Line data Source code
1 : // The libMesh Finite Element Library.
2 : // Copyright (C) 2002-2026 Benjamin S. Kirk, John W. Peterson, Roy H. Stogner
3 :
4 : // This library is free software; you can redistribute it and/or
5 : // modify it under the terms of the GNU Lesser General Public
6 : // License as published by the Free Software Foundation; either
7 : // version 2.1 of the License, or (at your option) any later version.
8 :
9 : // This library is distributed in the hope that it will be useful,
10 : // but WITHOUT ANY WARRANTY; without even the implied warranty of
11 : // MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
12 : // Lesser General Public License for more details.
13 :
14 : // You should have received a copy of the GNU Lesser General Public
15 : // License along with this library; if not, write to the Free Software
16 : // Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
17 :
18 :
19 :
20 : // Local includes
21 : #include "libmesh/replicated_mesh.h"
22 :
23 : #include "libmesh/boundary_info.h"
24 : #include "libmesh/elem.h"
25 : #include "libmesh/libmesh_logging.h"
26 : #include "libmesh/mesh_communication.h"
27 : #include "libmesh/parallel_implementation.h"
28 : #include "libmesh/partitioner.h"
29 : #include "libmesh/point.h"
30 : #include "libmesh/string_to_enum.h"
31 : #include "libmesh/utility.h"
32 :
33 : // C++ includes
34 : #include <unordered_map>
35 : #include <unordered_set>
36 :
37 : namespace libMesh
38 : {
39 :
40 : // ------------------------------------------------------------
41 : // ReplicatedMesh class member functions
42 55908 : ReplicatedMesh::ReplicatedMesh (const Parallel::Communicator & comm_in,
43 55908 : unsigned char d) :
44 : UnstructuredMesh (comm_in,d),
45 55908 : _n_nodes(0), _n_elem(0)
46 : {
47 : #ifdef LIBMESH_ENABLE_UNIQUE_ID
48 : // In serial we just need to reset the next unique id to zero
49 : // here in the constructor.
50 55908 : _next_unique_id = 0;
51 : #endif
52 :
53 65320 : const std::string default_partitioner = "metis";
54 : const std::string my_partitioner =
55 : libMesh::command_line_value("--default-partitioner",
56 111816 : default_partitioner);
57 : _partitioner = Partitioner::build
58 102404 : (Utility::string_to_enum<PartitionerType>(my_partitioner));
59 55908 : }
60 :
61 :
62 2379 : bool ReplicatedMesh::subclass_locally_equals(const MeshBase & other_mesh_base) const
63 : {
64 1022 : const ReplicatedMesh * rep_mesh_ptr =
65 2379 : dynamic_cast<const ReplicatedMesh *>(&other_mesh_base);
66 2379 : if (!rep_mesh_ptr)
67 0 : return false;
68 1022 : const ReplicatedMesh & other_mesh = *rep_mesh_ptr;
69 :
70 5780 : if (_n_nodes != other_mesh._n_nodes ||
71 2379 : _n_elem != other_mesh._n_elem ||
72 : #ifdef LIBMESH_ENABLE_UNIQUE_ID
73 7137 : _next_unique_id != other_mesh._next_unique_id ||
74 : #endif
75 2379 : !this->nodes_and_elements_equal(other_mesh))
76 78 : return false;
77 :
78 1018 : return true;
79 : }
80 :
81 :
82 70338 : ReplicatedMesh::~ReplicatedMesh ()
83 : {
84 60165 : this->ReplicatedMesh::clear(); // Free nodes and elements
85 70338 : }
86 :
87 :
88 : // This might be specialized later, but right now it's just here to
89 : // make sure the compiler doesn't give us a default (non-deep) copy
90 : // constructor instead.
