xref: /petsc/src/dm/impls/da/gr2.c (revision ae1ee55146a7ad071171b861759b85940c7e5c67)
147c6ae99SBarry Smith /*
2aa219208SBarry Smith    Plots vectors obtained with DMDACreate2d()
347c6ae99SBarry Smith */
447c6ae99SBarry Smith 
5af0996ceSBarry Smith #include <petsc/private/dmdaimpl.h> /*I  "petscdmda.h"   I*/
68135c375SStefano Zampini #include <petsc/private/glvisvecimpl.h>
72d95be3dSVaclav Hapla #include <petsc/private/viewerhdf5impl.h>
89804daf3SBarry Smith #include <petscdraw.h>
947c6ae99SBarry Smith 
1047c6ae99SBarry Smith /*
1147c6ae99SBarry Smith         The data that is passed into the graphics callback
1247c6ae99SBarry Smith */
1347c6ae99SBarry Smith typedef struct {
14e5ab1681SLisandro Dalcin   PetscMPIInt        rank;
15e5ab1681SLisandro Dalcin   PetscInt           m, n, dof, k;
16e5ab1681SLisandro Dalcin   PetscReal          xmin, xmax, ymin, ymax, min, max;
175edff71fSBarry Smith   const PetscScalar *xy, *v;
187fe7c8feSLisandro Dalcin   PetscBool          showaxis, showgrid;
19109c9344SBarry Smith   const char        *name0, *name1;
2047c6ae99SBarry Smith } ZoomCtx;
2147c6ae99SBarry Smith 
2247c6ae99SBarry Smith /*
2347c6ae99SBarry Smith        This does the drawing for one particular field
2447c6ae99SBarry Smith     in one particular set of coordinates. It is a callback
2547c6ae99SBarry Smith     called from PetscDrawZoom()
2647c6ae99SBarry Smith */
VecView_MPI_Draw_DA2d_Zoom(PetscDraw draw,PetscCtx ctx)272a8381b2SBarry Smith static PetscErrorCode VecView_MPI_Draw_DA2d_Zoom(PetscDraw draw, PetscCtx ctx)
28d71ae5a4SJacob Faibussowitsch {
2947c6ae99SBarry Smith   ZoomCtx           *zctx = (ZoomCtx *)ctx;
306497c311SBarry Smith   PetscInt           m, n, i, j, k, dof, id;
316497c311SBarry Smith   int                c1, c2, c3, c4;
32e5ab1681SLisandro Dalcin   PetscReal          min, max, x1, x2, x3, x4, y_1, y2, y3, y4;
33e5ab1681SLisandro Dalcin   const PetscScalar *xy, *v;
3447c6ae99SBarry Smith 
3547c6ae99SBarry Smith   PetscFunctionBegin;
3647c6ae99SBarry Smith   m   = zctx->m;
3747c6ae99SBarry Smith   n   = zctx->n;
38e5ab1681SLisandro Dalcin   dof = zctx->dof;
3947c6ae99SBarry Smith   k   = zctx->k;
4047c6ae99SBarry Smith   xy  = zctx->xy;
41e5ab1681SLisandro Dalcin   v   = zctx->v;
4247c6ae99SBarry Smith   min = zctx->min;
43f3f0eb19SBarry Smith   max = zctx->max;
4447c6ae99SBarry Smith 
4547c6ae99SBarry Smith   /* PetscDraw the contour plot patch */
46d0609cedSBarry Smith   PetscDrawCollectiveBegin(draw);
4747c6ae99SBarry Smith   for (j = 0; j < n - 1; j++) {
4847c6ae99SBarry Smith     for (i = 0; i < m - 1; i++) {
490e4fe250SBarry Smith       id  = i + j * m;
500e4fe250SBarry Smith       x1  = PetscRealPart(xy[2 * id]);
510e4fe250SBarry Smith       y_1 = PetscRealPart(xy[2 * id + 1]);
52e5ab1681SLisandro Dalcin       c1  = PetscDrawRealToColor(PetscRealPart(v[k + dof * id]), min, max);
530e4fe250SBarry Smith 
540e4fe250SBarry Smith       id = i + j * m + 1;
550e4fe250SBarry Smith       x2 = PetscRealPart(xy[2 * id]);
56a39a4c7dSLisandro Dalcin       y2 = PetscRealPart(xy[2 * id + 1]);
57e5ab1681SLisandro Dalcin       c2 = PetscDrawRealToColor(PetscRealPart(v[k + dof * id]), min, max);
580e4fe250SBarry Smith 
590e4fe250SBarry Smith       id = i + j * m + 1 + m;
60a39a4c7dSLisandro Dalcin       x3 = PetscRealPart(xy[2 * id]);
610e4fe250SBarry Smith       y3 = PetscRealPart(xy[2 * id + 1]);
62e5ab1681SLisandro Dalcin       c3 = PetscDrawRealToColor(PetscRealPart(v[k + dof * id]), min, max);
630e4fe250SBarry Smith 
640e4fe250SBarry Smith       id = i + j * m + m;
65a39a4c7dSLisandro Dalcin       x4 = PetscRealPart(xy[2 * id]);
66a39a4c7dSLisandro Dalcin       y4 = PetscRealPart(xy[2 * id + 1]);
67e5ab1681SLisandro Dalcin       c4 = PetscDrawRealToColor(PetscRealPart(v[k + dof * id]), min, max);
68f3f0eb19SBarry Smith 
699566063dSJacob Faibussowitsch       PetscCall(PetscDrawTriangle(draw, x1, y_1, x2, y2, x3, y3, c1, c2, c3));
709566063dSJacob Faibussowitsch       PetscCall(PetscDrawTriangle(draw, x1, y_1, x3, y3, x4, y4, c1, c3, c4));
7147c6ae99SBarry Smith       if (zctx->showgrid) {
729566063dSJacob Faibussowitsch         PetscCall(PetscDrawLine(draw, x1, y_1, x2, y2, PETSC_DRAW_BLACK));
739566063dSJacob Faibussowitsch         PetscCall(PetscDrawLine(draw, x2, y2, x3, y3, PETSC_DRAW_BLACK));
749566063dSJacob Faibussowitsch         PetscCall(PetscDrawLine(draw, x3, y3, x4, y4, PETSC_DRAW_BLACK));
759566063dSJacob Faibussowitsch         PetscCall(PetscDrawLine(draw, x4, y4, x1, y_1, PETSC_DRAW_BLACK));
7647c6ae99SBarry Smith       }
7747c6ae99SBarry Smith     }
7847c6ae99SBarry Smith   }
797fe7c8feSLisandro Dalcin   if (zctx->showaxis && !zctx->rank) {
80e5ab1681SLisandro Dalcin     if (zctx->name0 || zctx->name1) {
81109c9344SBarry Smith       PetscReal xl, yl, xr, yr, x, y;
829566063dSJacob Faibussowitsch       PetscCall(PetscDrawGetCoordinates(draw, &xl, &yl, &xr, &yr));
83e5ab1681SLisandro Dalcin       x  = xl + .30 * (xr - xl);
84109c9344SBarry Smith       xl = xl + .01 * (xr - xl);
85e5ab1681SLisandro Dalcin       y  = yr - .30 * (yr - yl);
86109c9344SBarry Smith       yl = yl + .01 * (yr - yl);
879566063dSJacob Faibussowitsch       if (zctx->name0) PetscCall(PetscDrawString(draw, x, yl, PETSC_DRAW_BLACK, zctx->name0));
889566063dSJacob Faibussowitsch       if (zctx->name1) PetscCall(PetscDrawStringVertical(draw, xl, y, PETSC_DRAW_BLACK, zctx->name1));
89109c9344SBarry Smith     }
900e4fe250SBarry Smith     /*
910e4fe250SBarry Smith        Ideally we would use the PetscDrawAxis object to manage displaying the coordinate limits
920e4fe250SBarry Smith        but that may require some refactoring.
930e4fe250SBarry Smith     */
94e5ab1681SLisandro Dalcin     {
957fe7c8feSLisandro Dalcin       double    xmin = (double)zctx->xmin, ymin = (double)zctx->ymin;
967fe7c8feSLisandro Dalcin       double    xmax = (double)zctx->xmax, ymax = (double)zctx->ymax;
979371c9d4SSatish Balay       char      value[16];
989371c9d4SSatish Balay       size_t    len;
999371c9d4SSatish Balay       PetscReal w;
1009566063dSJacob Faibussowitsch       PetscCall(PetscSNPrintf(value, 16, "%0.2e", xmin));
1019566063dSJacob Faibussowitsch       PetscCall(PetscDrawString(draw, xmin, ymin - .05 * (ymax - ymin), PETSC_DRAW_BLACK, value));
1029566063dSJacob Faibussowitsch       PetscCall(PetscSNPrintf(value, 16, "%0.2e", xmax));
1039566063dSJacob Faibussowitsch       PetscCall(PetscStrlen(value, &len));
1049566063dSJacob Faibussowitsch       PetscCall(PetscDrawStringGetSize(draw, &w, NULL));
1059566063dSJacob Faibussowitsch       PetscCall(PetscDrawString(draw, xmax - len * w, ymin - .05 * (ymax - ymin), PETSC_DRAW_BLACK, value));
1069566063dSJacob Faibussowitsch       PetscCall(PetscSNPrintf(value, 16, "%0.2e", ymin));
1079566063dSJacob Faibussowitsch       PetscCall(PetscDrawString(draw, xmin - .05 * (xmax - xmin), ymin, PETSC_DRAW_BLACK, value));
1089566063dSJacob Faibussowitsch       PetscCall(PetscSNPrintf(value, 16, "%0.2e", ymax));
1099566063dSJacob Faibussowitsch       PetscCall(PetscDrawString(draw, xmin - .05 * (xmax - xmin), ymax, PETSC_DRAW_BLACK, value));
110e5ab1681SLisandro Dalcin     }
111e5ab1681SLisandro Dalcin   }
112d0609cedSBarry Smith   PetscDrawCollectiveEnd(draw);
1133ba16761SJacob Faibussowitsch   PetscFunctionReturn(PETSC_SUCCESS);
11447c6ae99SBarry Smith }
11547c6ae99SBarry Smith 
VecView_MPI_Draw_DA2d(Vec xin,PetscViewer viewer)11666976f2fSJacob Faibussowitsch static PetscErrorCode VecView_MPI_Draw_DA2d(Vec xin, PetscViewer viewer)
117d71ae5a4SJacob Faibussowitsch {
1189a42bb27SBarry Smith   DM                  da, dac, dag;
119a74ba6f7SBarry Smith   PetscInt            N, s, M, w, ncoors = 4;
12047c6ae99SBarry Smith   const PetscInt     *lx, *ly;
121e5ab1681SLisandro Dalcin   PetscReal           coors[4];
12247c6ae99SBarry Smith   PetscDraw           draw, popup;
12347c6ae99SBarry Smith   PetscBool           isnull, useports = PETSC_FALSE;
12447c6ae99SBarry Smith   MPI_Comm            comm;
12547c6ae99SBarry Smith   Vec                 xlocal, xcoor, xcoorl;
126bff4a2f0SMatthew G. Knepley   DMBoundaryType      bx, by;
127aa219208SBarry Smith   DMDAStencilType     st;
12847c6ae99SBarry Smith   ZoomCtx             zctx;
1290298fd71SBarry Smith   PetscDrawViewPorts *ports = NULL;
13047c6ae99SBarry Smith   PetscViewerFormat   format;
13120d0051dSBarry Smith   PetscInt           *displayfields;
13267dd0837SBarry Smith   PetscInt            ndisplayfields, i, nbounds;
13367dd0837SBarry Smith   const PetscReal    *bounds;
13447c6ae99SBarry Smith 
13547c6ae99SBarry Smith   PetscFunctionBegin;
13647c6ae99SBarry Smith   zctx.showgrid = PETSC_FALSE;
1377fe7c8feSLisandro Dalcin   zctx.showaxis = PETSC_TRUE;
1388865f1eaSKarl Rupp 
1399566063dSJacob Faibussowitsch   PetscCall(PetscViewerDrawGetDraw(viewer, 0, &draw));
1409566063dSJacob Faibussowitsch   PetscCall(PetscDrawIsNull(draw, &isnull));
1413ba16761SJacob Faibussowitsch   if (isnull) PetscFunctionReturn(PETSC_SUCCESS);
1425b399a63SLisandro Dalcin 
1439566063dSJacob Faibussowitsch   PetscCall(PetscViewerDrawGetBounds(viewer, &nbounds, &bounds));
14447c6ae99SBarry Smith 
1459566063dSJacob Faibussowitsch   PetscCall(VecGetDM(xin, &da));
1467a8be351SBarry Smith   PetscCheck(da, PetscObjectComm((PetscObject)xin), PETSC_ERR_ARG_WRONG, "Vector not generated from a DMDA");
14747c6ae99SBarry Smith 
1489566063dSJacob Faibussowitsch   PetscCall(PetscObjectGetComm((PetscObject)xin, &comm));
1499566063dSJacob Faibussowitsch   PetscCallMPI(MPI_Comm_rank(comm, &zctx.rank));
15047c6ae99SBarry Smith 
1519566063dSJacob Faibussowitsch   PetscCall(DMDAGetInfo(da, NULL, &M, &N, NULL, &zctx.m, &zctx.n, NULL, &w, &s, &bx, &by, NULL, &st));
1529566063dSJacob Faibussowitsch   PetscCall(DMDAGetOwnershipRanges(da, &lx, &ly, NULL));
15347c6ae99SBarry Smith 
15447c6ae99SBarry Smith   /*
15547c6ae99SBarry Smith      Obtain a sequential vector that is going to contain the local values plus ONE layer of
156aa219208SBarry Smith      ghosted values to draw the graphics from. We also need its corresponding DMDA (dac) that will
157d5b43468SJose E. Roman      update the local values plus ONE layer of ghost values.
