Actual source code: gr2.c
petsc-3.3-p6 2013-02-11
2: /*
3: Plots vectors obtained with DMDACreate2d()
4: */
6: #include <petsc-private/daimpl.h> /*I "petscdmda.h" I*/
7: #include <petsc-private/vecimpl.h>
9: /*
10: The data that is passed into the graphics callback
11: */
12: typedef struct {
13: PetscInt m,n,step,k;
14: PetscReal min,max,scale;
15: PetscScalar *xy,*v;
16: PetscBool showgrid;
17: } ZoomCtx;
19: /*
20: This does the drawing for one particular field
21: in one particular set of coordinates. It is a callback
22: called from PetscDrawZoom()
23: */
26: PetscErrorCode VecView_MPI_Draw_DA2d_Zoom(PetscDraw draw,void *ctx)
27: {
28: ZoomCtx *zctx = (ZoomCtx*)ctx;
30: PetscInt m,n,i,j,k,step,id,c1,c2,c3,c4;
31: PetscReal s,min,x1,x2,x3,x4,y_1,y2,y3,y4;
32: PetscScalar *v,*xy;
35: m = zctx->m;
36: n = zctx->n;
37: step = zctx->step;
38: k = zctx->k;
39: v = zctx->v;
40: xy = zctx->xy;
41: s = zctx->scale;
42: min = zctx->min;
43:
44: /* PetscDraw the contour plot patch */
45: for (j=0; j<n-1; j++) {
46: for (i=0; i<m-1; i++) {
47: #if !defined(PETSC_USE_COMPLEX)
48: id = i+j*m; x1 = xy[2*id];y_1 = xy[2*id+1];c1 = (int)(PETSC_DRAW_BASIC_COLORS+s*(v[k+step*id]-min));
49: id = i+j*m+1; x2 = xy[2*id];y2 = y_1; c2 = (int)(PETSC_DRAW_BASIC_COLORS+s*(v[k+step*id]-min));
50: id = i+j*m+1+m;x3 = x2; y3 = xy[2*id+1];c3 = (int)(PETSC_DRAW_BASIC_COLORS+s*(v[k+step*id]-min));
51: id = i+j*m+m; x4 = x1; y4 = y3; c4 = (int)(PETSC_DRAW_BASIC_COLORS+s*(v[k+step*id]-min));
52: #else
53: id = i+j*m; x1 = PetscRealPart(xy[2*id]);y_1 = PetscRealPart(xy[2*id+1]);c1 = (int)(PETSC_DRAW_BASIC_COLORS+s*(PetscRealPart(v[k+step*id])-min));
54: id = i+j*m+1; x2 = PetscRealPart(xy[2*id]);y2 = y_1; c2 = (int)(PETSC_DRAW_BASIC_COLORS+s*(PetscRealPart(v[k+step*id])-min));
55: id = i+j*m+1+m;x3 = x2; y3 = PetscRealPart(xy[2*id+1]);c3 = (int)(PETSC_DRAW_BASIC_COLORS+s*(PetscRealPart(v[k+step*id])-min));
56: id = i+j*m+m; x4 = x1; y4 = y3; c4 = (int)(PETSC_DRAW_BASIC_COLORS+s*(PetscRealPart(v[k+step*id])-min));
57: #endif
58: PetscDrawTriangle(draw,x1,y_1,x2,y2,x3,y3,c1,c2,c3);
59: PetscDrawTriangle(draw,x1,y_1,x3,y3,x4,y4,c1,c3,c4);
60: if (zctx->showgrid) {
61: PetscDrawLine(draw,x1,y_1,x2,y2,PETSC_DRAW_BLACK);
62: PetscDrawLine(draw,x2,y2,x3,y3,PETSC_DRAW_BLACK);
63: PetscDrawLine(draw,x3,y3,x4,y4,PETSC_DRAW_BLACK);
64: PetscDrawLine(draw,x4,y4,x1,y_1,PETSC_DRAW_BLACK);
65: }
66: }
67: }
68: return(0);
69: }
73: PetscErrorCode VecView_MPI_Draw_DA2d(Vec xin,PetscViewer viewer)
74: {
75: DM da,dac,dag;
76: PetscErrorCode ierr;
77: PetscMPIInt rank;
78: PetscInt N,s,M,w;
79: const PetscInt *lx,*ly;
80: PetscReal coors[4],ymin,ymax,xmin,xmax;
81: PetscDraw draw,popup;
82: PetscBool isnull,useports = PETSC_FALSE;
83: MPI_Comm comm;
84: Vec xlocal,xcoor,xcoorl;
85: DMDABoundaryType bx,by;
86: DMDAStencilType st;
87: ZoomCtx zctx;
88: PetscDrawViewPorts *ports = PETSC_NULL;
89: PetscViewerFormat format;
90: PetscInt *displayfields;
91: PetscInt ndisplayfields,i,nbounds;
92: PetscBool flg;
93: const PetscReal *bounds;