91 4186 : ReplicatedMesh::ReplicatedMesh (const ReplicatedMesh & other_mesh) :
92 4186 : ReplicatedMesh(static_cast<const MeshBase&>(other_mesh))
93 : {
94 : #ifdef LIBMESH_ENABLE_UNIQUE_ID
95 4186 : this->_next_unique_id = other_mesh._next_unique_id;
96 : #endif
97 4186 : }
98 :
99 :
100 4257 : ReplicatedMesh::ReplicatedMesh (const MeshBase & other_mesh) :
101 : UnstructuredMesh (other_mesh),
102 4257 : _n_nodes(0), _n_elem(0) // copy_* will increment this
103 : {
104 : // Just copy, skipping preparation
105 4257 : this->copy_nodes_and_elements(other_mesh, true, 0, 0, 0, nullptr, true);
106 :
107 1416 : this->allow_find_neighbors(other_mesh.allow_find_neighbors());
108 1416 : this->allow_detect_interior_parents(other_mesh.allow_detect_interior_parents());
109 1416 : this->allow_renumbering(other_mesh.allow_renumbering());
110 1416 : this->allow_remote_element_removal(other_mesh.allow_remote_element_removal());
111 1416 : this->skip_partitioning(other_mesh.skip_partitioning());
112 :
113 4257 : this->copy_constraint_rows(other_mesh);
114 :
115 4257 : this->_preparation = other_mesh.preparation();
116 :
117 716 : auto & this_boundary_info = this->get_boundary_info();
118 716 : const auto & other_boundary_info = other_mesh.get_boundary_info();
119 :
120 4257 : this_boundary_info = other_boundary_info;
121 :
122 716 : this->set_subdomain_name_map() = other_mesh.get_subdomain_name_map();
123 :
124 : // If other_mesh is distributed, then we've got parts of it on each
125 : // processor but we're not replicated yet; fix that.
126 4257 : if (!other_mesh.is_serial())
127 71 : MeshCommunication().allgather(*this);
128 4257 : }
129 :
130 156 : ReplicatedMesh & ReplicatedMesh::operator= (ReplicatedMesh && other_mesh)
131 : {
132 8 : LOG_SCOPE("operator=(&&)", "ReplicatedMesh");
133 :
134 : // Move assign as an UnstructuredMesh
135 8 : this->UnstructuredMesh::operator=(std::move(other_mesh));
136 :
137 : // Nodes and elements belong to ReplicatedMesh and have to be
138 : // moved before we can move arbitrary GhostingFunctor, Partitioner,
139 : // etc. subclasses.
140 156 : this->move_nodes_and_elements(std::move(other_mesh));
141 :
142 : // Handle those remaining moves.
143 156 : this->post_dofobject_moves(std::move(other_mesh));
144 :
145 164 : return *this;
146 : }
147 :
148 156 : MeshBase & ReplicatedMesh::assign(MeshBase && other_mesh)
149 : {
150 156 : *this = std::move(cast_ref<ReplicatedMesh&>(other_mesh));
151 :
152 156 : return *this;
153 : }
154 :
155 156 : void ReplicatedMesh::move_nodes_and_elements(MeshBase && other_meshbase)
156 : {
157 8 : ReplicatedMesh & other_mesh = cast_ref<ReplicatedMesh&>(other_meshbase);
158 :
159 156 : this->_nodes = std::move(other_mesh._nodes);
160 156 : this->_n_nodes = other_mesh.n_nodes();
161 :
162 156 : this->_elements = std::move(other_mesh._elements);
163 156 : this->_n_elem = other_mesh.n_elem();
164 156 : }
165 :
166 :
167 15667163 : const Point & ReplicatedMesh::point (const dof_id_type i) const
168 : {
169 15667163 : return this->node_ref(i);
170 : }
171 :
172 :
173 :
174 :
175 101249738 : const Node * ReplicatedMesh::node_ptr (const dof_id_type i) const
176 : {
177 5165710 : libmesh_assert_less (i, this->max_node_id());
178 5165710 : libmesh_assert(_nodes[i]);
179 5165710 : libmesh_assert_equal_to (_nodes[i]->id(), i); // This will change soon
180 :
181 106377280 : return _nodes[i];
182 : }
183 :
184 :
185 :
186 :
187 121308868 : Node * ReplicatedMesh::node_ptr (const dof_id_type i)
188 : {
189 12434904 : libmesh_assert_less (i, this->max_node_id());
190 12434904 : libmesh_assert(_nodes[i]);
191 12434904 : libmesh_assert_equal_to (_nodes[i]->id(), i); // This will change soon
192 :
193 133167897 : return _nodes[i];
194 : }
195 :
196 :
197 :
198 :
199 16470716 : const Node * ReplicatedMesh::query_node_ptr (const dof_id_type i) const
200 : {
201 16470716 : if (i >= this->max_node_id())
202 0 : return nullptr;
203 16220711 : libmesh_assert (_nodes[i] == nullptr ||
204 : _nodes[i]->id() == i); // This will change soon
205 :
206 16555898 : return _nodes[i];
