Mesh Oriented datABase
(version 5.4.1)
Array-based unstructured mesh datastructure
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00001 #include "Coupler.hpp" 00002 #include "moab/ParallelComm.hpp" 00003 #include "moab/AdaptiveKDTree.hpp" 00004 #include "ElemUtil.hpp" 00005 #include "moab/CN.hpp" 00006 #include "moab/gs.hpp" 00007 #include "moab/TupleList.hpp" 00008 #include "moab/Error.hpp" 00009 00010 /* C++ includes */ 00011 #include <cstdio> 00012 #include <cassert> 00013 #include <iostream> 00014 #include <algorithm> 00015 #include <sstream> 00016 00017 #define ERROR( a ) \ 00018 { \ 00019 if( MB_SUCCESS != err ) std::cerr << ( a ) << std::endl; \ 00020 } 00021 #define ERRORR( a, b ) \ 00022 { \ 00023 if( MB_SUCCESS != ( b ) ) \ 00024 { \ 00025 std::cerr << ( a ) << std::endl; \ 00026 return b; \ 00027 } \ 00028 } 00029 #define ERRORMPI( a, b ) \ 00030 { \ 00031 if( MPI_SUCCESS != ( b ) ) \ 00032 { \ 00033 std::cerr << ( a ) << std::endl; \ 00034 return MB_FAILURE; \ 00035 } \ 00036 } 00037 00038 #define MASTER_PROC 0 00039 00040 namespace moab 00041 { 00042 00043 bool debug = false; 00044 int pack_tuples( TupleList* tl, void** ptr ); 00045 void unpack_tuples( void* ptr, TupleList** tlp ); 00046 00047 Coupler::Coupler( Interface* impl, 00048 ParallelComm* pc, 00049 Range& local_elems, 00050 int coupler_id, 00051 bool init_tree, 00052 int max_ent_dim ) 00053 : mbImpl( impl ), myPc( pc ), myId( coupler_id ), numIts( 3 ), max_dim( max_ent_dim ), _ntot( 0 ), 00054 spherical( false ) 00055 { 00056 assert( NULL != impl && ( pc || !local_elems.empty() ) ); 00057 00058 // Keep track of the local points, at least for now 00059 myRange = local_elems; 00060 myTree = NULL; 00061 00062 // Now initialize the tree 00063 if( init_tree ) initialize_tree(); 00064 00065 // Initialize tuple lists to indicate not initialized 00066 mappedPts = NULL; 00067 targetPts = NULL; 00068 _spectralSource = _spectralTarget = NULL; 00069 } 00070 00071 /* Destructor 00072 */ 00073 Coupler::~Coupler() 00074 { 00075 // This will clear the cache 00076 delete(moab::Element::SpectralHex*)_spectralSource; 00077 delete(moab::Element::SpectralHex*)_spectralTarget; 00078 delete myTree; 00079 delete targetPts; 00080 delete mappedPts; 00081 } 00082 00083 ErrorCode Coupler::initialize_tree() 00084 { 00085 Range local_ents; 00086 00087 // Get entities on the local part 00088 ErrorCode result = MB_SUCCESS; 00089 if( myPc ) 00090 { 00091 result = myPc->get_part_entities( local_ents, max_dim ); 00092 if( local_ents.empty() ) 00093 { 00094 max_dim--; 00095 result = myPc->get_part_entities( local_ents, max_dim ); // go one dimension lower 00096 // right now, this is used for spherical meshes only 00097 } 00098 } 00099 else 00100 local_ents = myRange; 00101 if( MB_SUCCESS != result || local_ents.empty() ) 00102 { 00103 std::cout << "Problems getting source entities" << std::endl; 00104 return result; 00105 } 00106 00107 // Build the tree for local processor 00108 int max_per_leaf = 6; 00109 for( int i = 0; i < numIts; i++ ) 00110 { 00111 std::ostringstream str; 00112 str << "PLANE_SET=0;" 00113 << "MAX_PER_LEAF=" << max_per_leaf << ";"; 00114 if( spherical && !local_ents.empty() ) 00115 { 00116 // get coordinates of one vertex, and use for radius computation 00117 EntityHandle elem = local_ents[0]; 00118 const EntityHandle* conn; 00119 int numn = 0; 00120 mbImpl->get_connectivity( elem, conn, numn ); 00121 CartVect pos0; 00122 mbImpl->get_coords( conn, 1, &( pos0[0] ) ); 00123 double radius = pos0.length(); 00124 str << "SPHERICAL=true;RADIUS=" << radius << ";"; 00125 } 00126 FileOptions opts( str.str().c_str() ); 00127 myTree = new AdaptiveKDTree( mbImpl ); 00128 result = myTree->build_tree( local_ents, &localRoot, &opts ); 00129 if( MB_SUCCESS != result ) 00130 { 00131 std::cout << "Problems building tree"; 00132 if( numIts != i ) 00133 { 00134 delete myTree; 00135 max_per_leaf *= 2; 00136 std::cout << "; increasing elements/leaf to " << max_per_leaf << std::endl; 00137 } 00138 else 00139 { 00140 std::cout << "; exiting" << std::endl; 00141 return result; 00142 } 00143 } 00144 else 00145 break; // Get out of tree building 00146 } 00147 00148 // Get the bounding box for local tree 00149 if( myPc ) 00150 allBoxes.resize( 6 * myPc->proc_config().proc_size() ); 00151 else 00152 allBoxes.resize( 6 ); 00153 00154 unsigned int my_rank = ( myPc ? myPc->proc_config().proc_rank() : 0 ); 00155 BoundBox box; 00156 result = myTree->get_bounding_box( box, &localRoot ); 00157 if( MB_SUCCESS != result ) return result; 00158 box.bMin.get( &allBoxes[6 * my_rank] ); 00159 box.bMax.get( &allBoxes[6 * my_rank + 3] ); 00160 00161 // Now communicate to get all boxes 00162 if( myPc ) 00163 { 00164 int mpi_err; 00165 #if( MPI_VERSION >= 2 ) 00166 // Use "in place" option 00167 mpi_err = MPI_Allgather( MPI_IN_PLACE, 0, MPI_DATATYPE_NULL, &allBoxes[0], 6, MPI_DOUBLE, 00168 myPc->proc_config().proc_comm() ); 00169 #else 00170 { 00171 std::vector< double > allBoxes_tmp( 6 * myPc->proc_config().proc_size() ); 00172 mpi_err = MPI_Allgather( &allBoxes[6 * my_rank], 6, MPI_DOUBLE, &allBoxes_tmp[0], 6, MPI_DOUBLE, 00173 myPc->proc_config().proc_comm() ); 00174 allBoxes = allBoxes_tmp; 00175 } 00176 #endif 00177 if( MPI_SUCCESS != mpi_err ) return MB_FAILURE; 00178 } 00179 00180 /* std::ostringstream blah; 00181 for(int i = 0; i < allBoxes.size(); i++) 00182 blah << allBoxes[i] << " "; 00183 std::cout << blah.str() << "\n";*/ 00184 00185 #ifdef VERBOSE 00186 double min[3] = { 0, 0, 0 }, max[3] = { 0, 0, 0 }; 00187 unsigned int dep; 00188 myTree->get_info( localRoot, min, max, dep ); 00189 std::cout << "Proc " << my_rank << ": box min/max, tree depth = (" << min[0] << "," << min[1] << "," << min[2] 00190 << "), (" << max[0] << "," << max[1] << "," << max[2] << "), " << dep << std::endl; 00191 #endif 00192 00193 return result; 00194 } 00195 00196 ErrorCode Coupler::initialize_spectral_elements( EntityHandle rootSource, 00197 EntityHandle rootTarget, 00198 bool& specSou, 00199 bool& specTar ) 00200 { 00201 /*void * _spectralSource; 00202 void * _spectralTarget;*/ 00203 00204 moab::Range spectral_sets; 00205 moab::Tag sem_tag; 00206 int sem_dims[3]; 00207 ErrorCode rval = mbImpl->tag_get_handle( "SEM_DIMS", 3, moab::MB_TYPE_INTEGER, sem_tag ); 00208 if( moab::MB_SUCCESS != rval ) 00209 { 00210 std::cout << "Can't find tag, no spectral set\n"; 00211 return MB_SUCCESS; // Nothing to do, no spectral elements 00212 } 00213 rval = mbImpl->get_entities_by_type_and_tag( rootSource, moab::MBENTITYSET, &sem_tag, NULL, 1, spectral_sets ); 00214 if( moab::MB_SUCCESS != rval || spectral_sets.empty() ) 00215 std::cout << "Can't get sem set on source\n"; 00216 else 00217 { 00218 moab::EntityHandle firstSemSet = spectral_sets[0]; 00219 rval = mbImpl->tag_get_data( sem_tag, &firstSemSet, 1, (void*)sem_dims ); 00220 if( moab::MB_SUCCESS != rval ) return MB_FAILURE; 00221 00222 if( sem_dims[0] != sem_dims[1] || sem_dims[0] != sem_dims[2] ) 00223 { 00224 std::cout << " dimensions are different. bail out\n"; 00225 return MB_FAILURE; 00226 } 00227 // Repeat for target sets 00228 spectral_sets.empty(); 00229 // Now initialize a source spectral element ! 00230 _spectralSource = new moab::Element::SpectralHex( sem_dims[0] ); 00231 specSou = true; 00232 } 00233 // Repeat for target source 00234 rval = mbImpl->get_entities_by_type_and_tag( rootTarget, moab::MBENTITYSET, &sem_tag, NULL, 1, spectral_sets ); 00235 if( moab::MB_SUCCESS != rval || spectral_sets.empty() ) 00236 std::cout << "Can't get sem set on target\n"; 00237 else 00238 { 00239 moab::EntityHandle firstSemSet = spectral_sets[0]; 00240 rval = mbImpl->tag_get_data( sem_tag, &firstSemSet, 1, (void*)sem_dims ); 00241 if( moab::MB_SUCCESS != rval ) return MB_FAILURE; 00242 00243 if( sem_dims[0] != sem_dims[1] || sem_dims[0] != sem_dims[2] ) 00244 { 00245 std::cout << " dimensions are different. bail out\n"; 00246 return MB_FAILURE; 00247 } 00248 // Repeat for target sets 00249 spectral_sets.empty(); 00250 // Now initialize a target spectral element ! 