147c6ae99SBarry Smith 247c6ae99SBarry Smith /* 3aa219208SBarry Smith Plots vectors obtained with DMDACreate2d() 447c6ae99SBarry Smith */ 547c6ae99SBarry Smith 6af0996ceSBarry Smith #include <petsc/private/dmdaimpl.h> /*I "petscdmda.h" I*/ 78135c375SStefano Zampini #include <petsc/private/glvisvecimpl.h> 82d95be3dSVaclav Hapla #include <petsc/private/viewerhdf5impl.h> 99804daf3SBarry Smith #include <petscdraw.h> 1047c6ae99SBarry Smith 1147c6ae99SBarry Smith /* 1247c6ae99SBarry Smith The data that is passed into the graphics callback 1347c6ae99SBarry Smith */ 1447c6ae99SBarry Smith typedef struct { 15e5ab1681SLisandro Dalcin PetscMPIInt rank; 16e5ab1681SLisandro Dalcin PetscInt m,n,dof,k; 17e5ab1681SLisandro Dalcin PetscReal xmin,xmax,ymin,ymax,min,max; 185edff71fSBarry Smith const PetscScalar *xy,*v; 197fe7c8feSLisandro Dalcin PetscBool showaxis,showgrid; 20109c9344SBarry Smith const char *name0,*name1; 2147c6ae99SBarry Smith } ZoomCtx; 2247c6ae99SBarry Smith 2347c6ae99SBarry Smith /* 2447c6ae99SBarry Smith This does the drawing for one particular field 2547c6ae99SBarry Smith in one particular set of coordinates. It is a callback 2647c6ae99SBarry Smith called from PetscDrawZoom() 2747c6ae99SBarry Smith */ 2847c6ae99SBarry Smith PetscErrorCode VecView_MPI_Draw_DA2d_Zoom(PetscDraw draw,void *ctx) 2947c6ae99SBarry Smith { 3047c6ae99SBarry Smith ZoomCtx *zctx = (ZoomCtx*)ctx; 31e5ab1681SLisandro Dalcin PetscInt m,n,i,j,k,dof,id,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; 97e5ab1681SLisandro Dalcin char value[16]; size_t len; PetscReal w; 989566063dSJacob Faibussowitsch PetscCall(PetscSNPrintf(value,16,"%0.2e",xmin)); 999566063dSJacob Faibussowitsch PetscCall(PetscDrawString(draw,xmin,ymin - .05*(ymax - ymin),PETSC_DRAW_BLACK,value)); 1009566063dSJacob Faibussowitsch PetscCall(PetscSNPrintf(value,16,"%0.2e",xmax)); 1019566063dSJacob Faibussowitsch PetscCall(PetscStrlen(value,&len)); 1029566063dSJacob Faibussowitsch PetscCall(PetscDrawStringGetSize(draw,&w,NULL)); 1039566063dSJacob Faibussowitsch PetscCall(PetscDrawString(draw,xmax - len*w,ymin - .05*(ymax - ymin),PETSC_DRAW_BLACK,value)); 1049566063dSJacob Faibussowitsch PetscCall(PetscSNPrintf(value,16,"%0.2e",ymin)); 1059566063dSJacob Faibussowitsch PetscCall(PetscDrawString(draw,xmin - .05*(xmax - xmin),ymin,PETSC_DRAW_BLACK,value)); 1069566063dSJacob Faibussowitsch PetscCall(PetscSNPrintf(value,16,"%0.2e",ymax)); 1079566063dSJacob Faibussowitsch PetscCall(PetscDrawString(draw,xmin - .05*(xmax - xmin),ymax,PETSC_DRAW_BLACK,value)); 108e5ab1681SLisandro Dalcin } 109e5ab1681SLisandro Dalcin } 110d0609cedSBarry Smith PetscDrawCollectiveEnd(draw); 11147c6ae99SBarry Smith PetscFunctionReturn(0); 11247c6ae99SBarry Smith } 11347c6ae99SBarry Smith 11447c6ae99SBarry Smith PetscErrorCode VecView_MPI_Draw_DA2d(Vec xin,PetscViewer viewer) 11547c6ae99SBarry Smith { 1169a42bb27SBarry Smith DM da,dac,dag; 117a74ba6f7SBarry Smith PetscInt N,s,M,w,ncoors = 4; 11847c6ae99SBarry Smith const PetscInt *lx,*ly; 119e5ab1681SLisandro Dalcin PetscReal coors[4]; 12047c6ae99SBarry Smith PetscDraw draw,popup; 12147c6ae99SBarry Smith PetscBool isnull,useports = PETSC_FALSE; 12247c6ae99SBarry Smith MPI_Comm comm; 12347c6ae99SBarry Smith Vec xlocal,xcoor,xcoorl; 124bff4a2f0SMatthew G. Knepley DMBoundaryType bx,by; 125aa219208SBarry Smith DMDAStencilType st; 12647c6ae99SBarry Smith ZoomCtx zctx; 1270298fd71SBarry Smith PetscDrawViewPorts *ports = NULL; 12847c6ae99SBarry Smith PetscViewerFormat format; 12920d0051dSBarry Smith PetscInt *displayfields; 13067dd0837SBarry Smith PetscInt ndisplayfields,i,nbounds; 13167dd0837SBarry Smith const PetscReal *bounds; 13247c6ae99SBarry Smith 13347c6ae99SBarry Smith PetscFunctionBegin; 13447c6ae99SBarry Smith zctx.showgrid = PETSC_FALSE; 1357fe7c8feSLisandro Dalcin zctx.showaxis = PETSC_TRUE; 1368865f1eaSKarl Rupp 1379566063dSJacob Faibussowitsch PetscCall(PetscViewerDrawGetDraw(viewer,0,&draw)); 1389566063dSJacob Faibussowitsch PetscCall(PetscDrawIsNull(draw,&isnull)); 1395b399a63SLisandro Dalcin if (isnull) PetscFunctionReturn(0); 1405b399a63SLisandro Dalcin 1419566063dSJacob Faibussowitsch PetscCall(PetscViewerDrawGetBounds(viewer,&nbounds,&bounds)); 14247c6ae99SBarry Smith 1439566063dSJacob Faibussowitsch PetscCall(VecGetDM(xin,&da)); 1447a8be351SBarry Smith PetscCheck(da,PetscObjectComm((PetscObject)xin),PETSC_ERR_ARG_WRONG,"Vector not generated from a DMDA"); 14547c6ae99SBarry Smith 1469566063dSJacob Faibussowitsch PetscCall(PetscObjectGetComm((PetscObject)xin,&comm)); 1479566063dSJacob Faibussowitsch PetscCallMPI(MPI_Comm_rank(comm,&zctx.rank)); 14847c6ae99SBarry Smith 1499566063dSJacob Faibussowitsch PetscCall(DMDAGetInfo(da,NULL,&M,&N,NULL,&zctx.m,&zctx.n,NULL,&w,&s,&bx,&by,NULL,&st)); 1509566063dSJacob Faibussowitsch PetscCall(DMDAGetOwnershipRanges(da,&lx,&ly,NULL)); 15147c6ae99SBarry Smith 15247c6ae99SBarry Smith /* 15347c6ae99SBarry Smith Obtain a sequential vector that is going to contain the local values plus ONE layer of 154aa219208SBarry Smith ghosted values to draw the graphics from. We also need its corresponding DMDA (dac) that will 15547c6ae99SBarry Smith update the local values pluse ONE layer of ghost values. 15647c6ae99SBarry Smith */ 1579566063dSJacob Faibussowitsch PetscCall(PetscObjectQuery((PetscObject)da,"GraphicsGhosted",(PetscObject*)&xlocal)); 15847c6ae99SBarry Smith if (!xlocal) { 159bff4a2f0SMatthew G. Knepley if (bx != DM_BOUNDARY_NONE || by != DM_BOUNDARY_NONE || s != 1 || st != DMDA_STENCIL_BOX) { 16047c6ae99SBarry Smith /* 16147c6ae99SBarry Smith if original da is not of stencil width one, or periodic or not a box stencil then 162aa219208SBarry Smith create a special DMDA to handle one level of ghost points for graphics 16347c6ae99SBarry Smith */ 1649566063dSJacob Faibussowitsch PetscCall(DMDACreate2d(comm,DM_BOUNDARY_NONE,DM_BOUNDARY_NONE,DMDA_STENCIL_BOX,M,N,zctx.m,zctx.n,w,1,lx,ly,&dac)); 1659566063dSJacob Faibussowitsch PetscCall(DMSetUp(dac)); 1666aad120cSJose E. Roman PetscCall(PetscInfo(da,"Creating auxiliary DMDA for managing graphics ghost points\n")); 16747c6ae99SBarry Smith } else { 16847c6ae99SBarry Smith /* otherwise we can use the da we already have */ 16947c6ae99SBarry Smith dac = da; 17047c6ae99SBarry Smith } 17147c6ae99SBarry Smith /* create local vector for holding ghosted values used in graphics */ 1729566063dSJacob Faibussowitsch PetscCall(DMCreateLocalVector(dac,&xlocal)); 17347c6ae99SBarry Smith if (dac != da) { 174aa219208SBarry Smith /* don't keep any public reference of this DMDA, is is only available through xlocal */ 1759566063dSJacob Faibussowitsch PetscCall(PetscObjectDereference((PetscObject)dac)); 17647c6ae99SBarry Smith } else { 17747c6ae99SBarry Smith /* remove association between xlocal and da, because below we compose in the opposite 17847c6ae99SBarry Smith direction and if we left this connect we'd get a loop, so the objects could 17947c6ae99SBarry Smith never be destroyed */ 