15847c6ae99SBarry Smith   */
1599566063dSJacob Faibussowitsch   PetscCall(PetscObjectQuery((PetscObject)da, "GraphicsGhosted", (PetscObject *)&xlocal));
16047c6ae99SBarry Smith   if (!xlocal) {
161bff4a2f0SMatthew G. Knepley     if (bx != DM_BOUNDARY_NONE || by != DM_BOUNDARY_NONE || s != 1 || st != DMDA_STENCIL_BOX) {
16247c6ae99SBarry Smith       /*
16347c6ae99SBarry Smith          if original da is not of stencil width one, or periodic or not a box stencil then
164aa219208SBarry Smith          create a special DMDA to handle one level of ghost points for graphics
16547c6ae99SBarry Smith       */
1669566063dSJacob Faibussowitsch       PetscCall(DMDACreate2d(comm, DM_BOUNDARY_NONE, DM_BOUNDARY_NONE, DMDA_STENCIL_BOX, M, N, zctx.m, zctx.n, w, 1, lx, ly, &dac));
1679566063dSJacob Faibussowitsch       PetscCall(DMSetUp(dac));
1686aad120cSJose E. Roman       PetscCall(PetscInfo(da, "Creating auxiliary DMDA for managing graphics ghost points\n"));
16947c6ae99SBarry Smith     } else {
17047c6ae99SBarry Smith       /* otherwise we can use the da we already have */
17147c6ae99SBarry Smith       dac = da;
17247c6ae99SBarry Smith     }
17347c6ae99SBarry Smith     /* create local vector for holding ghosted values used in graphics */
1749566063dSJacob Faibussowitsch     PetscCall(DMCreateLocalVector(dac, &xlocal));
17547c6ae99SBarry Smith     if (dac != da) {
17615229ffcSPierre Jolivet       /* don't keep any public reference of this DMDA, it is only available through xlocal */
1779566063dSJacob Faibussowitsch       PetscCall(PetscObjectDereference((PetscObject)dac));
17847c6ae99SBarry Smith     } else {
17947c6ae99SBarry Smith       /* remove association between xlocal and da, because below we compose in the opposite
18047c6ae99SBarry Smith          direction and if we left this connect we'd get a loop, so the objects could
18147c6ae99SBarry Smith          never be destroyed */
1829566063dSJacob Faibussowitsch       PetscCall(PetscObjectRemoveReference((PetscObject)xlocal, "__PETSc_dm"));
18347c6ae99SBarry Smith     }
1849566063dSJacob Faibussowitsch     PetscCall(PetscObjectCompose((PetscObject)da, "GraphicsGhosted", (PetscObject)xlocal));
1859566063dSJacob Faibussowitsch     PetscCall(PetscObjectDereference((PetscObject)xlocal));
18647c6ae99SBarry Smith   } else {
187bff4a2f0SMatthew G. Knepley     if (bx != DM_BOUNDARY_NONE || by != DM_BOUNDARY_NONE || s != 1 || st != DMDA_STENCIL_BOX) {
1889566063dSJacob Faibussowitsch       PetscCall(VecGetDM(xlocal, &dac));
189f7923d8aSBarry Smith     } else {
190f7923d8aSBarry Smith       dac = da;
19147c6ae99SBarry Smith     }
19247c6ae99SBarry Smith   }
19347c6ae99SBarry Smith 
19447c6ae99SBarry Smith   /*
19547c6ae99SBarry Smith       Get local (ghosted) values of vector
19647c6ae99SBarry Smith   */
1979566063dSJacob Faibussowitsch   PetscCall(DMGlobalToLocalBegin(dac, xin, INSERT_VALUES, xlocal));
1989566063dSJacob Faibussowitsch   PetscCall(DMGlobalToLocalEnd(dac, xin, INSERT_VALUES, xlocal));
1999566063dSJacob Faibussowitsch   PetscCall(VecGetArrayRead(xlocal, &zctx.v));
20047c6ae99SBarry Smith 
201832b7cebSLisandro Dalcin   /*
202832b7cebSLisandro Dalcin       Get coordinates of nodes
203832b7cebSLisandro Dalcin   */
2049566063dSJacob Faibussowitsch   PetscCall(DMGetCoordinates(da, &xcoor));
20547c6ae99SBarry Smith   if (!xcoor) {
2069566063dSJacob Faibussowitsch     PetscCall(DMDASetUniformCoordinates(da, 0.0, 1.0, 0.0, 1.0, 0.0, 0.0));
2079566063dSJacob Faibussowitsch     PetscCall(DMGetCoordinates(da, &xcoor));
20847c6ae99SBarry Smith   }
20947c6ae99SBarry Smith 
21047c6ae99SBarry Smith   /*
21147c6ae99SBarry Smith       Determine the min and max coordinates in plot
21247c6ae99SBarry Smith   */
2139566063dSJacob Faibussowitsch   PetscCall(VecStrideMin(xcoor, 0, NULL, &zctx.xmin));
2149566063dSJacob Faibussowitsch   PetscCall(VecStrideMax(xcoor, 0, NULL, &zctx.xmax));
2159566063dSJacob Faibussowitsch   PetscCall(VecStrideMin(xcoor, 1, NULL, &zctx.ymin));
2169566063dSJacob Faibussowitsch   PetscCall(VecStrideMax(xcoor, 1, NULL, &zctx.ymax));
2179566063dSJacob Faibussowitsch   PetscCall(PetscOptionsGetBool(NULL, NULL, "-draw_contour_axis", &zctx.showaxis, NULL));
2187fe7c8feSLisandro Dalcin   if (zctx.showaxis) {
2199371c9d4SSatish Balay     coors[0] = zctx.xmin - .05 * (zctx.xmax - zctx.xmin);
2209371c9d4SSatish Balay     coors[1] = zctx.ymin - .05 * (zctx.ymax - zctx.ymin);
2219371c9d4SSatish Balay     coors[2] = zctx.xmax + .05 * (zctx.xmax - zctx.xmin);
2229371c9d4SSatish Balay     coors[3] = zctx.ymax + .05 * (zctx.ymax - zctx.ymin);
2237fe7c8feSLisandro Dalcin   } else {
2249371c9d4SSatish Balay     coors[0] = zctx.xmin;
2259371c9d4SSatish Balay     coors[1] = zctx.ymin;
2269371c9d4SSatish Balay     coors[2] = zctx.xmax;
2279371c9d4SSatish Balay     coors[3] = zctx.ymax;
2287fe7c8feSLisandro Dalcin   }
2299566063dSJacob Faibussowitsch   PetscCall(PetscOptionsGetRealArray(NULL, NULL, "-draw_coordinates", coors, &ncoors, NULL));
2309566063dSJacob Faibussowitsch   PetscCall(PetscInfo(da, "Preparing DMDA 2d contour plot coordinates %g %g %g %g\n", (double)coors[0], (double)coors[1], (double)coors[2], (double)coors[3]));
231a74ba6f7SBarry Smith 
23247c6ae99SBarry Smith   /*
233832b7cebSLisandro Dalcin       Get local ghosted version of coordinates
23447c6ae99SBarry Smith   */
2359566063dSJacob Faibussowitsch   PetscCall(PetscObjectQuery((PetscObject)da, "GraphicsCoordinateGhosted", (PetscObject *)&xcoorl));
23647c6ae99SBarry Smith   if (!xcoorl) {
237aa219208SBarry Smith     /* create DMDA to get local version of graphics */
2389566063dSJacob Faibussowitsch     PetscCall(DMDACreate2d(comm, DM_BOUNDARY_NONE, DM_BOUNDARY_NONE, DMDA_STENCIL_BOX, M, N, zctx.m, zctx.n, 2, 1, lx, ly, &dag));
2399566063dSJacob Faibussowitsch     PetscCall(DMSetUp(dag));
2406aad120cSJose E. Roman     PetscCall(PetscInfo(dag, "Creating auxiliary DMDA for managing graphics coordinates ghost points\n"));
2419566063dSJacob Faibussowitsch     PetscCall(DMCreateLocalVector(dag, &xcoorl));
2429566063dSJacob Faibussowitsch     PetscCall(PetscObjectCompose((PetscObject)da, "GraphicsCoordinateGhosted", (PetscObject)xcoorl));
2439566063dSJacob Faibussowitsch     PetscCall(PetscObjectDereference((PetscObject)dag));
2449566063dSJacob Faibussowitsch     PetscCall(PetscObjectDereference((PetscObject)xcoorl));
2451baa6e33SBarry Smith   } else PetscCall(VecGetDM(xcoorl, &dag));
2469566063dSJacob Faibussowitsch   PetscCall(DMGlobalToLocalBegin(dag, xcoor, INSERT_VALUES, xcoorl));
2479566063dSJacob Faibussowitsch   PetscCall(DMGlobalToLocalEnd(dag, xcoor, INSERT_VALUES, xcoorl));
2489566063dSJacob Faibussowitsch   PetscCall(VecGetArrayRead(xcoorl, &zctx.xy));
2499566063dSJacob Faibussowitsch   PetscCall(DMDAGetCoordinateName(da, 0, &zctx.name0));
2509566063dSJacob Faibussowitsch   PetscCall(DMDAGetCoordinateName(da, 1, &zctx.name1));
25147c6ae99SBarry Smith 
25247c6ae99SBarry Smith   /*
