1 #include <petscdm.h> 2 #include <petscdmda.h> 3 #include <petscdmswarm.h> 4 #include <petsc/private/dmswarmimpl.h> 5 #include "../src/dm/impls/swarm/data_bucket.h" 6 7 PetscErrorCode private_PetscViewerCreate_XDMF(MPI_Comm comm,const char filename[],PetscViewer *v) 8 { 9 long int *bytes; 10 PetscContainer container; 11 PetscViewer viewer; 12 PetscErrorCode ierr; 13 14 PetscFunctionBegin; 15 ierr = PetscViewerCreate(comm,&viewer);CHKERRQ(ierr); 16 ierr = PetscViewerSetType(viewer,PETSCVIEWERASCII);CHKERRQ(ierr); 17 ierr = PetscViewerFileSetMode(viewer,FILE_MODE_WRITE);CHKERRQ(ierr); 18 ierr = PetscViewerFileSetName(viewer,filename);CHKERRQ(ierr); 19 20 ierr = PetscMalloc1(1,&bytes);CHKERRQ(ierr); 21 bytes[0] = 0; 22 ierr = PetscContainerCreate(comm,&container);CHKERRQ(ierr); 23 ierr = PetscContainerSetPointer(container,(void*)bytes);CHKERRQ(ierr); 24 ierr = PetscObjectCompose((PetscObject)viewer,"XDMFViewerContext",(PetscObject)container);CHKERRQ(ierr); 25 26 /* write xdmf header */ 27 ierr = PetscViewerASCIIPrintf(viewer,"<?xml version=\"1.0\" encoding=\"utf-8\"?>\n");CHKERRQ(ierr); 28 ierr = PetscViewerASCIIPrintf(viewer,"<Xdmf xmlns:xi=\"http://www.w3.org/2001/XInclude/\" Version=\"2.99\">\n");CHKERRQ(ierr); 29 /* write xdmf domain */ 30 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 31 ierr = PetscViewerASCIIPrintf(viewer,"<Domain>\n");CHKERRQ(ierr); 32 *v = viewer; 33 PetscFunctionReturn(0); 34 } 35 36 PetscErrorCode private_PetscViewerDestroy_XDMF(PetscViewer *v) 37 { 38 PetscViewer viewer; 39 DM dm = NULL; 40 long int *bytes; 41 PetscContainer container = NULL; 42 PetscErrorCode ierr; 43 44 PetscFunctionBegin; 45 if (!v) PetscFunctionReturn(0); 46 viewer = *v; 47 48 ierr = PetscObjectQuery((PetscObject)viewer,"DMSwarm",(PetscObject*)&dm);CHKERRQ(ierr); 49 if (dm) { 50 ierr = PetscViewerASCIIPrintf(viewer,"</Grid>\n");CHKERRQ(ierr); 51 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 52 } 53 54 /* close xdmf header */ 55 ierr = PetscViewerASCIIPrintf(viewer,"</Domain>\n");CHKERRQ(ierr); 56 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 57 ierr = PetscViewerASCIIPrintf(viewer,"</Xdmf>\n");CHKERRQ(ierr); 58 59 ierr = PetscObjectQuery((PetscObject)viewer,"XDMFViewerContext",(PetscObject*)&container);CHKERRQ(ierr); 60 if (container) { 61 ierr = PetscContainerGetPointer(container,(void**)&bytes);CHKERRQ(ierr); 62 ierr = PetscFree(bytes);CHKERRQ(ierr); 63 ierr = PetscContainerDestroy(&container);CHKERRQ(ierr); 64 } 65 ierr = PetscViewerDestroy(&viewer);CHKERRQ(ierr); 66 *v = NULL; 67 PetscFunctionReturn(0); 68 } 69 70 PetscErrorCode private_CreateDataFileNameXDMF(const char filename[],char dfilename[]) 71 { 72 char *ext; 73 PetscBool flg; 74 PetscErrorCode ierr; 75 76 PetscFunctionBegin; 77 ierr = PetscStrrchr(filename,'.',&ext);CHKERRQ(ierr); 