96: zctx.showgrid = PETSC_FALSE;
97: PetscViewerDrawGetDraw(viewer,0,&draw);
98: PetscDrawIsNull(draw,&isnull); if (isnull) return(0);
99: PetscViewerDrawGetBounds(viewer,&nbounds,&bounds);
101: PetscObjectQuery((PetscObject)xin,"DM",(PetscObject*)&da);
102: if (!da) SETERRQ(((PetscObject)xin)->comm,PETSC_ERR_ARG_WRONG,"Vector not generated from a DMDA");
104: PetscObjectGetComm((PetscObject)xin,&comm);
105: MPI_Comm_rank(comm,&rank);
107: DMDAGetInfo(da,0,&M,&N,0,&zctx.m,&zctx.n,0,&w,&s,&bx,&by,0,&st);
108: DMDAGetOwnershipRanges(da,&lx,&ly,PETSC_NULL);
110: /*
111: Obtain a sequential vector that is going to contain the local values plus ONE layer of
112: ghosted values to draw the graphics from. We also need its corresponding DMDA (dac) that will
113: update the local values pluse ONE layer of ghost values.
114: */
115: PetscObjectQuery((PetscObject)da,"GraphicsGhosted",(PetscObject*)&xlocal);
116: if (!xlocal) {
117: if (bx != DMDA_BOUNDARY_NONE || by != DMDA_BOUNDARY_NONE || s != 1 || st != DMDA_STENCIL_BOX) {
118: /*
119: if original da is not of stencil width one, or periodic or not a box stencil then
120: create a special DMDA to handle one level of ghost points for graphics
121: */
122: DMDACreate2d(comm,DMDA_BOUNDARY_NONE,DMDA_BOUNDARY_NONE,DMDA_STENCIL_BOX,M,N,zctx.m,zctx.n,w,1,lx,ly,&dac);
123: PetscInfo(da,"Creating auxilary DMDA for managing graphics ghost points\n");
124: } else {
125: /* otherwise we can use the da we already have */
126: dac = da;
127: }
128: /* create local vector for holding ghosted values used in graphics */
129: DMCreateLocalVector(dac,&xlocal);
130: if (dac != da) {
131: /* don't keep any public reference of this DMDA, is is only available through xlocal */
132: PetscObjectDereference((PetscObject)dac);
133: } else {
134: /* remove association between xlocal and da, because below we compose in the opposite
135: direction and if we left this connect we'd get a loop, so the objects could
136: never be destroyed */
137: PetscObjectRemoveReference((PetscObject)xlocal,"DM");
138: }
139: PetscObjectCompose((PetscObject)da,"GraphicsGhosted",(PetscObject)xlocal);
140: PetscObjectDereference((PetscObject)xlocal);
141: } else {
142: if (bx != DMDA_BOUNDARY_NONE || by != DMDA_BOUNDARY_NONE || s != 1 || st != DMDA_STENCIL_BOX) {
143: PetscObjectQuery((PetscObject)xlocal,"DM",(PetscObject*)&dac);
144: } else {
145: dac = da;
146: }
147: }
149: /*
150: Get local (ghosted) values of vector
151: */
152: DMGlobalToLocalBegin(dac,xin,INSERT_VALUES,xlocal);
153: DMGlobalToLocalEnd(dac,xin,INSERT_VALUES,xlocal);
154: VecGetArray(xlocal,&zctx.v);
156: /* get coordinates of nodes */
157: DMDAGetCoordinates(da,&xcoor);
158: if (!xcoor) {
159: DMDASetUniformCoordinates(da,0.0,1.0,0.0,1.0,0.0,0.0);
160: DMDAGetCoordinates(da,&xcoor);
161: }
163: /*
164: Determine the min and max coordinates in plot
165: */
166: VecStrideMin(xcoor,0,PETSC_NULL,&xmin);
167: VecStrideMax(xcoor,0,PETSC_NULL,&xmax);
168: VecStrideMin(xcoor,1,PETSC_NULL,&ymin);
169: VecStrideMax(xcoor,1,PETSC_NULL,&ymax);