25347c6ae99SBarry Smith       Get information about size of area each processor must do graphics for
25447c6ae99SBarry Smith   */
2559566063dSJacob Faibussowitsch   PetscCall(DMDAGetInfo(dac, NULL, &M, &N, NULL, NULL, NULL, NULL, &zctx.dof, NULL, &bx, &by, NULL, NULL));
2569566063dSJacob Faibussowitsch   PetscCall(DMDAGetGhostCorners(dac, NULL, NULL, NULL, &zctx.m, &zctx.n, NULL));
2579566063dSJacob Faibussowitsch   PetscCall(PetscOptionsGetBool(NULL, NULL, "-draw_contour_grid", &zctx.showgrid, NULL));
2584e6118eeSBarry Smith 
2599566063dSJacob Faibussowitsch   PetscCall(DMDASelectFields(da, &ndisplayfields, &displayfields));
2609566063dSJacob Faibussowitsch   PetscCall(PetscViewerGetFormat(viewer, &format));
2619566063dSJacob Faibussowitsch   PetscCall(PetscOptionsGetBool(NULL, NULL, "-draw_ports", &useports, NULL));
262832b7cebSLisandro Dalcin   if (format == PETSC_VIEWER_DRAW_PORTS) useports = PETSC_TRUE;
263832b7cebSLisandro Dalcin   if (useports) {
2649566063dSJacob Faibussowitsch     PetscCall(PetscViewerDrawGetDraw(viewer, 0, &draw));
2659566063dSJacob Faibussowitsch     PetscCall(PetscDrawCheckResizedWindow(draw));
2669566063dSJacob Faibussowitsch     PetscCall(PetscDrawClear(draw));
2679566063dSJacob Faibussowitsch     PetscCall(PetscDrawViewPortsCreate(draw, ndisplayfields, &ports));
268e5ab1681SLisandro Dalcin   }
26920d0051dSBarry Smith 
270832b7cebSLisandro Dalcin   /*
271832b7cebSLisandro Dalcin       Loop over each field; drawing each in a different window
272832b7cebSLisandro Dalcin   */
27320d0051dSBarry Smith   for (i = 0; i < ndisplayfields; i++) {
27420d0051dSBarry Smith     zctx.k = displayfields[i];
2755b399a63SLisandro Dalcin 
276e5ab1681SLisandro Dalcin     /* determine the min and max value in plot */
2779566063dSJacob Faibussowitsch     PetscCall(VecStrideMin(xin, zctx.k, NULL, &zctx.min));
2789566063dSJacob Faibussowitsch     PetscCall(VecStrideMax(xin, zctx.k, NULL, &zctx.max));
27967dd0837SBarry Smith     if (zctx.k < nbounds) {
280f3f0eb19SBarry Smith       zctx.min = bounds[2 * zctx.k];
281f3f0eb19SBarry Smith       zctx.max = bounds[2 * zctx.k + 1];
28267dd0837SBarry Smith     }
28347c6ae99SBarry Smith     if (zctx.min == zctx.max) {
28447c6ae99SBarry Smith       zctx.min -= 1.e-12;
28547c6ae99SBarry Smith       zctx.max += 1.e-12;
28647c6ae99SBarry Smith     }
2879566063dSJacob Faibussowitsch     PetscCall(PetscInfo(da, "DMDA 2d contour plot min %g max %g\n", (double)zctx.min, (double)zctx.max));
28847c6ae99SBarry Smith 
289832b7cebSLisandro Dalcin     if (useports) {
2909566063dSJacob Faibussowitsch       PetscCall(PetscDrawViewPortsSet(ports, i));
291832b7cebSLisandro Dalcin     } else {
292832b7cebSLisandro Dalcin       const char *title;
2939566063dSJacob Faibussowitsch       PetscCall(PetscViewerDrawGetDraw(viewer, i, &draw));
2949566063dSJacob Faibussowitsch       PetscCall(DMDAGetFieldName(da, zctx.k, &title));
2959566063dSJacob Faibussowitsch       if (title) PetscCall(PetscDrawSetTitle(draw, title));
296832b7cebSLisandro Dalcin     }
297832b7cebSLisandro Dalcin 
2989566063dSJacob Faibussowitsch     PetscCall(PetscDrawGetPopup(draw, &popup));
2999566063dSJacob Faibussowitsch     PetscCall(PetscDrawScalePopup(popup, zctx.min, zctx.max));
3009566063dSJacob Faibussowitsch     PetscCall(PetscDrawSetCoordinates(draw, coors[0], coors[1], coors[2], coors[3]));
3019566063dSJacob Faibussowitsch     PetscCall(PetscDrawZoom(draw, VecView_MPI_Draw_DA2d_Zoom, &zctx));
3029566063dSJacob Faibussowitsch     if (!useports) PetscCall(PetscDrawSave(draw));
30347c6ae99SBarry Smith   }
304832b7cebSLisandro Dalcin   if (useports) {
3059566063dSJacob Faibussowitsch     PetscCall(PetscViewerDrawGetDraw(viewer, 0, &draw));
3069566063dSJacob Faibussowitsch     PetscCall(PetscDrawSave(draw));
307832b7cebSLisandro Dalcin   }
308832b7cebSLisandro Dalcin 
3099566063dSJacob Faibussowitsch   PetscCall(PetscDrawViewPortsDestroy(ports));
3109566063dSJacob Faibussowitsch   PetscCall(PetscFree(displayfields));
3119566063dSJacob Faibussowitsch   PetscCall(VecRestoreArrayRead(xcoorl, &zctx.xy));
3129566063dSJacob Faibussowitsch   PetscCall(VecRestoreArrayRead(xlocal, &zctx.v));
3133ba16761SJacob Faibussowitsch   PetscFunctionReturn(PETSC_SUCCESS);
31447c6ae99SBarry Smith }
31547c6ae99SBarry Smith 
3160da24e51SJuha Jäykkä #if defined(PETSC_HAVE_HDF5)
VecGetHDF5ChunkSize(DM_DA * da,Vec xin,PetscInt dimension,PetscInt timestep,hsize_t * chunkDims)317d71ae5a4SJacob Faibussowitsch static PetscErrorCode VecGetHDF5ChunkSize(DM_DA *da, Vec xin, PetscInt dimension, PetscInt timestep, hsize_t *chunkDims)
318d71ae5a4SJacob Faibussowitsch {
319d4190030SJed Brown   PetscMPIInt comm_size;
320561a82e7SJed Brown   hsize_t     chunk_size, target_size, dim;
321561a82e7SJed Brown   hsize_t     vec_size = sizeof(PetscScalar) * da->M * da->N * da->P * da->w;
322561a82e7SJed Brown   hsize_t     avg_local_vec_size, KiB = 1024, MiB = KiB * KiB, GiB = MiB * KiB, min_size = MiB;
323561a82e7SJed Brown   hsize_t     max_chunks     = 64 * KiB; /* HDF5 internal limitation */
324561a82e7SJed Brown   hsize_t     max_chunk_size = 4 * GiB;  /* HDF5 internal limitation */
325b7c0efcaSStefano Zampini   hsize_t     zslices = da->p, yslices = da->n, xslices = da->m;
3260da24e51SJuha Jäykkä 
327cb5c4f94SJuha Jäykkä   PetscFunctionBegin;
3289566063dSJacob Faibussowitsch   PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)xin), &comm_size));
329b7c0efcaSStefano Zampini   avg_local_vec_size = (hsize_t)PetscCeilInt64(vec_size, comm_size); /* we will attempt to use this as the chunk size */
3300da24e51SJuha Jäykkä 
331faa75363SBarry Smith   target_size = (hsize_t)PetscMin((PetscInt64)vec_size, PetscMin((PetscInt64)max_chunk_size, PetscMax((PetscInt64)avg_local_vec_size, PetscMax(PetscCeilInt64(vec_size, max_chunks), (PetscInt64)min_size))));
3327d310018SBarry Smith   /* following line uses sizeof(PetscReal) instead of sizeof(PetscScalar) because the last dimension of chunkDims[] captures the 2* when complex numbers are being used */
3337d310018SBarry Smith   chunk_size = (hsize_t)PetscMax(1, chunkDims[0]) * PetscMax(1, chunkDims[1]) * PetscMax(1, chunkDims[2]) * PetscMax(1, chunkDims[3]) * PetscMax(1, chunkDims[4]) * PetscMax(1, chunkDims[5]) * sizeof(PetscReal);
3340da24e51SJuha Jäykkä 
335cb5c4f94SJuha Jäykkä   /*
336cb5c4f94SJuha Jäykkä    if size/rank > max_chunk_size, we need radical measures: even going down to
337cb5c4f94SJuha Jäykkä    avg_local_vec_size is not enough, so we simply use chunk size of 4 GiB no matter
338cb5c4f94SJuha Jäykkä    what, composed in the most efficient way possible.
339cb5c4f94SJuha Jäykkä    N.B. this minimises the number of chunks, which may or may not be the optimal
340cb5c4f94SJuha Jäykkä    solution. In a BG, for example, the optimal solution is probably to make # chunks = #
341cb5c4f94SJuha Jäykkä    IO nodes involved, but this author has no access to a BG to figure out how to
342cb5c4f94SJuha Jäykkä    reliably find the right number. And even then it may or may not be enough.
