  = i*ym+j,i3 = i2*zm+k;
1312c4762a1bSJed Brown           PetscScalar val = ((k == 0 || k == mz-1) ? 0.5 : 1.) / (mz-1.); /* Integration using trapezoid rule */
13135f80ce2aSJacob Faibussowitsch           CHKERRQ(MatSetValue(B,cstart+i3,rstart+i2,val,INSERT_VALUES));
1314c4762a1bSJed Brown         }
1315c4762a1bSJed Brown       }
1316c4762a1bSJed Brown     }
13175f80ce2aSJacob Faibussowitsch     CHKERRQ(MatAssemblyBegin(B,MAT_FINAL_ASSEMBLY));
13185f80ce2aSJacob Faibussowitsch     CHKERRQ(MatAssemblyEnd(B,MAT_FINAL_ASSEMBLY));
13195f80ce2aSJacob Faibussowitsch     CHKERRQ(MatCreateMAIJ(B,sizeof(Node)/sizeof(PetscScalar),A));
13205f80ce2aSJacob Faibussowitsch     CHKERRQ(MatDestroy(&B));
1321c4762a1bSJed Brown   }
1322c4762a1bSJed Brown   PetscFunctionReturn(0);
1323c4762a1bSJed Brown }
1324c4762a1bSJed Brown 
1325c4762a1bSJed Brown static PetscErrorCode DMCreateMatrix_THI_Tridiagonal(DM da,Mat *J)
1326c4762a1bSJed Brown {
1327c4762a1bSJed Brown   Mat                    A;
1328c4762a1bSJed Brown   PetscInt               xm,ym,zm,dim,dof = 2,starts[3],dims[3];
1329c4762a1bSJed Brown   ISLocalToGlobalMapping ltog;
1330c4762a1bSJed Brown 
1331c4762a1bSJed Brown   PetscFunctionBeginUser;
13325f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetInfo(da,&dim, 0,0,0, 0,0,0, 0,0,0,0,0,0));
13332c71b3e2SJacob Faibussowitsch   PetscCheckFalse(dim != 3,PETSC_COMM_SELF,PETSC_ERR_ARG_WRONG,"Expected DMDA to be 3D");
13345f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetCorners(da,0,0,0,&zm,&ym,&xm));
13355f80ce2aSJacob Faibussowitsch   CHKERRQ(DMGetLocalToGlobalMapping(da,&ltog));
13365f80ce2aSJacob Faibussowitsch   CHKERRQ(MatCreate(PetscObjectComm((PetscObject)da),&A));
13375f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSetSizes(A,dof*xm*ym*zm,dof*xm*ym*zm,PETSC_DETERMINE,PETSC_DETERMINE));
13385f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSetType(A,da->mattype));
13395f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSetFromOptions(A));
13405f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSeqAIJSetPreallocation(A,3*2,NULL));
13415f80ce2aSJacob Faibussowitsch   CHKERRQ(MatMPIAIJSetPreallocation(A,3*2,NULL,0,NULL));
13425f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSeqBAIJSetPreallocation(A,2,3,NULL));
13435f80ce2aSJacob Faibussowitsch   CHKERRQ(MatMPIBAIJSetPreallocation(A,2,3,NULL,0,NULL));
13445f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSeqSBAIJSetPreallocation(A,2,2,NULL));
13455f80ce2aSJacob Faibussowitsch   CHKERRQ(MatMPISBAIJSetPreallocation(A,2,2,NULL,0,NULL));
13465f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSetLocalToGlobalMapping(A,ltog,ltog));
13475f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetGhostCorners(da,&starts[0],&starts[1],&starts[2],&dims[0],&dims[1],&dims[2]));
13485f80ce2aSJacob Faibussowitsch   CHKERRQ(MatSetStencil(A,dim,dims,starts,dof));
1349c4762a1bSJed Brown   *J   = A;
1350c4762a1bSJed Brown   PetscFunctionReturn(0);
1351c4762a1bSJed Brown }
1352c4762a1bSJed Brown 