170: coors[0] = xmin - .05*(xmax- xmin); coors[2] = xmax + .05*(xmax - xmin);
171: coors[1] = ymin - .05*(ymax- ymin); coors[3] = ymax + .05*(ymax - ymin);
172: PetscInfo4(da,"Preparing DMDA 2d contour plot coordinates %G %G %G %G\n",coors[0],coors[1],coors[2],coors[3]);
174: /*
175: get local ghosted version of coordinates
176: */
177: PetscObjectQuery((PetscObject)da,"GraphicsCoordinateGhosted",(PetscObject*)&xcoorl);
178: if (!xcoorl) {
179: /* create DMDA to get local version of graphics */
180: DMDACreate2d(comm,DMDA_BOUNDARY_NONE,DMDA_BOUNDARY_NONE,DMDA_STENCIL_BOX,M,N,zctx.m,zctx.n,2,1,lx,ly,&dag);
181: PetscInfo(dag,"Creating auxilary DMDA for managing graphics coordinates ghost points\n");
182: DMCreateLocalVector(dag,&xcoorl);
183: PetscObjectCompose((PetscObject)da,"GraphicsCoordinateGhosted",(PetscObject)xcoorl);
184: PetscObjectDereference((PetscObject)dag);
185: PetscObjectDereference((PetscObject)xcoorl);
186: } else {
187: PetscObjectQuery((PetscObject)xcoorl,"DM",(PetscObject*)&dag);
188: }
189: DMGlobalToLocalBegin(dag,xcoor,INSERT_VALUES,xcoorl);
190: DMGlobalToLocalEnd(dag,xcoor,INSERT_VALUES,xcoorl);
191: VecGetArray(xcoorl,&zctx.xy);
192:
193: /*
194: Get information about size of area each processor must do graphics for
195: */
196: DMDAGetInfo(dac,0,&M,&N,0,0,0,0,&zctx.step,0,&bx,&by,0,0);
197: DMDAGetGhostCorners(dac,0,0,0,&zctx.m,&zctx.n,0);
199: PetscOptionsGetBool(PETSC_NULL,"-draw_contour_grid",&zctx.showgrid,PETSC_NULL);
200: PetscMalloc(zctx.step*sizeof(PetscInt),&displayfields);
201: for (i=0; i<zctx.step; i++) displayfields[i] = i;
202: ndisplayfields = zctx.step;
203: PetscOptionsGetIntArray(PETSC_NULL,"-draw_fields",displayfields,&ndisplayfields,&flg);
204: if (!flg) ndisplayfields = zctx.step;
206: PetscViewerGetFormat(viewer,&format);
207: PetscOptionsGetBool(PETSC_NULL,"-draw_ports",&useports,PETSC_NULL);
208: if (useports || format == PETSC_VIEWER_DRAW_PORTS){
209: PetscDrawSynchronizedClear(draw);
210: PetscDrawViewPortsCreate(draw,ndisplayfields,&ports);
211: }
213: /*
214: Loop over each field; drawing each in a different window
215: */
216: for (i=0; i<ndisplayfields; i++) {
217: zctx.k = displayfields[i];
218: if (useports) {
219: PetscDrawViewPortsSet(ports,i);
220: } else {
221: PetscViewerDrawGetDraw(viewer,i,&draw);
222: PetscDrawSynchronizedClear(draw);
223: }
225: /*
226: Determine the min and max color in plot
227: */
228: VecStrideMin(xin,zctx.k,PETSC_NULL,&zctx.min);
229: VecStrideMax(xin,zctx.k,PETSC_NULL,&zctx.max);
230: if (zctx.k < nbounds) {
231: zctx.min = PetscMin(zctx.min,bounds[2*zctx.k]);
232: zctx.max = PetscMax(zctx.max,bounds[2*zctx.k+1]);
233: }
234: if (zctx.min == zctx.max) {
235: zctx.min -= 1.e-12;
236: zctx.max += 1.e-12;
237: }
239: if (!rank) {
240: const char *title;
242: DMDAGetFieldName(da,zctx.k,&title);
243: if (title) {
244: PetscDrawSetTitle(draw,title);
245: }
246: }
247: PetscDrawSetCoordinates(draw,coors[0],coors[1],coors[2],coors[3]);
248: PetscInfo2(da,"DMDA 2d contour plot min %G max %G\n",zctx.min,zctx.max);
250: PetscDrawGetPopup(draw,&popup);