343cb5c4f94SJuha Jäykkä    */
3440da24e51SJuha Jäykkä   if (avg_local_vec_size > max_chunk_size) {
345b7c0efcaSStefano Zampini     hsize_t zslices_full = da->P;
346b7c0efcaSStefano Zampini     hsize_t yslices_full = da->N;
347b7c0efcaSStefano Zampini 
348cb5c4f94SJuha Jäykkä     /* check if we can just split local z-axis: is that enough? */
349b7c0efcaSStefano Zampini     zslices = PetscCeilInt64(vec_size, da->p * max_chunk_size) * zslices;
350b7c0efcaSStefano Zampini     if (zslices > zslices_full) {
351cb5c4f94SJuha Jäykkä       /* lattice is too large in xy-directions, splitting z only is not enough */
352b7c0efcaSStefano Zampini       zslices = zslices_full;
353b7c0efcaSStefano Zampini       yslices = PetscCeilInt64(vec_size, zslices * da->n * max_chunk_size) * yslices;
354b7c0efcaSStefano Zampini       if (yslices > yslices_full) {
355cb5c4f94SJuha Jäykkä         /* lattice is too large in x-direction, splitting along z, y is not enough */
356b7c0efcaSStefano Zampini         yslices = yslices_full;
357b7c0efcaSStefano Zampini         xslices = PetscCeilInt64(vec_size, zslices * yslices * da->m * max_chunk_size) * xslices;
3580da24e51SJuha Jäykkä       }
3590da24e51SJuha Jäykkä     }
3600da24e51SJuha Jäykkä     dim = 0;
361ad540459SPierre Jolivet     if (timestep >= 0) ++dim;
362cb5c4f94SJuha Jäykkä     /* prefer to split z-axis, even down to planar slices */
363c73cfb54SMatthew G. Knepley     if (dimension == 3) {
364cb5c4f94SJuha Jäykkä       chunkDims[dim++] = (hsize_t)da->P / zslices;
365cb5c4f94SJuha Jäykkä       chunkDims[dim++] = (hsize_t)da->N / yslices;
366cb5c4f94SJuha Jäykkä       chunkDims[dim++] = (hsize_t)da->M / xslices;
3670da24e51SJuha Jäykkä     } else {
368cb5c4f94SJuha Jäykkä       /* This is a 2D world exceeding 4GiB in size; yes, I've seen them, even used myself */
369cb5c4f94SJuha Jäykkä       chunkDims[dim++] = (hsize_t)da->N / yslices;
370cb5c4f94SJuha Jäykkä       chunkDims[dim++] = (hsize_t)da->M / xslices;
3710da24e51SJuha Jäykkä     }
3720da24e51SJuha Jäykkä     chunk_size = (hsize_t)PetscMax(1, chunkDims[0]) * PetscMax(1, chunkDims[1]) * PetscMax(1, chunkDims[2]) * PetscMax(1, chunkDims[3]) * PetscMax(1, chunkDims[4]) * PetscMax(1, chunkDims[5]) * sizeof(double);
3730da24e51SJuha Jäykkä   } else {
3740da24e51SJuha Jäykkä     if (target_size < chunk_size) {
375cb5c4f94SJuha Jäykkä       /* only change the defaults if target_size < chunk_size */
3760da24e51SJuha Jäykkä       dim = 0;
377ad540459SPierre Jolivet       if (timestep >= 0) ++dim;
378cb5c4f94SJuha Jäykkä       /* prefer to split z-axis, even down to planar slices */
379c73cfb54SMatthew G. Knepley       if (dimension == 3) {
380cb5c4f94SJuha Jäykkä         /* try splitting the z-axis to core-size bits, i.e. divide chunk size by # comm_size in z-direction */
3810da24e51SJuha Jäykkä         if (target_size >= chunk_size / da->p) {
382cb5c4f94SJuha Jäykkä           /* just make chunks the size of <local_z>x<whole_world_y>x<whole_world_x>x<dof> */
383faa75363SBarry Smith           chunkDims[dim] = (hsize_t)PetscCeilInt(da->P, da->p);
3840da24e51SJuha Jäykkä         } else {
385cb5c4f94SJuha Jäykkä           /* oops, just splitting the z-axis is NOT ENOUGH, need to split more; let's be
386cb5c4f94SJuha Jäykkä            radical and let everyone write all they've got */
387faa75363SBarry Smith           chunkDims[dim++] = (hsize_t)PetscCeilInt(da->P, da->p);
388faa75363SBarry Smith           chunkDims[dim++] = (hsize_t)PetscCeilInt(da->N, da->n);
389faa75363SBarry Smith           chunkDims[dim++] = (hsize_t)PetscCeilInt(da->M, da->m);
3900da24e51SJuha Jäykkä         }
3910da24e51SJuha Jäykkä       } else {
392cb5c4f94SJuha Jäykkä         /* This is a 2D world exceeding 4GiB in size; yes, I've seen them, even used myself */
3930da24e51SJuha Jäykkä         if (target_size >= chunk_size / da->n) {
394cb5c4f94SJuha Jäykkä           /* just make chunks the size of <local_z>x<whole_world_y>x<whole_world_x>x<dof> */
395faa75363SBarry Smith           chunkDims[dim] = (hsize_t)PetscCeilInt(da->N, da->n);
3960da24e51SJuha Jäykkä         } else {
397cb5c4f94SJuha Jäykkä           /* oops, just splitting the z-axis is NOT ENOUGH, need to split more; let's be
398cb5c4f94SJuha Jäykkä            radical and let everyone write all they've got */
399faa75363SBarry Smith           chunkDims[dim++] = (hsize_t)PetscCeilInt(da->N, da->n);
400faa75363SBarry Smith           chunkDims[dim++] = (hsize_t)PetscCeilInt(da->M, da->m);
4010da24e51SJuha Jäykkä         }
4020da24e51SJuha Jäykkä       }
4030da24e51SJuha Jäykkä       chunk_size = (hsize_t)PetscMax(1, chunkDims[0]) * PetscMax(1, chunkDims[1]) * PetscMax(1, chunkDims[2]) * PetscMax(1, chunkDims[3]) * PetscMax(1, chunkDims[4]) * PetscMax(1, chunkDims[5]) * sizeof(double);
4040da24e51SJuha Jäykkä     } else {
405cb5c4f94SJuha Jäykkä       /* precomputed chunks are fine, we don't need to do anything */
4060da24e51SJuha Jäykkä     }
4070da24e51SJuha Jäykkä   }
4083ba16761SJacob Faibussowitsch   PetscFunctionReturn(PETSC_SUCCESS);
4090da24e51SJuha Jäykkä }
4100da24e51SJuha Jäykkä #endif
41147c6ae99SBarry Smith 
41247c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5)
VecView_MPI_HDF5_DA(Vec xin,PetscViewer viewer)41366976f2fSJacob Faibussowitsch static PetscErrorCode VecView_MPI_HDF5_DA(Vec xin, PetscViewer viewer)
414d71ae5a4SJacob Faibussowitsch {
4152d95be3dSVaclav Hapla   PetscViewer_HDF5  *hdf5 = (PetscViewer_HDF5 *)viewer->data;
4169b2a5a86SJed Brown   DM                 dm;
4179b2a5a86SJed Brown   DM_DA             *da;
41847c6ae99SBarry Smith   hid_t              filespace;  /* file dataspace identifier */
4198e2ae6d7SMichael Kraus   hid_t              chunkspace; /* chunk dataset property identifier */
42047c6ae99SBarry Smith   hid_t              dset_id;    /* dataset identifier */
42147c6ae99SBarry Smith   hid_t              memspace;   /* memory dataspace identifier */
42247c6ae99SBarry Smith   hid_t              file_id;
42315214e8eSMatthew G Knepley   hid_t              group;
4249a0502c6SHåkon Strandenes   hid_t              memscalartype;  /* scalar type for mem (H5T_NATIVE_FLOAT or H5T_NATIVE_DOUBLE) */
4259a0502c6SHåkon Strandenes   hid_t              filescalartype; /* scalar type for file (H5T_NATIVE_FLOAT or H5T_NATIVE_DOUBLE) */
426d9a4edebSJed Brown   hsize_t            dim;
4270da24e51SJuha Jäykkä   hsize_t            maxDims[6] = {0}, dims[6] = {0}, chunkDims[6] = {0}, count[6] = {0}, offset[6] = {0}; /* we depend on these being sane later on  */
428d7dd068bSVaclav Hapla   PetscBool          timestepping = PETSC_FALSE, dim2, spoutput;
4291690c2aeSBarry Smith   PetscInt           timestep     = PETSC_INT_MIN, dimension;
4305edff71fSBarry Smith   const PetscScalar *x;
4318e2ae6d7SMichael Kraus   const char        *vecname;
43247c6ae99SBarry Smith 
43347c6ae99SBarry Smith   PetscFunctionBegin;
4343014b61aSVaclav Hapla   PetscCall(PetscViewerHDF5OpenGroup(viewer, NULL, &file_id, &group));
4359566063dSJacob Faibussowitsch   PetscCall(PetscViewerHDF5IsTimestepping(viewer, &timestepping));
43648a46eb9SPierre Jolivet   if (timestepping) PetscCall(PetscViewerHDF5GetTimestep(viewer, &timestep));
4379566063dSJacob Faibussowitsch   PetscCall(PetscViewerHDF5GetBaseDimension2(viewer, &dim2));
4389566063dSJacob Faibussowitsch   PetscCall(PetscViewerHDF5GetSPOutput(viewer, &spoutput));
43915214e8eSMatthew G Knepley 
4409566063dSJacob Faibussowitsch   PetscCall(VecGetDM(xin, &dm));
4417a8be351SBarry Smith   PetscCheck(dm, PetscObjectComm((PetscObject)xin), PETSC_ERR_ARG_WRONG, "Vector not generated from a DMDA");
4429b2a5a86SJed Brown   da = (DM_DA *)dm->data;
4439566063dSJacob Faibussowitsch   PetscCall(DMGetDimension(dm, &dimension));
44447c6ae99SBarry Smith 
4458e2ae6d7SMichael Kraus   /* Create the dataspace for the dataset.
4468e2ae6d7SMichael Kraus    *
4478e2ae6d7SMichael Kraus    * dims - holds the current dimensions of the dataset
4488e2ae6d7SMichael Kraus    *
4498e2ae6d7SMichael Kraus    * maxDims - holds the maximum dimensions of the dataset (unlimited
4508e2ae6d7SMichael Kraus    * for the number of time steps with the current dimensions for the
4518e2ae6d7SMichael Kraus    * other dimensions; so only additional time steps can be added).
4528e2ae6d7SMichael Kraus    *
4538e2ae6d7SMichael Kraus    * chunkDims - holds the size of a single time step (required to
4548e2ae6d7SMichael Kraus    * permit extending dataset).