1809566063dSJacob Faibussowitsch PetscCall(PetscObjectRemoveReference((PetscObject)xlocal,"__PETSc_dm")); 18147c6ae99SBarry Smith } 1829566063dSJacob Faibussowitsch PetscCall(PetscObjectCompose((PetscObject)da,"GraphicsGhosted",(PetscObject)xlocal)); 1839566063dSJacob Faibussowitsch PetscCall(PetscObjectDereference((PetscObject)xlocal)); 18447c6ae99SBarry Smith } else { 185bff4a2f0SMatthew G. Knepley if (bx != DM_BOUNDARY_NONE || by != DM_BOUNDARY_NONE || s != 1 || st != DMDA_STENCIL_BOX) { 1869566063dSJacob Faibussowitsch PetscCall(VecGetDM(xlocal, &dac)); 187f7923d8aSBarry Smith } else { 188f7923d8aSBarry Smith dac = da; 18947c6ae99SBarry Smith } 19047c6ae99SBarry Smith } 19147c6ae99SBarry Smith 19247c6ae99SBarry Smith /* 19347c6ae99SBarry Smith Get local (ghosted) values of vector 19447c6ae99SBarry Smith */ 1959566063dSJacob Faibussowitsch PetscCall(DMGlobalToLocalBegin(dac,xin,INSERT_VALUES,xlocal)); 1969566063dSJacob Faibussowitsch PetscCall(DMGlobalToLocalEnd(dac,xin,INSERT_VALUES,xlocal)); 1979566063dSJacob Faibussowitsch PetscCall(VecGetArrayRead(xlocal,&zctx.v)); 19847c6ae99SBarry Smith 199832b7cebSLisandro Dalcin /* 200832b7cebSLisandro Dalcin Get coordinates of nodes 201832b7cebSLisandro Dalcin */ 2029566063dSJacob Faibussowitsch PetscCall(DMGetCoordinates(da,&xcoor)); 20347c6ae99SBarry Smith if (!xcoor) { 2049566063dSJacob Faibussowitsch PetscCall(DMDASetUniformCoordinates(da,0.0,1.0,0.0,1.0,0.0,0.0)); 2059566063dSJacob Faibussowitsch PetscCall(DMGetCoordinates(da,&xcoor)); 20647c6ae99SBarry Smith } 20747c6ae99SBarry Smith 20847c6ae99SBarry Smith /* 20947c6ae99SBarry Smith Determine the min and max coordinates in plot 21047c6ae99SBarry Smith */ 2119566063dSJacob Faibussowitsch PetscCall(VecStrideMin(xcoor,0,NULL,&zctx.xmin)); 2129566063dSJacob Faibussowitsch PetscCall(VecStrideMax(xcoor,0,NULL,&zctx.xmax)); 2139566063dSJacob Faibussowitsch PetscCall(VecStrideMin(xcoor,1,NULL,&zctx.ymin)); 2149566063dSJacob Faibussowitsch PetscCall(VecStrideMax(xcoor,1,NULL,&zctx.ymax)); 2159566063dSJacob Faibussowitsch PetscCall(PetscOptionsGetBool(NULL,NULL,"-draw_contour_axis",&zctx.showaxis,NULL)); 2167fe7c8feSLisandro Dalcin if (zctx.showaxis) { 2177fe7c8feSLisandro Dalcin coors[0] = zctx.xmin - .05*(zctx.xmax - zctx.xmin); coors[1] = zctx.ymin - .05*(zctx.ymax - zctx.ymin); 2187fe7c8feSLisandro Dalcin coors[2] = zctx.xmax + .05*(zctx.xmax - zctx.xmin); coors[3] = zctx.ymax + .05*(zctx.ymax - zctx.ymin); 2197fe7c8feSLisandro Dalcin } else { 2207fe7c8feSLisandro Dalcin coors[0] = zctx.xmin; coors[1] = zctx.ymin; coors[2] = zctx.xmax; coors[3] = zctx.ymax; 2217fe7c8feSLisandro Dalcin } 2229566063dSJacob Faibussowitsch PetscCall(PetscOptionsGetRealArray(NULL,NULL,"-draw_coordinates",coors,&ncoors,NULL)); 2239566063dSJacob 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])); 224a74ba6f7SBarry Smith 22547c6ae99SBarry Smith /* 226832b7cebSLisandro Dalcin Get local ghosted version of coordinates 22747c6ae99SBarry Smith */ 2289566063dSJacob Faibussowitsch PetscCall(PetscObjectQuery((PetscObject)da,"GraphicsCoordinateGhosted",(PetscObject*)&xcoorl)); 22947c6ae99SBarry Smith if (!xcoorl) { 230aa219208SBarry Smith /* create DMDA to get local version of graphics */ 2319566063dSJacob Faibussowitsch PetscCall(DMDACreate2d(comm,DM_BOUNDARY_NONE,DM_BOUNDARY_NONE,DMDA_STENCIL_BOX,M,N,zctx.m,zctx.n,2,1,lx,ly,&dag)); 2329566063dSJacob Faibussowitsch PetscCall(DMSetUp(dag)); 2336aad120cSJose E. Roman PetscCall(PetscInfo(dag,"Creating auxiliary DMDA for managing graphics coordinates ghost points\n")); 2349566063dSJacob Faibussowitsch PetscCall(DMCreateLocalVector(dag,&xcoorl)); 2359566063dSJacob Faibussowitsch PetscCall(PetscObjectCompose((PetscObject)da,"GraphicsCoordinateGhosted",(PetscObject)xcoorl)); 2369566063dSJacob Faibussowitsch PetscCall(PetscObjectDereference((PetscObject)dag)); 2379566063dSJacob Faibussowitsch PetscCall(PetscObjectDereference((PetscObject)xcoorl)); 2381baa6e33SBarry Smith } else PetscCall(VecGetDM(xcoorl,&dag)); 2399566063dSJacob Faibussowitsch PetscCall(DMGlobalToLocalBegin(dag,xcoor,INSERT_VALUES,xcoorl)); 2409566063dSJacob Faibussowitsch PetscCall(DMGlobalToLocalEnd(dag,xcoor,INSERT_VALUES,xcoorl)); 2419566063dSJacob Faibussowitsch PetscCall(VecGetArrayRead(xcoorl,&zctx.xy)); 2429566063dSJacob Faibussowitsch PetscCall(DMDAGetCoordinateName(da,0,&zctx.name0)); 2439566063dSJacob Faibussowitsch PetscCall(DMDAGetCoordinateName(da,1,&zctx.name1)); 24447c6ae99SBarry Smith 24547c6ae99SBarry Smith /* 24647c6ae99SBarry Smith Get information about size of area each processor must do graphics for 24747c6ae99SBarry Smith */ 2489566063dSJacob Faibussowitsch PetscCall(DMDAGetInfo(dac,NULL,&M,&N,NULL,NULL,NULL,NULL,&zctx.dof,NULL,&bx,&by,NULL,NULL)); 2499566063dSJacob Faibussowitsch PetscCall(DMDAGetGhostCorners(dac,NULL,NULL,NULL,&zctx.m,&zctx.n,NULL)); 2509566063dSJacob Faibussowitsch PetscCall(PetscOptionsGetBool(NULL,NULL,"-draw_contour_grid",&zctx.showgrid,NULL)); 2514e6118eeSBarry Smith 2529566063dSJacob Faibussowitsch PetscCall(DMDASelectFields(da,&ndisplayfields,&displayfields)); 2539566063dSJacob Faibussowitsch PetscCall(PetscViewerGetFormat(viewer,&format)); 2549566063dSJacob Faibussowitsch PetscCall(PetscOptionsGetBool(NULL,NULL,"-draw_ports",&useports,NULL)); 255832b7cebSLisandro Dalcin if (format == PETSC_VIEWER_DRAW_PORTS) useports = PETSC_TRUE; 256832b7cebSLisandro Dalcin if (useports) { 2579566063dSJacob Faibussowitsch PetscCall(PetscViewerDrawGetDraw(viewer,0,&draw)); 2589566063dSJacob Faibussowitsch PetscCall(PetscDrawCheckResizedWindow(draw)); 2599566063dSJacob Faibussowitsch PetscCall(PetscDrawClear(draw)); 2609566063dSJacob Faibussowitsch PetscCall(PetscDrawViewPortsCreate(draw,ndisplayfields,&ports)); 261e5ab1681SLisandro Dalcin } 26220d0051dSBarry Smith 263832b7cebSLisandro Dalcin /* 264832b7cebSLisandro Dalcin Loop over each field; drawing each in a different window 265832b7cebSLisandro Dalcin */ 26620d0051dSBarry Smith for (i=0; i<ndisplayfields; i++) { 26720d0051dSBarry Smith zctx.k = displayfields[i]; 2685b399a63SLisandro Dalcin 269e5ab1681SLisandro Dalcin /* determine the min and max value in plot */ 2709566063dSJacob Faibussowitsch PetscCall(VecStrideMin(xin,zctx.k,NULL,&zctx.min)); 2719566063dSJacob Faibussowitsch PetscCall(VecStrideMax(xin,zctx.k,NULL,&zctx.max)); 27267dd0837SBarry Smith if (zctx.k < nbounds) { 273f3f0eb19SBarry Smith zctx.min = bounds[2*zctx.k]; 274f3f0eb19SBarry Smith zctx.max = bounds[2*zctx.k+1]; 27567dd0837SBarry Smith } 27647c6ae99SBarry Smith if (zctx.min == zctx.max) { 27747c6ae99SBarry Smith zctx.min -= 1.e-12; 27847c6ae99SBarry Smith zctx.max += 1.e-12; 27947c6ae99SBarry Smith } 2809566063dSJacob Faibussowitsch PetscCall(PetscInfo(da,"DMDA 2d contour plot min %g max %g\n",(double)zctx.min,(double)zctx.max)); 28147c6ae99SBarry Smith 282832b7cebSLisandro Dalcin if (useports) { 2839566063dSJacob Faibussowitsch PetscCall(PetscDrawViewPortsSet(ports,i)); 284832b7cebSLisandro