00251 _spectralTarget = new moab::Element::SpectralHex( sem_dims[0] ); 00252 specTar = true; 00253 } 00254 00255 _ntot = sem_dims[0] * sem_dims[1] * sem_dims[2]; 00256 rval = mbImpl->tag_get_handle( "SEM_X", _ntot, moab::MB_TYPE_DOUBLE, _xm1Tag ); 00257 if( moab::MB_SUCCESS != rval ) 00258 { 00259 std::cout << "Can't get xm1tag \n"; 00260 return MB_FAILURE; 00261 } 00262 rval = mbImpl->tag_get_handle( "SEM_Y", _ntot, moab::MB_TYPE_DOUBLE, _ym1Tag ); 00263 if( moab::MB_SUCCESS != rval ) 00264 { 00265 std::cout << "Can't get ym1tag \n"; 00266 return MB_FAILURE; 00267 } 00268 rval = mbImpl->tag_get_handle( "SEM_Z", _ntot, moab::MB_TYPE_DOUBLE, _zm1Tag ); 00269 if( moab::MB_SUCCESS != rval ) 00270 { 00271 std::cout << "Can't get zm1tag \n"; 00272 return MB_FAILURE; 00273 } 00274 00275 return MB_SUCCESS; 00276 } 00277 00278 ErrorCode Coupler::locate_points( Range& targ_ents, double rel_eps, double abs_eps, TupleList* tl, bool store_local ) 00279 { 00280 // Get locations 00281 std::vector< double > locs( 3 * targ_ents.size() ); 00282 Range verts = targ_ents.subset_by_type( MBVERTEX ); 00283 ErrorCode rval = mbImpl->get_coords( verts, &locs[0] ); 00284 if( MB_SUCCESS != rval ) return rval; 00285 // Now get other ents; reuse verts 00286 unsigned int num_verts = verts.size(); 00287 verts = subtract( targ_ents, verts ); 00288 // Compute centroids 00289 std::vector< EntityHandle > dum_conn( CN::MAX_NODES_PER_ELEMENT ); 00290 std::vector< double > dum_pos( CN::MAX_NODES_PER_ELEMENT ); 00291 const EntityHandle* conn; 00292 int num_conn; 00293 double* coords = &locs[num_verts]; 00294 // Do this here instead of a function to allow reuse of dum_pos and dum_conn 00295 for( Range::const_iterator rit = verts.begin(); rit != verts.end(); ++rit ) 00296 { 00297 rval = mbImpl->get_connectivity( *rit, conn, num_conn, false, &dum_conn ); 00298 if( MB_SUCCESS != rval ) return rval; 00299 rval = mbImpl->get_coords( conn, num_conn, &dum_pos[0] ); 00300 if( MB_SUCCESS != rval ) return rval; 00301 coords[0] = coords[1] = coords[2] = 0.0; 00302 for( int i = 0; i < num_conn; i++ ) 00303 { 00304 coords[0] += dum_pos[3 * i]; 00305 coords[1] += dum_pos[3 * i + 1]; 00306 coords[2] += dum_pos[3 * i + 2]; 00307 } 00308 coords[0] /= num_conn; 00309 coords[1] /= num_conn; 00310 coords[2] /= num_conn; 00311 coords += 3; 00312 } 00313 00314 if( store_local ) targetEnts = targ_ents; 00315 00316 return locate_points( &locs[0], targ_ents.size(), rel_eps, abs_eps, tl, store_local ); 00317 } 00318 00319 ErrorCode Coupler::locate_points( double* xyz, 00320 unsigned int num_points, 00321 double rel_eps, 00322 double abs_eps, 00323 TupleList* tl, 00324 bool store_local ) 00325 { 00326 assert( tl || store_local ); 00327 00328 // target_pts: TL(to_proc, tgt_index, x, y, z): tuples sent to source mesh procs representing 00329 // pts to be located source_pts: TL(from_proc, tgt_index, src_index): results of source mesh 00330 // proc point location, ready to send 00331 // back to tgt procs; src_index of -1 indicates point not located (arguably not 00332 // useful...) 00333 TupleList target_pts; 00334 target_pts.initialize( 2, 0, 0, 3, num_points ); 00335 target_pts.enableWriteAccess(); 00336 00337 TupleList source_pts; 00338 mappedPts = new TupleList( 0, 0, 1, 3, target_pts.get_max() ); 00339 mappedPts->enableWriteAccess(); 00340 00341 source_pts.initialize( 3, 0, 0, 0, target_pts.get_max() ); 00342 source_pts.enableWriteAccess(); 00343 00344 mappedPts->set_n( 0 ); 00345 source_pts.set_n( 0 ); 00346 ErrorCode result; 00347 00348 unsigned int my_rank = ( myPc ? myPc->proc_config().proc_rank() : 0 ); 00349 bool point_located; 00350 00351 // For each point, find box(es) containing the point, 00352 // appending results to tuple_list; 00353 // keep local points separately, in local_pts, which has pairs 00354 // of <local_index, mapped_index>, where mapped_index is the index 00355 // into the mappedPts tuple list 00356 for( unsigned int i = 0; i < 3 * num_points; i += 3 ) 00357 { 00358 00359 std::vector< int > procs_to_send_to; 00360 for( unsigned int j = 0; j < ( myPc ? myPc->proc_config().proc_size() : 0 ); j++ ) 00361 { 00362 // Test if point is in proc's box 00363 if( ( allBoxes[6 * j] <= xyz[i] + abs_eps ) && ( xyz[i] <= allBoxes[6 * j + 3] + abs_eps ) && 00364 ( allBoxes[6 * j + 1] <= xyz[i + 1] + abs_eps ) && ( xyz[i + 1] <= allBoxes[6 * j + 4] + abs_eps ) && 00365 ( allBoxes[6 * j + 2] <= xyz[i + 2] + abs_eps ) && ( xyz[i + 2] <= allBoxes[6 * j + 5] + abs_eps ) ) 00366 { 00367 // If in this proc's box, will send to proc to test further 00368 procs_to_send_to.push_back( j ); 00369 } 00370 } 00371 if( procs_to_send_to.empty() ) 00372 { 00373 #ifdef VERBOSE 00374 std::cout << " point index " << i / 3 << ": " << xyz[i] << " " << xyz[i + 1] << " " << xyz[i + 2] 00375 << " not found in any box\n"; 00376 #endif 00377 // try to find the closest box, and put it in that box, anyway 00378 double min_dist = 1.e+20; 00379 int index = -1; 00380 for( unsigned int j = 0; j < ( myPc ? myPc->proc_config().proc_size() : 0 ); j++ ) 00381 { 00382 BoundBox box( &allBoxes[6 * j] ); // form back the box 00383 double distance = box.distance( &xyz[i] ); // will compute the distance in 3d, from the box 00384 if( distance < min_dist ) 00385 { 00386 index = j; 00387 min_dist = distance; 00388 } 00389 } 00390 if( index == -1 ) 00391 { 00392 // need to abort early, nothing we can do 00393 assert( "cannot locate any box for some points" ); 00394 // need a better exit strategy 00395 } 00396 #ifdef VERBOSE 00397 std::cout << " point index " << i / 3 << " added to box for proc j:" << index << "\n"; 00398 #endif 00399 procs_to_send_to.push_back( index ); // will send to just one proc, that has the closest box 00400 } 00401 // we finally decided to populate the tuple list for a list of processors 00402 for( size_t k = 0; k < procs_to_send_to.size(); k++ ) 00403 { 00404 unsigned int j = procs_to_send_to[k]; 00405 // Check size of tuple list, grow if we're at max 00406 if( target_pts.get_n() == target_pts.get_max() ) 00407 target_pts.resize( std::max( 10.0, 1.5 * target_pts.get_max() ) ); 00408 00409 target_pts.vi_wr[2 * target_pts.get_n()] = j; 00410 target_pts.vi_wr[2 * target_pts.get_n() + 1] = i / 3; 00411 00412 target_pts.vr_wr[3 * target_pts.get_n()] = xyz[i]; 00413 target_pts.vr_wr[3 * target_pts.get_n() + 1] = xyz[i + 1]; 00414 target_pts.vr_wr[3 * target_pts.get_n() + 2] = xyz[i + 2]; 00415 target_pts.inc_n(); 00416 } 00417 00418 } // end for (unsigned int i = 0; .. 00419 00420 int num_to_me = 0; 00421 for( unsigned int i = 0; i < target_pts.get_n(); i++ ) 00422 if( target_pts.vi_rd[2 * i] == (int)my_rank ) num_to_me++; 00423 #ifdef VERBOSE 00424 printf( "rank: %u local points: %u, nb sent target pts: %u mappedPts: %u num to me: %d \n", my_rank, num_points, 00425 target_pts.get_n(), mappedPts->get_n(), num_to_me ); 00426 #endif 00427 // Perform scatter/gather, to gather points to source mesh procs 00428 if( myPc ) 00429 { 00430 ( myPc->proc_config().crystal_router() )->gs_transfer( 1, target_pts, 0 ); 00431 00432 num_to_me = 0; 00433 for( unsigned int i = 0; i < target_pts.get_n(); i++ ) 00434 { 00435 if( target_pts.vi_rd[2 * i] == (int)my_rank ) num_to_me++; 00436 } 00437 #ifdef VERBOSE 00438 printf( "rank: %u after first gs nb received_pts: %u; num_from_me = %d\n", my_rank, target_pts.get_n(), 00439 num_to_me ); 00440 #endif 00441 // After scatter/gather: 00442 // target_pts.set_n(# points local proc has to map); 00443 // target_pts.vi_wr[2*i] = proc sending point i 00444 // target_pts.vi_wr[2*i + 1] = index of point i on sending proc 00445 // target_pts.vr_wr[3*i..3*i + 2] = xyz of point i 00446 // 00447 // Mapping builds the tuple list: 00448 // source_pts.set_n(target_pts.get_n()) 00449 // source_pts.vi_wr[3*i] = target_pts.vi_wr[2*i] = sending proc 00450 // source_pts.vi_wr[3*i + 1] = index of point i on sending proc 00451 // source_pts.vi_wr[3*i + 2] = index of mapped point (-1 if not mapped) 00452 // 00453 // Also, mapping builds local tuple_list mappedPts: 00454 // mappedPts->set_n( # mapped points ); 00455 // mappedPts->vul_wr[i] = local handle of mapped entity 00456 // mappedPts->vr_wr[3*i..3*i + 2] = natural coordinates in mapped entity 00457 00458 // Test target points against my elements 00459 for( unsigned i = 0; i < target_pts.get_n(); i++ ) 00460 { 00461 result = test_local_box( target_pts.vr_wr + 3 * i, target_pts.vi_rd[2 * i], target_pts.vi_rd[2 * i + 1], i, 00462 point_located, rel_eps, abs_eps, &source_pts ); 00463 if( MB_SUCCESS != result ) return result; 00464 } 00465 00466 // No longer need target_pts 00467 target_pts.reset(); 00468 #ifdef VERBOSE 00469 printf( "rank: %u nb sent source pts: %u, mappedPts now: %u\n", my_rank, source_pts.get_n(), 00470 mappedPts->get_n() ); 00471 #endif 00472 // Send target points back to target procs 00473 ( myPc->proc_config().crystal_router() )->gs_transfer( 1, source_pts, 0 ); 00474 00475 #ifdef VERBOSE 00476 printf( "rank: %u nb received source pts: %u\n", my_rank, source_pts.get_n() ); 00477 #endif 00478 } 00479 00480 // Store proc/index tuples in targetPts, and/or pass back to application; 00481 // the tuple this gets stored to looks like: 00482 // tl.set_n(# mapped points); 00483 // tl.vi_wr[3*i] = remote proc mapping point 00484 // tl.vi_wr[3*i + 1] = local index of mapped point 00485 // tl.vi_wr[3*i + 2] = remote index of mapped point 00486 // 00487 // Local index is mapped into either myRange, holding the handles of 00488 // local mapped entities, or myXyz, holding locations of mapped pts 00489 00490 // Store information about located points 00491 TupleList* tl_tmp; 00492 if( !store_local ) 00493 tl_tmp = tl; 00494 else 00495 { 00496 targetPts = new TupleList(); 00497 tl_tmp = targetPts; 00498 } 00499 00500 tl_tmp->initialize( 3, 0, 0, 0, num_points ); 00501 tl_tmp->set_n( num_points ); // Automatically sets tl to write_enabled 00502 // Initialize so we know afterwards how many pts weren't located 00503 std::fill( tl_tmp->vi_wr, tl_tmp->vi_wr + 3 * num_points, -1 ); 00504 00505 unsigned int local_pts = 0; 00506 for( unsigned int i = 0; i < source_pts.get_n(); i++ ) 00507 { 00508 if( -1 != source_pts.vi_rd[3 * i + 2] ) 00509 { // Why bother sending message saying "i don't have the point" if it gets discarded? 