1353c4762a1bSJed Brown static PetscErrorCode THIDAVecView_VTK_XML(THI thi,DM da,Vec X,const char filename[])
1354c4762a1bSJed Brown {
1355c4762a1bSJed Brown   const PetscInt    dof   = 2;
1356c4762a1bSJed Brown   Units             units = thi->units;
1357c4762a1bSJed Brown   MPI_Comm          comm;
1358c4762a1bSJed Brown   PetscViewer       viewer;
1359c4762a1bSJed Brown   PetscMPIInt       rank,size,tag,nn,nmax;
1360c4762a1bSJed Brown   PetscInt          mx,my,mz,r,range[6];
1361c4762a1bSJed Brown   const PetscScalar *x;
1362c4762a1bSJed Brown 
1363c4762a1bSJed Brown   PetscFunctionBeginUser;
13645f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscObjectGetComm((PetscObject)thi,&comm));
13655f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetInfo(da,0, &mz,&my,&mx, 0,0,0, 0,0,0,0,0,0));
13665f80ce2aSJacob Faibussowitsch   CHKERRMPI(MPI_Comm_size(comm,&size));
13675f80ce2aSJacob Faibussowitsch   CHKERRMPI(MPI_Comm_rank(comm,&rank));
13685f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscViewerASCIIOpen(comm,filename,&viewer));
13695f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscViewerASCIIPrintf(viewer,"<VTKFile type=\"StructuredGrid\" version=\"0.1\" byte_order=\"LittleEndian\">\n"));
13705f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscViewerASCIIPrintf(viewer,"  <StructuredGrid WholeExtent=\"%d %D %d %D %d %D\">\n",0,mz-1,0,my-1,0,mx-1));
1371c4762a1bSJed Brown 
13725f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDAGetCorners(da,range,range+1,range+2,range+3,range+4,range+5));
13735f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscMPIIntCast(range[3]*range[4]*range[5]*dof,&nn));
13745f80ce2aSJacob Faibussowitsch   CHKERRMPI(MPI_Reduce(&nn,&nmax,1,MPI_INT,MPI_MAX,0,comm));
1375c4762a1bSJed Brown   tag  = ((PetscObject) viewer)->tag;
13765f80ce2aSJacob Faibussowitsch   CHKERRQ(VecGetArrayRead(X,&x));
1377dd400576SPatrick Sanan   if (rank == 0) {
1378c4762a1bSJed Brown     PetscScalar *array;
13795f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscMalloc1(nmax,&array));
1380c4762a1bSJed Brown     for (r=0; r<size; r++) {
1381c4762a1bSJed Brown       PetscInt          i,j,k,xs,xm,ys,ym,zs,zm;
1382c4762a1bSJed Brown       const PetscScalar *ptr;
1383c4762a1bSJed Brown       MPI_Status        status;
1384c4762a1bSJed Brown       if (r) {
13855f80ce2aSJacob Faibussowitsch         CHKERRMPI(MPI_Recv(range,6,MPIU_INT,r,tag,comm,MPI_STATUS_IGNORE));
1386c4762a1bSJed Brown       }
1387c4762a1bSJed Brown       zs = range[0];ys = range[1];xs = range[2];zm = range[3];ym = range[4];xm = range[5];
13882c71b3e2SJacob Faibussowitsch       PetscCheckFalse(xm*ym*zm*dof > nmax,PETSC_COMM_SELF,PETSC_ERR_PLIB,"should not happen");
1389c4762a1bSJed Brown       if (r) {
13905f80ce2aSJacob Faibussowitsch         CHKERRMPI(MPI_Recv(array,nmax,MPIU_SCALAR,r,tag,comm,&status));
13915f80ce2aSJacob Faibussowitsch         CHKERRMPI(MPI_Get_count(&status,MPIU_SCALAR,&nn));
13922c71b3e2SJacob Faibussowitsch         PetscCheckFalse(nn != xm*ym*zm*dof,PETSC_COMM_SELF,PETSC_ERR_PLIB,"should not happen");
