Actual source code: ex43.c

petsc-3.4.4 2014-03-13
  1: static char help[] = "Solves the incompressible, variable viscosity stokes equation in 2d on the unit domain \n\
  2: using Q1Q1 elements, stabilized with Bochev's polynomial projection method. \n\
  3: The models defined utilise free slip boundary conditions on all sides. \n\
  4: Options: \n\
  5:      -mx : number elements in x-direciton \n\
  6:      -my : number elements in y-direciton \n\
  7:      -c_str : indicates the structure of the coefficients to use. \n\
  8:           -c_str 0 => Setup for an analytic solution with a vertical jump in viscosity. This problem is driven by the \n\
  9:                          forcing function f = (0, sin(n_z pi y)cos(pi x). \n\
 10:                          Parameters: \n\
 11:                               -solcx_eta0 : the viscosity to the left of the interface \n\
 12:                               -solcx_eta1 : the viscosity to the right of the interface \n\
 13:                               -solcx_xc : the location of the interface \n\
 14:                               -solcx_nz : the wavenumber in the y direction \n\
 15:           -c_str 1 => Setup for a rectangular blob located in the origin of the domain. \n\
 16:                          Parameters: \n\
 17:                               -sinker_eta0 : the viscosity of the background fluid \n\
 18:                               -sinker_eta1 : the viscosity of the blob \n\
 19:                               -sinker_dx : the width of the blob \n\
 20:                               -sinker_dy : the width of the blob \n\
 21:           -c_str 2 => Setup for a circular blob located in the origin of the domain. \n\
 22:                          Parameters: \n\
 23:                               -sinker_eta0 : the viscosity of the background fluid \n\
 24:                               -sinker_eta1 : the viscosity of the blob \n\
 25:                               -sinker_r : radius of the blob \n\
 26:           -c_str 3 => Circular and rectangular inclusion\n\
 27:                          Parameters as for cases 1 and 2 (above)\n\
 28:      -use_gp_coords : evaluate the viscosity and the body force at the global coordinates of the quadrature points.\n\
 29:      By default, eta and the body force are evaulated at the element center and applied as a constant over the entire element.\n";

 31: /* Contributed by Dave May */

 33: #include <petscksp.h>
 34: #include <petscdmda.h>

 36: /* A Maple-generated exact solution created by Mirko Velic (mirko.velic@sci.monash.edu.au) */
 37: #include "ex43-solcx.h"

 39: static PetscErrorCode DMDABCApplyFreeSlip(DM,Mat,Vec);


 42: #define NSD            2 /* number of spatial dimensions */
 43: #define NODES_PER_EL   4 /* nodes per element */
 44: #define U_DOFS         2 /* degrees of freedom per velocity node */
 45: #define P_DOFS         1 /* degrees of freedom per pressure node */
 46: #define GAUSS_POINTS   4

 48: /* cell based evaluation */
 49: typedef struct {
 50:   PetscScalar eta,fx,fy;
 51: } Coefficients;

 53: /* Gauss point based evaluation 8+4+4+4 = 20 */
 54: typedef struct {
 55:   PetscScalar gp_coords[2*GAUSS_POINTS];
 56:   PetscScalar eta[GAUSS_POINTS];
 57:   PetscScalar fx[GAUSS_POINTS];
 58:   PetscScalar fy[GAUSS_POINTS];
 59: } GaussPointCoefficients;

 61: typedef struct {
 62:   PetscScalar u_dof;
 63:   PetscScalar v_dof;
 64:   PetscScalar p_dof;
 65: } StokesDOF;


 68: /*

 70: D = [ 2.eta   0   0   ]
 71: [   0   2.eta 0   ]
 72: [   0     0   eta ]

 74: B = [ d_dx   0   ]
 75: [  0    d_dy ]
 76: [ d_dy  d_dx ]

 78: */

 80: /* FEM routines */
 81: /*
 82: Element: Local basis function ordering
 83: 1-----2
 84: |     |
 85: |     |
 86: 0-----3
 87: */
 88: static void ConstructQ12D_Ni(PetscScalar _xi[],PetscScalar Ni[])
 89: {
 90:   PetscScalar xi  = _xi[0];
 91:   PetscScalar eta = _xi[1];

 93:   Ni[0] = 0.25*(1.0-xi)*(1.0-eta);
 94:   Ni[1] = 0.25*(1.0-xi)*(1.0+eta);
 95:   Ni[2] = 0.25*(1.0+xi)*(1.0+eta);
 96:   Ni[3] = 0.25*(1.0+xi)*(1.0-eta);
 97: }

 99: static void ConstructQ12D_GNi(PetscScalar _xi[],PetscScalar GNi[][NODES_PER_EL])
100: {
101:   PetscScalar xi  = _xi[0];
102:   PetscScalar eta = _xi[1];

104:   GNi[0][0] = -0.25*(1.0-eta);
105:   GNi[0][1] = -0.25*(1.0+eta);
106:   GNi[0][2] =   0.25*(1.0+eta);
107:   GNi[0][3] =   0.25*(1.0-eta);

109:   GNi[1][0] = -0.25*(1.0-xi);
110:   GNi[1][1] =   0.25*(1.0-xi);
111:   GNi[1][2] =   0.25*(1.0+xi);
112:   GNi[1][3] = -0.25*(1.0+xi);
113: }

115: static void ConstructQ12D_GNx(PetscScalar GNi[][NODES_PER_EL],PetscScalar GNx[][NODES_PER_EL],PetscScalar coords[],PetscScalar *det_J)
116: {
117:   PetscScalar J00,J01,J10,J11,J;
118:   PetscScalar iJ00,iJ01,iJ10,iJ11;
119:   PetscInt    i;

121:   J00 = J01 = J10 = J11 = 0.0;
122:   for (i = 0; i < NODES_PER_EL; i++) {
123:     PetscScalar cx = coords[2*i+0];
124:     PetscScalar cy = coords[2*i+1];

126:     J00 = J00+GNi[0][i]*cx;      /* J_xx = dx/dxi */
127:     J01 = J01+GNi[0][i]*cy;      /* J_xy = dy/dxi */
128:     J10 = J10+GNi[1][i]*cx;      /* J_yx = dx/deta */
129:     J11 = J11+GNi[1][i]*cy;      /* J_yy = dy/deta */
130:   }
131:   J = (J00*J11)-(J01*J10);

133:   iJ00 =  J11/J;
134:   iJ01 = -J01/J;
135:   iJ10 = -J10/J;
136:   iJ11 =  J00/J;


139:   for (i = 0; i < NODES_PER_EL; i++) {
140:     GNx[0][i] = GNi[0][i]*iJ00+GNi[1][i]*iJ01;
141:     GNx[1][i] = GNi[0][i]*iJ10+GNi[1][i]*iJ11;
142:   }

144:   if (det_J != NULL) *det_J = J;
145: }

147: static void ConstructGaussQuadrature(PetscInt *ngp,PetscScalar gp_xi[][2],PetscScalar gp_weight[])
148: {
149:   *ngp         = 4;
150:   gp_xi[0][0]  = -0.57735026919;gp_xi[0][1] = -0.57735026919;
151:   gp_xi[1][0]  = -0.57735026919;gp_xi[1][1] =  0.57735026919;
152:   gp_xi[2][0]  =  0.57735026919;gp_xi[2][1] =  0.57735026919;
153:   gp_xi[3][0]  =  0.57735026919;gp_xi[3][1] = -0.57735026919;
154:   gp_weight[0] = 1.0;
155:   gp_weight[1] = 1.0;
156:   gp_weight[2] = 1.0;
157:   gp_weight[3] = 1.0;
158: }


161: /* procs to the left claim the ghost node as their element */
164: static PetscErrorCode DMDAGetLocalElementSize(DM da,PetscInt *mxl,PetscInt *myl,PetscInt *mzl)
165: {
166:   PetscInt m,n,p,M,N,P;
167:   PetscInt sx,sy,sz;

170:   DMDAGetInfo(da,0,&M,&N,&P,0,0,0,0,0,0,0,0,0);
171:   DMDAGetCorners(da,&sx,&sy,&sz,&m,&n,&p);

173:   if (mxl != NULL) {
174:     *mxl = m;
175:     if ((sx+m) == M) *mxl = m-1;  /* last proc */
176:   }
177:   if (myl != NULL) {
178:     *myl = n;
179:     if ((sy+n) == N) *myl = n-1;  /* last proc */
180:   }
181:   if (mzl != NULL) {
182:     *mzl = p;
183:     if ((sz+p) == P) *mzl = p-1;  /* last proc */
184:   }
185:   return(0);
186: }

190: static PetscErrorCode DMDAGetElementCorners(DM da,PetscInt *sx,PetscInt *sy,PetscInt *sz,PetscInt *mx,PetscInt *my,PetscInt *mz)
191: {
192:   PetscInt si,sj,sk;

195:   DMDAGetGhostCorners(da,&si,&sj,&sk,0,0,0);

197:   *sx = si;
198:   if (si) *sx = si+1;

200:   *sy = sj;
201:   if (sj) *sy = sj+1;

203:   if (sk) {
204:     *sz = sk;
205:     if (sk != 0) *sz = sk+1;
206:   }

208:   DMDAGetLocalElementSize(da,mx,my,mz);
209:   return(0);
210: }

212: /*
213: i,j are the element indices
214: The unknown is a vector quantity.
215: The s[].c is used to indicate the degree of freedom.
216: */
219: static PetscErrorCode DMDAGetElementEqnums_up(MatStencil s_u[],MatStencil s_p[],PetscInt i,PetscInt j)
220: {
222:   /* velocity */
223:   /* node 0 */
224:   s_u[0].i = i;s_u[0].j = j;s_u[0].c = 0;                         /* Vx0 */
225:   s_u[1].i = i;s_u[1].j = j;s_u[1].c = 1;                         /* Vy0 */

227:   /* node 1 */
228:   s_u[2].i = i;s_u[2].j = j+1;s_u[2].c = 0;                         /* Vx1 */
229:   s_u[3].i = i;s_u[3].j = j+1;s_u[3].c = 1;                         /* Vy1 */

231:   /* node 2 */
232:   s_u[4].i = i+1;s_u[4].j = j+1;s_u[4].c = 0;                         /* Vx2 */
233:   s_u[5].i = i+1;s_u[5].j = j+1;s_u[5].c = 1;                         /* Vy2 */

235:   /* node 3 */
236:   s_u[6].i = i+1;s_u[6].j = j;s_u[6].c = 0;                         /* Vx3 */
237:   s_u[7].i = i+1;s_u[7].j = j;s_u[7].c = 1;                         /* Vy3 */


240:   /* pressure */
241:   s_p[0].i = i;s_p[0].j = j;s_p[0].c = 2;                         /* P0 */
242:   s_p[1].i = i;s_p[1].j = j+1;s_p[1].c = 2;                         /* P0 */
243:   s_p[2].i = i+1;s_p[2].j = j+1;s_p[2].c = 2;                         /* P1 */
244:   s_p[3].i = i+1;s_p[3].j = j;s_p[3].c = 2;                         /* P1 */
245:   return(0);
246: }

250: static PetscErrorCode DMDAGetElementOwnershipRanges2d(DM da,PetscInt **_lx,PetscInt **_ly)
251: {
253:   PetscMPIInt    rank;
254:   PetscInt       proc_I,proc_J;
255:   PetscInt       cpu_x,cpu_y;
256:   PetscInt       local_mx,local_my;
257:   Vec            vlx,vly;
258:   PetscInt       *LX,*LY,i;
259:   PetscScalar    *_a;
260:   Vec            V_SEQ;
261:   VecScatter     ctx;