00510 int tgt_index = 3 * source_pts.vi_rd[3 * i + 1]; 00511 // Prefer always entities that are local, from the source_pts 00512 // if a local entity was already found to contain the target point, skip 00513 // tl_tmp->vi_wr[tgt_index] is -1 initially, but it could already be set with 00514 // a remote processor 00515 if( tl_tmp->vi_wr[tgt_index] != (int)my_rank ) 00516 { 00517 tl_tmp->vi_wr[tgt_index] = source_pts.vi_rd[3 * i]; 00518 tl_tmp->vi_wr[tgt_index + 1] = source_pts.vi_rd[3 * i + 1]; 00519 tl_tmp->vi_wr[tgt_index + 2] = source_pts.vi_rd[3 * i + 2]; 00520 } 00521 } 00522 } 00523 00524 // Count missing points 00525 unsigned int missing_pts = 0; 00526 for( unsigned int i = 0; i < num_points; i++ ) 00527 { 00528 if( tl_tmp->vi_rd[3 * i + 1] == -1 ) 00529 { 00530 missing_pts++; 00531 #ifdef VERBOSE 00532 printf( "missing point at index i: %d -> %15.10f %15.10f %15.10f\n", i, xyz[3 * i], xyz[3 * i + 1], 00533 xyz[3 * i + 2] ); 00534 #endif 00535 } 00536 else if( tl_tmp->vi_rd[3 * i] == (int)my_rank ) 00537 local_pts++; 00538 } 00539 #ifdef VERBOSE 00540 printf( "rank: %u point location: wanted %u got %u locally, %u remote, missing %u\n", my_rank, num_points, 00541 local_pts, num_points - missing_pts - local_pts, missing_pts ); 00542 #endif 00543 assert( 0 == missing_pts ); // Will likely break on curved geometries 00544 00545 // No longer need source_pts 00546 source_pts.reset(); 00547 00548 // Copy into tl if passed in and storing locally 00549 if( tl && store_local ) 00550 { 00551 tl->initialize( 3, 0, 0, 0, num_points ); 00552 tl->enableWriteAccess(); 00553 memcpy( tl->vi_wr, tl_tmp->vi_rd, 3 * tl_tmp->get_n() * sizeof( int ) ); 00554 tl->set_n( tl_tmp->get_n() ); 00555 tl->disableWriteAccess(); 00556 } 00557 00558 tl_tmp->disableWriteAccess(); 00559 00560 // Done 00561 return MB_SUCCESS; 00562 } 00563 00564 ErrorCode Coupler::test_local_box( double* xyz, 00565 int from_proc, 00566 int remote_index, 00567 int /*index*/, 00568 bool& point_located, 00569 double rel_eps, 00570 double abs_eps, 00571 TupleList* tl ) 00572 { 00573 std::vector< EntityHandle > entities; 00574 std::vector< CartVect > nat_coords; 00575 bool canWrite = false; 00576 if( tl ) 00577 { 00578 canWrite = tl->get_writeEnabled(); 00579 if( !canWrite ) 00580 { 00581 tl->enableWriteAccess(); 00582 canWrite = true; 00583 } 00584 } 00585 00586 if( rel_eps && !abs_eps ) 00587 { 00588 // Relative epsilon given, translate to absolute epsilon using box dimensions 00589 BoundBox box; 00590 myTree->get_bounding_box( box, &localRoot ); 00591 abs_eps = rel_eps * box.diagonal_length(); 00592 } 00593 00594 ErrorCode result = nat_param( xyz, entities, nat_coords, abs_eps ); 00595 if( MB_SUCCESS != result ) return result; 00596 00597 // If we didn't find any ents and we're looking locally, nothing more to do 00598 if( entities.empty() ) 00599 { 00600 if( tl->get_n() == tl->get_max() ) tl->resize( std::max( 10.0, 1.5 * tl->get_max() ) ); 00601 00602 tl->vi_wr[3 * tl->get_n()] = from_proc; 00603 tl->vi_wr[3 * tl->get_n() + 1] = remote_index; 00604 tl->vi_wr[3 * tl->get_n() + 2] = -1; 00605 tl->inc_n(); 00606 00607 point_located = false; 00608 return MB_SUCCESS; 00609 } 00610 00611 // Grow if we know we'll exceed size 00612 if( mappedPts->get_n() + entities.size() >= mappedPts->get_max() ) 00613 mappedPts->resize( std::max( 10.0, 1.5 * mappedPts->get_max() ) ); 00614 00615 std::vector< EntityHandle >::iterator eit = entities.begin(); 00616 std::vector< CartVect >::iterator ncit = nat_coords.begin(); 00617 00618 mappedPts->enableWriteAccess(); 00619 for( ; eit != entities.end(); ++eit, ++ncit ) 00620 { 00621 // Store in tuple mappedPts 00622 mappedPts->vr_wr[3 * mappedPts->get_n()] = ( *ncit )[0]; 00623 mappedPts->vr_wr[3 * mappedPts->get_n() + 1] = ( *ncit )[1]; 00624 mappedPts->vr_wr[3 * mappedPts->get_n() + 2] = ( *ncit )[2]; 00625 mappedPts->vul_wr[mappedPts->get_n()] = *eit; 00626 mappedPts->inc_n(); 00627 00628 // Also store local point, mapped point indices 00629 if( tl->get_n() == tl->get_max() ) tl->resize( std::max( 10.0, 1.5 * tl->get_max() ) ); 00630 00631 // Store in tuple source_pts 00632 tl->vi_wr[3 * tl->get_n()] = from_proc; 00633 tl->vi_wr[3 * tl->get_n() + 1] = remote_index; 00634 tl->vi_wr[3 * tl->get_n() + 2] = mappedPts->get_n() - 1; 00635 tl->inc_n(); 00636 } 00637 00638 point_located = true; 00639 00640 if( tl && !canWrite ) tl->disableWriteAccess(); 00641 00642 return MB_SUCCESS; 00643 } 00644 00645 ErrorCode Coupler::interpolate( Coupler::Method method, 00646 const std::string& interp_tag, 00647 double* interp_vals, 00648 TupleList* tl, 00649 bool normalize ) 00650 { 00651 Tag tag; 00652 ErrorCode result; 00653 if( _spectralSource ) 00654 { 00655 result = mbImpl->tag_get_handle( interp_tag.c_str(), _ntot, MB_TYPE_DOUBLE, tag );MB_CHK_SET_ERR( result, "Failed to get handle for interpolation tag \"" << interp_tag << "\"" ); 00656 } 00657 else 00658 { 00659 result = mbImpl->tag_get_handle( interp_tag.c_str(), 1, MB_TYPE_DOUBLE, tag );MB_CHK_SET_ERR( result, "Failed to get handle for interpolation tag \"" << interp_tag << "\"" ); 00660 } 00661 00662 return interpolate( method, tag, interp_vals, tl, normalize ); 00663 } 00664 00665 ErrorCode Coupler::interpolate( Coupler::Method* methods, 00666 Tag* tags, 00667 int* points_per_method, 00668 int num_methods, 00669 double* interp_vals, 00670 TupleList* tl, 00671 bool /* normalize */ ) 00672 { 00673 // if (!((LINEAR_FE == method) || (CONSTANT == method))) 00674 // return MB_FAILURE; 00675 00676 // remote pts first 00677 TupleList* tl_tmp = ( tl ? tl : targetPts ); 00678 00679 ErrorCode result = MB_SUCCESS; 00680 00681 unsigned int pts_total = 0; 00682 for( int i = 0; i < num_methods; i++ ) 00683 pts_total += points_per_method[i]; 00684 00685 // If tl was passed in non-NULL, just have those points, otherwise have targetPts plus 00686 // locally mapped pts 00687 if( pts_total != tl_tmp->get_n() ) return MB_FAILURE; 00688 00689 TupleList tinterp; 00690 tinterp.initialize( 5, 0, 0, 1, tl_tmp->get_n() ); 00691 int t = 0; 00692 tinterp.enableWriteAccess(); 00693 for( int i = 0; i < num_methods; i++ ) 00694 { 00695 for( int j = 0; j < points_per_method[i]; j++ ) 00696 { 00697 tinterp.vi_wr[5 * t] = tl_tmp->vi_rd[3 * t]; 00698 tinterp.vi_wr[5 * t + 1] = tl_tmp->vi_rd[3 * t + 1]; 00699 tinterp.vi_wr[5 * t + 2] = tl_tmp->vi_rd[3 * t + 2]; 00700 tinterp.vi_wr[5 * t + 3] = methods[i]; 00701 tinterp.vi_wr[5 * t + 4] = i; 00702 tinterp.vr_wr[t] = 0.0; 00703 tinterp.inc_n(); 00704 t++; 00705 } 00706 } 00707 00708 // Scatter/gather interpolation points 00709 if( myPc ) 00710 { 00711 ( myPc->proc_config().crystal_router() )->gs_transfer( 1, tinterp, 0 ); 00712 00713 // Perform interpolation on local source mesh; put results into 00714 // tinterp.vr_wr[i] 00715 00716 mappedPts->enableWriteAccess(); 00717 for( unsigned int i = 0; i < tinterp.get_n(); i++ ) 00718 { 00719 int mindex = tinterp.vi_rd[5 * i + 2]; 00720 Method method = (Method)tinterp.vi_rd[5 * i + 3]; 00721 Tag tag = tags[tinterp.vi_rd[5 * i + 4]]; 00722 00723 result = MB_FAILURE; 00724 if( LINEAR_FE == method || QUADRATIC_FE == method || SPHERICAL == method ) 00725 { 00726 result = interp_field( mappedPts->vul_rd[mindex], CartVect( mappedPts->vr_wr + 3 * mindex ), tag, 00727 tinterp.vr_wr[i] ); 00728 } 00729 else if( CONSTANT == method ) 00730 { 00731 result = constant_interp( mappedPts->vul_rd[mindex], tag, tinterp.vr_wr[i] ); 00732 } 00733 00734 if( MB_SUCCESS != result ) return result; 00735 } 00736 00737 // Scatter/gather interpolation data 00738 myPc->proc_config().crystal_router()->gs_transfer( 1, tinterp, 0 ); 00739 } 00740 00741 // Copy the interpolated field as a unit 00742 for( unsigned int i = 0; i < tinterp.get_n(); i++ ) 00743 interp_vals[tinterp.vi_rd[5 * i + 1]] = tinterp.vr_rd[i]; 00744 00745 // Done 00746 return MB_SUCCESS; 00747 } 00748 00749 ErrorCode Coupler::nat_param( double xyz[3], 00750 std::vector< EntityHandle >& entities, 00751 std::vector< CartVect >& nat_coords, 00752 double epsilon ) 00753 { 00754 if( !myTree ) return MB_FAILURE; 00755 00756 AdaptiveKDTreeIter treeiter; 00757 ErrorCode result = myTree->get_tree_iterator( localRoot, treeiter ); 00758 if( MB_SUCCESS != result ) 00759 { 00760 std::cout << "Problems getting iterator" << std::endl; 00761 return result; 00762 } 00763 00764 EntityHandle closest_leaf; 00765 if( epsilon ) 00766 { 00767 std::vector< double > dists; 00768 std::vector< EntityHandle > leaves; 00769 00770 // Two tolerances 00771 result = myTree->distance_search( xyz, epsilon, leaves, 00772 /*iter_tol*/ epsilon, 00773 /*inside_tol*/ 10 * epsilon, &dists, NULL, &localRoot ); 00774 if( leaves.empty() ) 00775 // Not found returns success here, with empty list, just like case with no epsilon 00776 return MB_SUCCESS; 00777 // Get closest leaf 00778 double min_dist = *dists.begin(); 00779 closest_leaf = *leaves.begin(); 00780 std::vector< EntityHandle >::iterator vit = leaves.begin() + 1; 00781 std::vector< double >::iterator dit = dists.begin() + 1; 00782 for( ; vit != leaves.end() && min_dist; ++vit, ++dit ) 00783 { 00784 if( *dit < min_dist ) 00785 { 00786 min_dist = *dit; 00787 closest_leaf = *vit; 00788 } 00789 } 00790 } 00791 else 00792 { 00793 result = myTree->point_search( xyz, treeiter, 1.0e-10, 1.0e-6, NULL, &localRoot ); 00794 if( MB_ENTITY_NOT_FOUND == result ) // Point is outside of myTree's bounding box 00795 return MB_SUCCESS; 00796 else if( MB_SUCCESS != result ) 00797 { 00798 std::cout << "Problems getting leaf \n"; 00799 return result; 00800 } 00801 closest_leaf = treeiter.handle(); 00802 } 00803 00804 // Find natural coordinates of point in element(s) in that leaf 00805 CartVect tmp_nat_coords; 00806 Range range_leaf; 00807 result = mbImpl->get_entities_by_dimension( closest_leaf, max_dim, range_leaf, false ); 00808 if( MB_SUCCESS != result ) std::cout << "Problem getting leaf in a range" << std::endl; 00809 00810 // Loop over the range_leaf 00811 for( Range::iterator iter = range_leaf.begin(); iter != range_leaf.end(); ++iter ) 00812 { 00813 // Test to find out in which entity the point is 00814 // Get the EntityType and create the appropriate Element::Map subtype 00815 // If spectral, do not need coordinates, just the GL points 00816 EntityType etype = mbImpl->type_from_handle( *iter ); 00817 if( NULL != this->_spectralSource && MBHEX == etype ) 00818 { 00819 EntityHandle eh = *iter; 00820 const double* xval; 00821 const double* yval; 00822 const double* zval; 00823 ErrorCode rval = mbImpl->tag_get_by_ptr( _xm1Tag, &eh, 1, (const void**)&xval ); 00824 if( moab::MB_SUCCESS != rval ) 00825 { 00826 std::cout << "Can't get xm1 values \n"; 00827 return MB_FAILURE; 00828 } 00829 rval = mbImpl->tag_get_by_ptr( _ym1Tag, &eh, 1, (const void**)&yval ); 00830 if( moab::MB_SUCCESS != rval ) 00831 { 00832 std::cout << "Can't get ym1 values \n"; 00833 return MB_FAILURE; 00834 } 00835 rval = mbImpl->tag_get_by_ptr( _zm1Tag, &eh, 1, (const void**)&zval ); 00836 if( moab::MB_SUCCESS != rval ) 00837 { 00838 std::cout << "Can't get zm1 values \n"; 00839 return MB_FAILURE; 00840 } 00841 Element::SpectralHex* spcHex = (Element::SpectralHex*)_spectralSource; 00842 00843 spcHex->set_gl_points( (double*)xval, (double*)yval, (double*)zval ); 00844 try 00845 { 00846 tmp_nat_coords = spcHex->ievaluate( CartVect( xyz ), epsilon ); // introduce 00847 bool inside = spcHex->inside_nat_space( CartVect( tmp_nat_coords ), epsilon ); 00848 if( !inside ) 00849 { 00850 #ifdef VERBOSE 00851 std::cout << "point " << xyz[0] << " " << xyz[1] << " " << xyz[2] 00852 << " is not converging inside hex " << mbImpl->id_from_handle( eh ) << "\n"; 00853 #endif 00854 continue; // It is possible that the point is outside, so it will not converge 00855 } 00856 } 00857 catch( Element::Map::EvaluationError& ) 00858 { 00859 continue; 00860 } 00861 } 00862 else 00863 { 00864 const EntityHandle* connect; 00865 int num_connect; 00866 00867 // Get connectivity 00868 result = mbImpl->get_connectivity( *iter, connect, num_connect, true ); 00869 if( MB_SUCCESS != result ) return result; 00870 00871 // Get coordinates of the vertices 00872 std::vector< CartVect > coords_vert( num_connect ); 00873 result = mbImpl->get_coords( connect, num_connect, &( coords_vert[0][0] ) ); 00874 if( MB_SUCCESS != result ) 00875 { 00876 std::cout << "Problems getting coordinates of vertices\n"; 00877 return result; 00878 } 00879 CartVect pos( xyz ); 00880 if( MBHEX == etype ) 00881 { 00882 if( 8 == num_connect ) 00883 { 00884 Element::LinearHex hexmap( coords_vert ); 00885 if( !hexmap.inside_box( pos, epsilon ) ) continue; 00886 try 00887 { 00888 tmp_nat_coords = hexmap.ievaluate( pos, epsilon ); 00889 bool inside = hexmap.inside_nat_space( tmp_nat_coords, epsilon ); 00890 if( !inside ) continue; 00891 } 00892 catch( Element::Map::EvaluationError& ) 00893 { 00894 continue; 00895 } 00896 } 00897 else if( 27 == num_connect ) 00898 { 00899 Element::QuadraticHex hexmap( coords_vert ); 00900 if( !hexmap.inside_box( pos, epsilon ) ) continue; 00901 try 00902 { 00903 tmp_nat_coords = hexmap.ievaluate( pos, epsilon ); 00904 bool inside = hexmap.inside_nat_space( tmp_nat_coords, epsilon ); 00905 if( !inside ) continue; 00906 } 00907 catch( Element::Map::EvaluationError& ) 00908 { 00909 continue; 00910 } 00911 } 00912 else // TODO this case not treated yet, no interpolation 00913 continue; 00914 } 00915 else if( MBTET == etype ) 00916 { 00917 Element::LinearTet tetmap( coords_vert ); 00918 // This is just a linear solve; unless degenerate, will not except 00919 tmp_nat_coords = tetmap.ievaluate( pos ); 00920 bool inside = tetmap.inside_nat_space( tmp_nat_coords, epsilon ); 00921 if( !inside ) continue; 00922 } 00923 else if( MBQUAD == etype && spherical ) 00924 { 00925 Element::SphericalQuad sphermap( coords_vert ); 00926 /* skip box test, because it can filter out good elements with high curvature 00927 * if (!sphermap.inside_box(pos, epsilon)) 00928 continue;*/ 00929 try 00930 { 00931 tmp_nat_coords = sphermap.ievaluate( pos, epsilon ); 00932 bool inside = sphermap.inside_nat_space( tmp_nat_coords, epsilon ); 00933 if( !inside ) continue; 00934 } 00935 catch( Element::Map::EvaluationError& ) 00936 { 00937 continue; 00938 } 00939 } 00940 else if( MBTRI == etype && spherical ) 00941 { 00942 Element::SphericalTri sphermap( coords_vert ); 00943 /* skip box test, because it can filter out good elements with high curvature 00944 * if (!sphermap.inside_box(pos, epsilon)) 00945 continue;*/ 00946 try 00947 { 00948 tmp_nat_coords = sphermap.ievaluate( pos, epsilon ); 00949 bool inside = sphermap.inside_nat_space( tmp_nat_coords, epsilon ); 00950 if( !inside ) continue; 00951 } 00952 catch( Element::Map::EvaluationError& ) 00953 { 00954 continue; 00955 } 00956 } 00957 00958 else if( MBQUAD == etype ) 00959 { 00960 Element::LinearQuad quadmap( coords_vert ); 00961 if( !quadmap.inside_box( pos, epsilon ) ) continue; 00962 try 00963 { 00964 tmp_nat_coords = quadmap.ievaluate( pos, epsilon ); 00965 bool inside = quadmap.inside_nat_space( tmp_nat_coords, epsilon ); 00966 if( !inside ) continue; 00967 } 00968 catch( Element::Map::EvaluationError& ) 00969 { 00970 continue; 00971 } 00972 if( !quadmap.inside_nat_space( tmp_nat_coords, epsilon ) ) continue; 00973 } 00974 /* 00975 else if (etype == MBTRI){ 00976 Element::LinearTri trimap(coords_vert); 00977 if (!trimap.inside_box( pos, epsilon)) 00978 continue; 00979 try { 00980 tmp_nat_coords = trimap.ievaluate(pos, epsilon); 00981 bool inside = trimap.inside_nat_space(tmp_nat_coords, epsilon); 00982 if (!inside) continue; 00983 } 00984 catch (Element::Map::EvaluationError) { 00985 continue; 00986 } 00987 if (!trimap.inside_nat_space(tmp_nat_coords, epsilon)) 00988 continue; 00989 } 00990 */ 00991 else if( etype == MBEDGE ) 00992 { 00993 Element::LinearEdge edgemap( coords_vert ); 00994 try 00995 { 00996 tmp_nat_coords = edgemap.ievaluate( CartVect( xyz ), epsilon ); 00997 } 00998 catch( Element::Map::EvaluationError ) 00999 { 01000 continue; 01001 } 01002 if( !edgemap.inside_nat_space( tmp_nat_coords, epsilon ) ) continue; 01003 } 01004 else 01005 { 01006 std::cout << "Entity not Hex/Tet/Quad/Tri/Edge. Please verify." << std::endl; 01007 continue; 01008 } 01009 } 01010 // If we get here then we've found the coordinates. 01011 // Save them and the entity and return success. 