207 : }
208 :
209 :
210 :
211 :
212 2569006 : Node * ReplicatedMesh::query_node_ptr (const dof_id_type i)
213 : {
214 2569006 : if (i >= this->max_node_id())
215 85617 : return nullptr;
216 218950 : libmesh_assert (_nodes[i] == nullptr ||
217 : _nodes[i]->id() == i); // This will change soon
218 :
219 1966227 : return _nodes[i];
220 : }
221 :
222 :
223 :
224 :
225 3229137 : const Elem * ReplicatedMesh::elem_ptr (const dof_id_type i) const
226 : {
227 521323 : libmesh_assert_less (i, this->max_elem_id());
228 521323 : libmesh_assert(_elements[i]);
229 521323 : libmesh_assert_equal_to (_elements[i]->id(), i); // This will change soon
230 :
231 3651355 : return _elements[i];
232 : }
233 :
234 :
235 :
236 :
237 95605083 : Elem * ReplicatedMesh::elem_ptr (const dof_id_type i)
238 : {
239 5221555 : libmesh_assert_less (i, this->max_elem_id());
240 5221555 : libmesh_assert(_elements[i]);
241 5221555 : libmesh_assert_equal_to (_elements[i]->id(), i); // This will change soon
242 :
243 100103322 : return _elements[i];
244 : }
245 :
246 :
247 :
248 :
249 14912603 : const Elem * ReplicatedMesh::query_elem_ptr (const dof_id_type i) const
250 : {
251 14912603 : if (i >= this->max_elem_id())
252 0 : return nullptr;
253 14829518 : libmesh_assert (_elements[i] == nullptr ||
254 : _elements[i]->id() == i); // This will change soon
255 :
256 14942066 : return _elements[i];
257 : }
258 :
259 :
260 :
261 :
262 1436723 : Elem * ReplicatedMesh::query_elem_ptr (const dof_id_type i)
263 : {
264 1436723 : if (i >= this->max_elem_id())
265 44850 : return nullptr;
266 181602 : libmesh_assert (_elements[i] == nullptr ||
267 : _elements[i]->id() == i); // This will change soon
268 :
269 774271 : return _elements[i];
270 : }
271 :
272 :
273 :
274 :
275 15970364 : Elem * ReplicatedMesh::add_elem (Elem * e)
276 : {
277 1135572 : libmesh_assert(e);
278 :
279 : // We no longer merely append elements with ReplicatedMesh
280 :
281 : // If the user requests a valid id that doesn't correspond to an
282 : // existing element, let's give them that id, resizing the elements
283 : // container if necessary.
284 15970364 : if (!e->valid_id())
285 815992 : e->set_id (cast_int<dof_id_type>(_elements.size()));
286 :
287 : #ifdef LIBMESH_ENABLE_UNIQUE_ID
288 15970364 : if (!e->valid_unique_id())
289 5038290 : e->set_unique_id(_next_unique_id++);
290 : else
291 11785539 : _next_unique_id = std::max(_next_unique_id, e->unique_id()+1);
292 : #endif
293 :
294 2260256 : const dof_id_type id = e->id();
295 :
296 17095048 : if (id < _elements.size())
297 : {
298 : // This should *almost* never happen, but we rely on it when
299 : // using allgather to replicate a not-yet-actually-replicated
300 : // ReplicatedMesh under construction in parallel.
301 165331 : if (e == _elements[id])
302 0 : return e;
303 :
304 : // Overwriting existing elements is still probably a mistake.
305 16044 : libmesh_assert(!_elements[id]);
306 : }
307 : else
308 : {
309 15805033 : _elements.resize(id+1, nullptr);
310 : }
311 :
312 15970364 : ++_n_elem;
313 15970364 : _elements[id] = e;
314 :
315 : // We actually added a new element. Some of our caches might still
316 : // be valid, but we should clear the ones which definitely are not.
317 15970364 : this->clear_point_locator();
318 15970364 : this->clear_stored_ranges();
319 :
320 : // Make sure any new element is given space for any extra integers
321 : // we've requested
322 15970364 : e->add_extra_integers(_elem_integer_names.size(),
323 15970364 : _elem_integer_default_values);
324 :
325 : // And set mapping type and data on any new element
326 2260256 : e->set_mapping_type(this->default_mapping_type());
327 2260256 : e->set_mapping_data(this->default_mapping_data());
328 :
329 15970364 : return e;
330 : }
331 :
332 15157002 : Elem * ReplicatedMesh::add_elem (std::unique_ptr<Elem> e)
333 : {
334 : // The mesh now takes ownership of the Elem. Eventually the guts of
335 : // add_elem() will get moved to a private helper function, and
336 : // calling add_elem() directly will be deprecated.