264:   MPI_Comm_rank(PETSC_COMM_WORLD,&rank);

266:   DMDAGetInfo(da,0,0,0,0,&cpu_x,&cpu_y,0,0,0,0,0,0,0);

268:   proc_J = rank/cpu_x;
269:   proc_I = rank-cpu_x*proc_J;

271:   PetscMalloc(sizeof(PetscInt)*cpu_x,&LX);
272:   PetscMalloc(sizeof(PetscInt)*cpu_y,&LY);

274:   DMDAGetLocalElementSize(da,&local_mx,&local_my,NULL);
275:   VecCreate(PETSC_COMM_WORLD,&vlx);
276:   VecSetSizes(vlx,PETSC_DECIDE,cpu_x);
277:   VecSetFromOptions(vlx);

279:   VecCreate(PETSC_COMM_WORLD,&vly);
280:   VecSetSizes(vly,PETSC_DECIDE,cpu_y);
281:   VecSetFromOptions(vly);

283:   VecSetValue(vlx,proc_I,(PetscScalar)(local_mx+1.0e-9),INSERT_VALUES);
284:   VecSetValue(vly,proc_J,(PetscScalar)(local_my+1.0e-9),INSERT_VALUES);
285:   VecAssemblyBegin(vlx);VecAssemblyEnd(vlx);
286:   VecAssemblyBegin(vly);VecAssemblyEnd(vly);



290:   VecScatterCreateToAll(vlx,&ctx,&V_SEQ);
291:   VecScatterBegin(ctx,vlx,V_SEQ,INSERT_VALUES,SCATTER_FORWARD);
292:   VecScatterEnd(ctx,vlx,V_SEQ,INSERT_VALUES,SCATTER_FORWARD);
293:   VecGetArray(V_SEQ,&_a);
294:   for (i = 0; i < cpu_x; i++) LX[i] = (PetscInt)PetscRealPart(_a[i]);
295:   VecRestoreArray(V_SEQ,&_a);
296:   VecScatterDestroy(&ctx);
297:   VecDestroy(&V_SEQ);

299:   VecScatterCreateToAll(vly,&ctx,&V_SEQ);
300:   VecScatterBegin(ctx,vly,V_SEQ,INSERT_VALUES,SCATTER_FORWARD);
301:   VecScatterEnd(ctx,vly,V_SEQ,INSERT_VALUES,SCATTER_FORWARD);
302:   VecGetArray(V_SEQ,&_a);
303:   for (i = 0; i < cpu_y; i++) LY[i] = (PetscInt)PetscRealPart(_a[i]);
304:   VecRestoreArray(V_SEQ,&_a);
305:   VecScatterDestroy(&ctx);
306:   VecDestroy(&V_SEQ);



310:   *_lx = LX;
311:   *_ly = LY;

313:   VecDestroy(&vlx);
314:   VecDestroy(&vly);
315:   return(0);
316: }

320: static PetscErrorCode DMDACoordViewGnuplot2d(DM da,const char prefix[])
321: {
322:   DM             cda;
323:   Vec            coords;
324:   DMDACoor2d     **_coords;
325:   PetscInt       si,sj,nx,ny,i,j;
326:   FILE           *fp;
327:   char           fname[PETSC_MAX_PATH_LEN];
328:   PetscMPIInt    rank;

332:   MPI_Comm_rank(PETSC_COMM_WORLD,&rank);
333:   PetscSNPrintf(fname,sizeof(fname),"%s-p%1.4d.dat",prefix,rank);
334:   PetscFOpen(PETSC_COMM_SELF,fname,"w",&fp);
335:   if (!fp) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_USER,"Cannot open file");

337:   PetscFPrintf(PETSC_COMM_SELF,fp,"### Element geometry for processor %1.4d ### \n",rank);

339:   DMGetCoordinateDM(da,&cda);
340:   DMGetCoordinatesLocal(da,&coords);
341:   DMDAVecGetArray(cda,coords,&_coords);
342:   DMDAGetGhostCorners(cda,&si,&sj,0,&nx,&ny,0);
343:   for (j = sj; j < sj+ny-1; j++) {
344:     for (i = si; i < si+nx-1; i++) {
345:       PetscFPrintf(PETSC_COMM_SELF,fp,"%1.6e %1.6e \n",PetscRealPart(_coords[j][i].x),PetscRealPart(_coords[j][i].y));
346:       PetscFPrintf(PETSC_COMM_SELF,fp,"%1.6e %1.6e \n",PetscRealPart(_coords[j+1][i].x),PetscRealPart(_coords[j+1][i].y));
347:       PetscFPrintf(PETSC_COMM_SELF,fp,"%1.6e %1.6e \n",PetscRealPart(_coords[j+1][i+1].x),PetscRealPart(_coords[j+1][i+1].y));
348:       PetscFPrintf(PETSC_COMM_SELF,fp,"%1.6e %1.6e \n",PetscRealPart(_coords[j][i+1].x),PetscRealPart(_coords[j][i+1].y));
349:       PetscFPrintf(PETSC_COMM_SELF,fp,"%1.6e %1.6e \n\n",PetscRealPart(_coords[j][i].x),PetscRealPart(_coords[j][i].y));
350:     }
351:   }
352:   DMDAVecRestoreArray(cda,coords,&_coords);

354:   PetscFClose(PETSC_COMM_SELF,fp);
355:   return(0);
356: }

360: static PetscErrorCode DMDAViewGnuplot2d(DM da,Vec fields,const char comment[],const char prefix[])
361: {
362:   DM             cda;
363:   Vec            coords,local_fields;
364:   DMDACoor2d     **_coords;
365:   FILE           *fp;
366:   char           fname[PETSC_MAX_PATH_LEN];
367:   PetscMPIInt    rank;
368:   PetscInt       si,sj,nx,ny,i,j;
369:   PetscInt       n_dofs,d;
370:   PetscScalar    *_fields;

374:   MPI_Comm_rank(PETSC_COMM_WORLD,&rank);
375:   PetscSNPrintf(fname,sizeof(fname),"%s-p%1.4d.dat",prefix,rank);
376:   PetscFOpen(PETSC_COMM_SELF,fname,"w",&fp);
377:   if (!fp) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_USER,"Cannot open file");

379:   PetscFPrintf(PETSC_COMM_SELF,fp,"### %s (processor %1.4d) ### \n",comment,rank);
380:   DMDAGetInfo(da,0,0,0,0,0,0,0,&n_dofs,0,0,0,0,0);
381:   PetscFPrintf(PETSC_COMM_SELF,fp,"### x y ");
382:   for (d = 0; d < n_dofs; d++) {
383:     const char *field_name;
384:     DMDAGetFieldName(da,d,&field_name);
385:     PetscFPrintf(PETSC_COMM_SELF,fp,"%s ",field_name);
386:   }
387:   PetscFPrintf(PETSC_COMM_SELF,fp,"###\n");


390:   DMGetCoordinateDM(da,&cda);
391:   DMGetCoordinatesLocal(da,&coords);
392:   DMDAVecGetArray(cda,coords,&_coords);
393:   DMDAGetGhostCorners(cda,&si,&sj,0,&nx,&ny,0);

395:   DMCreateLocalVector(da,&local_fields);
396:   DMGlobalToLocalBegin(da,fields,INSERT_VALUES,local_fields);
397:   DMGlobalToLocalEnd(da,fields,INSERT_VALUES,local_fields);
398:   VecGetArray(local_fields,&_fields);


401:   for (j = sj; j < sj+ny; j++) {
402:     for (i = si; i < si+nx; i++) {
403:       PetscScalar coord_x,coord_y;
404:       PetscScalar field_d;

406:       coord_x = _coords[j][i].x;
407:       coord_y = _coords[j][i].y;

409:       PetscFPrintf(PETSC_COMM_SELF,fp,"%1.6e %1.6e ",PetscRealPart(coord_x),PetscRealPart(coord_y));
410:       for (d = 0; d < n_dofs; d++) {
411:         field_d = _fields[n_dofs*((i-si)+(j-sj)*(nx))+d];
412:         PetscFPrintf(PETSC_COMM_SELF,fp,"%1.6e ",PetscRealPart(field_d));
413:       }
414:       PetscFPrintf(PETSC_COMM_SELF,fp,"\n");
415:     }
416:   }
417:   VecRestoreArray(local_fields,&_fields);
418:   VecDestroy(&local_fields);

420:   DMDAVecRestoreArray(cda,coords,&_coords);

422:   PetscFClose(PETSC_COMM_SELF,fp);
423:   return(0);
424: }

428: static PetscErrorCode DMDAViewCoefficientsGnuplot2d(DM da,Vec fields,const char comment[],const char prefix[])
429: {
430:   DM                     cda;
431:   Vec                    local_fields;
432:   FILE                   *fp;
433:   char                   fname[PETSC_MAX_PATH_LEN];
434:   PetscMPIInt            rank;
435:   PetscInt               si,sj,nx,ny,i,j,p;
436:   PetscInt               n_dofs,d;
437:   GaussPointCoefficients **_coefficients;
438:   PetscErrorCode         ierr;

441:   MPI_Comm_rank(PETSC_COMM_WORLD,&rank);
442:   PetscSNPrintf(fname,sizeof(fname),"%s-p%1.4d.dat",prefix,rank);
443:   PetscFOpen(PETSC_COMM_SELF,fname,"w",&fp);
444:   if (!fp) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_USER,"Cannot open file");

446:   PetscFPrintf(PETSC_COMM_SELF,fp,"### %s (processor %1.4d) ### \n",comment,rank);
447:   DMDAGetInfo(da,0,0,0,0,0,0,0,&n_dofs,0,0,0,0,0);
448:   PetscFPrintf(PETSC_COMM_SELF,fp,"### x y ");
449:   for (d = 0; d < n_dofs; d++) {
450:     const char *field_name;
451:     DMDAGetFieldName(da,d,&field_name);
452:     PetscFPrintf(PETSC_COMM_SELF,fp,"%s ",field_name);
453:   }
454:   PetscFPrintf(PETSC_COMM_SELF,fp,"###\n");


457:   DMGetCoordinateDM(da,&cda);
458:   DMDAGetGhostCorners(cda,&si,&sj,0,&nx,&ny,0);

460:   DMCreateLocalVector(da,&local_fields);
461:   DMGlobalToLocalBegin(da,fields,INSERT_VALUES,local_fields);
462:   DMGlobalToLocalEnd(da,fields,INSERT_VALUES,local_fields);
463:   DMDAVecGetArray(da,local_fields,&_coefficients);


466:   for (j = sj; j < sj+ny; j++) {
467:     for (i = si; i < si+nx; i++) {
468:       PetscScalar coord_x,coord_y;

470:       for (p = 0; p < GAUSS_POINTS; p++) {
471:         coord_x = _coefficients[j][i].gp_coords[2*p];
472:         coord_y = _coefficients[j][i].gp_coords[2*p+1];

474:         PetscFPrintf(PETSC_COMM_SELF,fp,"%1.6e %1.6e ",PetscRealPart(coord_x),PetscRealPart(coord_y));

476:         PetscFPrintf(PETSC_COMM_SELF,fp,"%1.6e %1.6e %1.6e",PetscRealPart(_coefficients[j][i].eta[p]),PetscRealPart(_coefficients[j][i].fx[p]),PetscRealPart(_coefficients[j][i].fy[p]));
477:         PetscFPrintf(PETSC_COMM_SELF,fp,"\n");
478:       }
479:     }
480:   }
481:   DMDAVecRestoreArray(da,local_fields,&_coefficients);
482:   VecDestroy(&local_fields);