01012 entities.push_back( *iter ); 01013 nat_coords.push_back( tmp_nat_coords ); 01014 return MB_SUCCESS; 01015 } 01016 01017 // Didn't find any elements containing the point 01018 return MB_SUCCESS; 01019 } 01020 01021 ErrorCode Coupler::interp_field( EntityHandle elem, CartVect nat_coord, Tag tag, double& field ) 01022 { 01023 if( _spectralSource ) 01024 { 01025 // Get tag values at the GL points for some field (Tag) 01026 const double* vx; 01027 ErrorCode rval = mbImpl->tag_get_by_ptr( tag, &elem, 1, (const void**)&vx ); 01028 if( moab::MB_SUCCESS != rval ) 01029 { 01030 std::cout << "Can't get field values for the tag \n"; 01031 return MB_FAILURE; 01032 } 01033 Element::SpectralHex* spcHex = (Element::SpectralHex*)_spectralSource; 01034 field = spcHex->evaluate_scalar_field( nat_coord, vx ); 01035 } 01036 else 01037 { 01038 double vfields[27]; // Will work for linear hex, quadratic hex or Tets 01039 moab::Element::Map* elemMap = NULL; 01040 int num_verts = 0; 01041 // Get the EntityType 01042 // Get the tag values at the vertices 01043 const EntityHandle* connect; 01044 int num_connect; 01045 ErrorCode result = mbImpl->get_connectivity( elem, connect, num_connect ); 01046 if( MB_SUCCESS != result ) return result; 01047 EntityType etype = mbImpl->type_from_handle( elem ); 01048 if( MBHEX == etype ) 01049 { 01050 if( 8 == num_connect ) 01051 { 01052 elemMap = new moab::Element::LinearHex(); 01053 num_verts = 8; 01054 } 01055 else 01056 { /* (MBHEX == etype && 27 == num_connect) */ 01057 elemMap = new moab::Element::QuadraticHex(); 01058 num_verts = 27; 01059 } 01060 } 01061 else if( MBTET == etype ) 01062 { 01063 elemMap = new moab::Element::LinearTet(); 01064 num_verts = 4; 01065 } 01066 else if( MBQUAD == etype ) 01067 { 01068 elemMap = new moab::Element::LinearQuad(); 01069 num_verts = 4; 01070 } 01071 else if( MBTRI == etype ) 01072 { 01073 elemMap = new moab::Element::LinearTri(); 01074 num_verts = 3; 01075 } 01076 else 01077 return MB_FAILURE; 01078 01079 result = mbImpl->tag_get_data( tag, connect, std::min( num_verts, num_connect ), vfields ); 01080 if( MB_SUCCESS != result ) 01081 { 01082 delete elemMap; 01083 return result; 01084 } 01085 01086 // Function for the interpolation 01087 field = 0; 01088 01089 // Check the number of vertices 01090 assert( num_connect >= num_verts ); 01091 01092 // Calculate the field 01093 try 01094 { 01095 field = elemMap->evaluate_scalar_field( nat_coord, vfields ); 01096 } 01097 catch( moab::Element::Map::EvaluationError& ) 01098 { 01099 delete elemMap; 01100 return MB_FAILURE; 01101 } 01102 01103 delete elemMap; 01104 } 01105 01106 return MB_SUCCESS; 01107 } 01108 01109 // Simplest "interpolation" for element-based source fields. Set the value of the field 01110 // at the target point to that of the field in the source element it lies in. 01111 ErrorCode Coupler::constant_interp( EntityHandle elem, Tag tag, double& field ) 01112 { 01113 double tempField; 01114 01115 // Get the tag values at the vertices 01116 ErrorCode result = mbImpl->tag_get_data( tag, &elem, 1, &tempField ); 01117 if( MB_SUCCESS != result ) return result; 01118 01119 field = tempField; 01120 01121 return MB_SUCCESS; 01122 } 01123 01124 // Normalize a field over the entire mesh represented by the root_set. 01125 ErrorCode Coupler::normalize_mesh( EntityHandle root_set, 01126 const char* norm_tag, 01127 Coupler::IntegType integ_type, 01128 int num_integ_pts ) 01129 { 01130 ErrorCode err; 01131 01132 // SLAVE START **************************************************************** 01133 // Search for entities based on tag_handles and tag_values 01134 std::vector< std::vector< EntityHandle > > entity_sets; 01135 std::vector< std::vector< EntityHandle > > entity_groups; 01136 01137 // put the root_set into entity_sets 01138 std::vector< EntityHandle > ent_set; 01139 ent_set.push_back( root_set ); 01140 entity_sets.push_back( ent_set ); 01141 01142 // get all entities from root_set and put into entity_groups 01143 std::vector< EntityHandle > entities; 01144 err = mbImpl->get_entities_by_handle( root_set, entities, true );ERRORR( "Failed to get entities in root_set.", err ); 01145 01146 entity_groups.push_back( entities ); 01147 01148 // Call do_normalization() to continue common normalization processing 01149 err = do_normalization( norm_tag, entity_sets, entity_groups, integ_type, num_integ_pts );ERRORR( "Failure in do_normalization().", err ); 01150 // SLAVE END **************************************************************** 01151 01152 return err; 01153 } 01154 01155 // Normalize a field over the subset of entities identified by the tags and values passed 01156 ErrorCode Coupler::normalize_subset( EntityHandle root_set, 01157 const char* norm_tag, 01158 const char** tag_names, 01159 int num_tags, 01160 const char** tag_values, 01161 Coupler::IntegType integ_type, 01162 int num_integ_pts ) 01163 { 01164 moab::ErrorCode err; 01165 std::vector< Tag > tag_handles; 01166 01167 // Lookup tag handles from tag names 01168 for( int t = 0; t < num_tags; t++ ) 01169 { 01170 // get tag handle & size 01171 Tag th; 01172 err = mbImpl->tag_get_handle( tag_names[t], 1, moab::MB_TYPE_DOUBLE, th, moab::MB_TAG_ANY );ERRORR( "Failed to get tag handle.", err ); 01173 tag_handles.push_back( th ); 01174 } 01175 01176 return normalize_subset( root_set, norm_tag, &tag_handles[0], num_tags, tag_values, integ_type, num_integ_pts ); 01177 } 01178 01179 ErrorCode Coupler::normalize_subset( EntityHandle root_set, 01180 const char* norm_tag, 01181 Tag* tag_handles, 01182 int num_tags, 01183 const char** tag_values, 01184 Coupler::IntegType integ_type, 01185 int num_integ_pts ) 01186 { 01187 ErrorCode err; 01188 01189 // SLAVE START **************************************************************** 01190 // Search for entities based on tag_handles and tag_values 01191 std::vector< std::vector< EntityHandle > > entity_sets; 01192 std::vector< std::vector< EntityHandle > > entity_groups; 01193 01194 err = get_matching_entities( root_set, tag_handles, tag_values, num_tags, &entity_sets, &entity_groups );ERRORR( "Failed to get matching entities.", err ); 01195 01196 // Call do_normalization() to continue common normalization processing 01197 err = do_normalization( norm_tag, entity_sets, entity_groups, integ_type, num_integ_pts );ERRORR( "Failure in do_normalization().", err ); 01198 // SLAVE END **************************************************************** 01199 01200 return err; 01201 } 01202 01203 ErrorCode Coupler::do_normalization( const char* norm_tag, 01204 std::vector< std::vector< EntityHandle > >& entity_sets, 01205 std::vector< std::vector< EntityHandle > >& entity_groups, 01206 Coupler::IntegType integ_type, 01207 int num_integ_pts ) 01208 { 01209 // SLAVE START **************************************************************** 01210 ErrorCode err; 01211 int ierr = 0; 01212 01213 // Setup data for parallel computing 01214 int nprocs, rank; 01215 ierr = MPI_Comm_size( MPI_COMM_WORLD, &nprocs ); 01216 ERRORMPI( "Getting number of procs failed.", ierr ); 01217 ierr = MPI_Comm_rank( MPI_COMM_WORLD, &rank ); 01218 ERRORMPI( "Getting rank failed.", ierr ); 01219 01220 // Get the integrated field value for each group(vector) of entities. 01221 // If no entities are in a group then a zero will be put in the list 01222 // of return values. 01223 unsigned int num_ent_grps = entity_groups.size(); 01224 std::vector< double > integ_vals( num_ent_grps ); 01225 01226 err = get_group_integ_vals( entity_groups, integ_vals, norm_tag, num_integ_pts, integ_type );ERRORR( "Failed to get integrated field values for groups in mesh.", err ); 01227 // SLAVE END **************************************************************** 01228 01229 // SLAVE/MASTER START ######################################################### 01230 // Send list of integrated values back to master proc. The ordering of the 01231 // values will match the ordering of the entity groups (i.e. vector of vectors) 01232 // sent from master to slaves earlier. The values for each entity group will 01233 // be summed during the transfer. 01234 std::vector< double > sum_integ_vals( num_ent_grps ); 01235 01236 if( nprocs > 1 ) 01237 { 01238 // If parallel then send the values back to the master. 01239 ierr = MPI_Reduce( &integ_vals[0], &sum_integ_vals[0], num_ent_grps, MPI_DOUBLE, MPI_SUM, MASTER_PROC, 01240 myPc->proc_config().proc_comm() ); 01241 ERRORMPI( "Transfer and reduction of integrated values failed.", ierr ); 01242 } 01243 else 01244 { 01245 // Otherwise just copy the vector 01246 sum_integ_vals = integ_vals; 01247 } 01248 // SLAVE/MASTER END ######################################################### 01249 01250 // MASTER START *************************************************************** 01251 // Calculate the normalization factor for each group by taking the 01252 // inverse of each integrated field value. Put the normalization factor 01253 // for each group back into the list in the same order. 01254 for( unsigned int i = 0; i < num_ent_grps; i++ ) 01255 { 01256 double val = sum_integ_vals[i]; 01257 if( fabs( val ) > 1e-8 ) 01258 sum_integ_vals[i] = 1.0 / val; 01259 else 01260 { 01261 sum_integ_vals[i] = 0.0; /* VSM: not sure what we should do here ? */ 01262 /* commenting out error below since if integral(value)=0.0, then normalization 01263 is probably unnecessary to start with ? */ 01264 /* ERRORR("Integrating an invalid field -- integral("<<norm_tag<<") = "<<val<<".", err); 01265 */ 01266 } 01267 } 01268 // MASTER END *************************************************************** 01269 01270 // MASTER/SLAVE START ######################################################### 01271 if( nprocs > 1 ) 01272 { 01273 // If parallel then broadcast the normalization factors to the procs. 01274 ierr = MPI_Bcast( &sum_integ_vals[0], num_ent_grps, MPI_DOUBLE, MASTER_PROC, myPc->proc_config().proc_comm() ); 01275 ERRORMPI( "Broadcast of normalization factors failed.", ierr ); 01276 } 01277 // MASTER/SLAVE END ######################################################### 01278 01279 // SLAVE START **************************************************************** 01280 // Save the normalization factors to a new tag with name of norm_tag's value 01281 // and the string "_normF" appended. This new tag will be created on the entity 01282 // set that contains all of the entities from a group. 