337 15157002 : return add_elem(e.release());
338 : }
339 :
340 :
341 :
342 582412 : Elem * ReplicatedMesh::insert_elem (Elem * e)
343 : {
344 : #ifdef LIBMESH_ENABLE_UNIQUE_ID
345 582412 : if (!e->valid_unique_id())
346 18176 : e->set_unique_id(_next_unique_id++);
347 : else
348 564236 : _next_unique_id = std::max(_next_unique_id, e->unique_id()+1);
349 : #endif
350 :
351 235528 : dof_id_type eid = e->id();
352 117796 : libmesh_assert_less (eid, _elements.size());
353 582412 : Elem * oldelem = _elements[eid];
354 :
355 582412 : if (oldelem)
356 : {
357 117796 : libmesh_assert_equal_to (oldelem->id(), eid);
358 582412 : this->delete_elem(oldelem);
359 : }
360 :
361 582412 : ++_n_elem;
362 582412 : _elements[eid] = e;
363 :
364 : // We actually added a new element. Some of our caches might still
365 : // be valid, but we should clear the ones which definitely are not.
366 582412 : this->clear_point_locator();
367 582412 : this->clear_stored_ranges();
368 :
369 : // Make sure any new element is given space for any extra integers
370 : // we've requested
371 582412 : e->add_extra_integers(_elem_integer_names.size(),
372 582412 : _elem_integer_default_values);
373 :
374 : // And set mapping type and data on any new element
375 235528 : e->set_mapping_type(this->default_mapping_type());
376 235528 : e->set_mapping_data(this->default_mapping_data());
377 :
378 582412 : return e;
379 : }
380 :
381 582412 : Elem * ReplicatedMesh::insert_elem (std::unique_ptr<Elem> e)
382 : {
383 : // The mesh now takes ownership of the Elem. Eventually the guts of
384 : // insert_elem(Elem*) will get moved to a private helper function, and
385 : // calling insert_elem(Elem*) directly will be deprecated.
386 582412 : return insert_elem(e.release());
387 : }
388 :
389 :
390 :
391 2304179 : void ReplicatedMesh::delete_elem(Elem * e)
392 : {
393 226453 : libmesh_assert(e);
394 :
395 : // Initialize an iterator to eventually point to the element we want to delete
396 226453 : std::vector<Elem *>::iterator pos = _elements.end();
397 :
398 : // In many cases, e->id() gives us a clue as to where e
399 : // is located in the _elements vector. Try that first
400 : // before trying the O(n_elem) search.
401 226453 : libmesh_assert_less (e->id(), _elements.size());
402 :
403 2530568 : if (_elements[e->id()] == e)
404 : {
405 : // We found it!
406 2077790 : pos = _elements.begin();
407 226453 : std::advance(pos, e->id());
408 : }
409 :
410 : else
411 : {
412 : // This search is O(n_elem)
413 0 : pos = std::find (_elements.begin(),
414 : _elements.end(),
415 0 : e);
416 : }
417 :
418 : // Huh? Element not in the vector?
419 226453 : libmesh_assert (pos != _elements.end());
420 :
421 : // Remove the element from the BoundaryInfo object
422 2304179 : this->get_boundary_info().remove(e);
423 :
424 : // delete the element
425 2304179 : --_n_elem;
426 2304179 : delete e;
427 :
428 : // explicitly zero the pointer
429 2304179 : *pos = nullptr;
430 :
431 : // Some of our caches might still be valid, but we should clear the
432 : // ones which definitely are not.
433 2304179 : this->clear_point_locator();
434 2304179 : this->clear_stored_ranges();
435 2304179 : }
436 :
437 :
438 :
439 21420 : void ReplicatedMesh::renumber_elem(const dof_id_type old_id,
440 : const dof_id_type new_id)
441 : {
442 : // This could be a no-op
443 21420 : if (old_id == new_id)
444 0 : return;
445 :
446 : // This doesn't get used in serial yet
447 21420 : Elem * el = _elements[old_id];
448 7140 : libmesh_assert (el);
449 :
450 28560 : if (new_id >= _elements.size())
451 288 : _elements.resize(new_id+1, nullptr);
452 :
453 7140 : el->set_id(new_id);
454 7140 : libmesh_assert (!_elements[new_id]);
455 28560 : _elements[new_id] = el;
456 21420 : _elements[old_id] = nullptr;
457 :
458 : // Should we delete any caches here? Our point locator indexes by
459 : // element pointer and should be fine with an id change. Our stored
460 : // ranges are no longer sorted, which is *probably* fine, but let's
461 : // just be safe.