484:   PetscFClose(PETSC_COMM_SELF,fp);
485:   return(0);
486: }


489: static PetscInt ASS_MAP_wIwDI_uJuDJ(PetscInt wi,PetscInt wd,PetscInt w_NPE,PetscInt w_dof,PetscInt ui,PetscInt ud,PetscInt u_NPE,PetscInt u_dof)
490: {
491:   PetscInt ij;
492:   PetscInt r,c,nc;

494:   nc = u_NPE*u_dof;

496:   r = w_dof*wi+wd;
497:   c = u_dof*ui+ud;

499:   ij = r*nc+c;

501:   return ij;
502: }

504: static void FormStressOperatorQ1(PetscScalar Ke[],PetscScalar coords[],PetscScalar eta[])
505: {
506:   PetscInt    ngp;
507:   PetscScalar gp_xi[GAUSS_POINTS][2];
508:   PetscScalar gp_weight[GAUSS_POINTS];
509:   PetscInt    p,i,j,k;
510:   PetscScalar GNi_p[NSD][NODES_PER_EL],GNx_p[NSD][NODES_PER_EL];
511:   PetscScalar J_p,tildeD[3];
512:   PetscScalar B[3][U_DOFS*NODES_PER_EL];


515:   /* define quadrature rule */
516:   ConstructGaussQuadrature(&ngp,gp_xi,gp_weight);

518:   /* evaluate integral */
519:   for (p = 0; p < ngp; p++) {
520:     ConstructQ12D_GNi(gp_xi[p],GNi_p);
521:     ConstructQ12D_GNx(GNi_p,GNx_p,coords,&J_p);

523:     for (i = 0; i < NODES_PER_EL; i++) {
524:       PetscScalar d_dx_i = GNx_p[0][i];
525:       PetscScalar d_dy_i = GNx_p[1][i];

527:       B[0][2*i] = d_dx_i;B[0][2*i+1] = 0.0;
528:       B[1][2*i] = 0.0;B[1][2*i+1] = d_dy_i;
529:       B[2][2*i] = d_dy_i;B[2][2*i+1] = d_dx_i;
530:     }


533:     tildeD[0] = 2.0*gp_weight[p]*J_p*eta[p];
534:     tildeD[1] = 2.0*gp_weight[p]*J_p*eta[p];
535:     tildeD[2] =       gp_weight[p]*J_p*eta[p];

537:     /* form Bt tildeD B */
538:     /*
539:     Ke_ij = Bt_ik . D_kl . B_lj
540:     = B_ki . D_kl . B_lj
541:     = B_ki . D_kk . B_kj
542:     */
543:     for (i = 0; i < 8; i++) {
544:       for (j = 0; j < 8; j++) {
545:         for (k = 0; k < 3; k++) { /* Note D is diagonal for stokes */
546:           Ke[i+8*j] = Ke[i+8*j]+B[k][i]*tildeD[k]*B[k][j];
547:         }
548:       }
549:     }
550:   }
551: }

553: static void FormGradientOperatorQ1(PetscScalar Ke[],PetscScalar coords[])
554: {
555:   PetscInt    ngp;
556:   PetscScalar gp_xi[GAUSS_POINTS][2];
557:   PetscScalar gp_weight[GAUSS_POINTS];
558:   PetscInt    p,i,j,di;
559:   PetscScalar Ni_p[NODES_PER_EL];
560:   PetscScalar GNi_p[NSD][NODES_PER_EL],GNx_p[NSD][NODES_PER_EL];
561:   PetscScalar J_p,fac;


564:   /* define quadrature rule */
565:   ConstructGaussQuadrature(&ngp,gp_xi,gp_weight);

567:   /* evaluate integral */
568:   for (p = 0; p < ngp; p++) {
569:     ConstructQ12D_Ni(gp_xi[p],Ni_p);
570:     ConstructQ12D_GNi(gp_xi[p],GNi_p);
571:     ConstructQ12D_GNx(GNi_p,GNx_p,coords,&J_p);
572:     fac = gp_weight[p]*J_p;

574:     for (i = 0; i < NODES_PER_EL; i++) { /* u nodes */
575:       for (di = 0; di < NSD; di++) { /* u dofs */
576:         for (j = 0; j < 4; j++) {  /* p nodes, p dofs = 1 (ie no loop) */
577:           PetscInt IJ;
578:           /*     Ke[4*u_idx+j] = Ke[4*u_idx+j] - GNx_p[di][i] * Ni_p[j] * fac; */
579:           IJ = ASS_MAP_wIwDI_uJuDJ(i,di,NODES_PER_EL,2,j,0,NODES_PER_EL,1);

581:           Ke[IJ] = Ke[IJ]-GNx_p[di][i]*Ni_p[j]*fac;
582:         }
583:       }
584:     }
585:   }
586: }

588: static void FormDivergenceOperatorQ1(PetscScalar De[],PetscScalar coords[])
589: {
590:   PetscScalar Ge[U_DOFS*NODES_PER_EL*P_DOFS*NODES_PER_EL];
591:   PetscInt    i,j;
592:   PetscInt    nr_g,nc_g;

594:   PetscMemzero(Ge,sizeof(PetscScalar)*U_DOFS*NODES_PER_EL*P_DOFS*NODES_PER_EL);
595:   FormGradientOperatorQ1(Ge,coords);

597:   nr_g = U_DOFS*NODES_PER_EL;
598:   nc_g = P_DOFS*NODES_PER_EL;

600:   for (i = 0; i < nr_g; i++) {
601:     for (j = 0; j < nc_g; j++) {
602:       De[nr_g*j+i] = Ge[nc_g*i+j];
603:     }
604:   }
605: }

607: static void FormStabilisationOperatorQ1(PetscScalar Ke[],PetscScalar coords[],PetscScalar eta[])
608: {
609:   PetscInt    ngp;
610:   PetscScalar gp_xi[GAUSS_POINTS][2];
611:   PetscScalar gp_weight[GAUSS_POINTS];
612:   PetscInt    p,i,j;
613:   PetscScalar Ni_p[NODES_PER_EL];
614:   PetscScalar GNi_p[NSD][NODES_PER_EL],GNx_p[NSD][NODES_PER_EL];
615:   PetscScalar J_p,fac,eta_avg;


618:   /* define quadrature rule */
619:   ConstructGaussQuadrature(&ngp,gp_xi,gp_weight);

621:   /* evaluate integral */
622:   for (p = 0; p < ngp; p++) {
623:     ConstructQ12D_Ni(gp_xi[p],Ni_p);
624:     ConstructQ12D_GNi(gp_xi[p],GNi_p);
625:     ConstructQ12D_GNx(GNi_p,GNx_p,coords,&J_p);
626:     fac = gp_weight[p]*J_p;

628:     for (i = 0; i < NODES_PER_EL; i++) {
629:       for (j = 0; j < NODES_PER_EL; j++) {
630:         Ke[NODES_PER_EL*i+j] = Ke[NODES_PER_EL*i+j]-fac*(Ni_p[i]*Ni_p[j]-0.0625);
631:       }
632:     }
633:   }

635:   /* scale */
636:   eta_avg = 0.0;
637:   for (p = 0; p < ngp; p++) eta_avg += eta[p];
638:   eta_avg = (1.0/((PetscScalar)ngp))*eta_avg;
639:   fac     = 1.0/eta_avg;
640:   for (i = 0; i < NODES_PER_EL; i++) {
641:     for (j = 0; j < NODES_PER_EL; j++) {
642:       Ke[NODES_PER_EL*i+j] = fac*Ke[NODES_PER_EL*i+j];
643:     }
644:   }
645: }

647: static void FormScaledMassMatrixOperatorQ1(PetscScalar Ke[],PetscScalar coords[],PetscScalar eta[])
648: {
649:   PetscInt    ngp;
650:   PetscScalar gp_xi[GAUSS_POINTS][2];
651:   PetscScalar gp_weight[GAUSS_POINTS];
652:   PetscInt    p,i,j;
653:   PetscScalar Ni_p[NODES_PER_EL];
654:   PetscScalar GNi_p[NSD][NODES_PER_EL],GNx_p[NSD][NODES_PER_EL];
655:   PetscScalar J_p,fac,eta_avg;


658:   /* define quadrature rule */
659:   ConstructGaussQuadrature(&ngp,gp_xi,gp_weight);

661:   /* evaluate integral */
662:   for (p = 0; p < ngp; p++) {
663:     ConstructQ12D_Ni(gp_xi[p],Ni_p);
664:     ConstructQ12D_GNi(gp_xi[p],GNi_p);
665:     ConstructQ12D_GNx(GNi_p,GNx_p,coords,&J_p);
666:     fac = gp_weight[p]*J_p;

668:     for (i = 0; i < NODES_PER_EL; i++) {
669:       for (j = 0; j < NODES_PER_EL; j++) {
670:         Ke[NODES_PER_EL*i+j] = Ke[NODES_PER_EL*i+j]-fac*Ni_p[i]*Ni_p[j];
671:       }
672:     }
673:   }

675:   /* scale */
676:   eta_avg = 0.0;
677:   for (p = 0; p < ngp; p++) eta_avg += eta[p];
678:   eta_avg = (1.0/((PetscScalar)ngp))*eta_avg;
679:   fac     = 1.0/eta_avg;
680:   for (i = 0; i < NODES_PER_EL; i++) {
681:     for (j = 0; j < NODES_PER_EL; j++) {
682:       Ke[NODES_PER_EL*i+j] = fac*Ke[NODES_PER_EL*i+j];
683:     }
684:   }
685: }

687: static void FormMomentumRhsQ1(PetscScalar Fe[],PetscScalar coords[],PetscScalar fx[],PetscScalar fy[])
688: {
689:   PetscInt    ngp;
690:   PetscScalar gp_xi[GAUSS_POINTS][2];
691:   PetscScalar gp_weight[GAUSS_POINTS];
692:   PetscInt    p,i;
693:   PetscScalar Ni_p[NODES_PER_EL];
694:   PetscScalar GNi_p[NSD][NODES_PER_EL],GNx_p[NSD][NODES_PER_EL];
695:   PetscScalar J_p,fac;


698:   /* define quadrature rule */
699:   ConstructGaussQuadrature(&ngp,gp_xi,gp_weight);

701:   /* evaluate integral */
702:   for (p = 0; p < ngp; p++) {
703:     ConstructQ12D_Ni(gp_xi[p],Ni_p);
704:     ConstructQ12D_GNi(gp_xi[p],GNi_p);
705:     ConstructQ12D_GNx(GNi_p,GNx_p,coords,&J_p);
706:     fac = gp_weight[p]*J_p;

708:     for (i = 0; i < NODES_PER_EL; i++) {
709:       Fe[NSD*i]   += fac*Ni_p[i]*fx[p];
710:       Fe[NSD*i+1] += fac*Ni_p[i]*fy[p];
711:     }
712:   }
713: }

717: static PetscErrorCode GetElementCoords(DMDACoor2d **_coords,PetscInt ei,PetscInt ej,PetscScalar el_coords[])
718: {
720:   /* get coords for the element */
721:   el_coords[NSD*0+0] = _coords[ej][ei].x;el_coords[NSD*0+1] = _coords[ej][ei].y;
722:   el_coords[NSD*1+0] = _coords[ej+1][ei].x;el_coords[NSD*1+1] = _coords[ej+1][ei].y;
723:   el_coords[NSD*2+0] = _coords[ej+1][ei+1].x;el_coords[NSD*2+1] = _coords[ej+1][ei+1].y;
724:   el_coords[NSD*3+0] = _coords[ej][ei+1].x;el_coords[NSD*3+1] = _coords[ej][ei+1].y;
725:   return(0);
726: }