4558e2ae6d7SMichael Kraus    */
4568e2ae6d7SMichael Kraus   dim = 0;
4578e2ae6d7SMichael Kraus   if (timestep >= 0) {
4588e2ae6d7SMichael Kraus     dims[dim]      = timestep + 1;
4598e2ae6d7SMichael Kraus     maxDims[dim]   = H5S_UNLIMITED;
4608e2ae6d7SMichael Kraus     chunkDims[dim] = 1;
4618e2ae6d7SMichael Kraus     ++dim;
4628e2ae6d7SMichael Kraus   }
463c73cfb54SMatthew G. Knepley   if (dimension == 3) {
4649566063dSJacob Faibussowitsch     PetscCall(PetscHDF5IntCast(da->P, dims + dim));
4658e2ae6d7SMichael Kraus     maxDims[dim]   = dims[dim];
4668e2ae6d7SMichael Kraus     chunkDims[dim] = dims[dim];
4678e2ae6d7SMichael Kraus     ++dim;
4688e2ae6d7SMichael Kraus   }
469c73cfb54SMatthew G. Knepley   if (dimension > 1) {
4709566063dSJacob Faibussowitsch     PetscCall(PetscHDF5IntCast(da->N, dims + dim));
4718e2ae6d7SMichael Kraus     maxDims[dim]   = dims[dim];
4728e2ae6d7SMichael Kraus     chunkDims[dim] = dims[dim];
4738e2ae6d7SMichael Kraus     ++dim;
4748e2ae6d7SMichael Kraus   }
4759566063dSJacob Faibussowitsch   PetscCall(PetscHDF5IntCast(da->M, dims + dim));
4768e2ae6d7SMichael Kraus   maxDims[dim]   = dims[dim];
4778e2ae6d7SMichael Kraus   chunkDims[dim] = dims[dim];
4788e2ae6d7SMichael Kraus   ++dim;
47982ea9b62SBarry Smith   if (da->w > 1 || dim2) {
4809566063dSJacob Faibussowitsch     PetscCall(PetscHDF5IntCast(da->w, dims + dim));
4818e2ae6d7SMichael Kraus     maxDims[dim]   = dims[dim];
4828e2ae6d7SMichael Kraus     chunkDims[dim] = dims[dim];
4838e2ae6d7SMichael Kraus     ++dim;
4848e2ae6d7SMichael Kraus   }
48547c6ae99SBarry Smith   #if defined(PETSC_USE_COMPLEX)
4868e2ae6d7SMichael Kraus   dims[dim]      = 2;
4878e2ae6d7SMichael Kraus   maxDims[dim]   = dims[dim];
4888e2ae6d7SMichael Kraus   chunkDims[dim] = dims[dim];
4898e2ae6d7SMichael Kraus   ++dim;
49047c6ae99SBarry Smith   #endif
4910da24e51SJuha Jäykkä 
4929566063dSJacob Faibussowitsch   PetscCall(VecGetHDF5ChunkSize(da, xin, dimension, timestep, chunkDims));
4930da24e51SJuha Jäykkä 
4946497c311SBarry Smith   PetscCallHDF5Return(filespace, H5Screate_simple, ((int)dim, dims, maxDims));
49547c6ae99SBarry Smith 
49615214e8eSMatthew G Knepley   #if defined(PETSC_USE_REAL_SINGLE)
4979a0502c6SHåkon Strandenes   memscalartype  = H5T_NATIVE_FLOAT;
4989a0502c6SHåkon Strandenes   filescalartype = H5T_NATIVE_FLOAT;
49915214e8eSMatthew G Knepley   #elif defined(PETSC_USE_REAL___FLOAT128)
50015214e8eSMatthew G Knepley     #error "HDF5 output with 128 bit floats not supported."
501570b7f6dSBarry Smith   #elif defined(PETSC_USE_REAL___FP16)
502570b7f6dSBarry Smith     #error "HDF5 output with 16 bit floats not supported."
50315214e8eSMatthew G Knepley   #else
5049a0502c6SHåkon Strandenes   memscalartype = H5T_NATIVE_DOUBLE;
5059a0502c6SHåkon Strandenes   if (spoutput == PETSC_TRUE) filescalartype = H5T_NATIVE_FLOAT;
5069a0502c6SHåkon Strandenes   else filescalartype = H5T_NATIVE_DOUBLE;
50715214e8eSMatthew G Knepley   #endif
50815214e8eSMatthew G Knepley 
50947c6ae99SBarry Smith   /* Create the dataset with default properties and close filespace */
5109566063dSJacob Faibussowitsch   PetscCall(PetscObjectGetName((PetscObject)xin, &vecname));
51115214e8eSMatthew G Knepley   if (!H5Lexists(group, vecname, H5P_DEFAULT)) {
5128e2ae6d7SMichael Kraus     /* Create chunk */
513792fecdfSBarry Smith     PetscCallHDF5Return(chunkspace, H5Pcreate, (H5P_DATASET_CREATE));
5146497c311SBarry Smith     PetscCallHDF5(H5Pset_chunk, (chunkspace, (int)dim, chunkDims));
5158e2ae6d7SMichael Kraus 
516792fecdfSBarry Smith     PetscCallHDF5Return(dset_id, H5Dcreate2, (group, vecname, filescalartype, filespace, H5P_DEFAULT, chunkspace, H5P_DEFAULT));
51715214e8eSMatthew G Knepley   } else {
518792fecdfSBarry Smith     PetscCallHDF5Return(dset_id, H5Dopen2, (group, vecname, H5P_DEFAULT));
519792fecdfSBarry Smith     PetscCallHDF5(H5Dset_extent, (dset_id, dims));
52015214e8eSMatthew G Knepley   }
521792fecdfSBarry Smith   PetscCallHDF5(H5Sclose, (filespace));
52247c6ae99SBarry Smith 
52347c6ae99SBarry Smith   /* Each process defines a dataset and writes it to the hyperslab in the file */
5248e2ae6d7SMichael Kraus   dim = 0;
5258e2ae6d7SMichael Kraus   if (timestep >= 0) {
5268e2ae6d7SMichael Kraus     offset[dim] = timestep;
5278e2ae6d7SMichael Kraus     ++dim;
5288e2ae6d7SMichael Kraus   }
5299566063dSJacob Faibussowitsch   if (dimension == 3) PetscCall(PetscHDF5IntCast(da->zs, offset + dim++));
5309566063dSJacob Faibussowitsch   if (dimension > 1) PetscCall(PetscHDF5IntCast(da->ys, offset + dim++));
5319566063dSJacob Faibussowitsch   PetscCall(PetscHDF5IntCast(da->xs / da->w, offset + dim++));
53282ea9b62SBarry Smith   if (da->w > 1 || dim2) offset[dim++] = 0;
53347c6ae99SBarry Smith   #if defined(PETSC_USE_COMPLEX)
5348e2ae6d7SMichael Kraus   offset[dim++] = 0;
53547c6ae99SBarry Smith   #endif
5368e2ae6d7SMichael Kraus   dim = 0;
5378e2ae6d7SMichael Kraus   if (timestep >= 0) {
5388e2ae6d7SMichael Kraus     count[dim] = 1;
5398e2ae6d7SMichael Kraus     ++dim;
5408e2ae6d7SMichael Kraus   }
5419566063dSJacob Faibussowitsch   if (dimension == 3) PetscCall(PetscHDF5IntCast(da->ze - da->zs, count + dim++));
5429566063dSJacob Faibussowitsch   if (dimension > 1) PetscCall(PetscHDF5IntCast(da->ye - da->ys, count + dim++));
5439566063dSJacob Faibussowitsch   PetscCall(PetscHDF5IntCast((da->xe - da->xs) / da->w, count + dim++));
5449566063dSJacob Faibussowitsch   if (da->w > 1 || dim2) PetscCall(PetscHDF5IntCast(da->w, count + dim++));
54547c6ae99SBarry Smith   #if defined(PETSC_USE_COMPLEX)
5468e2ae6d7SMichael Kraus   count[dim++] = 2;
54747c6ae99SBarry Smith   #endif
5486497c311SBarry Smith   PetscCallHDF5Return(memspace, H5Screate_simple, ((int)dim, count, NULL));
549792fecdfSBarry Smith   PetscCallHDF5Return(filespace, H5Dget_space, (dset_id));
550792fecdfSBarry Smith   PetscCallHDF5(H5Sselect_hyperslab, (filespace, H5S_SELECT_SET, offset, NULL, count, NULL));
55147c6ae99SBarry Smith 
5529566063dSJacob Faibussowitsch   PetscCall(VecGetArrayRead(xin, &x));
553792fecdfSBarry Smith   PetscCallHDF5(H5Dwrite, (dset_id, memscalartype, memspace, filespace, hdf5->dxpl_id, x));
554792fecdfSBarry Smith   PetscCallHDF5(H5Fflush, (file_id, H5F_SCOPE_GLOBAL));
5559566063dSJacob Faibussowitsch   PetscCall(VecRestoreArrayRead(xin, &x));
55647c6ae99SBarry Smith 
557e0552f36Ssajid__ali   #if defined(PETSC_USE_COMPLEX)
558e0552f36Ssajid__ali   {
559e0552f36Ssajid__ali     PetscBool tru = PETSC_TRUE;
5609566063dSJacob Faibussowitsch     PetscCall(PetscViewerHDF5WriteObjectAttribute(viewer, (PetscObject)xin, "complex", PETSC_BOOL, &tru));
561e0552f36Ssajid__ali   }
562e0552f36Ssajid__ali   #endif
56348a46eb9SPierre Jolivet   if (timestepping) PetscCall(PetscViewerHDF5WriteObjectAttribute(viewer, (PetscObject)xin, "timestepping", PETSC_BOOL, &timestepping));
564e0552f36Ssajid__ali 
56547c6ae99SBarry Smith   /* Close/release resources */
566ad540459SPierre Jolivet   if (group != file_id) PetscCallHDF5(H5Gclose, (group));
567792fecdfSBarry Smith   PetscCallHDF5(H5Sclose, (filespace));
568792fecdfSBarry Smith   PetscCallHDF5(H5Sclose, (memspace));
569792fecdfSBarry Smith   PetscCallHDF5(H5Dclose, (dset_id));
5709566063dSJacob Faibussowitsch   PetscCall(PetscInfo(xin, "Wrote Vec object with name %s\n", vecname));
5713ba16761SJacob Faibussowitsch   PetscFunctionReturn(PETSC_SUCCESS);
57247c6ae99SBarry Smith }
57347c6ae99SBarry Smith #endif
57447c6ae99SBarry Smith 
57509573ac7SBarry Smith extern PetscErrorCode VecView_MPI_Draw_DA1d(Vec, PetscViewer);
57647c6ae99SBarry Smith 
57747c6ae99SBarry Smith #if defined(PETSC_HAVE_MPIIO)
DMDAArrayMPIIO(DM da,PetscViewer viewer,Vec xin,PetscBool write)578d71ae5a4SJacob Faibussowitsch static PetscErrorCode DMDAArrayMPIIO(DM da, PetscViewer viewer, Vec xin, PetscBool write)