78 ierr = PetscStrcmp("xmf",ext,&flg);CHKERRQ(ierr); 79 if (flg) { 80 size_t len; 81 char viewername_minus_ext[PETSC_MAX_PATH_LEN]; 82 83 ierr = PetscStrlen(filename,&len);CHKERRQ(ierr); 84 ierr = PetscStrncpy(viewername_minus_ext,filename,len-2);CHKERRQ(ierr); 85 ierr = PetscSNPrintf(dfilename,PETSC_MAX_PATH_LEN-1,"%s_swarm_fields.pbin",viewername_minus_ext);CHKERRQ(ierr); 86 } else SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"File extension must by .xmf"); 87 PetscFunctionReturn(0); 88 } 89 90 PetscErrorCode private_DMSwarmView_XDMF(DM dm,PetscViewer viewer) 91 { 92 PetscBool isswarm = PETSC_FALSE; 93 const char *viewername; 94 char datafile[PETSC_MAX_PATH_LEN]; 95 char *datafilename; 96 PetscViewer fviewer; 97 PetscInt k,ng,dim; 98 Vec dvec; 99 long int *bytes = NULL; 100 PetscContainer container = NULL; 101 const char *dmname; 102 PetscErrorCode ierr; 103 104 PetscFunctionBegin; 105 ierr = PetscObjectQuery((PetscObject)viewer,"XDMFViewerContext",(PetscObject*)&container);CHKERRQ(ierr); 106 if (container) { 107 ierr = PetscContainerGetPointer(container,(void**)&bytes);CHKERRQ(ierr); 108 } else SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Valid to find attached data XDMFViewerContext"); 109 110 ierr = PetscObjectTypeCompare((PetscObject)dm,DMSWARM,&isswarm);CHKERRQ(ierr); 111 if (!isswarm) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Only valid for DMSwarm"); 112 113 ierr = PetscObjectCompose((PetscObject)viewer,"DMSwarm",(PetscObject)dm);CHKERRQ(ierr); 114 115 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 116 ierr = PetscObjectGetName((PetscObject)dm,&dmname);CHKERRQ(ierr); 117 if (!dmname) { 118 ierr = DMGetOptionsPrefix(dm,&dmname);CHKERRQ(ierr); 119 } 120 if (!dmname) { 121 ierr = PetscViewerASCIIPrintf(viewer,"<Grid Name=\"DMSwarm\" GridType=\"Uniform\">\n");CHKERRQ(ierr); 122 } else { 123 ierr = PetscViewerASCIIPrintf(viewer,"<Grid Name=\"DMSwarm[%s]\" GridType=\"Uniform\">\n",dmname);CHKERRQ(ierr); 124 } 125 126 /* create a sub-viewer for topology, geometry and all data fields */ 127 /* name is viewer.name + "_swarm_fields.pbin" */ 128 ierr = PetscViewerCreate(PetscObjectComm((PetscObject)viewer),&fviewer);CHKERRQ(ierr); 129 ierr = PetscViewerSetType(fviewer,PETSCVIEWERBINARY);CHKERRQ(ierr); 130 ierr = PetscViewerBinarySetSkipHeader(fviewer,PETSC_TRUE);CHKERRQ(ierr); 131 ierr = PetscViewerBinarySetSkipInfo(fviewer,PETSC_TRUE);CHKERRQ(ierr); 132 ierr = PetscViewerFileSetMode(fviewer,FILE_MODE_WRITE);CHKERRQ(ierr); 133 134 ierr = PetscViewerFileGetName(viewer,&viewername);CHKERRQ(ierr); 135 ierr = private_CreateDataFileNameXDMF(viewername,datafile);CHKERRQ(ierr); 136 ierr = PetscViewerFileSetName(fviewer,datafile);CHKERRQ(ierr); 137 ierr = PetscStrrchr(datafile,'/',&datafilename);CHKERRQ(ierr); 138 139 ierr = DMSwarmGetSize(dm,&ng);CHKERRQ(ierr); 140 141 /* write topology header */ 142 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 143 ierr = PetscViewerASCIIPrintf(viewer,"<Topology Dimensions=\"%D\" TopologyType=\"Mixed\">\n",ng);CHKERRQ(ierr); 144 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 145 ierr = PetscViewerASCIIPrintf(viewer,"<DataItem Format=\"Binary\" Endian=\"Big\" DataType=\"Int\" Dimensions=\"%D\" Seek=\"%D\">\n",ng*3,bytes[0]);CHKERRQ(ierr); 146 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 147 ierr = PetscViewerASCIIPrintf(viewer,"%s\n",datafilename);CHKERRQ(ierr); 148 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 149 ierr = PetscViewerASCIIPrintf(viewer,"</DataItem>\n");CHKERRQ(ierr); 150 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 151 ierr = PetscViewerASCIIPrintf(viewer,"</Topology>\n");CHKERRQ(ierr); 152 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 153 154 /* write topology data */ 155 for (k=0; k<ng; k++) { 156 PetscInt pvertex[3]; 157 158 pvertex[0] = 1; 159 pvertex[1] = 1; 160 pvertex[2] = k; 161 ierr = PetscViewerBinaryWrite(fviewer,pvertex,3,PETSC_INT);CHKERRQ(ierr); 162 } 163 bytes[0] += sizeof(PetscInt) * ng * 3; 164 165 /* write geometry header */ 166 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 167 ierr = DMGetDimension(dm,&dim);CHKERRQ(ierr); 168 switch (dim) { 169 case 1: 170 SETERRQ(PETSC_COMM_SELF,PETSC_ERR_SUP,"No support for 1D"); 171 case 2: 172 ierr = PetscViewerASCIIPrintf(viewer,"<Geometry Type=\"XY\">\n");CHKERRQ(ierr); 173 break; 174 case 3: 175 ierr = PetscViewerASCIIPrintf(viewer,"<Geometry Type=\"XYZ\">\n");CHKERRQ(ierr); 176 break; 177 } 178 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 179 ierr = PetscViewerASCIIPrintf(viewer,"<DataItem Format=\"Binary\" Endian=\"Big\" DataType=\"Float\" Precision=\"8\" Dimensions=\"%D %D\" Seek=\"%D\">\n",ng,dim,bytes[0]);CHKERRQ(ierr); 180 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 181 ierr = PetscViewerASCIIPrintf(viewer,"%s\n",datafilename);CHKERRQ(ierr); 182 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 183 ierr = PetscViewerASCIIPrintf(viewer,"</DataItem>\n");CHKERRQ(ierr); 184 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 185 ierr = PetscViewerASCIIPrintf(viewer,"</Geometry>\n");CHKERRQ(ierr); 186 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 187 188 /* write geometry data */ 189 ierr = DMSwarmCreateGlobalVectorFromField(dm,DMSwarmPICField_coor,&dvec);CHKERRQ(ierr); 190 ierr = VecView(dvec,fviewer);CHKERRQ(ierr); 191 ierr = DMSwarmDestroyGlobalVectorFromField(dm,DMSwarmPICField_coor,&dvec);CHKERRQ(ierr); 192 bytes[0] += sizeof(PetscReal) * ng * dim; 193 194 ierr = PetscViewerDestroy(&fviewer);CHKERRQ(ierr); 195 PetscFunctionReturn(0); 196 } 197 198 PetscErrorCode