730: static PetscErrorCode AssembleA_Stokes(Mat A,DM stokes_da,DM properties_da,Vec properties)
731: {
732:   DM                     cda;
733:   Vec                    coords;
734:   DMDACoor2d             **_coords;
735:   MatStencil             u_eqn[NODES_PER_EL*U_DOFS]; /* 2 degrees of freedom */
736:   MatStencil             p_eqn[NODES_PER_EL*P_DOFS]; /* 1 degrees of freedom */
737:   PetscInt               sex,sey,mx,my;
738:   PetscInt               ei,ej;
739:   PetscScalar            Ae[NODES_PER_EL*U_DOFS*NODES_PER_EL*U_DOFS];
740:   PetscScalar            Ge[NODES_PER_EL*U_DOFS*NODES_PER_EL*P_DOFS];
741:   PetscScalar            De[NODES_PER_EL*P_DOFS*NODES_PER_EL*U_DOFS];
742:   PetscScalar            Ce[NODES_PER_EL*P_DOFS*NODES_PER_EL*P_DOFS];
743:   PetscScalar            el_coords[NODES_PER_EL*NSD];
744:   Vec                    local_properties;
745:   GaussPointCoefficients **props;
746:   PetscScalar            *prop_eta;
747:   PetscErrorCode         ierr;

750:   /* setup for coords */
751:   DMGetCoordinateDM(stokes_da,&cda);
752:   DMGetCoordinatesLocal(stokes_da,&coords);
753:   DMDAVecGetArray(cda,coords,&_coords);

755:   /* setup for coefficients */
756:   DMCreateLocalVector(properties_da,&local_properties);
757:   DMGlobalToLocalBegin(properties_da,properties,INSERT_VALUES,local_properties);
758:   DMGlobalToLocalEnd(properties_da,properties,INSERT_VALUES,local_properties);
759:   DMDAVecGetArray(properties_da,local_properties,&props);

761:   DMDAGetElementCorners(stokes_da,&sex,&sey,0,&mx,&my,0);
762:   for (ej = sey; ej < sey+my; ej++) {
763:     for (ei = sex; ei < sex+mx; ei++) {
764:       /* get coords for the element */
765:       GetElementCoords(_coords,ei,ej,el_coords);

767:       /* get coefficients for the element */
768:       prop_eta = props[ej][ei].eta;

770:       /* initialise element stiffness matrix */
771:       PetscMemzero(Ae,sizeof(PetscScalar)*NODES_PER_EL*U_DOFS*NODES_PER_EL*U_DOFS);
772:       PetscMemzero(Ge,sizeof(PetscScalar)*NODES_PER_EL*U_DOFS*NODES_PER_EL*P_DOFS);
773:       PetscMemzero(De,sizeof(PetscScalar)*NODES_PER_EL*P_DOFS*NODES_PER_EL*U_DOFS);
774:       PetscMemzero(Ce,sizeof(PetscScalar)*NODES_PER_EL*P_DOFS*NODES_PER_EL*P_DOFS);

776:       /* form element stiffness matrix */
777:       FormStressOperatorQ1(Ae,el_coords,prop_eta);
778:       FormGradientOperatorQ1(Ge,el_coords);
779:       FormDivergenceOperatorQ1(De,el_coords);
780:       FormStabilisationOperatorQ1(Ce,el_coords,prop_eta);

782:       /* insert element matrix into global matrix */
783:       DMDAGetElementEqnums_up(u_eqn,p_eqn,ei,ej);
784:       MatSetValuesStencil(A,NODES_PER_EL*U_DOFS,u_eqn,NODES_PER_EL*U_DOFS,u_eqn,Ae,ADD_VALUES);
785:       MatSetValuesStencil(A,NODES_PER_EL*U_DOFS,u_eqn,NODES_PER_EL*P_DOFS,p_eqn,Ge,ADD_VALUES);
786:       MatSetValuesStencil(A,NODES_PER_EL*P_DOFS,p_eqn,NODES_PER_EL*U_DOFS,u_eqn,De,ADD_VALUES);
787:       MatSetValuesStencil(A,NODES_PER_EL*P_DOFS,p_eqn,NODES_PER_EL*P_DOFS,p_eqn,Ce,ADD_VALUES);
788:     }
789:   }
790:   MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);
791:   MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);

793:   DMDAVecRestoreArray(cda,coords,&_coords);

795:   DMDAVecRestoreArray(properties_da,local_properties,&props);
796:   VecDestroy(&local_properties);
797:   return(0);
798: }

802: static PetscErrorCode AssembleA_PCStokes(Mat A,DM stokes_da,DM properties_da,Vec properties)
803: {
804:   DM                     cda;
805:   Vec                    coords;
806:   DMDACoor2d             **_coords;
807:   MatStencil             u_eqn[NODES_PER_EL*U_DOFS]; /* 2 degrees of freedom */
808:   MatStencil             p_eqn[NODES_PER_EL*P_DOFS]; /* 1 degrees of freedom */
809:   PetscInt               sex,sey,mx,my;
810:   PetscInt               ei,ej;
811:   PetscScalar            Ae[NODES_PER_EL*U_DOFS*NODES_PER_EL*U_DOFS];
812:   PetscScalar            Ge[NODES_PER_EL*U_DOFS*NODES_PER_EL*P_DOFS];
813:   PetscScalar            De[NODES_PER_EL*P_DOFS*NODES_PER_EL*U_DOFS];
814:   PetscScalar            Ce[NODES_PER_EL*P_DOFS*NODES_PER_EL*P_DOFS];
815:   PetscScalar            el_coords[NODES_PER_EL*NSD];
816:   Vec                    local_properties;
817:   GaussPointCoefficients **props;
818:   PetscScalar            *prop_eta;
819:   PetscErrorCode         ierr;

822:   /* setup for coords */
823:   DMGetCoordinateDM(stokes_da,&cda);
824:   DMGetCoordinatesLocal(stokes_da,&coords);
825:   DMDAVecGetArray(cda,coords,&_coords);

827:   /* setup for coefficients */
828:   DMCreateLocalVector(properties_da,&local_properties);
829:   DMGlobalToLocalBegin(properties_da,properties,INSERT_VALUES,local_properties);
830:   DMGlobalToLocalEnd(properties_da,properties,INSERT_VALUES,local_properties);
831:   DMDAVecGetArray(properties_da,local_properties,&props);

833:   DMDAGetElementCorners(stokes_da,&sex,&sey,0,&mx,&my,0);
834:   for (ej = sey; ej < sey+my; ej++) {
835:     for (ei = sex; ei < sex+mx; ei++) {
836:       /* get coords for the element */
837:       GetElementCoords(_coords,ei,ej,el_coords);

839:       /* get coefficients for the element */
840:       prop_eta = props[ej][ei].eta;

842:       /* initialise element stiffness matrix */
843:       PetscMemzero(Ae,sizeof(PetscScalar)*NODES_PER_EL*U_DOFS*NODES_PER_EL*U_DOFS);
844:       PetscMemzero(Ge,sizeof(PetscScalar)*NODES_PER_EL*U_DOFS*NODES_PER_EL*P_DOFS);
845:       PetscMemzero(De,sizeof(PetscScalar)*NODES_PER_EL*P_DOFS*NODES_PER_EL*U_DOFS);
846:       PetscMemzero(Ce,sizeof(PetscScalar)*NODES_PER_EL*P_DOFS*NODES_PER_EL*P_DOFS);


849:       /* form element stiffness matrix */
850:       FormStressOperatorQ1(Ae,el_coords,prop_eta);
851:       FormGradientOperatorQ1(Ge,el_coords);
852:       /*               FormDivergenceOperatorQ1(De, el_coords); */
853:       FormScaledMassMatrixOperatorQ1(Ce,el_coords,prop_eta);

855:       /* insert element matrix into global matrix */
856:       DMDAGetElementEqnums_up(u_eqn,p_eqn,ei,ej);
857:       MatSetValuesStencil(A,NODES_PER_EL*U_DOFS,u_eqn,NODES_PER_EL*U_DOFS,u_eqn,Ae,ADD_VALUES);
858:       MatSetValuesStencil(A,NODES_PER_EL*U_DOFS,u_eqn,NODES_PER_EL*P_DOFS,p_eqn,Ge,ADD_VALUES);
859:       /*     MatSetValuesStencil(A, NODES_PER_EL*P_DOFS,p_eqn, NODES_PER_EL*U_DOFS,u_eqn, De, ADD_VALUES); */
860:       MatSetValuesStencil(A,NODES_PER_EL*P_DOFS,p_eqn,NODES_PER_EL*P_DOFS,p_eqn,Ce,ADD_VALUES);
861:     }
862:   }
863:   MatAssemblyBegin(A,MAT_FINAL_ASSEMBLY);
864:   MatAssemblyEnd(A,MAT_FINAL_ASSEMBLY);

866:   DMDAVecRestoreArray(cda,coords,&_coords);

868:   DMDAVecRestoreArray(properties_da,local_properties,&props);
869:   VecDestroy(&local_properties);
870:   return(0);
871: }

875: static PetscErrorCode DMDASetValuesLocalStencil_ADD_VALUES(StokesDOF **fields_F,MatStencil u_eqn[],MatStencil p_eqn[],PetscScalar Fe_u[],PetscScalar Fe_p[])
876: {
877:   PetscInt n;

880:   for (n = 0; n < 4; n++) {
881:     fields_F[u_eqn[2*n].j][u_eqn[2*n].i].u_dof     = fields_F[u_eqn[2*n].j][u_eqn[2*n].i].u_dof+Fe_u[2*n];
882:     fields_F[u_eqn[2*n+1].j][u_eqn[2*n+1].i].v_dof = fields_F[u_eqn[2*n+1].j][u_eqn[2*n+1].i].v_dof+Fe_u[2*n+1];
883:     fields_F[p_eqn[n].j][p_eqn[n].i].p_dof         = fields_F[p_eqn[n].j][p_eqn[n].i].p_dof+Fe_p[n];
884:   }
885:   return(0);
886: }

890: static PetscErrorCode AssembleF_Stokes(Vec F,DM stokes_da,DM properties_da,Vec properties)
891: {
892:   DM                     cda;
893:   Vec                    coords;
894:   DMDACoor2d             **_coords;
895:   MatStencil             u_eqn[NODES_PER_EL*U_DOFS]; /* 2 degrees of freedom */
896:   MatStencil             p_eqn[NODES_PER_EL*P_DOFS]; /* 1 degrees of freedom */
897:   PetscInt               sex,sey,mx,my;
898:   PetscInt               ei,ej;
899:   PetscScalar            Fe[NODES_PER_EL*U_DOFS];
900:   PetscScalar            He[NODES_PER_EL*P_DOFS];
901:   PetscScalar            el_coords[NODES_PER_EL*NSD];
902:   Vec                    local_properties;
903:   GaussPointCoefficients **props;
904:   PetscScalar            *prop_fx,*prop_fy;
905:   Vec                    local_F;
906:   StokesDOF              **ff;
907:   PetscErrorCode         ierr;