251: if (popup) {PetscDrawScalePopup(popup,zctx.min,zctx.max);}
253: zctx.scale = (245.0 - PETSC_DRAW_BASIC_COLORS)/(zctx.max - zctx.min);
255: PetscDrawZoom(draw,VecView_MPI_Draw_DA2d_Zoom,&zctx);
256: }
257: PetscFree(displayfields);
258: PetscDrawViewPortsDestroy(ports);
260: VecRestoreArray(xcoorl,&zctx.xy);
261: VecRestoreArray(xlocal,&zctx.v);
262: return(0);
263: }
266: #if defined(PETSC_HAVE_HDF5)
269: PetscErrorCode VecView_MPI_HDF5_DA(Vec xin,PetscViewer viewer)
270: {
271: DM dm;
272: DM_DA *da;
273: hid_t filespace; /* file dataspace identifier */
274: hid_t chunkspace; /* chunk dataset property identifier */
275: hid_t plist_id; /* property list identifier */
276: hid_t dset_id; /* dataset identifier */
277: hid_t memspace; /* memory dataspace identifier */
278: hid_t file_id;
279: hid_t group;
280: hid_t scalartype; /* scalar type (H5T_NATIVE_FLOAT or H5T_NATIVE_DOUBLE) */
281: herr_t status;
282: hsize_t i, dim;
283: hsize_t maxDims[6], dims[6], chunkDims[6], count[6], offset[6];
284: PetscInt timestep;
285: PetscScalar *x;
286: const char *vecname;
290: PetscViewerHDF5OpenGroup(viewer, &file_id, &group);
291: PetscViewerHDF5GetTimestep(viewer, ×tep);
293: PetscObjectQuery((PetscObject)xin,"DM",(PetscObject*)&dm);
294: if (!dm) SETERRQ(((PetscObject)xin)->comm,PETSC_ERR_ARG_WRONG,"Vector not generated from a DMDA");
295: da = (DM_DA*)dm->data;
297: /* Create the dataspace for the dataset.
298: *
299: * dims - holds the current dimensions of the dataset
300: *
301: * maxDims - holds the maximum dimensions of the dataset (unlimited
302: * for the number of time steps with the current dimensions for the
303: * other dimensions; so only additional time steps can be added).
304: *
305: * chunkDims - holds the size of a single time step (required to
306: * permit extending dataset).
307: */
308: dim = 0;
309: if (timestep >= 0) {
310: dims[dim] = timestep+1;
311: maxDims[dim] = H5S_UNLIMITED;
312: chunkDims[dim] = 1;
313: ++dim;
314: }
315: if (da->dim == 3) {
316: dims[dim] = PetscHDF5IntCast(da->P);
317: maxDims[dim] = dims[dim];
318: chunkDims[dim] = dims[dim];
319: ++dim;
320: }
321: if (da->dim > 1) {
322: dims[dim] = PetscHDF5IntCast(da->N);
323: maxDims[dim] = dims[dim];
324: chunkDims[dim] = dims[dim];
325: ++dim;
326: }
327: dims[dim] = PetscHDF5IntCast(da->M);
328: maxDims[dim] = dims[dim];
329: chunkDims[dim] = dims[dim];
330: ++dim;
331: if (da->w > 1) {
332: dims[dim] = PetscHDF5IntCast(da->w);
333: maxDims[dim] = dims[dim];
334: chunkDims[dim] = dims[dim];
335: ++dim;
336: }
337: #if defined(PETSC_USE_COMPLEX)
338: dims[dim] = 2;
339: maxDims[dim] = dims[dim];
340: chunkDims[dim] = dims[dim];
341: ++dim;
342: #endif
343: filespace = H5Screate_simple(dim, dims, maxDims);
344: if (filespace == -1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_LIB,"Cannot H5Screate_simple()");
346: #if defined(PETSC_USE_REAL_SINGLE)
347: scalartype = H5T_NATIVE_FLOAT;
348: #elif defined(PETSC_USE_REAL___FLOAT128)
349: #error "HDF5 output with 128 bit floats not supported."