462 21420 : this->clear_stored_ranges();
463 : }
464 :
465 :
466 :
467 11351347 : Node * ReplicatedMesh::add_point (const Point & p,
468 : const dof_id_type id,
469 : const processor_id_type proc_id)
470 : {
471 1703479 : Node * n = nullptr;
472 :
473 : // If the user requests a valid id, either
474 : // provide the existing node or resize the container
475 : // to fit the new node.
476 11351347 : if (id != DofObject::invalid_id)
477 7451968 : if (id < _nodes.size())
478 14655 : n = _nodes[id];
479 : else
480 6584630 : _nodes.resize(id+1);
481 : else
482 4752062 : _nodes.push_back (static_cast<Node *>(nullptr));
483 :
484 : // if the node already exists, then assign new (x,y,z) values
485 1716033 : if (n)
486 0 : *n = p;
487 : // otherwise build a new node, put it in the right spot, and return
488 : // a valid pointer.
489 : else
490 : {
491 21850003 : n = Node::build(p, (id == DofObject::invalid_id) ?
492 7304033 : cast_int<dof_id_type>(_nodes.size()-1) : id).release();
493 11351347 : n->processor_id() = proc_id;
494 :
495 11351347 : n->add_extra_integers(_node_integer_names.size(),
496 11351347 : _node_integer_default_values);
497 :
498 : #ifdef LIBMESH_ENABLE_UNIQUE_ID
499 11351347 : if (!n->valid_unique_id())
500 11351347 : n->set_unique_id(_next_unique_id++);
501 : else
502 0 : _next_unique_id = std::max(_next_unique_id, n->unique_id()+1);
503 : #endif
504 :
505 11351347 : ++_n_nodes;
506 11351347 : if (id == DofObject::invalid_id)
507 4752062 : _nodes.back() = n;
508 : else
509 7451968 : _nodes[id] = n;
510 : }
511 :
512 : // better not pass back a nullptr.
513 1703479 : libmesh_assert (n);
514 :
515 11351347 : return n;
516 : }
517 :
518 :
519 :
520 939498 : Node * ReplicatedMesh::add_node (Node * n)
521 : {
522 96530 : libmesh_assert(n);
523 :
524 : // If the user requests a valid id, either set the existing
525 : // container entry or resize the container to fit the new node.
526 939498 : if (n->valid_id())
527 : {
528 96472 : const dof_id_type id = n->id();
529 1035639 : if (id < _nodes.size())
530 15076 : libmesh_assert(!_nodes[id]);
531 : else
532 742826 : _nodes.resize(id+1); // default nullptr
533 :
534 1035639 : _nodes[id] = n;
535 : }
536 : else
537 : {
538 116 : n->set_id (cast_int<dof_id_type>(_nodes.size()));
539 331 : _nodes.push_back(n);
540 : }
541 :
542 939498 : ++_n_nodes;
543 :
544 : #ifdef LIBMESH_ENABLE_UNIQUE_ID
545 939498 : if (!n->valid_unique_id())
546 331 : n->set_unique_id(_next_unique_id++);
547 : else
548 1436272 : _next_unique_id = std::max(_next_unique_id, n->unique_id()+1);
549 : #endif
550 :
551 939498 : n->add_extra_integers(_node_integer_names.size(),
552 939498 : _node_integer_default_values);
553 :
554 939498 : return n;
555 : }
556 :
557 939498 : Node * ReplicatedMesh::add_node (std::unique_ptr<Node> n)
558 : {
559 : // The mesh now takes ownership of the Node. Eventually the guts of
560 : // add_node() will get moved to a private helper function, and
561 : // calling add_node() directly will be deprecated.
562 939498 : return add_node(n.release());
563 : }
564 :
565 251747 : void ReplicatedMesh::delete_node(Node * n)
566 : {
567 64141 : libmesh_assert(n);
568 64141 : libmesh_assert_less (n->id(), _nodes.size());
569 :
570 : // Initialize an iterator to eventually point to the element we want
571 : // to delete
572 64141 : std::vector<Node *>::iterator pos;
573 :
574 : // In many cases, e->id() gives us a clue as to where e
575 : // is located in the _elements vector. Try that first
576 : // before trying the O(n_elem) search.
577 315768 : if (_nodes[n->id()] == n)
578 : {
579 187726 : pos = _nodes.begin();
580 64141 : std::advance(pos, n->id());
581 : }
582 : else
583 : {
584 0 : pos = std::find (_nodes.begin(),
585 : _nodes.end(),
586 0 : n);
587 : }
588 :
589 : // Huh? Node not in the vector?