1393c4762a1bSJed Brown         ptr = array;
1394c4762a1bSJed Brown       } else ptr = x;
13955f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"    <Piece Extent=\"%D %D %D %D %D %D\">\n",zs,zs+zm-1,ys,ys+ym-1,xs,xs+xm-1));
1396c4762a1bSJed Brown 
13975f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"      <Points>\n"));
13985f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"        <DataArray type=\"Float32\" NumberOfComponents=\"3\" format=\"ascii\">\n"));
1399c4762a1bSJed Brown       for (i=xs; i<xs+xm; i++) {
1400c4762a1bSJed Brown         for (j=ys; j<ys+ym; j++) {
1401c4762a1bSJed Brown           for (k=zs; k<zs+zm; k++) {
1402c4762a1bSJed Brown             PrmNode   p;
1403c4762a1bSJed Brown             PetscReal xx = thi->Lx*i/mx,yy = thi->Ly*j/my,zz;
1404c4762a1bSJed Brown             thi->initialize(thi,xx,yy,&p);
1405c4762a1bSJed Brown             zz   = PetscRealPart(p.b) + PetscRealPart(p.h)*k/(mz-1);
14065f80ce2aSJacob Faibussowitsch             CHKERRQ(PetscViewerASCIIPrintf(viewer,"%f %f %f\n",(double)xx,(double)yy,(double)zz));
1407c4762a1bSJed Brown           }
1408c4762a1bSJed Brown         }
1409c4762a1bSJed Brown       }
14105f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"        </DataArray>\n"));
14115f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"      </Points>\n"));
1412c4762a1bSJed Brown 
14135f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"      <PointData>\n"));
14145f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"        <DataArray type=\"Float32\" Name=\"velocity\" NumberOfComponents=\"3\" format=\"ascii\">\n"));
1415c4762a1bSJed Brown       for (i=0; i<nn; i+=dof) {
14165f80ce2aSJacob Faibussowitsch         CHKERRQ(PetscViewerASCIIPrintf(viewer,"%f %f %f\n",(double)(PetscRealPart(ptr[i])*units->year/units->meter),(double)(PetscRealPart(ptr[i+1])*units->year/units->meter),0.0));
1417c4762a1bSJed Brown       }
14185f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"        </DataArray>\n"));
1419c4762a1bSJed Brown 
14205f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"        <DataArray type=\"Int32\" Name=\"rank\" NumberOfComponents=\"1\" format=\"ascii\">\n"));
1421c4762a1bSJed Brown       for (i=0; i<nn; i+=dof) {
14225f80ce2aSJacob Faibussowitsch         CHKERRQ(PetscViewerASCIIPrintf(viewer,"%D\n",r));
1423c4762a1bSJed Brown       }
14245f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"        </DataArray>\n"));
14255f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"      </PointData>\n"));
1426c4762a1bSJed Brown 
14275f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscViewerASCIIPrintf(viewer,"    </Piece>\n"));
1428c4762a1bSJed Brown     }
14295f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscFree(array));
1430c4762a1bSJed Brown   } else {
14315f80ce2aSJacob Faibussowitsch     CHKERRMPI(MPI_Send(range,6,MPIU_INT,0,tag,comm));
14325f80ce2aSJacob Faibussowitsch     CHKERRMPI(MPI_Send((PetscScalar*)x,nn,MPIU_SCALAR,0,tag,comm));