350: #else
351: scalartype = H5T_NATIVE_DOUBLE;
352: #endif
354: /* Create the dataset with default properties and close filespace */
355: PetscObjectGetName((PetscObject)xin,&vecname);
356: if (!H5Lexists(group, vecname, H5P_DEFAULT)) {
357: /* Create chunk */
358: chunkspace = H5Pcreate(H5P_DATASET_CREATE);
359: if (chunkspace == -1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_LIB,"Cannot H5Pcreate()");
360: status = H5Pset_chunk(chunkspace, dim, chunkDims); CHKERRQ(status);
361:
362: #if (H5_VERS_MAJOR * 10000 + H5_VERS_MINOR * 100 + H5_VERS_RELEASE >= 10800)
363: dset_id = H5Dcreate2(group, vecname, scalartype, filespace, H5P_DEFAULT, chunkspace, H5P_DEFAULT);
364: #else
365: dset_id = H5Dcreate(group, vecname, scalartype, filespace, H5P_DEFAULT);
366: #endif
367: if (dset_id == -1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_LIB,"Cannot H5Dcreate2()");
368: } else {
369: dset_id = H5Dopen2(group, vecname, H5P_DEFAULT);
370: status = H5Dset_extent(dset_id, dims);CHKERRQ(status);
371: }
372: status = H5Sclose(filespace);CHKERRQ(status);
374: /* Each process defines a dataset and writes it to the hyperslab in the file */
375: dim = 0;
376: if (timestep >= 0) {
377: offset[dim] = timestep;
378: ++dim;
379: }
380: if (da->dim == 3) offset[dim++] = PetscHDF5IntCast(da->zs);
381: if (da->dim > 1) offset[dim++] = PetscHDF5IntCast(da->ys);
382: offset[dim++] = PetscHDF5IntCast(da->xs/da->w);
383: if (da->w > 1) offset[dim++] = 0;
384: #if defined(PETSC_USE_COMPLEX)
385: offset[dim++] = 0;
386: #endif
387: dim = 0;
388: if (timestep >= 0) {
389: count[dim] = 1;
390: ++dim;
391: }
392: if (da->dim == 3) count[dim++] = PetscHDF5IntCast(da->ze - da->zs);
393: if (da->dim > 1) count[dim++] = PetscHDF5IntCast(da->ye - da->ys);
394: count[dim++] = PetscHDF5IntCast((da->xe - da->xs)/da->w);
395: if (da->w > 1) count[dim++] = PetscHDF5IntCast(da->w);
396: #if defined(PETSC_USE_COMPLEX)
397: count[dim++] = 2;
398: #endif
399: memspace = H5Screate_simple(dim, count, NULL);
400: if (memspace == -1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_LIB,"Cannot H5Screate_simple()");
402: filespace = H5Dget_space(dset_id);
403: if (filespace == -1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_LIB,"Cannot H5Dget_space()");
404: status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, count, NULL);CHKERRQ(status);
406: /* Create property list for collective dataset write */
407: plist_id = H5Pcreate(H5P_DATASET_XFER);
408: if (plist_id == -1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_LIB,"Cannot H5Pcreate()");
409: #if defined(PETSC_HAVE_H5PSET_FAPL_MPIO)
410: status = H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_COLLECTIVE);CHKERRQ(status);
411: #endif
412: /* To write dataset independently use H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_INDEPENDENT) */
414: VecGetArray(xin, &x);
415: status = H5Dwrite(dset_id, scalartype, memspace, filespace, plist_id, x);CHKERRQ(status);
416: status = H5Fflush(file_id, H5F_SCOPE_GLOBAL);CHKERRQ(status);
417: VecRestoreArray(xin, &x);
419: /* Close/release resources */
420: if (group != file_id) {
421: status = H5Gclose(group);CHKERRQ(status);
422: }
423: status = H5Pclose(plist_id);CHKERRQ(status);
424: status = H5Sclose(filespace);CHKERRQ(status);
425: status = H5Sclose(memspace);CHKERRQ(status);
426: status = H5Dclose(dset_id);CHKERRQ(status);
427: PetscInfo1(xin,"Wrote Vec object with name %s\n",vecname);