590 64141 : libmesh_assert (pos != _nodes.end());
591 :
592 : // Delete the node from the BoundaryInfo object
593 251747 : this->get_boundary_info().remove(n);
594 128162 : _constraint_rows.erase(n);
595 :
596 : // delete the node
597 251747 : --_n_nodes;
598 439353 : delete n;
599 :
600 : // explicitly zero the pointer
601 251747 : *pos = nullptr;
602 251747 : }
603 :
604 :
605 :
606 70092 : void ReplicatedMesh::renumber_node(const dof_id_type old_id,
607 : const dof_id_type new_id)
608 : {
609 : // This could be a no-op
610 70092 : if (old_id == new_id)
611 0 : return;
612 :
613 : // This doesn't get used in serial yet
614 70092 : Node * nd = _nodes[old_id];
615 23364 : libmesh_assert (nd);
616 :
617 93456 : if (new_id >= _nodes.size())
618 288 : _nodes.resize(new_id+1, nullptr);
619 :
620 23364 : nd->set_id(new_id);
621 23364 : libmesh_assert (!_nodes[new_id]);
622 93456 : _nodes[new_id] = nd;
623 70092 : _nodes[old_id] = nullptr;
624 : }
625 :
626 :
627 :
628 105331 : void ReplicatedMesh::clear ()
629 : {
630 : // Call parent clear function
631 105331 : MeshBase::clear();
632 :
633 : // Clear our elements and nodes
634 : // There is no need to remove them from
635 : // the BoundaryInfo data structure since we
636 : // already cleared it.
637 105331 : this->ReplicatedMesh::clear_elems();
638 :
639 10580624 : for (auto & node : _nodes)
640 19345798 : delete node;
641 :
642 105331 : _n_nodes = 0;
643 19359 : _nodes.clear();
644 105331 : }
645 :
646 :
647 :
648 106001 : void ReplicatedMesh::clear_elems ()
649 : {
650 14474075 : for (auto & elem : _elements)
651 14368074 : delete elem;
652 :
653 106001 : _n_elem = 0;
654 19553 : _elements.clear();
655 106001 : }
656 :
657 :
658 :
659 178988 : void ReplicatedMesh::update_parallel_id_counts()
660 : {
661 : #ifdef LIBMESH_ENABLE_UNIQUE_ID
662 178988 : _next_unique_id = this->parallel_max_unique_id();
663 : #endif
664 :
665 178988 : this->_preparation.has_synched_id_counts = true;
666 178988 : }
667 :
668 :
669 :
670 : #ifdef LIBMESH_ENABLE_UNIQUE_ID
671 195500 : unique_id_type ReplicatedMesh::parallel_max_unique_id() const
672 : {
673 : // This function must be run on all processors at once
674 30190 : parallel_object_only();
675 :
676 195500 : unique_id_type max_local = _next_unique_id;
677 195500 : this->comm().max(max_local);
678 195500 : return max_local;
679 : }
680 :
681 :
682 :
683 20204 : void ReplicatedMesh::set_next_unique_id(unique_id_type id)
684 : {
685 20204 : _next_unique_id = id;
686 20204 : }
687 : #endif
688 :
689 :
690 :
691 143953 : void ReplicatedMesh::renumber_nodes_and_elements ()
692 : {
693 48648 : LOG_SCOPE("renumber_nodes_and_elem()", "Mesh");
694 :
695 : // node and element id counters
696 24324 : dof_id_type next_free_elem = 0;
697 24324 : dof_id_type next_free_node = 0;
698 :
699 : // Will hold the set of nodes that are currently connected to elements
700 48648 : std::unordered_set<Node *> connected_nodes;
701 :
702 : // Loop over the elements. Note that there may
703 : // be nullptrs in the _elements vector from the coarsening
704 : // process. Pack the elements in to a contiguous array
705 : // and then trim any excess.