579d71ae5a4SJacob Faibussowitsch {
58047c6ae99SBarry Smith   MPI_File           mfdes;
58147c6ae99SBarry Smith   PetscMPIInt        gsizes[4], lsizes[4], lstarts[4], asiz, dof;
58247c6ae99SBarry Smith   MPI_Datatype       view;
58347c6ae99SBarry Smith   const PetscScalar *array;
58447c6ae99SBarry Smith   MPI_Offset         off;
58547c6ae99SBarry Smith   MPI_Aint           ub, ul;
58647c6ae99SBarry Smith   PetscInt           type, rows, vecrows, tr[2];
58747c6ae99SBarry Smith   DM_DA             *dd = (DM_DA *)da->data;
5880c169764Sdmay   PetscBool          skipheader;
58947c6ae99SBarry Smith 
59047c6ae99SBarry Smith   PetscFunctionBegin;
5919566063dSJacob Faibussowitsch   PetscCall(VecGetSize(xin, &vecrows));
5929566063dSJacob Faibussowitsch   PetscCall(PetscViewerBinaryGetSkipHeader(viewer, &skipheader));
59347c6ae99SBarry Smith   if (!write) {
59447c6ae99SBarry Smith     /* Read vector header. */
5950c169764Sdmay     if (!skipheader) {
5969566063dSJacob Faibussowitsch       PetscCall(PetscViewerBinaryRead(viewer, tr, 2, NULL, PETSC_INT));
59747c6ae99SBarry Smith       type = tr[0];
59847c6ae99SBarry Smith       rows = tr[1];
59908401ef6SPierre Jolivet       PetscCheck(type == VEC_FILE_CLASSID, PetscObjectComm((PetscObject)da), PETSC_ERR_ARG_WRONG, "Not vector next in file");
60008401ef6SPierre Jolivet       PetscCheck(rows == vecrows, PetscObjectComm((PetscObject)da), PETSC_ERR_ARG_SIZ, "Vector in file not same size as DMDA vector");
6010c169764Sdmay     }
60247c6ae99SBarry Smith   } else {
60347c6ae99SBarry Smith     tr[0] = VEC_FILE_CLASSID;
60447c6ae99SBarry Smith     tr[1] = vecrows;
60548a46eb9SPierre Jolivet     if (!skipheader) PetscCall(PetscViewerBinaryWrite(viewer, tr, 2, PETSC_INT));
6060c169764Sdmay   }
60747c6ae99SBarry Smith 
6089566063dSJacob Faibussowitsch   PetscCall(PetscMPIIntCast(dd->w, &dof));
6094dc2109aSBarry Smith   gsizes[0] = dof;
6109566063dSJacob Faibussowitsch   PetscCall(PetscMPIIntCast(dd->M, gsizes + 1));
6119566063dSJacob Faibussowitsch   PetscCall(PetscMPIIntCast(dd->N, gsizes + 2));
6129566063dSJacob Faibussowitsch   PetscCall(PetscMPIIntCast(dd->P, gsizes + 3));
6134dc2109aSBarry Smith   lsizes[0] = dof;
6149566063dSJacob Faibussowitsch   PetscCall(PetscMPIIntCast((dd->xe - dd->xs) / dof, lsizes + 1));
6159566063dSJacob Faibussowitsch   PetscCall(PetscMPIIntCast(dd->ye - dd->ys, lsizes + 2));
6169566063dSJacob Faibussowitsch   PetscCall(PetscMPIIntCast(dd->ze - dd->zs, lsizes + 3));
6174dc2109aSBarry Smith   lstarts[0] = 0;
6189566063dSJacob Faibussowitsch   PetscCall(PetscMPIIntCast(dd->xs / dof, lstarts + 1));
6199566063dSJacob Faibussowitsch   PetscCall(PetscMPIIntCast(dd->ys, lstarts + 2));
6209566063dSJacob Faibussowitsch   PetscCall(PetscMPIIntCast(dd->zs, lstarts + 3));
6216497c311SBarry Smith   PetscCallMPI(MPI_Type_create_subarray((PetscMPIInt)(da->dim + 1), gsizes, lsizes, lstarts, MPI_ORDER_FORTRAN, MPIU_SCALAR, &view));
6229566063dSJacob Faibussowitsch   PetscCallMPI(MPI_Type_commit(&view));
62347c6ae99SBarry Smith 
6249566063dSJacob Faibussowitsch   PetscCall(PetscViewerBinaryGetMPIIODescriptor(viewer, &mfdes));
6259566063dSJacob Faibussowitsch   PetscCall(PetscViewerBinaryGetMPIIOOffset(viewer, &off));
6269566063dSJacob Faibussowitsch   PetscCallMPI(MPI_File_set_view(mfdes, off, MPIU_SCALAR, view, (char *)"native", MPI_INFO_NULL));
6279566063dSJacob Faibussowitsch   PetscCall(VecGetArrayRead(xin, &array));
62847c6ae99SBarry Smith   asiz = lsizes[1] * (lsizes[2] > 0 ? lsizes[2] : 1) * (lsizes[3] > 0 ? lsizes[3] : 1) * dof;
6291baa6e33SBarry Smith   if (write) PetscCall(MPIU_File_write_all(mfdes, (PetscScalar *)array, asiz, MPIU_SCALAR, MPI_STATUS_IGNORE));
6301baa6e33SBarry Smith   else PetscCall(MPIU_File_read_all(mfdes, (PetscScalar *)array, asiz, MPIU_SCALAR, MPI_STATUS_IGNORE));
6319566063dSJacob Faibussowitsch   PetscCallMPI(MPI_Type_get_extent(view, &ul, &ub));
6329566063dSJacob Faibussowitsch   PetscCall(PetscViewerBinaryAddMPIIOOffset(viewer, ub));
6339566063dSJacob Faibussowitsch   PetscCall(VecRestoreArrayRead(xin, &array));
6349566063dSJacob Faibussowitsch   PetscCallMPI(MPI_Type_free(&view));
6353ba16761SJacob Faibussowitsch   PetscFunctionReturn(PETSC_SUCCESS);
63647c6ae99SBarry Smith }
63747c6ae99SBarry Smith #endif
63847c6ae99SBarry Smith 
VecView_MPI_DA(Vec xin,PetscViewer viewer)639d71ae5a4SJacob Faibussowitsch PetscErrorCode VecView_MPI_DA(Vec xin, PetscViewer viewer)
640d71ae5a4SJacob Faibussowitsch {
6419a42bb27SBarry Smith   DM        da;
64247c6ae99SBarry Smith   PetscInt  dim;
64347c6ae99SBarry Smith   Vec       natural;
6448135c375SStefano Zampini   PetscBool isdraw, isvtk, isglvis;
64547c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5)
64647c6ae99SBarry Smith   PetscBool ishdf5;
64747c6ae99SBarry Smith #endif
6483f3fd955SJed Brown   const char       *prefix, *name;
649a261c58fSBarry Smith   PetscViewerFormat format;
65047c6ae99SBarry Smith 
65147c6ae99SBarry Smith   PetscFunctionBegin;
6529566063dSJacob Faibussowitsch   PetscCall(VecGetDM(xin, &da));
6537a8be351SBarry Smith   PetscCheck(da, PetscObjectComm((PetscObject)xin), PETSC_ERR_ARG_WRONG, "Vector not generated from a DMDA");
6549566063dSJacob Faibussowitsch   PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERDRAW, &isdraw));
6559566063dSJacob Faibussowitsch   PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERVTK, &isvtk));
65647c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5)
6579566063dSJacob Faibussowitsch   PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERHDF5, &ishdf5));
65847c6ae99SBarry Smith #endif
6599566063dSJacob Faibussowitsch   PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERGLVIS, &isglvis));
66047c6ae99SBarry Smith   if (isdraw) {
6619566063dSJacob Faibussowitsch     PetscCall(DMDAGetInfo(da, &dim, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL, NULL));
66247c6ae99SBarry Smith     if (dim == 1) {
6639566063dSJacob Faibussowitsch       PetscCall(VecView_MPI_Draw_DA1d(xin, viewer));
66447c6ae99SBarry Smith     } else if (dim == 2) {
6659566063dSJacob Faibussowitsch       PetscCall(VecView_MPI_Draw_DA2d(xin, viewer));
66663a3b9bcSJacob Faibussowitsch     } else SETERRQ(PetscObjectComm((PetscObject)da), PETSC_ERR_SUP, "Cannot graphically view vector associated with this dimensional DMDA %" PetscInt_FMT, dim);
66701d7c5c3SPatrick Sanan   } else if (isvtk) { /* Duplicate the Vec */
6684061b8bfSJed Brown     Vec Y;
6699566063dSJacob Faibussowitsch     PetscCall(VecDuplicate(xin, &Y));
670b51b94faSJed Brown     if (((PetscObject)xin)->name) {
671b51b94faSJed Brown       /* If xin was named, copy the name over to Y. The duplicate names are safe because nobody else will ever see Y. */
6729566063dSJacob Faibussowitsch       PetscCall(PetscObjectSetName((PetscObject)Y, ((PetscObject)xin)->name));
673b51b94faSJed Brown     }
6749566063dSJacob Faibussowitsch     PetscCall(VecCopy(xin, Y));
675a8f87f1dSPatrick Sanan     {
676a8f87f1dSPatrick Sanan       PetscObject dmvtk;
677a8f87f1dSPatrick Sanan       PetscBool   compatible, compatibleSet;
6789566063dSJacob Faibussowitsch       PetscCall(PetscViewerVTKGetDM(viewer, &dmvtk));
679a8f87f1dSPatrick Sanan       if (dmvtk) {
680064a246eSJacob Faibussowitsch         PetscValidHeaderSpecific((DM)dmvtk, DM_CLASSID, 2);
6819566063dSJacob Faibussowitsch         PetscCall(DMGetCompatibility(da, (DM)dmvtk, &compatible, &compatibleSet));
6827a8be351SBarry Smith         PetscCheck(compatibleSet && compatible, PetscObjectComm((PetscObject)da), PETSC_ERR_ARG_INCOMP, "Cannot confirm compatibility of DMs associated with Vecs viewed in the same VTK file. Check that grids are the same.");
683a8f87f1dSPatrick Sanan       }