428: return(0);
429: }
430: #endif
432: extern PetscErrorCode VecView_MPI_Draw_DA1d(Vec,PetscViewer);
434: #if defined(PETSC_HAVE_MPIIO)
437: static PetscErrorCode DMDAArrayMPIIO(DM da,PetscViewer viewer,Vec xin,PetscBool write)
438: {
439: PetscErrorCode ierr;
440: MPI_File mfdes;
441: PetscMPIInt gsizes[4],lsizes[4],lstarts[4],asiz,dof;
442: MPI_Datatype view;
443: const PetscScalar *array;
444: MPI_Offset off;
445: MPI_Aint ub,ul;
446: PetscInt type,rows,vecrows,tr[2];
447: DM_DA *dd = (DM_DA*)da->data;
450: VecGetSize(xin,&vecrows);
451: if (!write) {
452: /* Read vector header. */
453: PetscViewerBinaryRead(viewer,tr,2,PETSC_INT);
454: type = tr[0];
455: rows = tr[1];
456: if (type != VEC_FILE_CLASSID) SETERRQ(((PetscObject)da)->comm,PETSC_ERR_ARG_WRONG,"Not vector next in file");
457: if (rows != vecrows) SETERRQ(((PetscObject)da)->comm,PETSC_ERR_ARG_SIZ,"Vector in file not same size as DMDA vector");
458: } else {
459: tr[0] = VEC_FILE_CLASSID;
460: tr[1] = vecrows;
461: PetscViewerBinaryWrite(viewer,tr,2,PETSC_INT,PETSC_TRUE);
462: }
464: dof = PetscMPIIntCast(dd->w);
465: gsizes[0] = dof; gsizes[1] = PetscMPIIntCast(dd->M); gsizes[2] = PetscMPIIntCast(dd->N); gsizes[3] = PetscMPIIntCast(dd->P);
466: lsizes[0] = dof;lsizes[1] = PetscMPIIntCast((dd->xe-dd->xs)/dof); lsizes[2] = PetscMPIIntCast(dd->ye-dd->ys); lsizes[3] = PetscMPIIntCast(dd->ze-dd->zs);
467: lstarts[0] = 0; lstarts[1] = PetscMPIIntCast(dd->xs/dof); lstarts[2] = PetscMPIIntCast(dd->ys); lstarts[3] = PetscMPIIntCast(dd->zs);
468: MPI_Type_create_subarray(dd->dim+1,gsizes,lsizes,lstarts,MPI_ORDER_FORTRAN,MPIU_SCALAR,&view);
469: MPI_Type_commit(&view);
470:
471: PetscViewerBinaryGetMPIIODescriptor(viewer,&mfdes);
472: PetscViewerBinaryGetMPIIOOffset(viewer,&off);
473: MPI_File_set_view(mfdes,off,MPIU_SCALAR,view,(char *)"native",MPI_INFO_NULL);
474: VecGetArrayRead(xin,&array);
475: asiz = lsizes[1]*(lsizes[2] > 0 ? lsizes[2] : 1)*(lsizes[3] > 0 ? lsizes[3] : 1)*dof;
476: if (write) {
477: MPIU_File_write_all(mfdes,(PetscScalar*)array,asiz,MPIU_SCALAR,MPI_STATUS_IGNORE);
478: } else {
479: MPIU_File_read_all(mfdes,(PetscScalar*)array,asiz,MPIU_SCALAR,MPI_STATUS_IGNORE);
480: }
481: MPI_Type_get_extent(view,&ul,&ub);
482: PetscViewerBinaryAddMPIIOOffset(viewer,ub);
483: VecRestoreArrayRead(xin,&array);
484: MPI_Type_free(&view);
485: return(0);
486: }
487: #endif
489: EXTERN_C_BEGIN
492: PetscErrorCode VecView_MPI_DA(Vec xin,PetscViewer viewer)
493: {
494: DM da;
496: PetscInt dim;
497: Vec natural;
498: PetscBool isdraw,isvtk;
499: #if defined(PETSC_HAVE_HDF5)
500: PetscBool ishdf5;
501: #endif
502: const char *prefix,*name;
505: PetscObjectQuery((PetscObject)xin,"DM",(PetscObject*)&da);
506: if (!da) SETERRQ(((PetscObject)xin)->comm,PETSC_ERR_ARG_WRONG,"Vector not generated from a DMDA");
507: PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERDRAW,&isdraw);
508: PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERVTK,&isvtk);
509: #if defined(PETSC_HAVE_HDF5)
510: PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERHDF5,&ishdf5);
511: #endif
512: if (isdraw) {
513: DMDAGetInfo(da,&dim,0,0,0,0,0,0,0,0,0,0,0,0);
514: if (dim == 1) {
515: VecView_MPI_Draw_DA1d(xin,viewer);
516: } else if (dim == 2) {
517: VecView_MPI_Draw_DA2d(xin,viewer);
518: } else {
519: SETERRQ1(((PetscObject)da)->comm,PETSC_ERR_SUP,"Cannot graphically view vector associated with this dimensional DMDA %D",dim);
520: }