private_VecView_Swarm_XDMF(Vec x,PetscViewer viewer) 199 { 200 long int *bytes = NULL; 201 PetscContainer container = NULL; 202 const char *viewername; 203 char datafile[PETSC_MAX_PATH_LEN]; 204 char *datafilename; 205 PetscViewer fviewer; 206 PetscInt N,bs; 207 const char *vecname; 208 char fieldname[PETSC_MAX_PATH_LEN]; 209 PetscErrorCode ierr; 210 211 PetscFunctionBegin; 212 ierr = PetscObjectQuery((PetscObject)viewer,"XDMFViewerContext",(PetscObject*)&container);CHKERRQ(ierr); 213 if (!container) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Unable to find attached data XDMFViewerContext"); 214 ierr = PetscContainerGetPointer(container,(void**)&bytes);CHKERRQ(ierr); 215 ierr = PetscViewerFileGetName(viewer,&viewername);CHKERRQ(ierr); 216 ierr = private_CreateDataFileNameXDMF(viewername,datafile);CHKERRQ(ierr); 217 218 /* re-open a sub-viewer for all data fields */ 219 /* name is viewer.name + "_swarm_fields.pbin" */ 220 ierr = PetscViewerCreate(PetscObjectComm((PetscObject)viewer),&fviewer);CHKERRQ(ierr); 221 ierr = PetscViewerSetType(fviewer,PETSCVIEWERBINARY);CHKERRQ(ierr); 222 ierr = PetscViewerBinarySetSkipHeader(fviewer,PETSC_TRUE);CHKERRQ(ierr); 223 ierr = PetscViewerBinarySetSkipInfo(fviewer,PETSC_TRUE);CHKERRQ(ierr); 224 ierr = PetscViewerFileSetMode(fviewer,FILE_MODE_APPEND);CHKERRQ(ierr); 225 ierr = PetscViewerFileSetName(fviewer,datafile);CHKERRQ(ierr); 226 ierr = PetscStrrchr(datafile,'/',&datafilename);CHKERRQ(ierr); 227 228 ierr = VecGetSize(x,&N);CHKERRQ(ierr); 229 ierr = VecGetBlockSize(x,&bs);CHKERRQ(ierr); 230 N = N/bs; 231 ierr = PetscObjectGetName((PetscObject)x,&vecname);CHKERRQ(ierr); 232 if (!vecname) { 233 ierr = PetscSNPrintf(fieldname,PETSC_MAX_PATH_LEN-1,"swarmfield_%D",((PetscObject)x)->tag);CHKERRQ(ierr); 234 } else { 235 ierr = PetscSNPrintf(fieldname,PETSC_MAX_PATH_LEN-1,"%s",vecname);CHKERRQ(ierr); 236 } 237 238 /* write data header */ 239 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 240 ierr = PetscViewerASCIIPrintf(viewer,"<Attribute Center=\"Node\" Name=\"%s\" Type=\"None\">\n",fieldname);CHKERRQ(ierr); 241 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 242 if (bs == 1) { 243 ierr = PetscViewerASCIIPrintf(viewer,"<DataItem Format=\"Binary\" Endian=\"Big\" DataType=\"Float\" Precision=\"8\" Dimensions=\"%D\" Seek=\"%D\">\n",N,bytes[0]);CHKERRQ(ierr); 244 } else { 245 ierr = PetscViewerASCIIPrintf(viewer,"<DataItem Format=\"Binary\" Endian=\"Big\" DataType=\"Float\" Precision=\"8\" Dimensions=\"%D %D\" Seek=\"%D\">\n",N,bs,bytes[0]);CHKERRQ(ierr); 246 } 247 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 248 ierr = PetscViewerASCIIPrintf(viewer,"%s\n",datafilename);CHKERRQ(ierr); 249 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 250 ierr = PetscViewerASCIIPrintf(viewer,"</DataItem>\n");CHKERRQ(ierr); 