01283 01284 err = apply_group_norm_factor( entity_sets, sum_integ_vals, norm_tag, integ_type );ERRORR( "Failed to set the normalization factor for groups in mesh.", err ); 01285 // SLAVE END **************************************************************** 01286 01287 return err; 01288 } 01289 01290 // Functions supporting the subset normalization function 01291 01292 // Retrieve groups of entities matching tags and values if present 01293 ErrorCode Coupler::get_matching_entities( EntityHandle root_set, 01294 const char** tag_names, 01295 const char** tag_values, 01296 int num_tags, 01297 std::vector< std::vector< EntityHandle > >* entity_sets, 01298 std::vector< std::vector< EntityHandle > >* entity_groups ) 01299 { 01300 ErrorCode err; 01301 std::vector< Tag > tag_handles; 01302 01303 for( int t = 0; t < num_tags; t++ ) 01304 { 01305 // Get tag handle & size 01306 Tag th; 01307 err = mbImpl->tag_get_handle( tag_names[t], 1, moab::MB_TYPE_DOUBLE, th, moab::MB_TAG_ANY );ERRORR( "Failed to get tag handle.", err ); 01308 tag_handles.push_back( th ); 01309 } 01310 01311 return get_matching_entities( root_set, &tag_handles[0], tag_values, num_tags, entity_sets, entity_groups ); 01312 } 01313 01314 // Retrieve groups of entities matching tags and values if present 01315 ErrorCode Coupler::get_matching_entities( EntityHandle root_set, 01316 Tag* tag_handles, 01317 const char** tag_values, 01318 int num_tags, 01319 std::vector< std::vector< EntityHandle > >* entity_sets, 01320 std::vector< std::vector< EntityHandle > >* entity_groups ) 01321 { 01322 // SLAVE START **************************************************************** 01323 01324 // Setup data for parallel computing 01325 ErrorCode err; 01326 int ierr = 0; 01327 int nprocs, rank; 01328 ierr = MPI_Comm_size( MPI_COMM_WORLD, &nprocs ); 01329 ERRORMPI( "Getting number of procs failed.", ierr ); 01330 ierr = MPI_Comm_rank( MPI_COMM_WORLD, &rank ); 01331 ERRORMPI( "Getting rank failed.", ierr ); 01332 01333 Range ent_sets; 01334 err = 01335 mbImpl->get_entities_by_type_and_tag( root_set, moab::MBENTITYSET, tag_handles, (const void* const*)tag_values, 01336 num_tags, ent_sets, Interface::INTERSECT, false );ERRORR( "Core::get_entities_by_type_and_tag failed.", err ); 01337 01338 TupleList* tag_list = NULL; 01339 err = create_tuples( ent_sets, tag_handles, num_tags, &tag_list );ERRORR( "Failed to create tuples from entity sets.", err ); 01340 01341 // Free up range 01342 ent_sets.clear(); 01343 // SLAVE END **************************************************************** 01344 01345 // If we are running in a multi-proc session then send tuple list back to master 01346 // proc for consolidation. Otherwise just copy the pointer to the tuple_list. 01347 TupleList* cons_tuples; 01348 if( nprocs > 1 ) 01349 { 01350 // SLAVE/MASTER START ######################################################### 01351 01352 // Pack the tuple_list in a buffer. 01353 uint* tuple_buf; 01354 int tuple_buf_len; 01355 tuple_buf_len = pack_tuples( tag_list, (void**)&tuple_buf ); 01356 01357 // Free tag_list here as its not used again if nprocs > 1 01358 tag_list->reset(); 01359 01360 // Send back the buffer sizes to the master proc 01361 int* recv_cnts = (int*)malloc( nprocs * sizeof( int ) ); 01362 int* offsets = (int*)malloc( nprocs * sizeof( int ) ); 01363 uint* all_tuples_buf = NULL; 01364 01365 MPI_Gather( &tuple_buf_len, 1, MPI_INT, recv_cnts, 1, MPI_INT, MASTER_PROC, myPc->proc_config().proc_comm() ); 01366 ERRORMPI( "Gathering buffer sizes failed.", err ); 01367 01368 // Allocate a buffer large enough for all the data 01369 if( rank == MASTER_PROC ) 01370 { 01371 int all_tuples_len = recv_cnts[0]; 01372 offsets[0] = 0; 01373 for( int i = 1; i < nprocs; i++ ) 01374 { 01375 offsets[i] = offsets[i - 1] + recv_cnts[i - 1]; 01376 all_tuples_len += recv_cnts[i]; 01377 } 01378 01379 all_tuples_buf = (uint*)malloc( all_tuples_len * sizeof( uint ) ); 01380 } 01381 01382 // Send all buffers to the master proc for consolidation 01383 MPI_Gatherv( (void*)tuple_buf, tuple_buf_len, MPI_INT, (void*)all_tuples_buf, recv_cnts, offsets, MPI_INT, 01384 MASTER_PROC, myPc->proc_config().proc_comm() ); 01385 ERRORMPI( "Gathering tuple_lists failed.", err ); 01386 free( tuple_buf ); // malloc'd in pack_tuples 01387 01388 if( rank == MASTER_PROC ) 01389 { 01390 // Unpack the tuple_list from the buffer. 01391 TupleList** tl_array = (TupleList**)malloc( nprocs * sizeof( TupleList* ) ); 01392 for( int i = 0; i < nprocs; i++ ) 01393 unpack_tuples( (void*)&all_tuples_buf[offsets[i]], &tl_array[i] ); 01394 01395 // Free all_tuples_buf here as it is only allocated on the MASTER_PROC 01396 free( all_tuples_buf ); 01397 // SLAVE/MASTER END ######################################################### 01398 01399 // MASTER START *************************************************************** 01400 // Consolidate all tuple_lists into one tuple_list with no duplicates. 01401 err = consolidate_tuples( tl_array, nprocs, &cons_tuples );ERRORR( "Failed to consolidate tuples.", err ); 01402 01403 for( int i = 0; i < nprocs; i++ ) 01404 tl_array[i]->reset(); 01405 free( tl_array ); 01406 // MASTER END *************************************************************** 01407 } 01408 01409 // Free offsets and recv_cnts as they are allocated on all procs 01410 free( offsets ); 01411 free( recv_cnts ); 01412 01413 // MASTER/SLAVE START ######################################################### 01414 // Broadcast condensed tuple list back to all procs. 01415 uint* ctl_buf; 01416 int ctl_buf_sz; 01417 if( rank == MASTER_PROC ) ctl_buf_sz = pack_tuples( cons_tuples, (void**)&ctl_buf ); 01418 01419 // Send buffer size 01420 ierr = MPI_Bcast( &ctl_buf_sz, 1, MPI_INT, MASTER_PROC, myPc->proc_config().proc_comm() ); 01421 ERRORMPI( "Broadcasting tuple_list size failed.", ierr ); 01422 01423 // Allocate a buffer in the other procs 01424 if( rank != MASTER_PROC ) ctl_buf = (uint*)malloc( ctl_buf_sz * sizeof( uint ) ); 01425 01426 ierr = MPI_Bcast( (void*)ctl_buf, ctl_buf_sz, MPI_INT, MASTER_PROC, myPc->proc_config().proc_comm() ); 01427 ERRORMPI( "Broadcasting tuple_list failed.", ierr ); 01428 01429 if( rank != MASTER_PROC ) unpack_tuples( ctl_buf, &cons_tuples ); 01430 free( ctl_buf ); 01431 // MASTER/SLAVE END ######################################################### 01432 } 01433 else 01434 cons_tuples = tag_list; 01435 01436 // SLAVE START **************************************************************** 01437 // Loop over the tuple list getting the entities with the tags in the tuple_list entry 01438 uint mi, ml, mul, mr; 01439 cons_tuples->getTupleSize( mi, ml, mul, mr ); 01440 01441 for( unsigned int i = 0; i < cons_tuples->get_n(); i++ ) 01442 { 01443 // Get Entity Sets that match the tags and values. 01444 01445 // Convert the data in the tuple_list to an array of pointers to the data 01446 // in the tuple_list as that is what the iMesh API call is expecting. 01447 int** vals = (int**)malloc( mi * sizeof( int* ) ); 01448 for( unsigned int j = 0; j < mi; j++ ) 01449 vals[j] = (int*)&( cons_tuples->vi_rd[( i * mi ) + j] ); 01450 01451 // Get entities recursively based on type and tag data 01452 err = mbImpl->get_entities_by_type_and_tag( root_set, moab::MBENTITYSET, tag_handles, (const void* const*)vals, 01453 mi, ent_sets, Interface::INTERSECT, false );ERRORR( "Core::get_entities_by_type_and_tag failed.", err ); 01454 if( debug ) std::cout << "ent_sets_size=" << ent_sets.size() << std::endl; 01455 01456 // Free up the array of pointers 01457 free( vals ); 01458 01459 // Loop over the entity sets and then free the memory for ent_sets. 01460 std::vector< EntityHandle > ent_set_hdls; 01461 std::vector< EntityHandle > ent_hdls; 01462 for( unsigned int j = 0; j < ent_sets.size(); j++ ) 01463 { 01464 // Save the entity set 01465 ent_set_hdls.push_back( ent_sets[j] ); 01466 01467 // Get all entities for the entity set 01468 Range ents; 01469 01470 /* VSM: do we need to filter out entity sets ? */ 01471 err = mbImpl->get_entities_by_handle( ent_sets[j], ents, false );ERRORR( "Core::get_entities_by_handle failed.", err ); 01472 if( debug ) std::cout << "ents_size=" << ents.size() << std::endl; 01473 01474 // Save all of the entities from the entity set and free the memory for ents. 01475 for( unsigned int k = 0; k < ents.size(); k++ ) 01476 { 01477 ent_hdls.push_back( ents[k] ); 01478 } 01479 ents.clear(); 01480 if( debug ) std::cout << "ent_hdls.size=" << ent_hdls.size() << std::endl; 01481 } 01482 01483 // Free the entity set list for next tuple iteration. 