910:   /* setup for coords */
911:   DMGetCoordinateDM(stokes_da,&cda);
912:   DMGetCoordinatesLocal(stokes_da,&coords);
913:   DMDAVecGetArray(cda,coords,&_coords);

915:   /* setup for coefficients */
916:   DMGetLocalVector(properties_da,&local_properties);
917:   DMGlobalToLocalBegin(properties_da,properties,INSERT_VALUES,local_properties);
918:   DMGlobalToLocalEnd(properties_da,properties,INSERT_VALUES,local_properties);
919:   DMDAVecGetArray(properties_da,local_properties,&props);

921:   /* get acces to the vector */
922:   DMGetLocalVector(stokes_da,&local_F);
923:   VecZeroEntries(local_F);
924:   DMDAVecGetArray(stokes_da,local_F,&ff);


927:   DMDAGetElementCorners(stokes_da,&sex,&sey,0,&mx,&my,0);
928:   for (ej = sey; ej < sey+my; ej++) {
929:     for (ei = sex; ei < sex+mx; ei++) {
930:       /* get coords for the element */
931:       GetElementCoords(_coords,ei,ej,el_coords);

933:       /* get coefficients for the element */
934:       prop_fx = props[ej][ei].fx;
935:       prop_fy = props[ej][ei].fy;

937:       /* initialise element stiffness matrix */
938:       PetscMemzero(Fe,sizeof(PetscScalar)*NODES_PER_EL*U_DOFS);
939:       PetscMemzero(He,sizeof(PetscScalar)*NODES_PER_EL*P_DOFS);


942:       /* form element stiffness matrix */
943:       FormMomentumRhsQ1(Fe,el_coords,prop_fx,prop_fy);

945:       /* insert element matrix into global matrix */
946:       DMDAGetElementEqnums_up(u_eqn,p_eqn,ei,ej);

948:       DMDASetValuesLocalStencil_ADD_VALUES(ff,u_eqn,p_eqn,Fe,He);
949:     }
950:   }

952:   DMDAVecRestoreArray(stokes_da,local_F,&ff);
953:   DMLocalToGlobalBegin(stokes_da,local_F,ADD_VALUES,F);
954:   DMLocalToGlobalEnd(stokes_da,local_F,ADD_VALUES,F);
955:   DMRestoreLocalVector(stokes_da,&local_F);


958:   DMDAVecRestoreArray(cda,coords,&_coords);

960:   DMDAVecRestoreArray(properties_da,local_properties,&props);
961:   DMRestoreLocalVector(properties_da,&local_properties);
962:   return(0);
963: }

967: static PetscErrorCode DMDACreateSolCx(PetscReal eta0,PetscReal eta1,PetscReal xc,PetscInt nz,PetscInt mx,PetscInt my,DM *_da,Vec *_X)
968: {
969:   DM             da,cda;
970:   Vec            X,local_X;
971:   StokesDOF      **_stokes;
972:   Vec            coords;
973:   DMDACoor2d     **_coords;
974:   PetscInt       si,sj,ei,ej,i,j;

978:   DMDACreate2d(PETSC_COMM_WORLD, DMDA_BOUNDARY_NONE, DMDA_BOUNDARY_NONE,DMDA_STENCIL_BOX,
979:                       mx+1,my+1,PETSC_DECIDE,PETSC_DECIDE,3,1,NULL,NULL,&da);
980:   DMDASetFieldName(da,0,"anlytic_Vx");
981:   DMDASetFieldName(da,1,"anlytic_Vy");
982:   DMDASetFieldName(da,2,"analytic_P");


985:   DMDASetUniformCoordinates(da,0.0,1.0,0.0,1.0,0.,0.);


988:   DMGetCoordinatesLocal(da,&coords);
989:   DMGetCoordinateDM(da,&cda);
990:   DMDAVecGetArray(cda,coords,&_coords);

992:   DMCreateGlobalVector(da,&X);
993:   DMCreateLocalVector(da,&local_X);
994:   DMDAVecGetArray(da,local_X,&_stokes);

996:   DMDAGetGhostCorners(da,&si,&sj,0,&ei,&ej,0);
997:   for (j = sj; j < sj+ej; j++) {
998:     for (i = si; i < si+ei; i++) {
999:       double pos[2],pressure,vel[2],total_stress[3],strain_rate[3];

1001:       pos[0] = PetscRealPart(_coords[j][i].x);
1002:       pos[1] = PetscRealPart(_coords[j][i].y);

1004:       evaluate_solCx(pos,eta0,eta1,xc,nz,vel,&pressure,total_stress,strain_rate);

1006:       _stokes[j][i].u_dof = vel[0];
1007:       _stokes[j][i].v_dof = vel[1];
1008:       _stokes[j][i].p_dof = pressure;
1009:     }
1010:   }
1011:   DMDAVecRestoreArray(da,local_X,&_stokes);
1012:   DMDAVecRestoreArray(cda,coords,&_coords);

1014:   DMLocalToGlobalBegin(da,local_X,INSERT_VALUES,X);
1015:   DMLocalToGlobalEnd(da,local_X,INSERT_VALUES,X);

1017:   VecDestroy(&local_X);

1019:   *_da = da;
1020:   *_X  = X;
1021:   return(0);
1022: }

1026: static PetscErrorCode StokesDAGetNodalFields(StokesDOF **fields,PetscInt ei,PetscInt ej,StokesDOF nodal_fields[])
1027: {
1029:   /* get the nodal fields */
1030:   nodal_fields[0].u_dof = fields[ej][ei].u_dof;nodal_fields[0].v_dof = fields[ej][ei].v_dof;nodal_fields[0].p_dof = fields[ej][ei].p_dof;
1031:   nodal_fields[1].u_dof = fields[ej+1][ei].u_dof;nodal_fields[1].v_dof = fields[ej+1][ei].v_dof;nodal_fields[1].p_dof = fields[ej+1][ei].p_dof;
1032:   nodal_fields[2].u_dof = fields[ej+1][ei+1].u_dof;nodal_fields[2].v_dof = fields[ej+1][ei+1].v_dof;nodal_fields[2].p_dof = fields[ej+1][ei+1].p_dof;
1033:   nodal_fields[3].u_dof = fields[ej][ei+1].u_dof;nodal_fields[3].v_dof = fields[ej][ei+1].v_dof;nodal_fields[3].p_dof = fields[ej][ei+1].p_dof;
1034:   return(0);
1035: }

1039: static PetscErrorCode DMDAIntegrateErrors(DM stokes_da,Vec X,Vec X_analytic)
1040: {
1041:   DM          cda;
1042:   Vec         coords,X_analytic_local,X_local;
1043:   DMDACoor2d  **_coords;
1044:   PetscInt    sex,sey,mx,my;
1045:   PetscInt    ei,ej;
1046:   PetscScalar el_coords[NODES_PER_EL*NSD];
1047:   StokesDOF   **stokes_analytic,**stokes;
1048:   StokesDOF   stokes_analytic_e[4],stokes_e[4];

1050:   PetscScalar    GNi_p[NSD][NODES_PER_EL],GNx_p[NSD][NODES_PER_EL];
1051:   PetscScalar    Ni_p[NODES_PER_EL];
1052:   PetscInt       ngp;
1053:   PetscScalar    gp_xi[GAUSS_POINTS][2];
1054:   PetscScalar    gp_weight[GAUSS_POINTS];
1055:   PetscInt       p,i;
1056:   PetscScalar    J_p,fac;
1057:   PetscScalar    h,p_e_L2,u_e_L2,u_e_H1,p_L2,u_L2,u_H1,tp_L2,tu_L2,tu_H1;
1058:   PetscInt       M;
1059:   PetscReal      xymin[2],xymax[2];

1063:   /* define quadrature rule */
1064:   ConstructGaussQuadrature(&ngp,gp_xi,gp_weight);

1066:   /* setup for coords */
1067:   DMGetCoordinateDM(stokes_da,&cda);
1068:   DMGetCoordinatesLocal(stokes_da,&coords);
1069:   DMDAVecGetArray(cda,coords,&_coords);

1071:   /* setup for analytic */
1072:   DMCreateLocalVector(stokes_da,&X_analytic_local);
1073:   DMGlobalToLocalBegin(stokes_da,X_analytic,INSERT_VALUES,X_analytic_local);
1074:   DMGlobalToLocalEnd(stokes_da,X_analytic,INSERT_VALUES,X_analytic_local);
1075:   DMDAVecGetArray(stokes_da,X_analytic_local,&stokes_analytic);

1077:   /* setup for solution */
1078:   DMCreateLocalVector(stokes_da,&X_local);
1079:   DMGlobalToLocalBegin(stokes_da,X,INSERT_VALUES,X_local);
1080:   DMGlobalToLocalEnd(stokes_da,X,INSERT_VALUES,X_local);
1081:   DMDAVecGetArray(stokes_da,X_local,&stokes);

1083:   DMDAGetInfo(stokes_da,0,&M,0,0,0,0,0,0,0,0,0,0,0);
1084:   DMDAGetBoundingBox(stokes_da,xymin,xymax);

1086:   h = (xymax[0]-xymin[0])/((double)M);

1088:   tp_L2 = tu_L2 = tu_H1 = 0.0;

1090:   DMDAGetElementCorners(stokes_da,&sex,&sey,0,&mx,&my,0);
1091:   for (ej = sey; ej < sey+my; ej++) {
1092:     for (ei = sex; ei < sex+mx; ei++) {
1093:       /* get coords for the element */
1094:       GetElementCoords(_coords,ei,ej,el_coords);
1095:       StokesDAGetNodalFields(stokes,ei,ej,stokes_e);
1096:       StokesDAGetNodalFields(stokes_analytic,ei,ej,stokes_analytic_e);

1098:       /* evaluate integral */
1099:       p_e_L2 = 0.0;
1100:       u_e_L2 = 0.0;
1101:       u_e_H1 = 0.0;
1102:       for (p = 0; p < ngp; p++) {
1103:         ConstructQ12D_Ni(gp_xi[p],Ni_p);
1104:         ConstructQ12D_GNi(gp_xi[p],GNi_p);
1105:         ConstructQ12D_GNx(GNi_p,GNx_p,el_coords,&J_p);
1106:         fac = gp_weight[p]*J_p;

1108:         for (i = 0; i < NODES_PER_EL; i++) {
1109:           PetscScalar u_error,v_error;

1111:           p_e_L2 = p_e_L2+fac*Ni_p[i]*(stokes_e[i].p_dof-stokes_analytic_e[i].p_dof)*(stokes_e[i].p_dof-stokes_analytic_e[i].p_dof);

1113:           u_error = stokes_e[i].u_dof-stokes_analytic_e[i].u_dof;
1114:           v_error = stokes_e[i].v_dof-stokes_analytic_e[i].v_dof;
1115:           u_e_L2 += fac*Ni_p[i]*(u_error*u_error+v_error*v_error);

1117:           u_e_H1 = u_e_H1+fac*(GNx_p[0][i]*u_error*GNx_p[0][i]*u_error              /* du/dx */
1118:                                +GNx_p[1][i]*u_error*GNx_p[1][i]*u_error               /* du/dy */
1119:                                +GNx_p[0][i]*v_error*GNx_p[0][i]*v_error               /* dv/dx */
1120:                                +GNx_p[1][i]*v_error*GNx_p[1][i]*v_error);             /* dv/dy */
1121:         }
1122:       }