251 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 252 ierr = PetscViewerASCIIPrintf(viewer,"</Attribute>\n");CHKERRQ(ierr); 253 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 254 255 /* write data */ 256 ierr = VecView(x,fviewer);CHKERRQ(ierr); 257 bytes[0] += sizeof(PetscReal) * N * bs; 258 259 ierr = PetscViewerDestroy(&fviewer);CHKERRQ(ierr); 260 PetscFunctionReturn(0); 261 } 262 263 PetscErrorCode private_ISView_Swarm_XDMF(IS is,PetscViewer viewer) 264 { 265 long int *bytes = NULL; 266 PetscContainer container = NULL; 267 const char *viewername; 268 char datafile[PETSC_MAX_PATH_LEN]; 269 char *datafilename; 270 PetscViewer fviewer; 271 PetscInt N,bs; 272 const char *vecname; 273 char fieldname[PETSC_MAX_PATH_LEN]; 274 PetscErrorCode ierr; 275 276 PetscFunctionBegin; 277 ierr = PetscObjectQuery((PetscObject)viewer,"XDMFViewerContext",(PetscObject*)&container);CHKERRQ(ierr); 278 if (!container) SETERRQ(PetscObjectComm((PetscObject)viewer),PETSC_ERR_SUP,"Unable to find attached data XDMFViewerContext"); 279 ierr = PetscContainerGetPointer(container,(void**)&bytes);CHKERRQ(ierr); 280 ierr = PetscViewerFileGetName(viewer,&viewername);CHKERRQ(ierr); 281 ierr = private_CreateDataFileNameXDMF(viewername,datafile);CHKERRQ(ierr); 282 283 /* re-open a sub-viewer for all data fields */ 284 /* name is viewer.name + "_swarm_fields.pbin" */ 285 ierr = PetscViewerCreate(PetscObjectComm((PetscObject)viewer),&fviewer);CHKERRQ(ierr); 286 ierr = PetscViewerSetType(fviewer,PETSCVIEWERBINARY);CHKERRQ(ierr); 287 ierr = PetscViewerBinarySetSkipHeader(fviewer,PETSC_TRUE);CHKERRQ(ierr); 288 ierr = PetscViewerBinarySetSkipInfo(fviewer,PETSC_TRUE);CHKERRQ(ierr); 289 ierr = PetscViewerFileSetMode(fviewer,FILE_MODE_APPEND);CHKERRQ(ierr); 290 ierr = PetscViewerFileSetName(fviewer,datafile);CHKERRQ(ierr); 291 ierr = PetscStrrchr(datafile,'/',&datafilename);CHKERRQ(ierr); 292 293 ierr = ISGetSize(is,&N);CHKERRQ(ierr); 294 ierr = ISGetBlockSize(is,&bs);CHKERRQ(ierr); 295 N = N/bs; 296 ierr = PetscObjectGetName((PetscObject)is,&vecname);CHKERRQ(ierr); 297 if (!vecname) { 298 ierr = PetscSNPrintf(fieldname,PETSC_MAX_PATH_LEN-1,"swarmfield_%D",((PetscObject)is)->tag);CHKERRQ(ierr); 299 } else { 300 ierr = PetscSNPrintf(fieldname,PETSC_MAX_PATH_LEN-1,"%s",vecname);CHKERRQ(ierr); 301 } 302 303 /* write data header */ 304 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 305 ierr = PetscViewerASCIIPrintf(viewer,"<Attribute Center=\"Node\" Name=\"%s\" Type=\"None\">\n",fieldname);CHKERRQ(ierr); 306 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 307 if (bs == 1) { 308 ierr = PetscViewerASCIIPrintf(viewer,"<DataItem Format=\"Binary\" Endian=\"Big\" DataType=\"Int\" Precision=\"4\" Dimensions=\"%D\" Seek=\"%D\">\n",N,bytes[0]);CHKERRQ(ierr); 309 } else { 