521: } else if (isvtk) { /* Duplicate the Vec and hold a reference to the DM */
522: Vec Y;
523: PetscObjectReference((PetscObject)da);
524: VecDuplicate(xin,&Y);
525: if (((PetscObject)xin)->name) {
526: /* If xin was named, copy the name over to Y. The duplicate names are safe because nobody else will ever see Y. */
527: PetscObjectSetName((PetscObject)Y,((PetscObject)xin)->name);
528: }
529: VecCopy(xin,Y);
530: PetscViewerVTKAddField(viewer,(PetscObject)da,DMDAVTKWriteAll,PETSC_VTK_POINT_FIELD,(PetscObject)Y);
531: #if defined(PETSC_HAVE_HDF5)
532: } else if (ishdf5) {
533: VecView_MPI_HDF5_DA(xin,viewer);
534: #endif
535: } else {
536: #if defined(PETSC_HAVE_MPIIO)
537: PetscBool isbinary,isMPIIO;
539: PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERBINARY,&isbinary);
540: if (isbinary) {
541: PetscViewerBinaryGetMPIIO(viewer,&isMPIIO);
542: if (isMPIIO) {
543: DMDAArrayMPIIO(da,viewer,xin,PETSC_TRUE);
544: return(0);
545: }
546: }
547: #endif
548:
549: /* call viewer on natural ordering */
550: PetscObjectGetOptionsPrefix((PetscObject)xin,&prefix);
551: DMDACreateNaturalVector(da,&natural);
552: PetscObjectSetOptionsPrefix((PetscObject)natural,prefix);
553: DMDAGlobalToNaturalBegin(da,xin,INSERT_VALUES,natural);
554: DMDAGlobalToNaturalEnd(da,xin,INSERT_VALUES,natural);
555: PetscObjectGetName((PetscObject)xin,&name);
556: PetscObjectSetName((PetscObject)natural,name);
557: VecView(natural,viewer);
558: VecDestroy(&natural);
559: }
560: return(0);
561: }
562: EXTERN_C_END
564: #if defined(PETSC_HAVE_HDF5)
567: PetscErrorCode VecLoad_HDF5_DA(Vec xin, PetscViewer viewer)
568: {
569: DM da;
571: hsize_t dim;
572: hsize_t count[5];
573: hsize_t offset[5];
574: PetscInt cnt = 0;
575: PetscScalar *x;
576: const char *vecname;
577: hid_t filespace; /* file dataspace identifier */
578: hid_t plist_id; /* property list identifier */
579: hid_t dset_id; /* dataset identifier */
580: hid_t memspace; /* memory dataspace identifier */
581: hid_t file_id;
582: herr_t status;
583: DM_DA *dd;
586: PetscViewerHDF5GetFileId(viewer, &file_id);
587: PetscObjectQuery((PetscObject)xin,"DM",(PetscObject*)&da);
588: dd = (DM_DA*)da->data;
590: /* Create the dataspace for the dataset */
591: dim = PetscHDF5IntCast(dd->dim + ((dd->w == 1) ? 0 : 1));
592: #if defined(PETSC_USE_COMPLEX)
593: dim++;
594: #endif
596: /* Create the dataset with default properties and close filespace */
597: PetscObjectGetName((PetscObject)xin,&vecname);
598: #if (H5_VERS_MAJOR * 10000 + H5_VERS_MINOR * 100 + H5_VERS_RELEASE >= 10800)
599: dset_id = H5Dopen2(file_id, vecname, H5P_DEFAULT);
600: #else
601: dset_id = H5Dopen(file_id, vecname);
602: #endif
603: if (dset_id == -1) SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_LIB,"Cannot H5Dopen2() with Vec named %s",vecname);
604: filespace = H5Dget_space(dset_id);
606: /* Each process defines a dataset and reads it from the hyperslab in the file */
607: cnt = 0;
608: if (dd->dim == 3) offset[cnt++] = PetscHDF5IntCast(dd->zs);
609: if (dd->dim > 1) offset[cnt++] = PetscHDF5IntCast(dd->ys);
610: offset[cnt++] = PetscHDF5IntCast(dd->xs/dd->w);
611: if (dd->w > 1) offset[cnt++] = 0;
612: #if defined(PETSC_USE_COMPLEX)
613: offset[cnt++] = 0;
614: #endif
615: cnt = 0;
616: if (dd->dim == 3) count[cnt++] = PetscHDF5IntCast(dd->ze - dd->zs);
617: if (dd->dim > 1) count[cnt++] = PetscHDF5IntCast(dd->ye - dd->ys);
618: count[cnt++] = PetscHDF5IntCast((dd->xe - dd->xs)/dd->w);