Dalcin } else { 285832b7cebSLisandro Dalcin const char *title; 2869566063dSJacob Faibussowitsch PetscCall(PetscViewerDrawGetDraw(viewer,i,&draw)); 2879566063dSJacob Faibussowitsch PetscCall(DMDAGetFieldName(da,zctx.k,&title)); 2889566063dSJacob Faibussowitsch if (title) PetscCall(PetscDrawSetTitle(draw,title)); 289832b7cebSLisandro Dalcin } 290832b7cebSLisandro Dalcin 2919566063dSJacob Faibussowitsch PetscCall(PetscDrawGetPopup(draw,&popup)); 2929566063dSJacob Faibussowitsch PetscCall(PetscDrawScalePopup(popup,zctx.min,zctx.max)); 2939566063dSJacob Faibussowitsch PetscCall(PetscDrawSetCoordinates(draw,coors[0],coors[1],coors[2],coors[3])); 2949566063dSJacob Faibussowitsch PetscCall(PetscDrawZoom(draw,VecView_MPI_Draw_DA2d_Zoom,&zctx)); 2959566063dSJacob Faibussowitsch if (!useports) PetscCall(PetscDrawSave(draw)); 29647c6ae99SBarry Smith } 297832b7cebSLisandro Dalcin if (useports) { 2989566063dSJacob Faibussowitsch PetscCall(PetscViewerDrawGetDraw(viewer,0,&draw)); 2999566063dSJacob Faibussowitsch PetscCall(PetscDrawSave(draw)); 300832b7cebSLisandro Dalcin } 301832b7cebSLisandro Dalcin 3029566063dSJacob Faibussowitsch PetscCall(PetscDrawViewPortsDestroy(ports)); 3039566063dSJacob Faibussowitsch PetscCall(PetscFree(displayfields)); 3049566063dSJacob Faibussowitsch PetscCall(VecRestoreArrayRead(xcoorl,&zctx.xy)); 3059566063dSJacob Faibussowitsch PetscCall(VecRestoreArrayRead(xlocal,&zctx.v)); 30647c6ae99SBarry Smith PetscFunctionReturn(0); 30747c6ae99SBarry Smith } 30847c6ae99SBarry Smith 3090da24e51SJuha Jäykkä #if defined(PETSC_HAVE_HDF5) 310c73cfb54SMatthew G. Knepley static PetscErrorCode VecGetHDF5ChunkSize(DM_DA *da, Vec xin, PetscInt dimension, PetscInt timestep, hsize_t *chunkDims) 3110da24e51SJuha Jäykkä { 312d4190030SJed Brown PetscMPIInt comm_size; 313561a82e7SJed Brown hsize_t chunk_size, target_size, dim; 314561a82e7SJed Brown hsize_t vec_size = sizeof(PetscScalar)*da->M*da->N*da->P*da->w; 315561a82e7SJed Brown hsize_t avg_local_vec_size,KiB = 1024,MiB = KiB*KiB,GiB = MiB*KiB,min_size = MiB; 316561a82e7SJed Brown hsize_t max_chunks = 64*KiB; /* HDF5 internal limitation */ 317561a82e7SJed Brown hsize_t max_chunk_size = 4*GiB; /* HDF5 internal limitation */ 31884179ffaSJed Brown PetscInt zslices=da->p, yslices=da->n, xslices=da->m; 3190da24e51SJuha Jäykkä 320cb5c4f94SJuha Jäykkä PetscFunctionBegin; 3219566063dSJacob Faibussowitsch PetscCallMPI(MPI_Comm_size(PetscObjectComm((PetscObject)xin), &comm_size)); 322faa75363SBarry Smith avg_local_vec_size = (hsize_t) PetscCeilInt(vec_size,comm_size); /* we will attempt to use this as the chunk size */ 3230da24e51SJuha Jäykkä 324faa75363SBarry 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)))); 3257d310018SBarry 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 */ 3267d310018SBarry 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); 3270da24e51SJuha Jäykkä 328cb5c4f94SJuha Jäykkä /* 329cb5c4f94SJuha Jäykkä if size/rank > max_chunk_size, we need radical measures: even going down to 330cb5c4f94SJuha Jäykkä avg_local_vec_size is not enough, so we simply use chunk size of 4 GiB no matter 331cb5c4f94SJuha Jäykkä what, composed in the most efficient way possible. 332cb5c4f94SJuha Jäykkä N.B. this minimises the number of chunks, which may or may not be the optimal 333cb5c4f94SJuha Jäykkä solution. In a BG, for example, the optimal solution is probably to make # chunks = # 334cb5c4f94SJuha Jäykkä IO nodes involved, but this author has no access to a BG to figure out how to 335cb5c4f94SJuha Jäykkä reliably find the right number. And even then it may or may not be enough. 336cb5c4f94SJuha Jäykkä */ 3370da24e51SJuha Jäykkä if (avg_local_vec_size > max_chunk_size) { 338cb5c4f94SJuha Jäykkä /* check if we can just split local z-axis: is that enough? */ 339faa75363SBarry Smith zslices = PetscCeilInt(vec_size,da->p*max_chunk_size)*zslices; 3400da24e51SJuha Jäykkä if (zslices > da->P) { 341cb5c4f94SJuha Jäykkä /* lattice is too large in xy-directions, splitting z only is not enough */ 3420da24e51SJuha Jäykkä zslices = da->P; 343faa75363SBarry Smith yslices = PetscCeilInt(vec_size,zslices*da->n*max_chunk_size)*yslices; 3440da24e51SJuha Jäykkä if (yslices > da->N) { 345cb5c4f94SJuha Jäykkä /* lattice is too large in x-direction, splitting along z, y is not enough */ 3460da24e51SJuha Jäykkä yslices = da->N; 347faa75363SBarry Smith xslices = PetscCeilInt(vec_size,zslices*yslices*da->m*max_chunk_size)*xslices; 3480da24e51SJuha Jäykkä } 3490da24e51SJuha Jäykkä } 3500da24e51SJuha Jäykkä dim = 0; 3510da24e51SJuha Jäykkä if (timestep >= 0) { 3520da24e51SJuha Jäykkä ++dim; 3530da24e51SJuha Jäykkä } 354cb5c4f94SJuha Jäykkä /* prefer to split z-axis, even down to planar slices */ 355c73cfb54SMatthew G. Knepley if (dimension == 3) { 356cb5c4f94SJuha Jäykkä chunkDims[dim++] = (hsize_t) da->P/zslices; 357cb5c4f94SJuha Jäykkä chunkDims[dim++] = (hsize_t) da->N/yslices; 358cb5c4f94SJuha Jäykkä chunkDims[dim++] = (hsize_t) da->M/xslices; 3590da24e51SJuha Jäykkä } else { 360cb5c4f94SJuha Jäykkä /* This is a 2D world exceeding 4GiB in size; yes, I've seen them, even used myself */ 361cb5c4f94SJuha Jäykkä chunkDims[dim++] = (hsize_t) da->N/yslices; 362cb5c4f94SJuha Jäykkä chunkDims[dim++] = (hsize_t) da->M/xslices; 3630da24e51SJuha Jäykkä } 3640da24e51SJuha 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); 3650da24e51SJuha Jäykkä } else { 3660da24e51SJuha Jäykkä if (target_size < chunk_size) { 367cb5c4f94SJuha Jäykkä /* only change the defaults if target_size < chunk_size */ 3680da24e51SJuha Jäykkä dim = 0; 3690da24e51SJuha Jäykkä if (timestep >= 0) { 3700da24e51SJuha Jäykkä ++dim; 3710da24e51SJuha Jäykkä } 372cb5c4f94SJuha Jäykkä /* prefer to split z-axis, even down to planar slices */ 373c73cfb54SMatthew G. Knepley if (dimension == 3) { 374cb5c4f94SJuha Jäykkä /* try splitting the z-axis to core-size bits, i.e. divide chunk size by # comm_size in z-direction */ 3750da24e51SJuha Jäykkä if (target_size >= chunk_size/da->p) { 376cb5c4f94SJuha Jäykkä /* just make chunks the size of <local_z>x<whole_world_y>x<whole_world_x>x<dof> */ 377faa75363SBarry Smith chunkDims[dim] = (hsize_t) PetscCeilInt(da->P,da->p); 3780da24e51SJuha Jäykkä } else { 379cb5c4f94SJuha Jäykkä /* oops, just splitting the z-axis is NOT ENOUGH, need to split more; let's be 380cb5c4f94SJuha Jäykkä radical and let everyone write all they've got */ 381faa75363SBarry Smith chunkDims[dim++] = (hsize_t) PetscCeilInt(da->P,da->p); 382faa75363SBarry Smith chunkDims[dim++] = (hsize_t) PetscCeilInt(da->N,da->n); 383faa75363SBarry Smith chunkDims[dim++] = (hsize_t) PetscCeilInt(da->M,da->m); 3840da24e51SJuha Jäykkä } 3850da24e51SJuha Jäykkä } else { 386cb5c4f94SJuha Jäykkä /* This is a 2D world exceeding 4GiB in size; yes, I've seen them, even used myself */ 3870da24e51SJuha Jäykkä if (target_size >= chunk_size/da->n) { 388cb5c4f94SJuha Jäykkä /* just make chunks the size of <local_z>x<whole_world_y>x<whole_world_x>x<dof> */ 