1124:       tp_L2 += p_e_L2;
1125:       tu_L2 += u_e_L2;
1126:       tu_H1 += u_e_H1;
1127:     }
1128:   }
1129:   MPI_Allreduce(&tp_L2,&p_L2,1,MPIU_SCALAR,MPIU_SUM,PETSC_COMM_WORLD);
1130:   MPI_Allreduce(&tu_L2,&u_L2,1,MPIU_SCALAR,MPIU_SUM,PETSC_COMM_WORLD);
1131:   MPI_Allreduce(&tu_H1,&u_H1,1,MPIU_SCALAR,MPIU_SUM,PETSC_COMM_WORLD);
1132:   p_L2 = PetscSqrtScalar(p_L2);
1133:   u_L2 = PetscSqrtScalar(u_L2);
1134:   u_H1 = PetscSqrtScalar(u_H1);

1136:   PetscPrintf(PETSC_COMM_WORLD,"%1.4e   %1.4e   %1.4e   %1.4e \n",PetscRealPart(h),PetscRealPart(p_L2),PetscRealPart(u_L2),PetscRealPart(u_H1));


1139:   DMDAVecRestoreArray(cda,coords,&_coords);

1141:   DMDAVecRestoreArray(stokes_da,X_analytic_local,&stokes_analytic);
1142:   VecDestroy(&X_analytic_local);
1143:   DMDAVecRestoreArray(stokes_da,X_local,&stokes);
1144:   VecDestroy(&X_local);
1145:   return(0);
1146: }

1150: static PetscErrorCode solve_stokes_2d_coupled(PetscInt mx,PetscInt my)
1151: {
1152:   DM                     da_Stokes,da_prop;
1153:   PetscInt               u_dof,p_dof,dof,stencil_width;
1154:   Mat                    A,B;
1155:   PetscInt               mxl,myl;
1156:   DM                     prop_cda,vel_cda;
1157:   Vec                    prop_coords,vel_coords;
1158:   PetscInt               si,sj,nx,ny,i,j,p;
1159:   Vec                    f,X;
1160:   PetscInt               prop_dof,prop_stencil_width;
1161:   Vec                    properties,l_properties;
1162:   PetscReal              dx,dy;
1163:   PetscInt               M,N;
1164:   DMDACoor2d             **_prop_coords,**_vel_coords;
1165:   GaussPointCoefficients **element_props;
1166:   PetscInt               its;
1167:   KSP                    ksp_S;
1168:   PetscInt               coefficient_structure = 0;
1169:   PetscInt               cpu_x,cpu_y,*lx = NULL,*ly = NULL;
1170:   PetscBool              use_gp_coords = PETSC_FALSE,set;
1171:   char                   filename[PETSC_MAX_PATH_LEN];
1172:   PetscErrorCode         ierr;

1175:   /* Generate the da for velocity and pressure */
1176:   /*
1177:   We use Q1 elements for the temperature.
1178:   FEM has a 9-point stencil (BOX) or connectivity pattern
1179:   Num nodes in each direction is mx+1, my+1
1180:   */
1181:   u_dof         = U_DOFS; /* Vx, Vy - velocities */
1182:   p_dof         = P_DOFS; /* p - pressure */
1183:   dof           = u_dof+p_dof;
1184:   stencil_width = 1;
1185:   DMDACreate2d(PETSC_COMM_WORLD, DMDA_BOUNDARY_NONE, DMDA_BOUNDARY_NONE,DMDA_STENCIL_BOX,
1186:                                mx+1,my+1,PETSC_DECIDE,PETSC_DECIDE,dof,stencil_width,NULL,NULL,&da_Stokes);
1187:   DMDASetFieldName(da_Stokes,0,"Vx");
1188:   DMDASetFieldName(da_Stokes,1,"Vy");
1189:   DMDASetFieldName(da_Stokes,2,"P");

1191:   /* unit box [0,1] x [0,1] */
1192:   DMDASetUniformCoordinates(da_Stokes,0.0,1.0,0.0,1.0,0.,0.);


1195:   /* Generate element properties, we will assume all material properties are constant over the element */
1196:   /* local number of elements */
1197:   DMDAGetLocalElementSize(da_Stokes,&mxl,&myl,NULL);

1199:   /* !!! IN PARALLEL WE MUST MAKE SURE THE TWO DMDA's ALIGN !!!  */
1200:   DMDAGetInfo(da_Stokes,0,0,0,0,&cpu_x,&cpu_y,0,0,0,0,0,0,0);
1201:   DMDAGetElementOwnershipRanges2d(da_Stokes,&lx,&ly);

1203:   prop_dof           = (int)(sizeof(GaussPointCoefficients)/sizeof(PetscScalar)); /* gauss point setup */
1204:   prop_stencil_width = 0;
1205:   DMDACreate2d(PETSC_COMM_WORLD, DMDA_BOUNDARY_NONE, DMDA_BOUNDARY_NONE,DMDA_STENCIL_BOX,
1206:                                     mx,my,cpu_x,cpu_y,prop_dof,prop_stencil_width,lx,ly,&da_prop);
1207:   PetscFree(lx);
1208:   PetscFree(ly);

1210:   /* define centroid positions */
1211:   DMDAGetInfo(da_prop,0,&M,&N,0,0,0,0,0,0,0,0,0,0);
1212:   dx   = 1.0/((PetscReal)(M));
1213:   dy   = 1.0/((PetscReal)(N));

1215:   DMDASetUniformCoordinates(da_prop,0.0+0.5*dx,1.0-0.5*dx,0.0+0.5*dy,1.0-0.5*dy,0.,0);

1217:   /* define coefficients */
1218:   PetscOptionsGetInt(NULL,"-c_str",&coefficient_structure,NULL);
1219:   /*     PetscPrintf(PETSC_COMM_WORLD, "Using coeficient structure %D \n", coefficient_structure); */

1221:   DMCreateGlobalVector(da_prop,&properties);
1222:   DMCreateLocalVector(da_prop,&l_properties);
1223:   DMDAVecGetArray(da_prop,l_properties,&element_props);

1225:   DMGetCoordinateDM(da_prop,&prop_cda);
1226:   DMGetCoordinatesLocal(da_prop,&prop_coords);
1227:   DMDAVecGetArray(prop_cda,prop_coords,&_prop_coords);

1229:   DMDAGetGhostCorners(prop_cda,&si,&sj,0,&nx,&ny,0);

1231:   DMGetCoordinateDM(da_Stokes,&vel_cda);
1232:   DMGetCoordinatesLocal(da_Stokes,&vel_coords);
1233:   DMDAVecGetArray(vel_cda,vel_coords,&_vel_coords);


1236:   /* interpolate the coordinates */
1237:   for (j = sj; j < sj+ny; j++) {
1238:     for (i = si; i < si+nx; i++) {
1239:       PetscInt    ngp;
1240:       PetscScalar gp_xi[GAUSS_POINTS][2],gp_weight[GAUSS_POINTS];
1241:       PetscScalar el_coords[8];

1243:       GetElementCoords(_vel_coords,i,j,el_coords);
1244:       ConstructGaussQuadrature(&ngp,gp_xi,gp_weight);

1246:       for (p = 0; p < GAUSS_POINTS; p++) {
1247:         PetscScalar gp_x,gp_y;
1248:         PetscInt    n;
1249:         PetscScalar xi_p[2],Ni_p[4];

1251:         xi_p[0] = gp_xi[p][0];
1252:         xi_p[1] = gp_xi[p][1];
1253:         ConstructQ12D_Ni(xi_p,Ni_p);

1255:         gp_x = 0.0;
1256:         gp_y = 0.0;
1257:         for (n = 0; n < NODES_PER_EL; n++) {
1258:           gp_x = gp_x+Ni_p[n]*el_coords[2*n];
1259:           gp_y = gp_y+Ni_p[n]*el_coords[2*n+1];
1260:         }
1261:         element_props[j][i].gp_coords[2*p]   = gp_x;
1262:         element_props[j][i].gp_coords[2*p+1] = gp_y;
1263:       }
1264:     }
1265:   }

1267:   /* define the coefficients */
1268:   PetscOptionsGetBool(NULL,"-use_gp_coords",&use_gp_coords,0);

1270:   for (j = sj; j < sj+ny; j++) {
1271:     for (i = si; i < si+nx; i++) {
1272:       PetscReal centroid_x = PetscRealPart(_prop_coords[j][i].x); /* centroids of cell */
1273:       PetscReal centroid_y = PetscRealPart(_prop_coords[j][i].y);
1274:       PetscReal coord_x,coord_y;

1276:       if (coefficient_structure == 0) {
1277:         PetscReal opts_eta0,opts_eta1,opts_xc;
1278:         PetscInt  opts_nz;

1280:         opts_eta0 = 1.0;
1281:         opts_eta1 = 1.0;
1282:         opts_xc   = 0.5;
1283:         opts_nz   = 1;

1285:         PetscOptionsGetReal(NULL,"-solcx_eta0",&opts_eta0,0);
1286:         PetscOptionsGetReal(NULL,"-solcx_eta1",&opts_eta1,0);
1287:         PetscOptionsGetReal(NULL,"-solcx_xc",&opts_xc,0);
1288:         PetscOptionsGetInt(NULL,"-solcx_nz",&opts_nz,0);

1290:         for (p = 0; p < GAUSS_POINTS; p++) {
1291:           coord_x = centroid_x;
1292:           coord_y = centroid_y;
1293:           if (use_gp_coords) {
1294:             coord_x = PetscRealPart(element_props[j][i].gp_coords[2*p]);
1295:             coord_y = PetscRealPart(element_props[j][i].gp_coords[2*p+1]);
1296:           }


1299:           element_props[j][i].eta[p] = opts_eta0;
1300:           if (coord_x > opts_xc) element_props[j][i].eta[p] = opts_eta1;

1302:           element_props[j][i].fx[p] = 0.0;
1303:           element_props[j][i].fy[p] = sin((double)opts_nz*PETSC_PI*coord_y)*cos(1.0*PETSC_PI*coord_x);
1304:         }
1305:       } else if (coefficient_structure == 1) { /* square sinker */
1306:         PetscReal opts_eta0,opts_eta1,opts_dx,opts_dy;

1308:         opts_eta0 = 1.0;
1309:         opts_eta1 = 1.0;
1310:         opts_dx   = 0.50;
1311:         opts_dy   = 0.50;

1313:         PetscOptionsGetReal(NULL,"-sinker_eta0",&opts_eta0,0);
1314:         PetscOptionsGetReal(NULL,"-sinker_eta1",&opts_eta1,0);
1315:         PetscOptionsGetReal(NULL,"-sinker_dx",&opts_dx,0);
1316:         PetscOptionsGetReal(NULL,"-sinker_dy",&opts_dy,0);


1319:         for (p = 0; p < GAUSS_POINTS; p++) {
1320:           coord_x = centroid_x;
1321:           coord_y = centroid_y;
1322:           if (use_gp_coords) {
1323:             coord_x = PetscRealPart(element_props[j][i].gp_coords[2*p]);
1324:             coord_y = PetscRealPart(element_props[j][i].gp_coords[2*p+1]);
1325:           }

1327:           element_props[j][i].eta[p] = opts_eta0;
1328:           element_props[j][i].fx[p]  = 0.0;
1329:           element_props[j][i].fy[p]  = 0.0;

1331:           if ((coord_x > -0.5*opts_dx+0.5) && (coord_x < 0.5*opts_dx+0.5)) {
1332:             if ((coord_y > -0.5*opts_dy+0.5) && (coord_y < 0.5*opts_dy+0.5)) {
1333:               element_props[j][i].eta[p] =  opts_eta1;
1334:               element_props[j][i].fx[p]  =  0.0;
1335:               element_props[j][i].fy[p]  = -1.0;
1336:             }
1337:           }
1338:         }
1339:       } else if (coefficient_structure == 2) { /* circular sinker */
1340:         PetscReal opts_eta0,opts_eta1,opts_r,radius2;