6849566063dSJacob Faibussowitsch       PetscCall(PetscViewerVTKAddField(viewer, (PetscObject)da, DMDAVTKWriteAll, PETSC_DEFAULT, PETSC_VTK_POINT_FIELD, PETSC_FALSE, (PetscObject)Y));
685a8f87f1dSPatrick Sanan     }
68647c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5)
68747c6ae99SBarry Smith   } else if (ishdf5) {
6889566063dSJacob Faibussowitsch     PetscCall(VecView_MPI_HDF5_DA(xin, viewer));
68947c6ae99SBarry Smith #endif
6908135c375SStefano Zampini   } else if (isglvis) {
6919566063dSJacob Faibussowitsch     PetscCall(VecView_GLVis(xin, viewer));
69247c6ae99SBarry Smith   } else {
69347c6ae99SBarry Smith #if defined(PETSC_HAVE_MPIIO)
69447c6ae99SBarry Smith     PetscBool isbinary, isMPIIO;
69547c6ae99SBarry Smith 
6969566063dSJacob Faibussowitsch     PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERBINARY, &isbinary));
69747c6ae99SBarry Smith     if (isbinary) {
6989566063dSJacob Faibussowitsch       PetscCall(PetscViewerBinaryGetUseMPIIO(viewer, &isMPIIO));
69947c6ae99SBarry Smith       if (isMPIIO) {
7009566063dSJacob Faibussowitsch         PetscCall(DMDAArrayMPIIO(da, viewer, xin, PETSC_TRUE));
7013ba16761SJacob Faibussowitsch         PetscFunctionReturn(PETSC_SUCCESS);
70247c6ae99SBarry Smith       }
70347c6ae99SBarry Smith     }
70447c6ae99SBarry Smith #endif
70547c6ae99SBarry Smith 
70647c6ae99SBarry Smith     /* call viewer on natural ordering */
7079566063dSJacob Faibussowitsch     PetscCall(PetscObjectGetOptionsPrefix((PetscObject)xin, &prefix));
7089566063dSJacob Faibussowitsch     PetscCall(DMDACreateNaturalVector(da, &natural));
7099566063dSJacob Faibussowitsch     PetscCall(PetscObjectSetOptionsPrefix((PetscObject)natural, prefix));
7109566063dSJacob Faibussowitsch     PetscCall(DMDAGlobalToNaturalBegin(da, xin, INSERT_VALUES, natural));
7119566063dSJacob Faibussowitsch     PetscCall(DMDAGlobalToNaturalEnd(da, xin, INSERT_VALUES, natural));
7129566063dSJacob Faibussowitsch     PetscCall(PetscObjectGetName((PetscObject)xin, &name));
7139566063dSJacob Faibussowitsch     PetscCall(PetscObjectSetName((PetscObject)natural, name));
714a261c58fSBarry Smith 
7159566063dSJacob Faibussowitsch     PetscCall(PetscViewerGetFormat(viewer, &format));
716a261c58fSBarry Smith     if (format == PETSC_VIEWER_BINARY_MATLAB) {
717a261c58fSBarry Smith       /* temporarily remove viewer format so it won't trigger in the VecView() */
7189566063dSJacob Faibussowitsch       PetscCall(PetscViewerPushFormat(viewer, PETSC_VIEWER_DEFAULT));
719a261c58fSBarry Smith     }
720a261c58fSBarry Smith 
72123f88b65SBarry Smith     ((PetscObject)natural)->donotPetscObjectPrintClassNamePrefixType = PETSC_TRUE;
7229566063dSJacob Faibussowitsch     PetscCall(VecView(natural, viewer));
72323f88b65SBarry Smith     ((PetscObject)natural)->donotPetscObjectPrintClassNamePrefixType = PETSC_FALSE;
724a261c58fSBarry Smith 
725a261c58fSBarry Smith     if (format == PETSC_VIEWER_BINARY_MATLAB) {
726a261c58fSBarry Smith       MPI_Comm    comm;
727a261c58fSBarry Smith       FILE       *info;
728a261c58fSBarry Smith       const char *fieldname;
729da88d4d4SJed Brown       char        fieldbuf[256];
730a261c58fSBarry Smith       PetscInt    dim, ni, nj, nk, pi, pj, pk, dof, n;
731a261c58fSBarry Smith 
732a261c58fSBarry Smith       /* set the viewer format back into the viewer */
7339566063dSJacob Faibussowitsch       PetscCall(PetscViewerPopFormat(viewer));
7349566063dSJacob Faibussowitsch       PetscCall(PetscObjectGetComm((PetscObject)viewer, &comm));
7359566063dSJacob Faibussowitsch       PetscCall(PetscViewerBinaryGetInfoPointer(viewer, &info));
7369566063dSJacob Faibussowitsch       PetscCall(DMDAGetInfo(da, &dim, &ni, &nj, &nk, &pi, &pj, &pk, &dof, NULL, NULL, NULL, NULL, NULL));
7379566063dSJacob Faibussowitsch       PetscCall(PetscFPrintf(comm, info, "#--- begin code written by PetscViewerBinary for MATLAB format ---#\n"));
7389566063dSJacob Faibussowitsch       PetscCall(PetscFPrintf(comm, info, "#$$ tmp = PetscBinaryRead(fd); \n"));
73948a46eb9SPierre Jolivet       if (dim == 1) PetscCall(PetscFPrintf(comm, info, "#$$ tmp = reshape(tmp,%" PetscInt_FMT ",%" PetscInt_FMT ");\n", dof, ni));
74048a46eb9SPierre Jolivet       if (dim == 2) PetscCall(PetscFPrintf(comm, info, "#$$ tmp = reshape(tmp,%" PetscInt_FMT ",%" PetscInt_FMT ",%" PetscInt_FMT ");\n", dof, ni, nj));
74148a46eb9SPierre Jolivet       if (dim == 3) PetscCall(PetscFPrintf(comm, info, "#$$ tmp = reshape(tmp,%" PetscInt_FMT ",%" PetscInt_FMT ",%" PetscInt_FMT ",%" PetscInt_FMT ");\n", dof, ni, nj, nk));
742a261c58fSBarry Smith 
743a261c58fSBarry Smith       for (n = 0; n < dof; n++) {
7449566063dSJacob Faibussowitsch         PetscCall(DMDAGetFieldName(da, n, &fieldname));
745da88d4d4SJed Brown         if (!fieldname || !fieldname[0]) {
74663a3b9bcSJacob Faibussowitsch           PetscCall(PetscSNPrintf(fieldbuf, sizeof fieldbuf, "field%" PetscInt_FMT, n));
747da88d4d4SJed Brown           fieldname = fieldbuf;
748a261c58fSBarry Smith         }
74948a46eb9SPierre Jolivet         if (dim == 1) PetscCall(PetscFPrintf(comm, info, "#$$ Set.%s.%s = squeeze(tmp(%" PetscInt_FMT ",:))';\n", name, fieldname, n + 1));
75048a46eb9SPierre Jolivet         if (dim == 2) PetscCall(PetscFPrintf(comm, info, "#$$ Set.%s.%s = squeeze(tmp(%" PetscInt_FMT ",:,:))';\n", name, fieldname, n + 1));
75148a46eb9SPierre Jolivet         if (dim == 3) PetscCall(PetscFPrintf(comm, info, "#$$ Set.%s.%s = permute(squeeze(tmp(%" PetscInt_FMT ",:,:,:)),[2 1 3]);\n", name, fieldname, n + 1));
752a261c58fSBarry Smith       }
7539566063dSJacob Faibussowitsch       PetscCall(PetscFPrintf(comm, info, "#$$ clear tmp; \n"));
7549566063dSJacob Faibussowitsch       PetscCall(PetscFPrintf(comm, info, "#--- end code written by PetscViewerBinary for MATLAB format ---#\n\n"));
755a261c58fSBarry Smith     }
756a261c58fSBarry Smith 
7579566063dSJacob Faibussowitsch     PetscCall(VecDestroy(&natural));
75847c6ae99SBarry Smith   }
7593ba16761SJacob Faibussowitsch   PetscFunctionReturn(PETSC_SUCCESS);
76047c6ae99SBarry Smith }
76147c6ae99SBarry Smith 
76247c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5)
VecLoad_HDF5_DA(Vec xin,PetscViewer viewer)76366976f2fSJacob Faibussowitsch static PetscErrorCode VecLoad_HDF5_DA(Vec xin, PetscViewer viewer)
764d71ae5a4SJacob Faibussowitsch {
7652d95be3dSVaclav Hapla   PetscViewer_HDF5 *hdf5 = (PetscViewer_HDF5 *)viewer->data;
7669a42bb27SBarry Smith   DM                da;
76715b861d2SVaclav Hapla   int               dim, rdim;
768ec7ae49cSHåkon Strandenes   hsize_t           dims[6] = {0}, count[6] = {0}, offset[6] = {0};
769d7dd068bSVaclav Hapla   PetscBool         dim2 = PETSC_FALSE, timestepping = PETSC_FALSE;
7701690c2aeSBarry Smith   PetscInt          dimension, timestep              = PETSC_INT_MIN, dofInd;
77147c6ae99SBarry Smith   PetscScalar      *x;
77247c6ae99SBarry Smith   const char       *vecname;
77347c6ae99SBarry Smith   hid_t             filespace; /* file dataspace identifier */
77447c6ae99SBarry Smith   hid_t             dset_id;   /* dataset identifier */
77547c6ae99SBarry Smith   hid_t             memspace;  /* memory dataspace identifier */
776bfd264e7SBarry Smith   hid_t             file_id, group;
7777bcbaff4SBarry Smith   hid_t             scalartype; /* scalar type (H5T_NATIVE_FLOAT or H5T_NATIVE_DOUBLE) */
7789c7c4993SBarry Smith   DM_DA            *dd;
77947c6ae99SBarry Smith 
78047c6ae99SBarry Smith   PetscFunctionBegin;
7817bcbaff4SBarry Smith   #if defined(PETSC_USE_REAL_SINGLE)
7827bcbaff4SBarry Smith   scalartype = H5T_NATIVE_FLOAT;
7837bcbaff4SBarry Smith   #elif defined(PETSC_USE_REAL___FLOAT128)
7847bcbaff4SBarry Smith     #error "HDF5 output with 128 bit floats not supported."
785570b7f6dSBarry Smith   #elif defined(PETSC_USE_REAL___FP16)
786570b7f6dSBarry Smith     #error "HDF5 output with 16 bit floats not supported."