389faa75363SBarry Smith chunkDims[dim] = (hsize_t) PetscCeilInt(da->N,da->n); 3900da24e51SJuha Jäykkä } else { 391cb5c4f94SJuha Jäykkä /* oops, just splitting the z-axis is NOT ENOUGH, need to split more; let's be 392cb5c4f94SJuha Jäykkä radical and let everyone write all they've got */ 393faa75363SBarry Smith chunkDims[dim++] = (hsize_t) PetscCeilInt(da->N,da->n); 394faa75363SBarry Smith chunkDims[dim++] = (hsize_t) PetscCeilInt(da->M,da->m); 3950da24e51SJuha Jäykkä } 3960da24e51SJuha Jäykkä 3970da24e51SJuha Jäykkä } 3980da24e51SJuha 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); 3990da24e51SJuha Jäykkä } else { 400cb5c4f94SJuha Jäykkä /* precomputed chunks are fine, we don't need to do anything */ 4010da24e51SJuha Jäykkä } 4020da24e51SJuha Jäykkä } 4030da24e51SJuha Jäykkä PetscFunctionReturn(0); 4040da24e51SJuha Jäykkä } 4050da24e51SJuha Jäykkä #endif 40647c6ae99SBarry Smith 40747c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5) 40847c6ae99SBarry Smith PetscErrorCode VecView_MPI_HDF5_DA(Vec xin,PetscViewer viewer) 40947c6ae99SBarry Smith { 4102d95be3dSVaclav Hapla PetscViewer_HDF5 *hdf5 = (PetscViewer_HDF5*) viewer->data; 4119b2a5a86SJed Brown DM dm; 4129b2a5a86SJed Brown DM_DA *da; 41347c6ae99SBarry Smith hid_t filespace; /* file dataspace identifier */ 4148e2ae6d7SMichael Kraus hid_t chunkspace; /* chunk dataset property identifier */ 41547c6ae99SBarry Smith hid_t dset_id; /* dataset identifier */ 41647c6ae99SBarry Smith hid_t memspace; /* memory dataspace identifier */ 41747c6ae99SBarry Smith hid_t file_id; 41815214e8eSMatthew G Knepley hid_t group; 4199a0502c6SHåkon Strandenes hid_t memscalartype; /* scalar type for mem (H5T_NATIVE_FLOAT or H5T_NATIVE_DOUBLE) */ 4209a0502c6SHåkon Strandenes hid_t filescalartype; /* scalar type for file (H5T_NATIVE_FLOAT or H5T_NATIVE_DOUBLE) */ 421d9a4edebSJed Brown hsize_t dim; 4220da24e51SJuha 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 */ 423d7dd068bSVaclav Hapla PetscBool timestepping=PETSC_FALSE, dim2, spoutput; 424d7dd068bSVaclav Hapla PetscInt timestep=PETSC_MIN_INT, dimension; 4255edff71fSBarry Smith const PetscScalar *x; 4268e2ae6d7SMichael Kraus const char *vecname; 42747c6ae99SBarry Smith 42847c6ae99SBarry Smith PetscFunctionBegin; 4299566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5OpenGroup(viewer, &file_id, &group)); 4309566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5IsTimestepping(viewer, ×tepping)); 431d7dd068bSVaclav Hapla if (timestepping) { 4329566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5GetTimestep(viewer, ×tep)); 433d7dd068bSVaclav Hapla } 4349566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5GetBaseDimension2(viewer,&dim2)); 4359566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5GetSPOutput(viewer,&spoutput)); 43615214e8eSMatthew G Knepley 4379566063dSJacob Faibussowitsch PetscCall(VecGetDM(xin,&dm)); 4387a8be351SBarry Smith PetscCheck(dm,PetscObjectComm((PetscObject)xin),PETSC_ERR_ARG_WRONG,"Vector not generated from a DMDA"); 4399b2a5a86SJed Brown da = (DM_DA*)dm->data; 4409566063dSJacob Faibussowitsch PetscCall(DMGetDimension(dm, &dimension)); 44147c6ae99SBarry Smith 4428e2ae6d7SMichael Kraus /* Create the dataspace for the dataset. 4438e2ae6d7SMichael Kraus * 4448e2ae6d7SMichael Kraus * dims - holds the current dimensions of the dataset 4458e2ae6d7SMichael Kraus * 4468e2ae6d7SMichael Kraus * maxDims - holds the maximum dimensions of the dataset (unlimited 4478e2ae6d7SMichael Kraus * for the number of time steps with the current dimensions for the 4488e2ae6d7SMichael Kraus * other dimensions; so only additional time steps can be added). 4498e2ae6d7SMichael Kraus * 4508e2ae6d7SMichael Kraus * chunkDims - holds the size of a single time step (required to 4518e2ae6d7SMichael Kraus * permit extending dataset). 4528e2ae6d7SMichael Kraus */ 4538e2ae6d7SMichael Kraus dim = 0; 4548e2ae6d7SMichael Kraus if (timestep >= 0) { 4558e2ae6d7SMichael Kraus dims[dim] = timestep+1; 4568e2ae6d7SMichael Kraus maxDims[dim] = H5S_UNLIMITED; 4578e2ae6d7SMichael Kraus chunkDims[dim] = 1; 4588e2ae6d7SMichael Kraus ++dim; 4598e2ae6d7SMichael Kraus } 460c73cfb54SMatthew G. Knepley if (dimension == 3) { 4619566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(da->P,dims+dim)); 4628e2ae6d7SMichael Kraus maxDims[dim] = dims[dim]; 4638e2ae6d7SMichael Kraus chunkDims[dim] = dims[dim]; 4648e2ae6d7SMichael Kraus ++dim; 4658e2ae6d7SMichael Kraus } 466c73cfb54SMatthew G. Knepley if (dimension > 1) { 4679566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(da->N,dims+dim)); 4688e2ae6d7SMichael Kraus maxDims[dim] = dims[dim]; 4698e2ae6d7SMichael Kraus chunkDims[dim] = dims[dim]; 4708e2ae6d7SMichael Kraus ++dim; 4718e2ae6d7SMichael Kraus } 4729566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(da->M,dims+dim)); 4738e2ae6d7SMichael Kraus maxDims[dim] = dims[dim]; 4748e2ae6d7SMichael Kraus chunkDims[dim] = dims[dim]; 4758e2ae6d7SMichael Kraus ++dim; 47682ea9b62SBarry Smith if (da->w > 1 || dim2) { 4779566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(da->w,dims+dim)); 4788e2ae6d7SMichael Kraus maxDims[dim] = dims[dim]; 4798e2ae6d7SMichael Kraus chunkDims[dim] = dims[dim]; 4808e2ae6d7SMichael Kraus ++dim; 4818e2ae6d7SMichael Kraus } 48247c6ae99SBarry Smith #if defined(PETSC_USE_COMPLEX) 4838e2ae6d7SMichael Kraus dims[dim] = 2; 4848e2ae6d7SMichael Kraus maxDims[dim] = dims[dim]; 4858e2ae6d7SMichael Kraus chunkDims[dim] = dims[dim]; 4868e2ae6d7SMichael Kraus ++dim; 48747c6ae99SBarry Smith #endif 4880da24e51SJuha Jäykkä 4899566063dSJacob Faibussowitsch PetscCall(VecGetHDF5ChunkSize(da, xin, dimension, timestep, chunkDims)); 4900da24e51SJuha Jäykkä 491*792fecdfSBarry Smith PetscCallHDF5Return(filespace,H5Screate_simple,(dim, dims, maxDims)); 49247c6ae99SBarry Smith 49315214e8eSMatthew G Knepley #if defined(PETSC_USE_REAL_SINGLE) 4949a0502c6SHåkon Strandenes memscalartype = H5T_NATIVE_FLOAT; 4959a0502c6SHåkon Strandenes filescalartype = H5T_NATIVE_FLOAT; 49615214e8eSMatthew G Knepley #elif defined(PETSC_USE_REAL___FLOAT128) 49715214e8eSMatthew G Knepley #error "HDF5 output with 128 bit floats not supported." 498570b7f6dSBarry Smith #elif defined(PETSC_USE_REAL___FP16) 499570b7f6dSBarry Smith #error "HDF5 output with 16 bit floats not supported." 