310 ierr = PetscViewerASCIIPrintf(viewer,"<DataItem Format=\"Binary\" Endian=\"Big\" DataType=\"Int\" Precision=\"4\" Dimensions=\"%D %D\" Seek=\"%D\">\n",N,bs,bytes[0]);CHKERRQ(ierr); 311 } 312 ierr = PetscViewerASCIIPushTab(viewer);CHKERRQ(ierr); 313 ierr = PetscViewerASCIIPrintf(viewer,"%s\n",datafilename);CHKERRQ(ierr); 314 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 315 ierr = PetscViewerASCIIPrintf(viewer,"</DataItem>\n");CHKERRQ(ierr); 316 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 317 ierr = PetscViewerASCIIPrintf(viewer,"</Attribute>\n");CHKERRQ(ierr); 318 ierr = PetscViewerASCIIPopTab(viewer);CHKERRQ(ierr); 319 320 /* write data */ 321 ierr = ISView(is,fviewer);CHKERRQ(ierr); 322 bytes[0] += sizeof(PetscInt) * N * bs; 323 324 ierr = PetscViewerDestroy(&fviewer);CHKERRQ(ierr); 325 PetscFunctionReturn(0); 326 } 327 328 /*@C 329 DMSwarmViewFieldsXDMF - Write a selection of DMSwarm fields to an XDMF3 file 330 331 Collective on dm 332 333 Input parameters: 334 + dm - the DMSwarm 335 . filename - the file name of the XDMF file (must have the extension .xmf) 336 . nfields - the number of fields to write into the XDMF file 337 - field_name_list - array of length nfields containing the textual name of fields to write 338 339 Level: beginner 340 341 Notes: 342 Only fields registered with data type PETSC_DOUBLE or PETSC_INT can be written into the file 343 344 .seealso: DMSwarmViewXDMF() 345 @*/ 346 PETSC_EXTERN PetscErrorCode DMSwarmViewFieldsXDMF(DM dm,const char filename[],PetscInt nfields,const char *field_name_list[]) 347 { 348 PetscErrorCode ierr; 349 Vec dvec; 350 PetscInt f,N; 351 PetscViewer viewer; 352 353 PetscFunctionBegin; 354 ierr = private_PetscViewerCreate_XDMF(PetscObjectComm((PetscObject)dm),filename,&viewer);CHKERRQ(ierr); 355 ierr = private_DMSwarmView_XDMF(dm,viewer);CHKERRQ(ierr); 356 ierr = DMSwarmGetLocalSize(dm,&N);CHKERRQ(ierr); 357 for (f=0; f<nfields; f++) { 358 void *data; 359 PetscDataType type; 360 361 ierr = DMSwarmGetField(dm,field_name_list[f],NULL,&type,&data);CHKERRQ(ierr); 362 ierr = DMSwarmRestoreField(dm,field_name_list[f],NULL,&type,&data);CHKERRQ(ierr); 363 if (type == PETSC_DOUBLE) { 364 ierr = DMSwarmCreateGlobalVectorFromField(dm,field_name_list[f],&dvec);CHKERRQ(ierr); 365 ierr = PetscObjectSetName((PetscObject)dvec,field_name_list[f]);CHKERRQ(ierr); 366 ierr = private_VecView_Swarm_XDMF(dvec,viewer);CHKERRQ(ierr); 367 ierr = DMSwarmDestroyGlobalVectorFromField(dm,field_name_list[f],&dvec);CHKERRQ(ierr); 368 } else if (type == PETSC_INT) { 369 IS is; 370 const PetscInt *idx; 371 372 ierr = DMSwarmGetField(dm,field_name_list[f],NULL,&type,&data);CHKERRQ(ierr); 373 idx = (const PetscInt*)data; 374 375 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)dm),N,idx,PETSC_USE_POINTER,&is);CHKERRQ(ierr); 