619: if (dd->w > 1) count[cnt++] = PetscHDF5IntCast(dd->w);
620: #if defined(PETSC_USE_COMPLEX)
621: count[cnt++] = 2;
622: #endif
623: memspace = H5Screate_simple(dim, count, NULL);
624: if (memspace == -1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_LIB,"Cannot H5Screate_simple()");
626: status = H5Sselect_hyperslab(filespace, H5S_SELECT_SET, offset, NULL, count, NULL);CHKERRQ(status);
628: /* Create property list for collective dataset write */
629: plist_id = H5Pcreate(H5P_DATASET_XFER);
630: if (plist_id == -1) SETERRQ(PETSC_COMM_SELF,PETSC_ERR_LIB,"Cannot H5Pcreate()");
631: #if defined(PETSC_HAVE_H5PSET_FAPL_MPIO)
632: status = H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_COLLECTIVE);CHKERRQ(status);
633: #endif
634: /* To write dataset independently use H5Pset_dxpl_mpio(plist_id, H5FD_MPIO_INDEPENDENT) */
636: VecGetArray(xin, &x);
637: status = H5Dread(dset_id, H5T_NATIVE_DOUBLE, memspace, filespace, plist_id, x);CHKERRQ(status);
638: VecRestoreArray(xin, &x);
640: /* Close/release resources */
641: status = H5Pclose(plist_id);CHKERRQ(status);
642: status = H5Sclose(filespace);CHKERRQ(status);
643: status = H5Sclose(memspace);CHKERRQ(status);
644: status = H5Dclose(dset_id);CHKERRQ(status);
645: return(0);
646: }
647: #endif
651: PetscErrorCode VecLoad_Binary_DA(Vec xin, PetscViewer viewer)
652: {
653: DM da;
655: Vec natural;
656: const char *prefix;
657: PetscInt bs;
658: PetscBool flag;
659: DM_DA *dd;
660: #if defined(PETSC_HAVE_MPIIO)
661: PetscBool isMPIIO;
662: #endif
665: PetscObjectQuery((PetscObject)xin,"DM",(PetscObject*)&da);
666: dd = (DM_DA*)da->data;
667: #if defined(PETSC_HAVE_MPIIO)
668: PetscViewerBinaryGetMPIIO(viewer,&isMPIIO);
669: if (isMPIIO) {
670: DMDAArrayMPIIO(da,viewer,xin,PETSC_FALSE);
671: return(0);
672: }
673: #endif
675: PetscObjectGetOptionsPrefix((PetscObject)xin,&prefix);
676: DMDACreateNaturalVector(da,&natural);
677: PetscObjectSetName((PetscObject)natural,((PetscObject)xin)->name);
678: PetscObjectSetOptionsPrefix((PetscObject)natural,prefix);
679: VecLoad_Binary(natural,viewer);
680: DMDANaturalToGlobalBegin(da,natural,INSERT_VALUES,xin);
681: DMDANaturalToGlobalEnd(da,natural,INSERT_VALUES,xin);
682: VecDestroy(&natural);
683: PetscInfo(xin,"Loading vector from natural ordering into DMDA\n");
684: PetscOptionsGetInt(((PetscObject)xin)->prefix,"-vecload_block_size",&bs,&flag);
685: if (flag && bs != dd->w) {
686: PetscInfo2(xin,"Block size in file %D not equal to DMDA's dof %D\n",bs,dd->w);
687: }
688: return(0);
689: }
691: EXTERN_C_BEGIN
694: PetscErrorCode VecLoad_Default_DA(Vec xin, PetscViewer viewer)
695: {
697: DM da;
698: PetscBool isbinary;
699: #if defined(PETSC_HAVE_HDF5)
700: PetscBool ishdf5;
701: #endif
704: PetscObjectQuery((PetscObject)xin,"DM",(PetscObject*)&da);
705: if (!da) SETERRQ(((PetscObject)xin)->comm,PETSC_ERR_ARG_WRONG,"Vector not generated from a DMDA");
707: #if defined(PETSC_HAVE_HDF5)
708: PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERHDF5,&ishdf5);
709: #endif
710: PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERBINARY,&isbinary);
712: if (isbinary) {
713: VecLoad_Binary_DA(xin,viewer);
714: #if defined(PETSC_HAVE_HDF5)
715: } else if (ishdf5) {
716: VecLoad_HDF5_DA(xin,viewer);
717: #endif
718: } else SETERRQ1(PETSC_COMM_SELF,PETSC_ERR_SUP,"Viewer type %s not supported for vector loading", ((PetscObject)viewer)->type_name);
719: return(0);
720: }
721: EXTERN_C_END