1433c4762a1bSJed Brown   }
14345f80ce2aSJacob Faibussowitsch   CHKERRQ(VecRestoreArrayRead(X,&x));
14355f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscViewerASCIIPrintf(viewer,"  </StructuredGrid>\n"));
14365f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscViewerASCIIPrintf(viewer,"</VTKFile>\n"));
14375f80ce2aSJacob Faibussowitsch   CHKERRQ(PetscViewerDestroy(&viewer));
1438c4762a1bSJed Brown   PetscFunctionReturn(0);
1439c4762a1bSJed Brown }
1440c4762a1bSJed Brown 
1441c4762a1bSJed Brown int main(int argc,char *argv[])
1442c4762a1bSJed Brown {
1443c4762a1bSJed Brown   MPI_Comm       comm;
1444c4762a1bSJed Brown   THI            thi;
1445c4762a1bSJed Brown   PetscErrorCode ierr;
1446c4762a1bSJed Brown   DM             da;
1447c4762a1bSJed Brown   SNES           snes;
1448c4762a1bSJed Brown 
1449c4762a1bSJed Brown   ierr = PetscInitialize(&argc,&argv,0,help);if (ierr) return ierr;
1450c4762a1bSJed Brown   comm = PETSC_COMM_WORLD;
1451c4762a1bSJed Brown 
14525f80ce2aSJacob Faibussowitsch   CHKERRQ(THICreate(comm,&thi));
1453c4762a1bSJed Brown   {
1454c4762a1bSJed Brown     PetscInt M = 3,N = 3,P = 2;
1455c4762a1bSJed Brown     ierr = PetscOptionsBegin(comm,NULL,"Grid resolution options","");CHKERRQ(ierr);
1456c4762a1bSJed Brown     {
14575f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscOptionsInt("-M","Number of elements in x-direction on coarse level","",M,&M,NULL));
1458c4762a1bSJed Brown       N    = M;
14595f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscOptionsInt("-N","Number of elements in y-direction on coarse level (if different from M)","",N,&N,NULL));
1460c4762a1bSJed Brown       if (thi->coarse2d) {
14615f80ce2aSJacob Faibussowitsch         CHKERRQ(PetscOptionsInt("-zlevels","Number of elements in z-direction on fine level","",thi->zlevels,&thi->zlevels,NULL));
1462c4762a1bSJed Brown       } else {
14635f80ce2aSJacob Faibussowitsch         CHKERRQ(PetscOptionsInt("-P","Number of elements in z-direction on coarse level","",P,&P,NULL));
1464c4762a1bSJed Brown       }
1465c4762a1bSJed Brown     }
1466c4762a1bSJed Brown     ierr = PetscOptionsEnd();CHKERRQ(ierr);
1467c4762a1bSJed Brown     if (thi->coarse2d) {
14685f80ce2aSJacob Faibussowitsch       CHKERRQ(DMDACreate2d(comm,DM_BOUNDARY_PERIODIC,DM_BOUNDARY_PERIODIC,DMDA_STENCIL_BOX,N,M,PETSC_DETERMINE,PETSC_DETERMINE,sizeof(Node)/sizeof(PetscScalar),1,0,0,&da));
14695f80ce2aSJacob Faibussowitsch       CHKERRQ(DMSetFromOptions(da));
14705f80ce2aSJacob Faibussowitsch       CHKERRQ(DMSetUp(da));
1471c4762a1bSJed Brown       da->ops->refinehierarchy     = DMRefineHierarchy_THI;
1472c4762a1bSJed Brown       da->ops->createinterpolation = DMCreateInterpolation_DA_THI;
1473c4762a1bSJed Brown 
14745f80ce2aSJacob Faibussowitsch       CHKERRQ(PetscObjectCompose((PetscObject)da,"THI",(PetscObject)thi));
1475c4762a1bSJed Brown     } else {
14765f80ce2aSJacob Faibussowitsch       CHKERRQ(DMDACreate3d(comm,DM_BOUNDARY_NONE,DM_BOUNDARY_PERIODIC,DM_BOUNDARY_PERIODIC, DMDA_STENCIL_BOX,P,N,M,1,PETSC_DETERMINE,PETSC_DETERMINE,sizeof(Node)/sizeof(PetscScalar),1,0,0,0,&da));