7877bcbaff4SBarry Smith   #else
7887bcbaff4SBarry Smith   scalartype = H5T_NATIVE_DOUBLE;
7897bcbaff4SBarry Smith   #endif
7907bcbaff4SBarry Smith 
7913014b61aSVaclav Hapla   PetscCall(PetscViewerHDF5OpenGroup(viewer, NULL, &file_id, &group));
7929566063dSJacob Faibussowitsch   PetscCall(PetscObjectGetName((PetscObject)xin, &vecname));
7939566063dSJacob Faibussowitsch   PetscCall(PetscViewerHDF5CheckTimestepping_Internal(viewer, vecname));
7949566063dSJacob Faibussowitsch   PetscCall(PetscViewerHDF5IsTimestepping(viewer, &timestepping));
79548a46eb9SPierre Jolivet   if (timestepping) PetscCall(PetscViewerHDF5GetTimestep(viewer, &timestep));
7969566063dSJacob Faibussowitsch   PetscCall(VecGetDM(xin, &da));
7979c7c4993SBarry Smith   dd = (DM_DA *)da->data;
7989566063dSJacob Faibussowitsch   PetscCall(DMGetDimension(da, &dimension));
79947c6ae99SBarry Smith 
800ec7ae49cSHåkon Strandenes   /* Open dataset */
801792fecdfSBarry Smith   PetscCallHDF5Return(dset_id, H5Dopen2, (group, vecname, H5P_DEFAULT));
80247c6ae99SBarry Smith 
803ec7ae49cSHåkon Strandenes   /* Retrieve the dataspace for the dataset */
804792fecdfSBarry Smith   PetscCallHDF5Return(filespace, H5Dget_space, (dset_id));
805792fecdfSBarry Smith   PetscCallHDF5Return(rdim, H5Sget_simple_extent_dims, (filespace, dims, NULL));
806ec7ae49cSHåkon Strandenes 
807ec7ae49cSHåkon Strandenes   /* Expected dimension for holding the dof's */
808*fc2fb351SPierre Jolivet   dofInd = PetscDefined(USE_COMPLEX) ? rdim - 2 : rdim - 1;
809ec7ae49cSHåkon Strandenes 
810ec7ae49cSHåkon Strandenes   /* The expected number of dimensions, assuming basedimension2 = false */
8119ad2cedaSPierre Jolivet   dim = (int)dimension;
812ec7ae49cSHåkon Strandenes   if (dd->w > 1) ++dim;
813ec7ae49cSHåkon Strandenes   if (timestep >= 0) ++dim;
81447c6ae99SBarry Smith   #if defined(PETSC_USE_COMPLEX)
815ec7ae49cSHåkon Strandenes   ++dim;
81647c6ae99SBarry Smith   #endif
817ec7ae49cSHåkon Strandenes 
818ec7ae49cSHåkon Strandenes   /* In this case the input dataset have one extra, unexpected dimension. */
819ec7ae49cSHåkon Strandenes   if (rdim == dim + 1) {
820ec7ae49cSHåkon Strandenes     /* In this case the block size unity */
821ec7ae49cSHåkon Strandenes     if (dd->w == 1 && dims[dofInd] == 1) dim2 = PETSC_TRUE;
822ec7ae49cSHåkon Strandenes 
823ec7ae49cSHåkon Strandenes     /* Special error message for the case where dof does not match the input file */
82463a3b9bcSJacob Faibussowitsch     else PetscCheck(dd->w == (PetscInt)dims[dofInd], PETSC_COMM_SELF, PETSC_ERR_FILE_UNEXPECTED, "Number of dofs in file is %" PetscInt_FMT ", not %" PetscInt_FMT " as expected", (PetscInt)dims[dofInd], dd->w);
825ec7ae49cSHåkon Strandenes 
826ec7ae49cSHåkon Strandenes     /* Other cases where rdim != dim cannot be handled currently */
82763a3b9bcSJacob Faibussowitsch   } else PetscCheck(rdim == dim, PETSC_COMM_SELF, PETSC_ERR_FILE_UNEXPECTED, "Dimension of array in file is %d, not %d as expected with dof = %" PetscInt_FMT, rdim, dim, dd->w);
828ec7ae49cSHåkon Strandenes 
829ec7ae49cSHåkon Strandenes   /* Set up the hyperslab size */
830ec7ae49cSHåkon Strandenes   dim = 0;
831ec7ae49cSHåkon Strandenes   if (timestep >= 0) {
832ec7ae49cSHåkon Strandenes     offset[dim] = timestep;
833ec7ae49cSHåkon Strandenes     count[dim]  = 1;
834ec7ae49cSHåkon Strandenes     ++dim;
835ec7ae49cSHåkon Strandenes   }
836ec7ae49cSHåkon Strandenes   if (dimension == 3) {
8379566063dSJacob Faibussowitsch     PetscCall(PetscHDF5IntCast(dd->zs, offset + dim));
8389566063dSJacob Faibussowitsch     PetscCall(PetscHDF5IntCast(dd->ze - dd->zs, count + dim));
839ec7ae49cSHåkon Strandenes     ++dim;
840ec7ae49cSHåkon Strandenes   }
841ec7ae49cSHåkon Strandenes   if (dimension > 1) {
8429566063dSJacob Faibussowitsch     PetscCall(PetscHDF5IntCast(dd->ys, offset + dim));
8439566063dSJacob Faibussowitsch     PetscCall(PetscHDF5IntCast(dd->ye - dd->ys, count + dim));
844ec7ae49cSHåkon Strandenes     ++dim;
845ec7ae49cSHåkon Strandenes   }
8469566063dSJacob Faibussowitsch   PetscCall(PetscHDF5IntCast(dd->xs / dd->w, offset + dim));
8479566063dSJacob Faibussowitsch   PetscCall(PetscHDF5IntCast((dd->xe - dd->xs) / dd->w, count + dim));
848ec7ae49cSHåkon Strandenes   ++dim;
849ec7ae49cSHåkon Strandenes   if (dd->w > 1 || dim2) {
850ec7ae49cSHåkon Strandenes     offset[dim] = 0;
8519566063dSJacob Faibussowitsch     PetscCall(PetscHDF5IntCast(dd->w, count + dim));
852ec7ae49cSHåkon Strandenes     ++dim;
853ec7ae49cSHåkon Strandenes   }
854ec7ae49cSHåkon Strandenes   #if defined(PETSC_USE_COMPLEX)
855ec7ae49cSHåkon Strandenes   offset[dim] = 0;
856ec7ae49cSHåkon Strandenes   count[dim]  = 2;
857ec7ae49cSHåkon Strandenes   ++dim;
858ec7ae49cSHåkon Strandenes   #endif
859ec7ae49cSHåkon Strandenes 
860ec7ae49cSHåkon Strandenes   /* Create the memory and filespace */
861792fecdfSBarry Smith   PetscCallHDF5Return(memspace, H5Screate_simple, (dim, count, NULL));
862792fecdfSBarry Smith   PetscCallHDF5(H5Sselect_hyperslab, (filespace, H5S_SELECT_SET, offset, NULL, count, NULL));
86347c6ae99SBarry Smith 
8649566063dSJacob Faibussowitsch   PetscCall(VecGetArray(xin, &x));
865792fecdfSBarry Smith   PetscCallHDF5(H5Dread, (dset_id, scalartype, memspace, filespace, hdf5->dxpl_id, x));
8669566063dSJacob Faibussowitsch   PetscCall(VecRestoreArray(xin, &x));
86747c6ae99SBarry Smith 
86847c6ae99SBarry Smith   /* Close/release resources */
869ad540459SPierre Jolivet   if (group != file_id) PetscCallHDF5(H5Gclose, (group));
870792fecdfSBarry Smith   PetscCallHDF5(H5Sclose, (filespace));
871792fecdfSBarry Smith   PetscCallHDF5(H5Sclose, (memspace));
872792fecdfSBarry Smith   PetscCallHDF5(H5Dclose, (dset_id));
8733ba16761SJacob Faibussowitsch   PetscFunctionReturn(PETSC_SUCCESS);
87447c6ae99SBarry Smith }
87547c6ae99SBarry Smith #endif
87647c6ae99SBarry Smith 
VecLoad_Binary_DA(Vec xin,PetscViewer viewer)87766976f2fSJacob Faibussowitsch static PetscErrorCode VecLoad_Binary_DA(Vec xin, PetscViewer viewer)
878d71ae5a4SJacob Faibussowitsch {
8799a42bb27SBarry Smith   DM          da;
88047c6ae99SBarry Smith   Vec         natural;
88147c6ae99SBarry Smith   const char *prefix;
88247c6ae99SBarry Smith   PetscInt    bs;
88347c6ae99SBarry Smith   PetscBool   flag;
88447c6ae99SBarry Smith   DM_DA      *dd;
88547c6ae99SBarry Smith #if defined(PETSC_HAVE_MPIIO)
88647c6ae99SBarry Smith   PetscBool isMPIIO;
88747c6ae99SBarry Smith #endif
88847c6ae99SBarry Smith 
88947c6ae99SBarry Smith   PetscFunctionBegin;
8909566063dSJacob Faibussowitsch   PetscCall(VecGetDM(xin, &da));
89147c6ae99SBarry Smith   dd = (DM_DA *)da->data;
89247c6ae99SBarry Smith #if defined(PETSC_HAVE_MPIIO)
8939566063dSJacob Faibussowitsch   PetscCall(PetscViewerBinaryGetUseMPIIO(viewer, &isMPIIO));
89447c6ae99SBarry Smith   if (isMPIIO) {
8959566063dSJacob Faibussowitsch     PetscCall(DMDAArrayMPIIO(da, viewer, xin, PETSC_FALSE));
8963ba16761SJacob Faibussowitsch     PetscFunctionReturn(PETSC_SUCCESS);
89747c6ae99SBarry Smith   }
89847c6ae99SBarry Smith #endif
89947c6ae99SBarry Smith 
9009566063dSJacob Faibussowitsch   PetscCall(PetscObjectGetOptionsPrefix((PetscObject)xin, &prefix));
9019566063dSJacob Faibussowitsch   PetscCall(DMDACreateNaturalVector(da, &natural));
9029566063dSJacob Faibussowitsch   PetscCall(PetscObjectSetName((PetscObject)natural, ((PetscObject)xin)->name));
9039566063dSJacob Faibussowitsch   PetscCall(PetscObjectSetOptionsPrefix((PetscObject)natural, prefix));
9049566063dSJacob Faibussowitsch   PetscCall(VecLoad(natural, viewer));
9059566063dSJacob Faibussowitsch   PetscCall(DMDANaturalToGlobalBegin(da, natural, INSERT_VALUES, xin));
9069566063dSJacob Faibussowitsch   PetscCall(DMDANaturalToGlobalEnd(da, natural, INSERT_VALUES, xin));
9079566063dSJacob Faibussowitsch   PetscCall(VecDestroy(&natural));
9089566063dSJacob Faibussowitsch   PetscCall(PetscInfo(xin, "Loading vector from natural ordering into DMDA\n"));
9099566063dSJacob Faibussowitsch   PetscCall(PetscOptionsGetInt(NULL, ((PetscObject)xin)->prefix, "-vecload_block_size", &bs, &flag));
91048a46eb9SPierre Jolivet   if (flag && bs != dd->w) PetscCall(PetscInfo(xin, "Block size in file %" PetscInt_FMT " not equal to DMDA's dof %" PetscInt_FMT "\n", bs, dd->w));
9113ba16761SJacob Faibussowitsch   PetscFunctionReturn(PETSC_SUCCESS);
91247c6ae99SBarry Smith }
91347c6ae99SBarry Smith 
VecLoad_Default_DA(Vec xin,PetscViewer viewer)914d71ae5a4SJacob Faibussowitsch PetscErrorCode VecLoad_Default_DA(Vec xin, PetscViewer viewer)
915d71ae5a4SJacob Faibussowitsch {
9169a42bb27SBarry Smith   DM        da;
91747c6ae99SBarry Smith   PetscBool isbinary;
91847c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5)
91947c6ae99SBarry Smith   PetscBool ishdf5;
92047c6ae99SBarry Smith #endif
92147c6ae99SBarry Smith 
92247c6ae99SBarry Smith   PetscFunctionBegin;
9239566063dSJacob Faibussowitsch   PetscCall(VecGetDM(xin, &da));
9247a8be351SBarry Smith   PetscCheck(da, PetscObjectComm((PetscObject)xin), PETSC_ERR_ARG_WRONG, "Vector not generated from a DMDA");
92547c6ae99SBarry Smith 
92647c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5)
9279566063dSJacob Faibussowitsch   PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERHDF5, &ishdf5));
92847c6ae99SBarry Smith #endif
9299566063dSJacob Faibussowitsch   PetscCall(PetscObjectTypeCompare((PetscObject)viewer, PETSCVIEWERBINARY, &isbinary));
93047c6ae99SBarry Smith 
93147c6ae99SBarry Smith   if (isbinary) {
9329566063dSJacob Faibussowitsch     PetscCall(VecLoad_Binary_DA(xin, viewer));
93347c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5)
93447c6ae99SBarry Smith   } else if (ishdf5) {
9359566063dSJacob Faibussowitsch     PetscCall(VecLoad_HDF5_DA(xin, viewer));
93647c6ae99SBarry Smith #endif
93798921bdaSJacob Faibussowitsch   } else SETERRQ(PETSC_COMM_SELF, PETSC_ERR_SUP, "Viewer type %s not supported for vector loading", ((PetscObject)viewer)->type_name);
9383ba16761SJacob Faibussowitsch   PetscFunctionReturn(PETSC_SUCCESS);
93947c6ae99SBarry Smith }
940