01484 ent_sets.clear(); 01485 01486 // Push ent_set_hdls onto entity_sets, ent_hdls onto entity_groups 01487 // and clear both ent_set_hdls and ent_hdls. 01488 entity_sets->push_back( ent_set_hdls ); 01489 ent_set_hdls.clear(); 01490 entity_groups->push_back( ent_hdls ); 01491 ent_hdls.clear(); 01492 if( debug ) 01493 std::cout << "entity_sets->size=" << entity_sets->size() 01494 << ", entity_groups->size=" << entity_groups->size() << std::endl; 01495 } 01496 01497 cons_tuples->reset(); 01498 // SLAVE END **************************************************************** 01499 01500 return err; 01501 } 01502 01503 // Return a tuple_list containing tag values for each Entity Set 01504 // The tuple_list will have a column for each tag and a row for each 01505 // Entity Set. It is assumed all of the tags are integer tags. 01506 ErrorCode Coupler::create_tuples( Range& ent_sets, 01507 const char** tag_names, 01508 unsigned int num_tags, 01509 TupleList** tuple_list ) 01510 { 01511 ErrorCode err; 01512 std::vector< Tag > tag_handles; 01513 01514 for( unsigned int t = 0; t < num_tags; t++ ) 01515 { 01516 // Get tag handle & size 01517 Tag th; 01518 err = mbImpl->tag_get_handle( tag_names[t], 1, moab::MB_TYPE_DOUBLE, th, moab::MB_TAG_ANY );ERRORR( "Failed to get tag handle.", err ); 01519 tag_handles.push_back( th ); 01520 } 01521 01522 return create_tuples( ent_sets, &tag_handles[0], num_tags, tuple_list ); 01523 } 01524 01525 // Return a tuple_list containing tag values for each Entity Set 01526 // The tuple_list will have a column for each tag and a row for each 01527 // Entity Set. It is assumed all of the tags are integer tags. 01528 ErrorCode Coupler::create_tuples( Range& ent_sets, Tag* tag_handles, unsigned int num_tags, TupleList** tuples ) 01529 { 01530 // ASSUMPTION: All tags are of type integer. This may need to be expanded in future. 01531 ErrorCode err; 01532 01533 // Allocate a tuple_list for the number of entity sets passed in 01534 TupleList* tag_tuples = new TupleList( num_tags, 0, 0, 0, (int)ent_sets.size() ); 01535 // tag_tuples->initialize(num_tags, 0, 0, 0, num_sets); 01536 uint mi, ml, mul, mr; 01537 tag_tuples->getTupleSize( mi, ml, mul, mr ); 01538 tag_tuples->enableWriteAccess(); 01539 01540 if( mi == 0 ) ERRORR( "Failed to initialize tuple_list.", MB_FAILURE ); 01541 01542 // Loop over the filtered entity sets retrieving each matching tag value one by one. 01543 int val; 01544 for( unsigned int i = 0; i < ent_sets.size(); i++ ) 01545 { 01546 for( unsigned int j = 0; j < num_tags; j++ ) 01547 { 01548 EntityHandle set_handle = ent_sets[i]; 01549 err = mbImpl->tag_get_data( tag_handles[j], &set_handle, 1, &val );ERRORR( "Failed to get integer tag data.", err ); 01550 tag_tuples->vi_wr[i * mi + j] = val; 01551 } 01552 01553 // If we get here there was no error so increment n in the tuple_list 01554 tag_tuples->inc_n(); 01555 } 01556 tag_tuples->disableWriteAccess(); 01557 *tuples = tag_tuples; 01558 01559 return MB_SUCCESS; 01560 } 01561 01562 // Consolidate tuple_lists into one list with no duplicates 01563 ErrorCode Coupler::consolidate_tuples( TupleList** all_tuples, unsigned int num_tuples, TupleList** unique_tuples ) 01564 { 01565 int total_rcv_tuples = 0; 01566 int offset = 0, copysz = 0; 01567 unsigned num_tags = 0; 01568 01569 uint ml, mul, mr; 01570 uint* mi = (uint*)malloc( sizeof( uint ) * num_tuples ); 01571 01572 for( unsigned int i = 0; i < num_tuples; i++ ) 01573 { 01574 all_tuples[i]->getTupleSize( mi[i], ml, mul, mr ); 01575 } 01576 01577 for( unsigned int i = 0; i < num_tuples; i++ ) 01578 { 01579 if( all_tuples[i] != NULL ) 01580 { 01581 total_rcv_tuples += all_tuples[i]->get_n(); 01582 num_tags = mi[i]; 01583 } 01584 } 01585 const unsigned int_size = sizeof( sint ); 01586 const unsigned int_width = num_tags * int_size; 01587 01588 // Get the total size of all of the tuple_lists in all_tuples. 01589 for( unsigned int i = 0; i < num_tuples; i++ ) 01590 { 01591 if( all_tuples[i] != NULL ) total_rcv_tuples += all_tuples[i]->get_n(); 01592 } 01593 01594 // Copy the tuple_lists into a single tuple_list. 01595 TupleList* all_tuples_list = new TupleList( num_tags, 0, 0, 0, total_rcv_tuples ); 01596 all_tuples_list->enableWriteAccess(); 01597 // all_tuples_list->initialize(num_tags, 0, 0, 0, total_rcv_tuples); 01598 for( unsigned int i = 0; i < num_tuples; i++ ) 01599 { 01600 if( all_tuples[i] != NULL ) 01601 { 01602 copysz = all_tuples[i]->get_n() * int_width; 01603 memcpy( all_tuples_list->vi_wr + offset, all_tuples[i]->vi_rd, copysz ); 01604 offset = offset + ( all_tuples[i]->get_n() * mi[i] ); 01605 all_tuples_list->set_n( all_tuples_list->get_n() + all_tuples[i]->get_n() ); 01606 } 01607 } 01608 01609 // Sort the new tuple_list. Use a radix type sort, starting with the last (or least significant) 01610 // tag column in the vi array and working towards the first (or most significant) tag column. 01611 TupleList::buffer sort_buffer; 01612 sort_buffer.buffer_init( 2 * total_rcv_tuples * int_width ); 01613 for( int i = num_tags - 1; i >= 0; i-- ) 01614 { 01615 all_tuples_list->sort( i, &sort_buffer ); 01616 } 01617 01618 // Cycle through the sorted list eliminating duplicates. 01619 // Keep counters to the current end of the tuple_list (w/out dups) and the last tuple examined. 01620 unsigned int end_idx = 0, last_idx = 1; 01621 while( last_idx < all_tuples_list->get_n() ) 01622 { 01623 if( memcmp( all_tuples_list->vi_rd + ( end_idx * num_tags ), all_tuples_list->vi_rd + ( last_idx * num_tags ), 01624 int_width ) == 0 ) 01625 { 01626 // Values equal - skip 01627 last_idx += 1; 01628 } 01629 else 01630 { 01631 // Values different - copy 01632 // Move up the end index 01633 end_idx += 1; 01634 memcpy( all_tuples_list->vi_wr + ( end_idx * num_tags ), all_tuples_list->vi_rd + ( last_idx * num_tags ), 01635 int_width ); 01636 last_idx += 1; 01637 } 01638 } 01639 // Update the count in all_tuples_list 01640 all_tuples_list->set_n( end_idx + 1 ); 01641 01642 // Resize the tuple_list 01643 all_tuples_list->resize( all_tuples_list->get_n() ); 01644 01645 // Set the output parameter 01646 *unique_tuples = all_tuples_list; 01647 01648 return MB_SUCCESS; 01649 } 01650 01651 // Calculate integrated field values for groups of entities 01652 ErrorCode Coupler::get_group_integ_vals( std::vector< std::vector< EntityHandle > >& groups, 01653 std::vector< double >& integ_vals, 01654 const char* norm_tag, 01655 int /*num_integ_vals*/, 01656 Coupler::IntegType integ_type ) 01657 { 01658 ErrorCode err; 01659 01660 std::vector< std::vector< EntityHandle > >::iterator iter_i; 01661 std::vector< EntityHandle >::iterator iter_j; 01662 double grp_intrgr_val, intgr_val; 01663 01664 // Get the tag handle for norm_tag 01665 Tag norm_hdl; 01666 err = 01667 mbImpl->tag_get_handle( norm_tag, 1, moab::MB_TYPE_DOUBLE, norm_hdl, moab::MB_TAG_SPARSE | moab::MB_TAG_CREAT );ERRORR( "Failed to get norm_tag handle.", err ); 01668 01669 // Check size of integ_vals vector 01670 if( integ_vals.size() != groups.size() ) integ_vals.resize( groups.size() ); 01671 01672 // Loop over the groups(vectors) of entities 01673 unsigned int i; 01674 for( i = 0, iter_i = groups.begin(); iter_i != groups.end(); i++, ++iter_i ) 01675 { 01676 grp_intrgr_val = 0; 01677 01678 // Loop over the all the entities in the group, integrating 01679 // the field_fn over the entity in iter_j 01680 for( iter_j = ( *iter_i ).begin(); iter_j != ( *iter_i ).end(); ++iter_j ) 01681 { 01682 EntityHandle ehandle = ( *iter_j ); 01683 01684 // Check that the entity in iter_j is of the same dimension as the 01685 // integ_type we are performing 01686 EntityType j_type; 01687 j_type = mbImpl->type_from_handle( ehandle );ERRORR( "Failed to get entity type.", err ); 01688 // Skip any entities in the group that are not of the type being considered 01689 if( ( integ_type == VOLUME ) && ( j_type < MBTET || j_type >= MBENTITYSET ) ) continue; 01690 01691 intgr_val = 0; 01692 01693 // Retrieve the vertices from the element 01694 const EntityHandle* verts = NULL; 01695 int connectivity_size = 0; 01696 01697 err = mbImpl->get_connectivity( ehandle, verts, connectivity_size, false );ERRORR( "Failed to get vertices from entity.", err ); 01698 01699 // Get the vertex coordinates and the field values at the vertices. 01700 double* coords = (double*)malloc( sizeof( double ) * ( 3 * connectivity_size ) ); 01701 /* TODO: VSM: check if this works for lower dimensions also without problems */ 01702 /* if (3 == geom_dim) */ 01703 err = mbImpl->get_coords( verts, connectivity_size, coords );ERRORR( "Failed to get vertex coordinates.", err ); 01704 01705 /* allocate the field data array */ 01706 double* vfield = (double*)malloc( sizeof( double ) * ( connectivity_size ) ); 01707 err = mbImpl->tag_get_data( norm_hdl, verts, connectivity_size, vfield ); 01708 if( MB_SUCCESS != err ) 01709 { 01710 free( coords ); 01711 } 01712 ERRORR( "Failed to get vertex coordinates.", err ); 01713 01714 // Get coordinates of all corner vertices (in normal order) and 01715 // put in array of CartVec. 