376 ierr = PetscObjectSetName((PetscObject)is,field_name_list[f]);CHKERRQ(ierr); 377 ierr = private_ISView_Swarm_XDMF(is,viewer);CHKERRQ(ierr); 378 ierr = ISDestroy(&is);CHKERRQ(ierr); 379 ierr = DMSwarmRestoreField(dm,field_name_list[f],NULL,&type,&data);CHKERRQ(ierr); 380 } else SETERRQ(PetscObjectComm((PetscObject)dm),PETSC_ERR_SUP,"Can only write PETSC_INT and PETSC_DOUBLE"); 381 382 } 383 ierr = private_PetscViewerDestroy_XDMF(&viewer);CHKERRQ(ierr); 384 PetscFunctionReturn(0); 385 } 386 387 /*@C 388 DMSwarmViewXDMF - Write DMSwarm fields to an XDMF3 file 389 390 Collective on dm 391 392 Input parameters: 393 + dm - the DMSwarm 394 - filename - the file name of the XDMF file (must have the extension .xmf) 395 396 Level: beginner 397 398 Notes: 399 Only fields user registered with data type PETSC_DOUBLE or PETSC_INT will be written into the file 400 401 Developer Notes: 402 This should be removed and replaced with the standard use of PetscViewer 403 404 .seealso: DMSwarmViewFieldsXDMF() 405 @*/ 406 PETSC_EXTERN PetscErrorCode DMSwarmViewXDMF(DM dm,const char filename[]) 407 { 408 DM_Swarm *swarm = (DM_Swarm*)dm->data; 409 PetscErrorCode ierr; 410 Vec dvec; 411 PetscInt f; 412 PetscViewer viewer; 413 414 PetscFunctionBegin; 415 ierr = private_PetscViewerCreate_XDMF(PetscObjectComm((PetscObject)dm),filename,&viewer);CHKERRQ(ierr); 416 ierr = private_DMSwarmView_XDMF(dm,viewer);CHKERRQ(ierr); 417 for (f=4; f<swarm->db->nfields; f++) { /* only examine user defined fields - the first 4 are internally created by DMSwarmPIC */ 418 DMSwarmDataField field; 419 420 /* query field type - accept all those of type PETSC_DOUBLE */ 421 field = swarm->db->field[f]; 422 if (field->petsc_type == PETSC_DOUBLE) { 423 ierr = DMSwarmCreateGlobalVectorFromField(dm,field->name,&dvec);CHKERRQ(ierr); 424 ierr = PetscObjectSetName((PetscObject)dvec,field->name);CHKERRQ(ierr); 425 ierr = private_VecView_Swarm_XDMF(dvec,viewer);CHKERRQ(ierr); 426 ierr = DMSwarmDestroyGlobalVectorFromField(dm,field->name,&dvec);CHKERRQ(ierr); 427 } else if (field->petsc_type == PETSC_INT) { 428 IS is; 429 PetscInt N; 430 const PetscInt *idx; 431 void *data; 432 433 ierr = DMSwarmGetLocalSize(dm,&N);CHKERRQ(ierr); 434 ierr = DMSwarmGetField(dm,field->name,NULL,NULL,&data);CHKERRQ(ierr); 435 idx = (const PetscInt*)data; 436 437 ierr = ISCreateGeneral(PetscObjectComm((PetscObject)dm),N,idx,PETSC_USE_POINTER,&is);CHKERRQ(ierr); 438 ierr = PetscObjectSetName((PetscObject)is,field->name);CHKERRQ(ierr); 439 ierr = private_ISView_Swarm_XDMF(is,viewer);CHKERRQ(ierr); 440 ierr = ISDestroy(&is);CHKERRQ(ierr); 441 ierr = DMSwarmRestoreField(dm,field->name,NULL,NULL,&data);CHKERRQ(ierr); 442 } 443 } 444 ierr = private_PetscViewerDestroy_XDMF(&viewer);CHKERRQ(ierr); 445 PetscFunctionReturn(0); 446 } 447