14775f80ce2aSJacob Faibussowitsch       CHKERRQ(DMSetFromOptions(da));
14785f80ce2aSJacob Faibussowitsch       CHKERRQ(DMSetUp(da));
1479c4762a1bSJed Brown     }
14805f80ce2aSJacob Faibussowitsch     CHKERRQ(DMDASetFieldName(da,0,"x-velocity"));
14815f80ce2aSJacob Faibussowitsch     CHKERRQ(DMDASetFieldName(da,1,"y-velocity"));
1482c4762a1bSJed Brown   }
14835f80ce2aSJacob Faibussowitsch   CHKERRQ(THISetUpDM(thi,da));
1484c4762a1bSJed Brown   if (thi->tridiagonal) da->ops->creatematrix = DMCreateMatrix_THI_Tridiagonal;
1485c4762a1bSJed Brown 
1486c4762a1bSJed Brown   {                             /* Set the fine level matrix type if -da_refine */
1487c4762a1bSJed Brown     PetscInt rlevel,clevel;
14885f80ce2aSJacob Faibussowitsch     CHKERRQ(DMGetRefineLevel(da,&rlevel));
14895f80ce2aSJacob Faibussowitsch     CHKERRQ(DMGetCoarsenLevel(da,&clevel));
14905f80ce2aSJacob Faibussowitsch     if (rlevel - clevel > 0) CHKERRQ(DMSetMatType(da,thi->mattype));
1491c4762a1bSJed Brown   }
1492c4762a1bSJed Brown 
14935f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDASNESSetFunctionLocal(da,ADD_VALUES,(DMDASNESFunction)THIFunctionLocal,thi));
1494c4762a1bSJed Brown   if (thi->tridiagonal) {
14955f80ce2aSJacob Faibussowitsch     CHKERRQ(DMDASNESSetJacobianLocal(da,(DMDASNESJacobian)THIJacobianLocal_3D_Tridiagonal,thi));
1496c4762a1bSJed Brown   } else {
14975f80ce2aSJacob Faibussowitsch     CHKERRQ(DMDASNESSetJacobianLocal(da,(DMDASNESJacobian)THIJacobianLocal_3D_Full,thi));
1498c4762a1bSJed Brown   }
14995f80ce2aSJacob Faibussowitsch   CHKERRQ(DMCoarsenHookAdd(da,DMCoarsenHook_THI,NULL,thi));
15005f80ce2aSJacob Faibussowitsch   CHKERRQ(DMRefineHookAdd(da,DMRefineHook_THI,NULL,thi));
1501c4762a1bSJed Brown 
15025f80ce2aSJacob Faibussowitsch   CHKERRQ(DMSetApplicationContext(da,thi));
1503c4762a1bSJed Brown 
15045f80ce2aSJacob Faibussowitsch   CHKERRQ(SNESCreate(comm,&snes));
15055f80ce2aSJacob Faibussowitsch   CHKERRQ(SNESSetDM(snes,da));
15065f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDestroy(&da));
15075f80ce2aSJacob Faibussowitsch   CHKERRQ(SNESSetComputeInitialGuess(snes,THIInitial,NULL));
15085f80ce2aSJacob Faibussowitsch   CHKERRQ(SNESSetFromOptions(snes));
1509c4762a1bSJed Brown 
15105f80ce2aSJacob Faibussowitsch   CHKERRQ(SNESSolve(snes,NULL,NULL));
1511c4762a1bSJed Brown 
15125f80ce2aSJacob Faibussowitsch   CHKERRQ(THISolveStatistics(thi,snes,0,"Full"));
1513c4762a1bSJed Brown 
1514c4762a1bSJed Brown   {
1515c4762a1bSJed Brown     PetscBool flg;
1516c4762a1bSJed Brown     char      filename[PETSC_MAX_PATH_LEN] = "";
15175f80ce2aSJacob Faibussowitsch     CHKERRQ(PetscOptionsGetString(NULL,NULL,"-o",filename,sizeof(filename),&flg));
1518c4762a1bSJed Brown     if (flg) {
1519c4762a1bSJed Brown       Vec X;
1520c4762a1bSJed Brown       DM  dm;
15215f80ce2aSJacob Faibussowitsch       CHKERRQ(SNESGetSolution(snes,&X));
15225f80ce2aSJacob Faibussowitsch       CHKERRQ(SNESGetDM(snes,&dm));