1342:         opts_eta0 = 1.0;
1343:         opts_eta1 = 1.0;
1344:         opts_r    = 0.25;

1346:         PetscOptionsGetReal(NULL,"-sinker_eta0",&opts_eta0,0);
1347:         PetscOptionsGetReal(NULL,"-sinker_eta1",&opts_eta1,0);
1348:         PetscOptionsGetReal(NULL,"-sinker_r",&opts_r,0);

1350:         for (p = 0; p < GAUSS_POINTS; p++) {
1351:           coord_x = centroid_x;
1352:           coord_y = centroid_y;
1353:           if (use_gp_coords) {
1354:             coord_x = PetscRealPart(element_props[j][i].gp_coords[2*p]);
1355:             coord_y = PetscRealPart(element_props[j][i].gp_coords[2*p+1]);
1356:           }

1358:           element_props[j][i].eta[p] = opts_eta0;
1359:           element_props[j][i].fx[p]  = 0.0;
1360:           element_props[j][i].fy[p]  = 0.0;

1362:           radius2 = (coord_x-0.5)*(coord_x-0.5)+(coord_y-0.5)*(coord_y-0.5);
1363:           if (radius2 < opts_r*opts_r) {
1364:             element_props[j][i].eta[p] =  opts_eta1;
1365:             element_props[j][i].fx[p]  =  0.0;
1366:             element_props[j][i].fy[p]  = -1.0;
1367:           }
1368:         }
1369:       } else if (coefficient_structure == 3) { /* circular and rectangular inclusion */
1370:         PetscReal opts_eta0,opts_eta1,opts_r,opts_dx,opts_dy,opts_c0x,opts_c0y,opts_s0x,opts_s0y,opts_phi,radius2;

1372:         opts_eta0 = 1.0;
1373:         opts_eta1 = 1.0;
1374:         opts_r    = 0.25;
1375:         opts_c0x  = 0.35;       /* circle center */
1376:         opts_c0y  = 0.35;
1377:         opts_s0x  = 0.7;       /* square center */
1378:         opts_s0y  = 0.7;
1379:         opts_dx   = 0.25;
1380:         opts_dy   = 0.25;
1381:         opts_phi  = 25;

1383:         PetscOptionsGetReal(NULL,"-sinker_eta0",&opts_eta0,0);
1384:         PetscOptionsGetReal(NULL,"-sinker_eta1",&opts_eta1,0);
1385:         PetscOptionsGetReal(NULL,"-sinker_r",&opts_r,0);
1386:         PetscOptionsGetReal(NULL,"-sinker_c0x",&opts_c0x,0);
1387:         PetscOptionsGetReal(NULL,"-sinker_c0y",&opts_c0y,0);
1388:         PetscOptionsGetReal(NULL,"-sinker_s0x",&opts_s0x,0);
1389:         PetscOptionsGetReal(NULL,"-sinker_s0y",&opts_s0y,0);
1390:         PetscOptionsGetReal(NULL,"-sinker_dx",&opts_dx,0);
1391:         PetscOptionsGetReal(NULL,"-sinker_dy",&opts_dy,0);
1392:         PetscOptionsGetReal(NULL,"-sinker_phi",&opts_phi,0);
1393:         opts_phi *= PETSC_PI / 180;

1395:         for (p = 0; p < GAUSS_POINTS; p++) {
1396:           coord_x = centroid_x;
1397:           coord_y = centroid_y;
1398:           if (use_gp_coords) {
1399:             coord_x = PetscRealPart(element_props[j][i].gp_coords[2*p]);
1400:             coord_y = PetscRealPart(element_props[j][i].gp_coords[2*p+1]);
1401:           }

1403:           element_props[j][i].eta[p] = opts_eta0;
1404:           element_props[j][i].fx[p]  = 0.0;
1405:           element_props[j][i].fy[p]  = -0.2;

1407:           radius2 = PetscSqr(coord_x - opts_c0x) + PetscSqr(coord_y - opts_c0y);
1408:           if (radius2 < opts_r*opts_r
1409:               || (PetscAbs(+(coord_x - opts_s0x)*cos(opts_phi) + (coord_y - opts_s0y)*sin(opts_phi)) < opts_dx/2
1410:                   && PetscAbs(-(coord_x - opts_s0x)*sin(opts_phi) + (coord_y - opts_s0y)*cos(opts_phi)) < opts_dy/2)) {
1411:             element_props[j][i].eta[p] =  opts_eta1;
1412:             element_props[j][i].fx[p]  =  0.0;
1413:             element_props[j][i].fy[p]  = -1.0;
1414:           }
1415:         }
1416:       } else SETERRQ(PETSC_COMM_SELF,PETSC_ERR_USER,"Unknown coefficient_structure");
1417:     }
1418:   }
1419:   DMDAVecRestoreArray(prop_cda,prop_coords,&_prop_coords);

1421:   DMDAVecRestoreArray(vel_cda,vel_coords,&_vel_coords);

1423:   DMDAVecRestoreArray(da_prop,l_properties,&element_props);
1424:   DMLocalToGlobalBegin(da_prop,l_properties,ADD_VALUES,properties);
1425:   DMLocalToGlobalEnd(da_prop,l_properties,ADD_VALUES,properties);


1428:   DMDACoordViewGnuplot2d(da_Stokes,"mesh");
1429:   DMDAViewCoefficientsGnuplot2d(da_prop,properties,"Coeffcients for Stokes eqn.","properties");


1432:   /* Generate a matrix with the correct non-zero pattern of type AIJ. This will work in parallel and serial */
1433:   DMCreateMatrix(da_Stokes,MATAIJ,&A);
1434:   DMCreateMatrix(da_Stokes,MATAIJ,&B);
1435:   DMCreateGlobalVector(da_Stokes,&f);
1436:   DMCreateGlobalVector(da_Stokes,&X);

1438:   /* assemble A11 */
1439:   MatZeroEntries(A);
1440:   MatZeroEntries(B);
1441:   VecZeroEntries(f);

1443:   AssembleA_Stokes(A,da_Stokes,da_prop,properties);
1444:   AssembleA_PCStokes(B,da_Stokes,da_prop,properties);
1445:   /* build force vector */
1446:   AssembleF_Stokes(f,da_Stokes,da_prop,properties);

1448:   DMDABCApplyFreeSlip(da_Stokes,A,f);
1449:   DMDABCApplyFreeSlip(da_Stokes,B,NULL);

1451:   /* SOLVE */
1452:   KSPCreate(PETSC_COMM_WORLD,&ksp_S);
1453:   KSPSetOptionsPrefix(ksp_S,"stokes_");
1454:   KSPSetOperators(ksp_S,A,B,SAME_NONZERO_PATTERN);
1455:   KSPSetDM(ksp_S,da_Stokes);
1456:   KSPSetDMActive(ksp_S,PETSC_FALSE);
1457:   KSPSetFromOptions(ksp_S);
1458:   {
1459:     PC             pc;
1460:     const PetscInt ufields[] = {0,1},pfields[1] = {2};
1461:     KSPGetPC(ksp_S,&pc);
1462:     PCFieldSplitSetBlockSize(pc,3);
1463:     PCFieldSplitSetFields(pc,"u",2,ufields,ufields);
1464:     PCFieldSplitSetFields(pc,"p",1,pfields,pfields);
1465:   }

1467:   KSPSolve(ksp_S,f,X);

1469:   PetscOptionsGetString(NULL,"-o",filename,sizeof(filename),&set);
1470:   if (set) {
1471:     char        *ext;
1472:     PetscViewer viewer;
1473:     PetscViewerCreate(PETSC_COMM_WORLD,&viewer);
1474:     PetscStrrchr(filename,'.',&ext);
1475:     if (!strcmp("vts",ext)) {
1476:       PetscViewerSetType(viewer,PETSCVIEWERVTK);
1477:     } else {
1478:       PetscViewerSetType(viewer,PETSCVIEWERBINARY);
1479:     }
1480:     PetscViewerFileSetMode(viewer,FILE_MODE_WRITE);
1481:     PetscViewerFileSetName(viewer,filename);
1482:     VecView(X,viewer);
1483:     PetscViewerDestroy(&viewer);
1484:   }
1485:   DMDAViewGnuplot2d(da_Stokes,X,"Velocity solution for Stokes eqn.","X");

1487:   KSPGetIterationNumber(ksp_S,&its);

1489:   /*
1490:   {
1491:   Vec x;
1492:   PetscInt L;
1493:   VecDuplicate(f,&x);
1494:   MatMult(A,X, x);
1495:   VecAXPY(x, -1.0, f);
1496:   VecNorm(x, NORM_2, &nrm);
1497:   PetscPrintf(PETSC_COMM_WORLD, "Its. %1.4d, norm |AX-f| = %1.5e \n", its, nrm);
1498:   VecDestroy(&x);

1500:   VecNorm(X, NORM_2, &nrm);
1501:   VecGetSize(X, &L);
1502:   PetscPrintf(PETSC_COMM_WORLD, "           norm |X|/sqrt{N} = %1.5e \n", nrm/sqrt((PetscScalar)L));
1503:   }
1504:   */

1506:   if (coefficient_structure == 0) {
1507:     PetscReal opts_eta0,opts_eta1,opts_xc;
1508:     PetscInt  opts_nz,N;
1509:     DM        da_Stokes_analytic;
1510:     Vec       X_analytic;
1511:     PetscReal nrm1[3],nrm2[3],nrmI[3];

1513:     opts_eta0 = 1.0;
1514:     opts_eta1 = 1.0;
1515:     opts_xc   = 0.5;
1516:     opts_nz   = 1;

1518:     PetscOptionsGetReal(NULL,"-solcx_eta0",&opts_eta0,0);
1519:     PetscOptionsGetReal(NULL,"-solcx_eta1",&opts_eta1,0);
1520:     PetscOptionsGetReal(NULL,"-solcx_xc",&opts_xc,0);
1521:     PetscOptionsGetInt(NULL,"-solcx_nz",&opts_nz,0);


1524:     DMDACreateSolCx(opts_eta0,opts_eta1,opts_xc,opts_nz,mx,my,&da_Stokes_analytic,&X_analytic);
1525:     DMDAViewGnuplot2d(da_Stokes_analytic,X_analytic,"Analytic solution for Stokes eqn.","X_analytic");

1527:     DMDAIntegrateErrors(da_Stokes_analytic,X,X_analytic);


1530:     VecAXPY(X_analytic,-1.0,X);
1531:     VecGetSize(X_analytic,&N);
1532:     N    = N/3;

1534:     VecStrideNorm(X_analytic,0,NORM_1,&nrm1[0]);
1535:     VecStrideNorm(X_analytic,0,NORM_2,&nrm2[0]);
1536:     VecStrideNorm(X_analytic,0,NORM_INFINITY,&nrmI[0]);

1538:     VecStrideNorm(X_analytic,1,NORM_1,&nrm1[1]);
1539:     VecStrideNorm(X_analytic,1,NORM_2,&nrm2[1]);
1540:     VecStrideNorm(X_analytic,1,NORM_INFINITY,&nrmI[1]);

1542:     VecStrideNorm(X_analytic,2,NORM_1,&nrm1[2]);
1543:     VecStrideNorm(X_analytic,2,NORM_2,&nrm2[2]);
1544:     VecStrideNorm(X_analytic,2,NORM_INFINITY,&nrmI[2]);