706 : {
707 24324 : std::vector<Elem *>::iterator in = _elements.begin();
708 24324 : std::vector<Elem *>::iterator out_iter = _elements.begin();
709 24324 : const std::vector<Elem *>::iterator end = _elements.end();
710 :
711 40057552 : for (; in != end; ++in)
712 39913599 : if (*in != nullptr)
713 : {
714 3005004 : Elem * el = *in;
715 :
716 38454477 : *out_iter = *in;
717 3005004 : ++out_iter;
718 :
719 : // Increment the element counter
720 38454477 : el->set_id (next_free_elem++);
721 :
722 38454477 : if (_skip_renumber_nodes_and_elements)
723 : {
724 : // Add this elements nodes to the connected list
725 2145255 : for (auto & n : el->node_ref_range())
726 1934776 : connected_nodes.insert(&n);
727 : }
728 : else // We DO want node renumbering
729 : {
730 : // Loop over this element's nodes. Number them,
731 : // if they have not been numbered already. Also,
732 : // position them in the _nodes vector so that they
733 : // are packed contiguously from the beginning.
734 235123734 : for (auto & n : el->node_ref_range())
735 196879736 : if (n.id() == next_free_node) // don't need to process
736 37207911 : next_free_node++; // [(src == dst) below]
737 :
738 159671825 : else if (n.id() > next_free_node) // need to process
739 : {
740 : // The source and destination indices
741 : // for this node
742 1035936 : const dof_id_type src_idx = n.id();
743 8573011 : const dof_id_type dst_idx = next_free_node++;
744 :
745 : // ensure we want to swap a valid nodes
746 1035936 : libmesh_assert(_nodes[src_idx]);
747 :
748 : // Swap the source and destination nodes
749 2557114 : std::swap(_nodes[src_idx],
750 2557114 : _nodes[dst_idx] );
751 :
752 : // Set proper indices where that makes sense
753 8573011 : if (_nodes[src_idx] != nullptr)
754 1021066 : _nodes[src_idx]->set_id (src_idx);
755 1035936 : _nodes[dst_idx]->set_id (dst_idx);
756 : }
757 : }
758 : }
759 :
760 : // Erase any additional storage. These elements have been
761 : // copied into nullptr voids by the procedure above, and are
762 : // thus repeated and unnecessary.
763 143953 : _elements.erase (out_iter, end);
764 : }
765 :
766 :
767 143953 : if (_skip_renumber_nodes_and_elements)
768 : {
769 : // Loop over the nodes. Note that there may
770 : // be nullptrs in the _nodes vector from the coarsening
771 : // process. Pack the nodes in to a contiguous array
772 : // and then trim any excess.
773 :
774 60 : std::vector<Node *>::iterator in = _nodes.begin();
775 60 : std::vector<Node *>::iterator out_iter = _nodes.begin();
776 60 : const std::vector<Node *>::iterator end = _nodes.end();
777 :
778 925936 : for (; in != end; ++in)
779 925541 : if (*in != nullptr)
780 : {
781 : // This is a reference so that if we change the pointer it will change in the vector
782 209684 : Node * & nd = *in;
783 :
784 : // If this node is still connected to an elem, put it in the list
785 419368 : if (connected_nodes.count(nd))
786 : {
787 673877 : *out_iter = nd;
788 137780 : ++out_iter;
789 :
790 : // Increment the node counter
791 673877 : nd->set_id (next_free_node++);
792 : }
793 : else // This node is orphaned, delete it!
794 : {
795 251664 : this->get_boundary_info().remove (nd);
796 143808 : _constraint_rows.erase(nd);
797 :
798 : // delete the node
799 251664 : --_n_nodes;
800 431424 : delete nd;
801 251664 : nd = nullptr;
802 : }
803 : }
804 :
805 : // Erase any additional storage. Whatever was
806 395 : _nodes.erase (out_iter, end);
807 : }
808 : else // We really DO want node renumbering
809 : {
810 : // Any nodes in the vector >= _nodes[next_free_node]
811 : // are not connected to any elements and may be deleted
812 : // if desired.