50015214e8eSMatthew G Knepley #else 5019a0502c6SHåkon Strandenes memscalartype = H5T_NATIVE_DOUBLE; 5029a0502c6SHåkon Strandenes if (spoutput == PETSC_TRUE) filescalartype = H5T_NATIVE_FLOAT; 5039a0502c6SHåkon Strandenes else filescalartype = H5T_NATIVE_DOUBLE; 50415214e8eSMatthew G Knepley #endif 50515214e8eSMatthew G Knepley 50647c6ae99SBarry Smith /* Create the dataset with default properties and close filespace */ 5079566063dSJacob Faibussowitsch PetscCall(PetscObjectGetName((PetscObject)xin,&vecname)); 50815214e8eSMatthew G Knepley if (!H5Lexists(group, vecname, H5P_DEFAULT)) { 5098e2ae6d7SMichael Kraus /* Create chunk */ 510*792fecdfSBarry Smith PetscCallHDF5Return(chunkspace,H5Pcreate,(H5P_DATASET_CREATE)); 511*792fecdfSBarry Smith PetscCallHDF5(H5Pset_chunk,(chunkspace, dim, chunkDims)); 5128e2ae6d7SMichael Kraus 513*792fecdfSBarry Smith PetscCallHDF5Return(dset_id,H5Dcreate2,(group, vecname, filescalartype, filespace, H5P_DEFAULT, chunkspace, H5P_DEFAULT)); 51415214e8eSMatthew G Knepley } else { 515*792fecdfSBarry Smith PetscCallHDF5Return(dset_id,H5Dopen2,(group, vecname, H5P_DEFAULT)); 516*792fecdfSBarry Smith PetscCallHDF5(H5Dset_extent,(dset_id, dims)); 51715214e8eSMatthew G Knepley } 518*792fecdfSBarry Smith PetscCallHDF5(H5Sclose,(filespace)); 51947c6ae99SBarry Smith 52047c6ae99SBarry Smith /* Each process defines a dataset and writes it to the hyperslab in the file */ 5218e2ae6d7SMichael Kraus dim = 0; 5228e2ae6d7SMichael Kraus if (timestep >= 0) { 5238e2ae6d7SMichael Kraus offset[dim] = timestep; 5248e2ae6d7SMichael Kraus ++dim; 5258e2ae6d7SMichael Kraus } 5269566063dSJacob Faibussowitsch if (dimension == 3) PetscCall(PetscHDF5IntCast(da->zs,offset + dim++)); 5279566063dSJacob Faibussowitsch if (dimension > 1) PetscCall(PetscHDF5IntCast(da->ys,offset + dim++)); 5289566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(da->xs/da->w,offset + dim++)); 52982ea9b62SBarry Smith if (da->w > 1 || dim2) offset[dim++] = 0; 53047c6ae99SBarry Smith #if defined(PETSC_USE_COMPLEX) 5318e2ae6d7SMichael Kraus offset[dim++] = 0; 53247c6ae99SBarry Smith #endif 5338e2ae6d7SMichael Kraus dim = 0; 5348e2ae6d7SMichael Kraus if (timestep >= 0) { 5358e2ae6d7SMichael Kraus count[dim] = 1; 5368e2ae6d7SMichael Kraus ++dim; 5378e2ae6d7SMichael Kraus } 5389566063dSJacob Faibussowitsch if (dimension == 3) PetscCall(PetscHDF5IntCast(da->ze - da->zs,count + dim++)); 5399566063dSJacob Faibussowitsch if (dimension > 1) PetscCall(PetscHDF5IntCast(da->ye - da->ys,count + dim++)); 5409566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast((da->xe - da->xs)/da->w,count + dim++)); 5419566063dSJacob Faibussowitsch if (da->w > 1 || dim2) PetscCall(PetscHDF5IntCast(da->w,count + dim++)); 54247c6ae99SBarry Smith #if defined(PETSC_USE_COMPLEX) 5438e2ae6d7SMichael Kraus count[dim++] = 2; 54447c6ae99SBarry Smith #endif 545*792fecdfSBarry Smith PetscCallHDF5Return(memspace,H5Screate_simple,(dim, count, NULL)); 546*792fecdfSBarry Smith PetscCallHDF5Return(filespace,H5Dget_space,(dset_id)); 547*792fecdfSBarry Smith PetscCallHDF5(H5Sselect_hyperslab,(filespace, H5S_SELECT_SET, offset, NULL, count, NULL)); 54847c6ae99SBarry Smith 5499566063dSJacob Faibussowitsch PetscCall(VecGetArrayRead(xin, &x)); 550*792fecdfSBarry Smith PetscCallHDF5(H5Dwrite,(dset_id, memscalartype, memspace, filespace, hdf5->dxpl_id, x)); 551*792fecdfSBarry Smith PetscCallHDF5(H5Fflush,(file_id, H5F_SCOPE_GLOBAL)); 5529566063dSJacob Faibussowitsch PetscCall(VecRestoreArrayRead(xin, &x)); 55347c6ae99SBarry Smith 554e0552f36Ssajid__ali #if defined(PETSC_USE_COMPLEX) 555e0552f36Ssajid__ali { 556e0552f36Ssajid__ali PetscBool tru = PETSC_TRUE; 5579566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5WriteObjectAttribute(viewer,(PetscObject)xin,"complex",PETSC_BOOL,&tru)); 558e0552f36Ssajid__ali } 559e0552f36Ssajid__ali #endif 560c7a34aceSVaclav Hapla if (timestepping) { 5619566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5WriteObjectAttribute(viewer,(PetscObject)xin,"timestepping",PETSC_BOOL,×tepping)); 562c7a34aceSVaclav Hapla } 563e0552f36Ssajid__ali 56447c6ae99SBarry Smith /* Close/release resources */ 56515214e8eSMatthew G Knepley if (group != file_id) { 566*792fecdfSBarry Smith PetscCallHDF5(H5Gclose,(group)); 56715214e8eSMatthew G Knepley } 568*792fecdfSBarry Smith PetscCallHDF5(H5Sclose,(filespace)); 569*792fecdfSBarry Smith PetscCallHDF5(H5Sclose,(memspace)); 570*792fecdfSBarry Smith PetscCallHDF5(H5Dclose,(dset_id)); 5719566063dSJacob Faibussowitsch PetscCall(PetscInfo(xin,"Wrote Vec object with name %s\n",vecname)); 57247c6ae99SBarry Smith PetscFunctionReturn(0); 57347c6ae99SBarry Smith } 57447c6ae99SBarry Smith #endif 57547c6ae99SBarry Smith 57609573ac7SBarry Smith extern PetscErrorCode VecView_MPI_Draw_DA1d(Vec,PetscViewer); 57747c6ae99SBarry Smith 57847c6ae99SBarry Smith #if defined(PETSC_HAVE_MPIIO) 579aa219208SBarry Smith static PetscErrorCode DMDAArrayMPIIO(DM da,PetscViewer viewer,Vec xin,PetscBool write) 58047c6ae99SBarry Smith { 58147c6ae99SBarry Smith MPI_File mfdes; 58247c6ae99SBarry Smith PetscMPIInt gsizes[4],lsizes[4],lstarts[4],asiz,dof; 58347c6ae99SBarry Smith MPI_Datatype view; 58447c6ae99SBarry Smith const PetscScalar *array; 58547c6ae99SBarry Smith MPI_Offset off; 58647c6ae99SBarry Smith MPI_Aint ub,ul; 58747c6ae99SBarry Smith PetscInt type,rows,vecrows,tr[2]; 58847c6ae99SBarry Smith DM_DA *dd = (DM_DA*)da->data; 5890c169764Sdmay PetscBool skipheader; 59047c6ae99SBarry Smith 59147c6ae99SBarry Smith PetscFunctionBegin; 5929566063dSJacob Faibussowitsch PetscCall(VecGetSize(xin,&vecrows)); 5939566063dSJacob Faibussowitsch PetscCall(PetscViewerBinaryGetSkipHeader(viewer,&skipheader)); 59447c6ae99SBarry Smith if (!write) { 59547c6ae99SBarry Smith /* Read vector header. */ 5960c169764Sdmay if (!skipheader) { 5979566063dSJacob Faibussowitsch PetscCall(PetscViewerBinaryRead(viewer,tr,2,NULL,PETSC_INT)); 59847c6ae99SBarry Smith type = tr[0]; 59947c6ae99SBarry Smith rows = tr[1]; 60008401ef6SPierre Jolivet PetscCheck(type == VEC_FILE_CLASSID,PetscObjectComm((PetscObject)da),PETSC_ERR_ARG_WRONG,"Not vector next in file"); 60108401ef6SPierre Jolivet PetscCheck(rows == vecrows,PetscObjectComm((PetscObject)da),PETSC_ERR_ARG_SIZ,"Vector in file not same size as DMDA vector"); 6020c169764Sdmay } 60347c6ae99SBarry Smith } else { 60447c6ae99SBarry Smith tr[0] = VEC_FILE_CLASSID; 60547c6ae99SBarry Smith tr[1] = vecrows; 6060c169764Sdmay if (!skipheader) { 6079566063dSJacob Faibussowitsch PetscCall(PetscViewerBinaryWrite(viewer,tr,2,PETSC_INT)); 60847c6ae99SBarry Smith } 6090c169764Sdmay } 61047c6ae99SBarry Smith 6119566063dSJacob Faibussowitsch PetscCall(PetscMPIIntCast(dd->w,&dof)); 6124dc2109aSBarry Smith gsizes[0] = dof; 6139566063dSJacob Faibussowitsch PetscCall(PetscMPIIntCast(dd->M,gsizes+1)); 6149566063dSJacob Faibussowitsch PetscCall(PetscMPIIntCast(dd->N,gsizes+2)); 6159566063dSJacob Faibussowitsch PetscCall(PetscMPIIntCast(dd->P,gsizes+3)); 6164dc2109aSBarry Smith lsizes[0] = dof; 6179566063dSJacob Faibussowitsch PetscCall(PetscMPIIntCast((dd->xe-dd->xs)/dof,lsizes+1)); 6189566063dSJacob Faibussowitsch PetscCall(PetscMPIIntCast(dd->ye-dd->ys,lsizes+2)); 6199566063dSJacob Faibussowitsch PetscCall(PetscMPIIntCast(dd->ze-dd->zs,lsizes+3)); 6204dc2109aSBarry Smith lstarts[0] = 0; 6219566063dSJacob Faibussowitsch PetscCall(PetscMPIIntCast(dd->xs/dof,lstarts+1)); 6229566063dSJacob Faibussowitsch PetscCall(PetscMPIIntCast(dd->ys,lstarts+2)); 6239566063dSJacob Faibussowitsch PetscCall(PetscMPIIntCast(dd->zs,lstarts+3)); 6249566063dSJacob Faibussowitsch