1546:     DMDestroy(&da_Stokes_analytic);
1547:     VecDestroy(&X_analytic);
1548:   }


1551:   KSPDestroy(&ksp_S);
1552:   VecDestroy(&X);
1553:   VecDestroy(&f);
1554:   MatDestroy(&A);
1555:   MatDestroy(&B);

1557:   DMDestroy(&da_Stokes);
1558:   DMDestroy(&da_prop);

1560:   VecDestroy(&properties);
1561:   VecDestroy(&l_properties);
1562:   return(0);
1563: }

1567: int main(int argc,char **args)
1568: {
1570:   PetscInt       mx,my;

1572:   PetscInitialize(&argc,&args,(char*)0,help);

1574:   mx   = my = 10;
1575:   PetscOptionsGetInt(NULL,"-mx",&mx,NULL);
1576:   PetscOptionsGetInt(NULL,"-my",&my,NULL);

1578:   solve_stokes_2d_coupled(mx,my);

1580:   PetscFinalize();
1581:   return 0;
1582: }

1584: /* -------------------------- helpers for boundary conditions -------------------------------- */

1588: static PetscErrorCode BCApply_EAST(DM da,PetscInt d_idx,PetscScalar bc_val,Mat A,Vec b)
1589: {
1590:   DM             cda;
1591:   Vec            coords;
1592:   PetscInt       si,sj,nx,ny,i,j;
1593:   PetscInt       M,N;
1594:   DMDACoor2d     **_coords;
1595:   PetscInt       *g_idx;
1596:   PetscInt       *bc_global_ids;
1597:   PetscScalar    *bc_vals;
1598:   PetscInt       nbcs;
1599:   PetscInt       n_dofs;

1603:   /* enforce bc's */
1604:   DMDAGetGlobalIndices(da,NULL,&g_idx);

1606:   DMGetCoordinateDM(da,&cda);
1607:   DMGetCoordinatesLocal(da,&coords);
1608:   DMDAVecGetArray(cda,coords,&_coords);
1609:   DMDAGetGhostCorners(cda,&si,&sj,0,&nx,&ny,0);
1610:   DMDAGetInfo(da,0,&M,&N,0,0,0,0,&n_dofs,0,0,0,0,0);

1612:   /* --- */

1614:   PetscMalloc(sizeof(PetscInt)*ny*n_dofs,&bc_global_ids);
1615:   PetscMalloc(sizeof(PetscScalar)*ny*n_dofs,&bc_vals);

1617:   /* init the entries to -1 so VecSetValues will ignore them */
1618:   for (i = 0; i < ny*n_dofs; i++) bc_global_ids[i] = -1;

1620:   i = nx-1;
1621:   for (j = 0; j < ny; j++) {
1622:     PetscInt local_id;

1624:     local_id = i+j*nx;

1626:     bc_global_ids[j] = g_idx[n_dofs*local_id+d_idx];

1628:     bc_vals[j] =  bc_val;
1629:   }
1630:   nbcs = 0;
1631:   if ((si+nx) == (M)) nbcs = ny;

1633:   if (b != NULL) {
1634:     VecSetValues(b,nbcs,bc_global_ids,bc_vals,INSERT_VALUES);
1635:     VecAssemblyBegin(b);
1636:     VecAssemblyEnd(b);
1637:   }
1638:   if (A != NULL) {
1639:     MatZeroRows(A,nbcs,bc_global_ids,1.0,0,0);
1640:   }


1643:   PetscFree(bc_vals);
1644:   PetscFree(bc_global_ids);

1646:   DMDAVecRestoreArray(cda,coords,&_coords);
1647:   return(0);
1648: }

1652: static PetscErrorCode BCApply_WEST(DM da,PetscInt d_idx,PetscScalar bc_val,Mat A,Vec b)
1653: {
1654:   DM             cda;
1655:   Vec            coords;
1656:   PetscInt       si,sj,nx,ny,i,j;
1657:   PetscInt       M,N;
1658:   DMDACoor2d     **_coords;
1659:   PetscInt       *g_idx;
1660:   PetscInt       *bc_global_ids;
1661:   PetscScalar    *bc_vals;
1662:   PetscInt       nbcs;
1663:   PetscInt       n_dofs;

1667:   /* enforce bc's */
1668:   DMDAGetGlobalIndices(da,NULL,&g_idx);

1670:   DMGetCoordinateDM(da,&cda);
1671:   DMGetCoordinatesLocal(da,&coords);
1672:   DMDAVecGetArray(cda,coords,&_coords);
1673:   DMDAGetGhostCorners(cda,&si,&sj,0,&nx,&ny,0);
1674:   DMDAGetInfo(da,0,&M,&N,0,0,0,0,&n_dofs,0,0,0,0,0);

1676:   /* --- */

1678:   PetscMalloc(sizeof(PetscInt)*ny*n_dofs,&bc_global_ids);
1679:   PetscMalloc(sizeof(PetscScalar)*ny*n_dofs,&bc_vals);

1681:   /* init the entries to -1 so VecSetValues will ignore them */
1682:   for (i = 0; i < ny*n_dofs; i++) bc_global_ids[i] = -1;

1684:   i = 0;
1685:   for (j = 0; j < ny; j++) {
1686:     PetscInt local_id;

1688:     local_id = i+j*nx;

1690:     bc_global_ids[j] = g_idx[n_dofs*local_id+d_idx];

1692:     bc_vals[j] =  bc_val;
1693:   }
1694:   nbcs = 0;
1695:   if (si == 0) nbcs = ny;

1697:   if (b != NULL) {
1698:     VecSetValues(b,nbcs,bc_global_ids,bc_vals,INSERT_VALUES);
1699:     VecAssemblyBegin(b);
1700:     VecAssemblyEnd(b);
1701:   }
1702:   if (A != NULL) {
1703:     MatZeroRows(A,nbcs,bc_global_ids,1.0,0,0);
1704:   }


1707:   PetscFree(bc_vals);
1708:   PetscFree(bc_global_ids);

1710:   DMDAVecRestoreArray(cda,coords,&_coords);
1711:   return(0);
1712: }

1716: static PetscErrorCode BCApply_NORTH(DM da,PetscInt d_idx,PetscScalar bc_val,Mat A,Vec b)
1717: {
1718:   DM             cda;
1719:   Vec            coords;
1720:   PetscInt       si,sj,nx,ny,i,j;
1721:   PetscInt       M,N;
1722:   DMDACoor2d     **_coords;
1723:   PetscInt       *g_idx;
1724:   PetscInt       *bc_global_ids;
1725:   PetscScalar    *bc_vals;
1726:   PetscInt       nbcs;
1727:   PetscInt       n_dofs;

1731:   /* enforce bc's */
1732:   DMDAGetGlobalIndices(da,NULL,&g_idx);

1734:   DMGetCoordinateDM(da,&cda);
1735:   DMGetCoordinatesLocal(da,&coords);
1736:   DMDAVecGetArray(cda,coords,&_coords);
1737:   DMDAGetGhostCorners(cda,&si,&sj,0,&nx,&ny,0);
1738:   DMDAGetInfo(da,0,&M,&N,0,0,0,0,&n_dofs,0,0,0,0,0);

1740:   /* --- */

1742:   PetscMalloc(sizeof(PetscInt)*nx,&bc_global_ids);
1743:   PetscMalloc(sizeof(PetscScalar)*nx,&bc_vals);

1745:   /* init the entries to -1 so VecSetValues will ignore them */
1746:   for (i = 0; i < nx; i++) bc_global_ids[i] = -1;

1748:   j = ny-1;
1749:   for (i = 0; i < nx; i++) {
1750:     PetscInt local_id;

1752:     local_id = i+j*nx;

1754:     bc_global_ids[i] = g_idx[n_dofs*local_id+d_idx];

1756:     bc_vals[i] =  bc_val;
1757:   }
1758:   nbcs = 0;
1759:   if ((sj+ny) == (N)) nbcs = nx;

1761:   if (b != NULL) {
1762:     VecSetValues(b,nbcs,bc_global_ids,bc_vals,INSERT_VALUES);
1763:     VecAssemblyBegin(b);
1764:     VecAssemblyEnd(b);
1765:   }
1766:   if (A != NULL) {
1767:     MatZeroRows(A,nbcs,bc_global_ids,1.0,0,0);
1768:   }


1771:   PetscFree(bc_vals);
1772:   PetscFree(bc_global_ids);

1774:   DMDAVecRestoreArray(cda,coords,&_coords);
1775:   return(0);
1776: }

1780: static PetscErrorCode BCApply_SOUTH(DM da,PetscInt d_idx,PetscScalar bc_val,Mat A,Vec b)
1781: {
1782:   DM             cda;
1783:   Vec            coords;
1784:   PetscInt       si,sj,nx,ny,i,j;
1785:   PetscInt       M,N;
1786:   DMDACoor2d     **_coords;
1787:   PetscInt       *g_idx;
1788:   PetscInt       *bc_global_ids;
1789:   PetscScalar    *bc_vals;
1790:   PetscInt       nbcs;
1791:   PetscInt       n_dofs;

1795:   /* enforce bc's */
1796:   DMDAGetGlobalIndices(da,NULL,&g_idx);

1798:   DMGetCoordinateDM(da,&cda);
1799:   DMGetCoordinatesLocal(da,&coords);
1800:   DMDAVecGetArray(cda,coords,&_coords);
1801:   DMDAGetGhostCorners(cda,&si,&sj,0,&nx,&ny,0);
1802:   DMDAGetInfo(da,0,&M,&N,0,0,0,0,&n_dofs,0,0,0,0,0);

1804:   /* --- */

1806:   PetscMalloc(sizeof(PetscInt)*nx,&bc_global_ids);
1807:   PetscMalloc(sizeof(PetscScalar)*nx,&bc_vals);

1809:   /* init the entries to -1 so VecSetValues will ignore them */
1810:   for (i = 0; i < nx; i++) bc_global_ids[i] = -1;

1812:   j = 0;
1813:   for (i = 0; i < nx; i++) {
1814:     PetscInt local_id;

1816:     local_id = i+j*nx;

1818:     bc_global_ids[i] = g_idx[n_dofs*local_id+d_idx];

1820:     bc_vals[i] =  bc_val;
1821:   }
1822:   nbcs = 0;
1823:   if (sj == 0) nbcs = nx;

1825:   if (b != NULL) {
1826:     VecSetValues(b,nbcs,bc_global_ids,bc_vals,INSERT_VALUES);
1827:     VecAssemblyBegin(b);
1828:     VecAssemblyEnd(b);
1829:   }
1830:   if (A != NULL) {
1831:     MatZeroRows(A,nbcs,bc_global_ids,1.0,0,0);
1832:   }


1835:   PetscFree(bc_vals);
1836:   PetscFree(bc_global_ids);

1838:   DMDAVecRestoreArray(cda,coords,&_coords);
1839:   return(0);
1840: }

1844: /*
1845: Free slip sides.
1846: */
1849: static PetscErrorCode DMDABCApplyFreeSlip(DM da_Stokes,Mat A,Vec f)
1850: {

1854:   BCApply_NORTH(da_Stokes,1,0.0,A,f);
1855:   BCApply_EAST(da_Stokes,0,0.0,A,f);
1856:   BCApply_SOUTH(da_Stokes,1,0.0,A,f);
1857:   BCApply_WEST(da_Stokes,0,0.0,A,f);
1858:   return(0);
1859: }