01716 std::vector< CartVect > vertices( connectivity_size ); 01717 01718 // Put the vertices into a CartVect vector 01719 double* x = coords; 01720 for( int j = 0; j < connectivity_size; j++, x += 3 ) 01721 { 01722 vertices[j] = CartVect( x ); 01723 } 01724 free( coords ); 01725 01726 moab::Element::Map* elemMap; 01727 if( j_type == MBHEX ) 01728 { 01729 if( connectivity_size == 8 ) 01730 elemMap = new moab::Element::LinearHex( vertices ); 01731 else 01732 elemMap = new moab::Element::QuadraticHex( vertices ); 01733 } 01734 else if( j_type == MBTET ) 01735 { 01736 elemMap = new moab::Element::LinearTet( vertices ); 01737 } 01738 else if( j_type == MBQUAD ) 01739 { 01740 elemMap = new moab::Element::LinearQuad( vertices ); 01741 } 01742 /* 01743 else if (j_type == MBTRI) { 01744 elemMap = new moab::Element::LinearTri(vertices); 01745 } 01746 */ 01747 else if( j_type == MBEDGE ) 01748 { 01749 elemMap = new moab::Element::LinearEdge( vertices ); 01750 } 01751 else 01752 ERRORR( "Unknown topology type.", MB_UNSUPPORTED_OPERATION ); 01753 01754 // Set the vertices in the Map and perform the integration 01755 try 01756 { 01757 /* VSM: Do we need this call ?? */ 01758 // elemMap->set_vertices(vertices); 01759 01760 // Perform the actual integration over the element 01761 intgr_val = elemMap->integrate_scalar_field( vfield ); 01762 01763 // Combine the result with those of the group 01764 grp_intrgr_val += intgr_val; 01765 } 01766 catch( moab::Element::Map::ArgError& ) 01767 { 01768 std::cerr << "Failed to set vertices on Element::Map." << std::endl; 01769 } 01770 catch( moab::Element::Map::EvaluationError& ) 01771 { 01772 std::cerr << "Failed to get inverse evaluation of coordinate on Element::Map." << std::endl; 01773 } 01774 01775 delete( elemMap ); 01776 free( vfield ); 01777 } 01778 01779 // Set the group integrated value in the vector 01780 integ_vals[i] = grp_intrgr_val; 01781 } 01782 01783 return err; 01784 } 01785 01786 // Apply a normalization factor to group of entities 01787 ErrorCode Coupler::apply_group_norm_factor( std::vector< std::vector< EntityHandle > >& entity_sets, 01788 std::vector< double >& norm_factors, 01789 const char* norm_tag, 01790 Coupler::IntegType /*integ_type*/ ) 01791 { 01792 ErrorCode err; 01793 01794 // Construct the new tag for the normalization factor from the norm_tag name 01795 // and "_normf". 01796 int norm_tag_len = strlen( norm_tag ); 01797 const char* normf_appd = "_normf"; 01798 int normf_appd_len = strlen( normf_appd ); 01799 01800 char* normf_tag = (char*)malloc( norm_tag_len + normf_appd_len + 1 ); 01801 char* tmp_ptr = normf_tag; 01802 01803 memcpy( tmp_ptr, norm_tag, norm_tag_len ); 01804 tmp_ptr += norm_tag_len; 01805 memcpy( tmp_ptr, normf_appd, normf_appd_len ); 01806 tmp_ptr += normf_appd_len; 01807 *tmp_ptr = '\0'; 01808 01809 Tag normf_hdl; 01810 // Check to see if the tag exists. If not then create it and get the handle. 01811 err = mbImpl->tag_get_handle( normf_tag, 1, moab::MB_TYPE_DOUBLE, normf_hdl, 01812 moab::MB_TAG_SPARSE | moab::MB_TAG_CREAT );ERRORR( "Failed to create normalization factor tag.", err ); 01813 if( normf_hdl == NULL ) 01814 { 01815 std::string msg( "Failed to create normalization factor tag named '" ); 01816 msg += std::string( normf_tag ) + std::string( "'" );ERRORR( msg.c_str(), MB_FAILURE ); 01817 } 01818 free( normf_tag ); 01819 01820 std::vector< std::vector< EntityHandle > >::iterator iter_i; 01821 std::vector< EntityHandle >::iterator iter_j; 01822 std::vector< double >::iterator iter_f; 01823 double grp_norm_factor = 0.0; 01824 01825 // Loop over the entity sets 01826 for( iter_i = entity_sets.begin(), iter_f = norm_factors.begin(); 01827 ( iter_i != entity_sets.end() ) && ( iter_f != norm_factors.end() ); ++iter_i, ++iter_f ) 01828 { 01829 grp_norm_factor = *iter_f; 01830 01831 // Loop over the all the entity sets in iter_i and set the 01832 // new normf_tag with the norm factor value on each 01833 for( iter_j = ( *iter_i ).begin(); iter_j != ( *iter_i ).end(); ++iter_j ) 01834 { 01835 EntityHandle entset = *iter_j; 01836 01837 std::cout << "Coupler: applying normalization for entity set=" << entset 01838 << ", normalization_factor=" << grp_norm_factor << std::endl; 01839 01840 err = mbImpl->tag_set_data( normf_hdl, &entset, 1, &grp_norm_factor );ERRORR( "Failed to set normalization factor on entity set.", err ); 01841 } 01842 } 01843 01844 return MB_SUCCESS; 01845 } 01846 01847 #define UINT_PER_X( X ) ( ( sizeof( X ) + sizeof( uint ) - 1 ) / sizeof( uint ) ) 01848 #define UINT_PER_REAL UINT_PER_X( realType ) 01849 #define UINT_PER_LONG UINT_PER_X( slong ) 01850 #define UINT_PER_UNSIGNED UINT_PER_X( unsigned ) 01851 01852 // Function for packing tuple_list. Returns number of uints copied into buffer. 01853 int pack_tuples( TupleList* tl, void** ptr ) 01854 { 01855 uint mi, ml, mul, mr; 01856 tl->getTupleSize( mi, ml, mul, mr ); 01857 01858 uint n = tl->get_n(); 01859 01860 int sz_buf = 1 + 4 * UINT_PER_UNSIGNED + 01861 tl->get_n() * ( mi + ml * UINT_PER_LONG + mul * UINT_PER_LONG + mr * UINT_PER_REAL ); 01862 01863 uint* buf = (uint*)malloc( sz_buf * sizeof( uint ) ); 01864 *ptr = (void*)buf; 01865 01866 // Copy n 01867 memcpy( buf, &n, sizeof( uint ) ), buf += 1; 01868 // Copy mi 01869 memcpy( buf, &mi, sizeof( unsigned ) ), buf += UINT_PER_UNSIGNED; 01870 // Copy ml 01871 memcpy( buf, &ml, sizeof( unsigned ) ), buf += UINT_PER_UNSIGNED; 01872 // Copy mul 01873 memcpy( buf, &mul, sizeof( unsigned ) ), buf += UINT_PER_UNSIGNED; 01874 // Copy mr 01875 memcpy( buf, &mr, sizeof( unsigned ) ), buf += UINT_PER_UNSIGNED; 01876 // Copy vi_wr 01877 memcpy( buf, tl->vi_rd, tl->get_n() * mi * sizeof( sint ) ), buf += tl->get_n() * mi; 01878 // Copy vl_wr 01879 memcpy( buf, tl->vl_rd, tl->get_n() * ml * sizeof( slong ) ), buf += tl->get_n() * ml * UINT_PER_LONG; 01880 // Copy vul_wr 01881 memcpy( buf, tl->vul_rd, tl->get_n() * mul * sizeof( ulong ) ), buf += tl->get_n() * mul * UINT_PER_LONG; 01882 // Copy vr_wr 01883 memcpy( buf, tl->vr_rd, tl->get_n() * mr * sizeof( realType ) ), buf += tl->get_n() * mr * UINT_PER_REAL; 01884 01885 return sz_buf; 01886 } 01887 01888 // Function for packing tuple_list 01889 void unpack_tuples( void* ptr, TupleList** tlp ) 01890 { 01891 TupleList* tl = new TupleList(); 01892 *tlp = tl; 01893 01894 uint nt; 01895 unsigned mit, mlt, mult, mrt; 01896 uint* buf = (uint*)ptr; 01897 01898 // Get n 01899 memcpy( &nt, buf, sizeof( uint ) ), buf += 1; 01900 // Get mi 01901 memcpy( &mit, buf, sizeof( unsigned ) ), buf += UINT_PER_UNSIGNED; 01902 // Get ml 01903 memcpy( &mlt, buf, sizeof( unsigned ) ), buf += UINT_PER_UNSIGNED; 01904 // Get mul 01905 memcpy( &mult, buf, sizeof( unsigned ) ), buf += UINT_PER_UNSIGNED; 01906 // Get mr 01907 memcpy( &mrt, buf, sizeof( unsigned ) ), buf += UINT_PER_UNSIGNED; 01908 01909 // Initialize tl 01910 tl->initialize( mit, mlt, mult, mrt, nt ); 01911 tl->enableWriteAccess(); 01912 tl->set_n( nt ); 01913 01914 uint mi, ml, mul, mr; 01915 tl->getTupleSize( mi, ml, mul, mr ); 01916 01917 // Get vi_rd 01918 memcpy( tl->vi_wr, buf, tl->get_n() * mi * sizeof( sint ) ), buf += tl->get_n() * mi; 01919 // Get vl_rd 01920 memcpy( tl->vl_wr, buf, tl->get_n() * ml * sizeof( slong ) ), buf += tl->get_n() * ml * UINT_PER_LONG; 01921 // Get vul_rd 01922 memcpy( tl->vul_wr, buf, tl->get_n() * mul * sizeof( ulong ) ), buf += tl->get_n() * mul * UINT_PER_LONG; 01923 // Get vr_rd 01924 memcpy( tl->vr_wr, buf, tl->get_n() * mr * sizeof( realType ) ), buf += tl->get_n() * mr * UINT_PER_REAL; 01925 01926 tl->disableWriteAccess(); 01927 return; 01928 } 01929 01930 ErrorCode Coupler::get_gl_points_on_elements( Range& targ_elems, std::vector< double >& vpos, int& numPointsOfInterest ) 01931 { 01932 numPointsOfInterest = targ_elems.size() * _ntot; 01933 vpos.resize( 3 * numPointsOfInterest ); 01934 int ielem = 0; 01935 for( Range::iterator eit = targ_elems.begin(); eit != targ_elems.end(); ++eit, ielem += _ntot * 3 ) 01936 { 01937 EntityHandle eh = *eit; 01938 const double* xval; 01939 const double* yval; 01940 const double* zval; 01941 ErrorCode rval = mbImpl->tag_get_by_ptr( _xm1Tag, &eh, 1, (const void**)&xval ); 01942 if( moab::MB_SUCCESS != rval ) 01943 { 01944 std::cout << "Can't get xm1 values \n"; 01945 return MB_FAILURE; 01946 } 01947 rval = mbImpl->tag_get_by_ptr( _ym1Tag, &eh, 1, (const void**)&yval ); 01948 if( moab::MB_SUCCESS != rval ) 01949 { 01950 std::cout << "Can't get ym1 values \n"; 01951 return MB_FAILURE; 01952 } 01953 rval = mbImpl->tag_get_by_ptr( _zm1Tag, &eh, 1, (const void**)&zval ); 01954 if( moab::MB_SUCCESS != rval ) 01955 { 01956 std::cout << "Can't get zm1 values \n"; 01957 return MB_FAILURE; 01958 } 01959 // Now, in a stride, populate vpos 01960 for( int i = 0; i < _ntot; i++ ) 01961 { 01962 vpos[ielem + 3 * i] = xval[i]; 01963 vpos[ielem + 3 * i + 1] = yval[i]; 01964 vpos[ielem + 3 * i + 2] = zval[i]; 01965 } 01966 } 01967 01968 return MB_SUCCESS; 01969 } 01970 01971 } // namespace moab