PetscCallMPI(MPI_Type_create_subarray(da->dim+1,gsizes,lsizes,lstarts,MPI_ORDER_FORTRAN,MPIU_SCALAR,&view)); 6259566063dSJacob Faibussowitsch PetscCallMPI(MPI_Type_commit(&view)); 62647c6ae99SBarry Smith 6279566063dSJacob Faibussowitsch PetscCall(PetscViewerBinaryGetMPIIODescriptor(viewer,&mfdes)); 6289566063dSJacob Faibussowitsch PetscCall(PetscViewerBinaryGetMPIIOOffset(viewer,&off)); 6299566063dSJacob Faibussowitsch PetscCallMPI(MPI_File_set_view(mfdes,off,MPIU_SCALAR,view,(char*)"native",MPI_INFO_NULL)); 6309566063dSJacob Faibussowitsch PetscCall(VecGetArrayRead(xin,&array)); 63147c6ae99SBarry Smith asiz = lsizes[1]*(lsizes[2] > 0 ? lsizes[2] : 1)*(lsizes[3] > 0 ? lsizes[3] : 1)*dof; 6321baa6e33SBarry Smith if (write) PetscCall(MPIU_File_write_all(mfdes,(PetscScalar*)array,asiz,MPIU_SCALAR,MPI_STATUS_IGNORE)); 6331baa6e33SBarry Smith else PetscCall(MPIU_File_read_all(mfdes,(PetscScalar*)array,asiz,MPIU_SCALAR,MPI_STATUS_IGNORE)); 6349566063dSJacob Faibussowitsch PetscCallMPI(MPI_Type_get_extent(view,&ul,&ub)); 6359566063dSJacob Faibussowitsch PetscCall(PetscViewerBinaryAddMPIIOOffset(viewer,ub)); 6369566063dSJacob Faibussowitsch PetscCall(VecRestoreArrayRead(xin,&array)); 6379566063dSJacob Faibussowitsch PetscCallMPI(MPI_Type_free(&view)); 63847c6ae99SBarry Smith PetscFunctionReturn(0); 63947c6ae99SBarry Smith } 64047c6ae99SBarry Smith #endif 64147c6ae99SBarry Smith 6427087cfbeSBarry Smith PetscErrorCode VecView_MPI_DA(Vec xin,PetscViewer viewer) 64347c6ae99SBarry Smith { 6449a42bb27SBarry Smith DM da; 64547c6ae99SBarry Smith PetscInt dim; 64647c6ae99SBarry Smith Vec natural; 6478135c375SStefano Zampini PetscBool isdraw,isvtk,isglvis; 64847c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5) 64947c6ae99SBarry Smith PetscBool ishdf5; 65047c6ae99SBarry Smith #endif 6513f3fd955SJed Brown const char *prefix,*name; 652a261c58fSBarry Smith PetscViewerFormat format; 65347c6ae99SBarry Smith 65447c6ae99SBarry Smith PetscFunctionBegin; 6559566063dSJacob Faibussowitsch PetscCall(VecGetDM(xin,&da)); 6567a8be351SBarry Smith PetscCheck(da,PetscObjectComm((PetscObject)xin),PETSC_ERR_ARG_WRONG,"Vector not generated from a DMDA"); 6579566063dSJacob Faibussowitsch PetscCall(PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERDRAW,&isdraw)); 6589566063dSJacob Faibussowitsch PetscCall(PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERVTK,&isvtk)); 65947c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5) 6609566063dSJacob Faibussowitsch PetscCall(PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERHDF5,&ishdf5)); 66147c6ae99SBarry Smith #endif 6629566063dSJacob Faibussowitsch PetscCall(PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERGLVIS,&isglvis)); 66347c6ae99SBarry Smith if (isdraw) { 6649566063dSJacob Faibussowitsch PetscCall(DMDAGetInfo(da,&dim,NULL,NULL,NULL,NULL,NULL,NULL,NULL,NULL,NULL,NULL,NULL,NULL)); 66547c6ae99SBarry Smith if (dim == 1) { 6669566063dSJacob Faibussowitsch PetscCall(VecView_MPI_Draw_DA1d(xin,viewer)); 66747c6ae99SBarry Smith } else if (dim == 2) { 6689566063dSJacob Faibussowitsch PetscCall(VecView_MPI_Draw_DA2d(xin,viewer)); 66963a3b9bcSJacob Faibussowitsch } else SETERRQ(PetscObjectComm((PetscObject)da),PETSC_ERR_SUP,"Cannot graphically view vector associated with this dimensional DMDA %" PetscInt_FMT,dim); 67001d7c5c3SPatrick Sanan } else if (isvtk) { /* Duplicate the Vec */ 6714061b8bfSJed Brown Vec Y; 6729566063dSJacob Faibussowitsch PetscCall(VecDuplicate(xin,&Y)); 673b51b94faSJed Brown if (((PetscObject)xin)->name) { 674b51b94faSJed Brown /* If xin was named, copy the name over to Y. The duplicate names are safe because nobody else will ever see Y. */ 6759566063dSJacob Faibussowitsch PetscCall(PetscObjectSetName((PetscObject)Y,((PetscObject)xin)->name)); 676b51b94faSJed Brown } 6779566063dSJacob Faibussowitsch PetscCall(VecCopy(xin,Y)); 678a8f87f1dSPatrick Sanan { 679a8f87f1dSPatrick Sanan PetscObject dmvtk; 680a8f87f1dSPatrick Sanan PetscBool compatible,compatibleSet; 6819566063dSJacob Faibussowitsch PetscCall(PetscViewerVTKGetDM(viewer,&dmvtk)); 682a8f87f1dSPatrick Sanan if (dmvtk) { 683064a246eSJacob Faibussowitsch PetscValidHeaderSpecific((DM)dmvtk,DM_CLASSID,2); 6849566063dSJacob Faibussowitsch PetscCall(DMGetCompatibility(da,(DM)dmvtk,&compatible,&compatibleSet)); 6857a8be351SBarry 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."); 686a8f87f1dSPatrick Sanan } 6879566063dSJacob Faibussowitsch PetscCall(PetscViewerVTKAddField(viewer,(PetscObject)da,DMDAVTKWriteAll,PETSC_DEFAULT,PETSC_VTK_POINT_FIELD,PETSC_FALSE,(PetscObject)Y)); 688a8f87f1dSPatrick Sanan } 68947c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5) 69047c6ae99SBarry Smith } else if (ishdf5) { 6919566063dSJacob Faibussowitsch PetscCall(VecView_MPI_HDF5_DA(xin,viewer)); 69247c6ae99SBarry Smith #endif 6938135c375SStefano Zampini } else if (isglvis) { 6949566063dSJacob Faibussowitsch PetscCall(VecView_GLVis(xin,viewer)); 69547c6ae99SBarry Smith } else { 69647c6ae99SBarry Smith #if defined(PETSC_HAVE_MPIIO) 69747c6ae99SBarry Smith PetscBool isbinary,isMPIIO; 69847c6ae99SBarry Smith 6999566063dSJacob Faibussowitsch PetscCall(PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERBINARY,&isbinary)); 70047c6ae99SBarry Smith if (isbinary) { 7019566063dSJacob Faibussowitsch PetscCall(PetscViewerBinaryGetUseMPIIO(viewer,&isMPIIO)); 70247c6ae99SBarry Smith if (isMPIIO) { 7039566063dSJacob Faibussowitsch PetscCall(DMDAArrayMPIIO(da,viewer,xin,PETSC_TRUE)); 70447c6ae99SBarry Smith PetscFunctionReturn(0); 70547c6ae99SBarry Smith } 70647c6ae99SBarry Smith } 70747c6ae99SBarry Smith #endif 70847c6ae99SBarry Smith 70947c6ae99SBarry Smith /* call viewer on natural ordering */ 7109566063dSJacob Faibussowitsch PetscCall(PetscObjectGetOptionsPrefix((PetscObject)xin,&prefix)); 7119566063dSJacob Faibussowitsch PetscCall(DMDACreateNaturalVector(da,&natural)); 7129566063dSJacob Faibussowitsch PetscCall(PetscObjectSetOptionsPrefix((PetscObject)natural,prefix)); 7139566063dSJacob Faibussowitsch PetscCall(DMDAGlobalToNaturalBegin(da,xin,INSERT_VALUES,natural)); 7149566063dSJacob Faibussowitsch PetscCall(DMDAGlobalToNaturalEnd(da,xin,INSERT_VALUES,natural)); 7159566063dSJacob Faibussowitsch PetscCall(PetscObjectGetName((PetscObject)xin,&name)); 7169566063dSJacob Faibussowitsch PetscCall(PetscObjectSetName((PetscObject)natural,name)); 717a261c58fSBarry Smith 7189566063dSJacob Faibussowitsch PetscCall(PetscViewerGetFormat(viewer,&format)); 719a261c58fSBarry Smith if (format == PETSC_VIEWER_BINARY_MATLAB) { 720a261c58fSBarry Smith /* temporarily remove viewer format so it won't trigger in the VecView() */ 7219566063dSJacob Faibussowitsch PetscCall(PetscViewerPushFormat(viewer,PETSC_VIEWER_DEFAULT)); 722a261c58fSBarry Smith } 723a261c58fSBarry Smith 72423f88b65SBarry Smith ((PetscObject)natural)->donotPetscObjectPrintClassNamePrefixType = PETSC_TRUE; 7259566063dSJacob Faibussowitsch PetscCall(VecView(natural,viewer)); 72623f88b65SBarry Smith ((PetscObject)natural)->donotPetscObjectPrintClassNamePrefixType = PETSC_FALSE; 727a261c58fSBarry Smith 728a261c58fSBarry Smith if (format == PETSC_VIEWER_BINARY_MATLAB) { 729a261c58fSBarry Smith MPI_Comm comm; 730a261c58fSBarry Smith FILE *info; 731a261c58fSBarry Smith const char *fieldname; 732da88d4d4SJed Brown char fieldbuf[256]; 733a261c58fSBarry Smith PetscInt dim,ni,nj,nk,pi,pj,pk,dof,n; 734a261c58fSBarry Smith 735a261c58fSBarry Smith /* set the viewer format back into the viewer */ 7369566063dSJacob Faibussowitsch PetscCall(PetscViewerPopFormat(viewer)); 7379566063dSJacob Faibussowitsch PetscCall(PetscObjectGetComm((PetscObject)viewer,&comm)); 7389566063dSJacob Faibussowitsch PetscCall(PetscViewerBinaryGetInfoPointer(viewer,&info)); 7399566063dSJacob Faibussowitsch PetscCall(DMDAGetInfo(da,&dim,&ni,&nj,&nk,&pi,&pj,&pk,&dof,NULL,NULL,NULL,NULL,NULL)); 7409566063dSJacob Faibussowitsch PetscCall(PetscFPrintf(comm,info,"#--- begin code written by PetscViewerBinary for MATLAB format ---#\n")); 7419566063dSJacob Faibussowitsch PetscCall(PetscFPrintf(comm,info,"#$$ tmp = PetscBinaryRead(fd); \n")); 74263a3b9bcSJacob Faibussowitsch if (dim == 1) { PetscCall(PetscFPrintf(comm,info,"#$$ tmp = reshape(tmp,%" PetscInt_FMT ",%" PetscInt_FMT ");\n",dof,ni)); } 74363a3b9bcSJacob Faibussowitsch if (dim == 2) { PetscCall(PetscFPrintf(comm,info,"#$$ tmp = reshape(tmp,%" PetscInt_FMT ",%" PetscInt_FMT ",%" PetscInt_FMT ");\n",dof,ni,nj)); } 74463a3b9bcSJacob Faibussowitsch if (dim == 3) { PetscCall(PetscFPrintf(comm,info,"#$$ tmp = reshape(tmp,%" PetscInt_FMT ",%" PetscInt_FMT ",%" PetscInt_FMT ",%" PetscInt_FMT ");\n",dof,ni,nj,nk)); } 745a261c58fSBarry Smith 746a261c58fSBarry Smith for (n=0; n<dof; n++) { 7479566063dSJacob Faibussowitsch PetscCall(DMDAGetFieldName(da,n,&fieldname)); 748da88d4d4SJed Brown if (!fieldname || !fieldname[0]) { 74963a3b9bcSJacob Faibussowitsch PetscCall(PetscSNPrintf(fieldbuf,sizeof fieldbuf,"field%" PetscInt_FMT,n)); 750da88d4d4SJed Brown fieldname = fieldbuf; 751a261c58fSBarry Smith } 75263a3b9bcSJacob Faibussowitsch if (dim == 1) { PetscCall(PetscFPrintf(comm,info,"#$$ Set.%s.%s = squeeze(tmp(%" PetscInt_FMT ",:))';\n",name,fieldname,n+1)); } 75363a3b9bcSJacob Faibussowitsch if (dim == 2) { PetscCall(PetscFPrintf(comm,info,"#$$ Set.%s.%s = squeeze(tmp(%" PetscInt_FMT ",:,:))';\n",name,fieldname,n+1)); } 75463a3b9bcSJacob Faibussowitsch if (dim == 3) { PetscCall(PetscFPrintf(comm,info,"#$$ Set.%s.%s = permute(squeeze(tmp(%" PetscInt_FMT ",:,:,:)),[2 1 3]);\n",name,fieldname,n+1));} 755a261c58fSBarry Smith } 7569566063dSJacob Faibussowitsch PetscCall(PetscFPrintf(comm,info,"#$$ clear tmp; \n")); 7579566063dSJacob Faibussowitsch PetscCall(PetscFPrintf(comm,info,"#--- end code written by PetscViewerBinary for MATLAB format ---#\n\n")); 758a261c58fSBarry Smith } 759a261c58fSBarry Smith 7609566063dSJacob Faibussowitsch PetscCall(VecDestroy(&natural)); 76147c6ae99SBarry Smith } 76247c6ae99SBarry Smith PetscFunctionReturn(0); 76347c6ae99SBarry Smith } 76447c6ae99SBarry Smith 76547c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5) 76647c6ae99SBarry Smith PetscErrorCode VecLoad_HDF5_DA(Vec xin, PetscViewer viewer) 76747c6ae99SBarry Smith { 7682d95be3dSVaclav Hapla PetscViewer_HDF5 *hdf5 = (PetscViewer_HDF5*) viewer->data; 7699a42bb27SBarry Smith DM da; 77015b861d2SVaclav Hapla int dim,rdim; 771ec7ae49cSHåkon Strandenes hsize_t dims[6]={0},count[6]={0},offset[6]={0}; 772d7dd068bSVaclav Hapla PetscBool dim2=PETSC_FALSE,timestepping=PETSC_FALSE; 773d7dd068bSVaclav Hapla PetscInt dimension,timestep=PETSC_MIN_INT,dofInd; 77447c6ae99SBarry Smith PetscScalar *x; 77547c6ae99SBarry Smith const char *vecname; 77647c6ae99SBarry Smith hid_t filespace; /* file dataspace identifier */ 77747c6ae99SBarry Smith hid_t dset_id; /* dataset identifier */ 77847c6ae99SBarry Smith hid_t memspace; /* memory dataspace identifier */ 779bfd264e7SBarry Smith hid_t file_id,group; 7807bcbaff4SBarry Smith hid_t scalartype; /* scalar type (H5T_NATIVE_FLOAT or H5T_NATIVE_DOUBLE) */ 7819c7c4993SBarry Smith DM_DA *dd; 78247c6ae99SBarry Smith 78347c6ae99SBarry Smith PetscFunctionBegin; 7847bcbaff4SBarry Smith #if defined(PETSC_USE_REAL_SINGLE) 7857bcbaff4SBarry Smith scalartype = H5T_NATIVE_FLOAT; 7867bcbaff4SBarry Smith #elif defined(PETSC_USE_REAL___FLOAT128) 7877bcbaff4SBarry Smith #error "HDF5 output with 128 bit floats not supported." 788570b7f6dSBarry Smith #elif defined(PETSC_USE_REAL___FP16) 789570b7f6dSBarry Smith #error "HDF5 output with 16 bit floats not supported." 7907bcbaff4SBarry Smith #else 7917bcbaff4SBarry Smith scalartype = H5T_NATIVE_DOUBLE; 7927bcbaff4SBarry Smith #endif 7937bcbaff4SBarry Smith 7949566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5OpenGroup(viewer, &file_id, &group)); 7959566063dSJacob Faibussowitsch PetscCall(PetscObjectGetName((PetscObject)xin,&vecname)); 7969566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5CheckTimestepping_Internal(viewer, vecname)); 7979566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5IsTimestepping(viewer, ×tepping)); 798d7dd068bSVaclav Hapla if (timestepping) { 7999566063dSJacob Faibussowitsch PetscCall(PetscViewerHDF5GetTimestep(viewer, ×tep)); 800d7dd068bSVaclav Hapla } 8019566063dSJacob Faibussowitsch PetscCall(VecGetDM(xin,&da)); 8029c7c4993SBarry Smith dd = (DM_DA*)da->data; 8039566063dSJacob Faibussowitsch PetscCall(DMGetDimension(da, &dimension)); 80447c6ae99SBarry Smith 805ec7ae49cSHåkon Strandenes /* Open dataset */ 806*792fecdfSBarry Smith PetscCallHDF5Return(dset_id,H5Dopen2,(group, vecname, H5P_DEFAULT)); 80747c6ae99SBarry Smith 808ec7ae49cSHåkon Strandenes /* Retrieve the dataspace for the dataset */ 809*792fecdfSBarry Smith PetscCallHDF5Return(filespace,H5Dget_space,(dset_id)); 810*792fecdfSBarry Smith PetscCallHDF5Return(rdim,H5Sget_simple_extent_dims,(filespace, dims, NULL)); 811ec7ae49cSHåkon Strandenes 812ec7ae49cSHåkon Strandenes /* Expected dimension for holding the dof's */ 81347c6ae99SBarry Smith #if defined(PETSC_USE_COMPLEX) 814ec7ae49cSHåkon Strandenes dofInd = rdim-2; 815ec7ae49cSHåkon Strandenes #else 816ec7ae49cSHåkon Strandenes dofInd = rdim-1; 81747c6ae99SBarry Smith #endif 818ec7ae49cSHåkon Strandenes 819ec7ae49cSHåkon Strandenes /* The expected number of dimensions, assuming basedimension2 = false */ 820ec7ae49cSHåkon Strandenes dim = dimension; 821ec7ae49cSHåkon Strandenes if (dd->w > 1) ++dim; 822ec7ae49cSHåkon Strandenes if (timestep >= 0) ++dim; 82347c6ae99SBarry Smith #if defined(PETSC_USE_COMPLEX) 824ec7ae49cSHåkon Strandenes ++dim; 82547c6ae99SBarry Smith #endif 826ec7ae49cSHåkon Strandenes 827ec7ae49cSHåkon Strandenes /* In this case the input dataset have one extra, unexpected dimension. */ 828ec7ae49cSHåkon Strandenes if (rdim == dim+1) { 829ec7ae49cSHåkon Strandenes /* In this case the block size unity */ 830ec7ae49cSHåkon Strandenes if (dd->w == 1 && dims[dofInd] == 1) dim2 = PETSC_TRUE; 831ec7ae49cSHåkon Strandenes 832ec7ae49cSHåkon Strandenes /* Special error message for the case where dof does not match the input file */ 83363a3b9bcSJacob 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); 834ec7ae49cSHåkon Strandenes 835ec7ae49cSHåkon Strandenes /* Other cases where rdim != dim cannot be handled currently */ 83663a3b9bcSJacob 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); 837ec7ae49cSHåkon Strandenes 838ec7ae49cSHåkon Strandenes /* Set up the hyperslab size */ 839ec7ae49cSHåkon Strandenes dim = 0; 840ec7ae49cSHåkon Strandenes if (timestep >= 0) { 841ec7ae49cSHåkon Strandenes offset[dim] = timestep; 842ec7ae49cSHåkon Strandenes count[dim] = 1; 843ec7ae49cSHåkon Strandenes ++dim; 844ec7ae49cSHåkon Strandenes } 845ec7ae49cSHåkon Strandenes if (dimension == 3) { 8469566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(dd->zs,offset + dim)); 8479566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(dd->ze - dd->zs,count + dim)); 848ec7ae49cSHåkon Strandenes ++dim; 849ec7ae49cSHåkon Strandenes } 850ec7ae49cSHåkon Strandenes if (dimension > 1) { 8519566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(dd->ys,offset + dim)); 8529566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(dd->ye - dd->ys,count + dim)); 853ec7ae49cSHåkon Strandenes ++dim; 854ec7ae49cSHåkon Strandenes } 8559566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(dd->xs/dd->w,offset + dim)); 8569566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast((dd->xe - dd->xs)/dd->w,count + dim)); 857ec7ae49cSHåkon Strandenes ++dim; 858ec7ae49cSHåkon Strandenes if (dd->w > 1 || dim2) { 859ec7ae49cSHåkon Strandenes offset[dim] = 0; 8609566063dSJacob Faibussowitsch PetscCall(PetscHDF5IntCast(dd->w,count + dim)); 861ec7ae49cSHåkon Strandenes ++dim; 862ec7ae49cSHåkon Strandenes } 863ec7ae49cSHåkon Strandenes #if defined(PETSC_USE_COMPLEX) 864ec7ae49cSHåkon Strandenes offset[dim] = 0; 865ec7ae49cSHåkon Strandenes count[dim] = 2; 866ec7ae49cSHåkon Strandenes ++dim; 867ec7ae49cSHåkon Strandenes #endif 868ec7ae49cSHåkon Strandenes 869ec7ae49cSHåkon Strandenes /* Create the memory and filespace */ 870*792fecdfSBarry Smith PetscCallHDF5Return(memspace,H5Screate_simple,(dim, count, NULL)); 871*792fecdfSBarry Smith PetscCallHDF5(H5Sselect_hyperslab,(filespace, H5S_SELECT_SET, offset, NULL, count, NULL)); 87247c6ae99SBarry Smith 8739566063dSJacob Faibussowitsch PetscCall(VecGetArray(xin, &x)); 874*792fecdfSBarry Smith PetscCallHDF5(H5Dread,(dset_id, scalartype, memspace, filespace, hdf5->dxpl_id, x)); 8759566063dSJacob Faibussowitsch PetscCall(VecRestoreArray(xin, &x)); 87647c6ae99SBarry Smith 87747c6ae99SBarry Smith /* Close/release resources */ 878bfd264e7SBarry Smith if (group != file_id) { 879*792fecdfSBarry Smith PetscCallHDF5(H5Gclose,(group)); 880bfd264e7SBarry Smith } 881*792fecdfSBarry Smith PetscCallHDF5(H5Sclose,(filespace)); 882*792fecdfSBarry Smith PetscCallHDF5(H5Sclose,(memspace)); 883*792fecdfSBarry Smith PetscCallHDF5(H5Dclose,(dset_id)); 88447c6ae99SBarry Smith PetscFunctionReturn(0); 88547c6ae99SBarry Smith } 88647c6ae99SBarry Smith #endif 88747c6ae99SBarry Smith 88847c6ae99SBarry Smith PetscErrorCode VecLoad_Binary_DA(Vec xin, PetscViewer viewer) 88947c6ae99SBarry Smith { 8909a42bb27SBarry Smith DM da; 89147c6ae99SBarry Smith Vec natural; 89247c6ae99SBarry Smith const char *prefix; 89347c6ae99SBarry Smith PetscInt bs; 89447c6ae99SBarry Smith PetscBool flag; 89547c6ae99SBarry Smith DM_DA *dd; 89647c6ae99SBarry Smith #if defined(PETSC_HAVE_MPIIO) 89747c6ae99SBarry Smith PetscBool isMPIIO; 89847c6ae99SBarry Smith #endif 89947c6ae99SBarry Smith 90047c6ae99SBarry Smith PetscFunctionBegin; 9019566063dSJacob Faibussowitsch PetscCall(VecGetDM(xin,&da)); 90247c6ae99SBarry Smith dd = (DM_DA*)da->data; 90347c6ae99SBarry Smith #if defined(PETSC_HAVE_MPIIO) 9049566063dSJacob Faibussowitsch PetscCall(PetscViewerBinaryGetUseMPIIO(viewer,&isMPIIO)); 90547c6ae99SBarry Smith if (isMPIIO) { 9069566063dSJacob Faibussowitsch PetscCall(DMDAArrayMPIIO(da,viewer,xin,PETSC_FALSE)); 90747c6ae99SBarry Smith PetscFunctionReturn(0); 90847c6ae99SBarry Smith } 90947c6ae99SBarry Smith #endif 91047c6ae99SBarry Smith 9119566063dSJacob Faibussowitsch PetscCall(PetscObjectGetOptionsPrefix((PetscObject)xin,&prefix)); 9129566063dSJacob Faibussowitsch PetscCall(DMDACreateNaturalVector(da,&natural)); 9139566063dSJacob Faibussowitsch PetscCall(PetscObjectSetName((PetscObject)natural,((PetscObject)xin)->name)); 9149566063dSJacob Faibussowitsch PetscCall(PetscObjectSetOptionsPrefix((PetscObject)natural,prefix)); 9159566063dSJacob Faibussowitsch PetscCall(VecLoad(natural,viewer)); 9169566063dSJacob Faibussowitsch PetscCall(DMDANaturalToGlobalBegin(da,natural,INSERT_VALUES,xin)); 9179566063dSJacob Faibussowitsch PetscCall(DMDANaturalToGlobalEnd(da,natural,INSERT_VALUES,xin)); 9189566063dSJacob Faibussowitsch PetscCall(VecDestroy(&natural)); 9199566063dSJacob Faibussowitsch PetscCall(PetscInfo(xin,"Loading vector from natural ordering into DMDA\n")); 9209566063dSJacob Faibussowitsch PetscCall(PetscOptionsGetInt(NULL,((PetscObject)xin)->prefix,"-vecload_block_size",&bs,&flag)); 92147c6ae99SBarry Smith if (flag && bs != dd->w) { 92263a3b9bcSJacob Faibussowitsch PetscCall(PetscInfo(xin,"Block size in file %" PetscInt_FMT " not equal to DMDA's dof %" PetscInt_FMT "\n",bs,dd->w)); 92347c6ae99SBarry Smith } 92447c6ae99SBarry Smith PetscFunctionReturn(0); 92547c6ae99SBarry Smith } 92647c6ae99SBarry Smith 9277087cfbeSBarry Smith PetscErrorCode VecLoad_Default_DA(Vec xin, PetscViewer viewer) 92847c6ae99SBarry Smith { 9299a42bb27SBarry Smith DM da; 93047c6ae99SBarry Smith PetscBool isbinary; 93147c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5) 93247c6ae99SBarry Smith PetscBool ishdf5; 93347c6ae99SBarry Smith #endif 93447c6ae99SBarry Smith 93547c6ae99SBarry Smith PetscFunctionBegin; 9369566063dSJacob Faibussowitsch PetscCall(VecGetDM(xin,&da)); 9377a8be351SBarry Smith PetscCheck(da,PetscObjectComm((PetscObject)xin),PETSC_ERR_ARG_WRONG,"Vector not generated from a DMDA"); 93847c6ae99SBarry Smith 93947c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5) 9409566063dSJacob Faibussowitsch PetscCall(PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERHDF5,&ishdf5)); 94147c6ae99SBarry Smith #endif 9429566063dSJacob Faibussowitsch PetscCall(PetscObjectTypeCompare((PetscObject)viewer,PETSCVIEWERBINARY,&isbinary)); 94347c6ae99SBarry Smith 94447c6ae99SBarry Smith if (isbinary) { 9459566063dSJacob Faibussowitsch PetscCall(VecLoad_Binary_DA(xin,viewer)); 94647c6ae99SBarry Smith #if defined(PETSC_HAVE_HDF5) 94747c6ae99SBarry Smith } else if (ishdf5) { 9489566063dSJacob Faibussowitsch PetscCall(VecLoad_HDF5_DA(xin,viewer)); 94947c6ae99SBarry Smith #endif 95098921bdaSJacob Faibussowitsch } else SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"Viewer type %s not supported for vector loading", ((PetscObject)viewer)->type_name); 95147c6ae99SBarry Smith PetscFunctionReturn(0); 95247c6ae99SBarry Smith } 953