15235f80ce2aSJacob Faibussowitsch       CHKERRQ(THIDAVecView_VTK_XML(thi,dm,X,filename));
1524c4762a1bSJed Brown     }
1525c4762a1bSJed Brown   }
1526c4762a1bSJed Brown 
15275f80ce2aSJacob Faibussowitsch   CHKERRQ(DMDestroy(&da));
15285f80ce2aSJacob Faibussowitsch   CHKERRQ(SNESDestroy(&snes));
15295f80ce2aSJacob Faibussowitsch   CHKERRQ(THIDestroy(&thi));
1530c4762a1bSJed Brown   ierr = PetscFinalize();
1531c4762a1bSJed Brown   return ierr;
1532c4762a1bSJed Brown }
1533c4762a1bSJed Brown 
1534c4762a1bSJed Brown /*TEST
1535c4762a1bSJed Brown 
1536c4762a1bSJed Brown    build:
1537f56ea12dSJed Brown       requires: !single
1538c4762a1bSJed Brown 
1539c4762a1bSJed Brown    test:
1540c4762a1bSJed Brown       args: -M 6 -P 4 -da_refine 1 -snes_monitor_short -snes_converged_reason -ksp_monitor_short -ksp_converged_reason -thi_mat_type sbaij -ksp_type fgmres -pc_type mg -pc_mg_type full -mg_levels_ksp_type gmres -mg_levels_ksp_max_it 1 -mg_levels_pc_type icc
1541c4762a1bSJed Brown 
1542c4762a1bSJed Brown    test:
1543c4762a1bSJed Brown       suffix: 2
1544c4762a1bSJed Brown       nsize: 2
1545c4762a1bSJed Brown       args: -M 6 -P 4 -thi_hom z -snes_monitor_short -snes_converged_reason -ksp_monitor_short -ksp_converged_reason -thi_mat_type sbaij -ksp_type fgmres -pc_type mg -pc_mg_type full -mg_levels_ksp_type gmres -mg_levels_ksp_max_it 1 -mg_levels_pc_type asm -mg_levels_pc_asm_blocks 6 -mg_levels_0_pc_type redundant -snes_grid_sequence 1 -mat_partitioning_type current -ksp_atol -1
1546c4762a1bSJed Brown 
1547c4762a1bSJed Brown    test:
1548c4762a1bSJed Brown       suffix: 3
1549c4762a1bSJed Brown       nsize: 3
1550c4762a1bSJed Brown       args: -M 7 -P 4 -thi_hom z -da_refine 1 -snes_monitor_short -snes_converged_reason -ksp_monitor_short -ksp_converged_reason -thi_mat_type baij -ksp_type fgmres -pc_type mg -pc_mg_type full -mg_levels_pc_asm_type restrict -mg_levels_pc_type asm -mg_levels_pc_asm_blocks 9 -mg_levels_ksp_type gmres -mg_levels_ksp_max_it 1 -mat_partitioning_type current
1551c4762a1bSJed Brown 
1552c4762a1bSJed Brown    test:
1553c4762a1bSJed Brown       suffix: 4
1554c4762a1bSJed Brown       nsize: 6
1555c4762a1bSJed Brown       args: -M 4 -P 2 -da_refine_hierarchy_x 1,1,3 -da_refine_hierarchy_y 2,2,1 -da_refine_hierarchy_z 2,2,1 -snes_grid_sequence 3 -ksp_converged_reason -ksp_type fgmres -ksp_rtol 1e-2 -pc_type mg -mg_levels_ksp_type gmres -mg_levels_ksp_max_it 1 -mg_levels_pc_type bjacobi -mg_levels_1_sub_pc_type cholesky -pc_mg_type multiplicative -snes_converged_reason -snes_stol 1e-12 -thi_L 80e3 -thi_alpha 0.05 -thi_friction_m 1 -thi_hom x -snes_view -mg_levels_0_pc_type redundant -mg_levels_0_ksp_type preonly -ksp_atol -1
1556c4762a1bSJed Brown 
1557c4762a1bSJed Brown    test:
1558c4762a1bSJed Brown       suffix: 5
1559c4762a1bSJed Brown       nsize: 6
1560c4762a1bSJed Brown       args: -M 12 -P 5 -snes_monitor_short -ksp_converged_reason -pc_type asm -pc_asm_type restrict -dm_mat_type {{aij baij sbaij}}
1561c4762a1bSJed Brown 
1562c4762a1bSJed Brown TEST*/
1563