813 :
814 : // Now, delete the unused nodes
815 : {
816 119294 : std::vector<Node *>::iterator nd = _nodes.begin();
817 24264 : const std::vector<Node *>::iterator end = _nodes.end();
818 :
819 24264 : std::advance (nd, next_free_node);
820 :
821 1728500 : for (auto & node : as_range(nd, end))
822 : {
823 : // Mesh modification code might have already deleted some
824 : // nodes
825 1584942 : if (node == nullptr)
826 169103 : continue;
827 :
828 : // remove any boundary information associated with
829 : // this node
830 1350519 : this->get_boundary_info().remove (node);
831 195108 : _constraint_rows.erase(node);
832 :
833 : // delete the node
834 1350519 : --_n_nodes;
835 2603484 : delete node;
836 1350519 : node = nullptr;
837 : }
838 :
839 143558 : _nodes.erase (nd, end);
840 : }
841 : }
842 :
843 143953 : this->_preparation.has_removed_orphaned_nodes = true;
844 :
845 24324 : libmesh_assert_equal_to (next_free_elem, _elements.size());
846 24324 : libmesh_assert_equal_to (next_free_node, _nodes.size());
847 :
848 143953 : this->update_parallel_id_counts();
849 143953 : }
850 :
851 :
852 :
853 2220 : void ReplicatedMesh::fix_broken_node_and_element_numbering ()
854 : {
855 : // Nodes first
856 3180410 : for (auto n : index_range(_nodes))
857 3178190 : if (this->_nodes[n] != nullptr)
858 3178190 : this->_nodes[n]->set_id() = cast_int<dof_id_type>(n);
859 :
860 : // Elements next
861 3664758 : for (auto e : index_range(_elements))
862 3662538 : if (this->_elements[e] != nullptr)
863 3662538 : this->_elements[e]->set_id() = cast_int<dof_id_type>(e);
864 2220 : }
865 :
866 :
867 98140 : dof_id_type ReplicatedMesh::n_active_elem () const
868 : {
869 179966 : return static_cast<dof_id_type>(std::distance (this->active_elements_begin(),
870 278106 : this->active_elements_end()));
871 : }
872 :
873 : std::vector<dof_id_type>
874 142 : ReplicatedMesh::get_disconnected_subdomains(std::vector<subdomain_id_type> * subdomain_ids) const
875 : {
876 : // find number of disconnected subdomains
877 4 : std::vector<dof_id_type> representative_elem_ids;
878 :
879 : // use subdomain_ids as markers for all elements to indicate if the elements
880 : // have been visited. Note: here subdomain ID is unrelated with element
881 : // subdomain_id().
882 8 : std::vector<subdomain_id_type> subdomains;
883 142 : if (!subdomain_ids)
884 0 : subdomain_ids = &subdomains;
885 4 : subdomain_ids->clear();
886 142 : subdomain_ids->resize(max_elem_id() + 1, Elem::invalid_subdomain_id);
887 :
888 : // counter of disconnected subdomains
889 4 : subdomain_id_type subdomain_counter = 0;
890 :
891 : // a stack for visiting elements, make its capacity sufficiently large to avoid
892 : // memory allocation and deallocation when the vector size changes
893 8 : std::vector<const Elem *> list;
894 142 : list.reserve(n_elem());
895 :
896 : // counter of visited elements
897 4 : dof_id_type visited = 0;
898 142 : dof_id_type n_active = n_active_elem();
899 4 : do
900 : {
901 1672 : for (const auto & elem : active_element_ptr_range())
902 876 : if ((*subdomain_ids)[elem->id()] == Elem::invalid_subdomain_id)
903 : {
904 284 : list.push_back(elem);
905 284 : (*subdomain_ids)[elem->id()] = subdomain_counter;
906 284 : break;
907 268 : }
908 : // we should be able to find a seed here
909 8 : libmesh_assert(list.size() > 0);
910 :
911 284 : dof_id_type min_id = std::numeric_limits<dof_id_type>::max();
912 1988 : while (list.size() > 0)
913 : {
914 : // pop up an element
915 1704 : const Elem * elem = list.back(); list.pop_back(); ++visited;
916 :
917 3084 : min_id = std::min(elem->id(), min_id);
918 :
919 8520 : for (auto s : elem->side_index_range())
920 : {
921 6816 : const Elem * neighbor = elem->neighbor_ptr(s);
922 6816 : if (neighbor != nullptr && (*subdomain_ids)[neighbor->id()] == Elem::invalid_subdomain_id)
923 : {
924 : // neighbor must be active
925 40 : libmesh_assert(neighbor->active());
926 1420 : list.push_back(neighbor);
927 1460 : (*subdomain_ids)[neighbor->id()] = subdomain_counter;
928 : }
929 : }
930 : }
931 :
932 284 : representative_elem_ids.push_back(min_id);
933 284 : subdomain_counter++;
934 : }
935 284 : while (visited != n_active);
936 :
937 146 : return representative_elem_ids;
938 : }
939 :
940 : std::unordered_map<dof_id_type, std::vector<std::vector<Point>>>
941 142 : ReplicatedMesh::get_boundary_points() const
942 : {
943 142 : libmesh_error_msg_if(mesh_dimension() != 2,
944 : "Error: get_boundary_points only works for 2D now");
945 :
946 : // find number of disconnected subdomains
947 : // subdomains will hold the IDs of disconnected subdomains for all elements.
948 8 : std::vector<subdomain_id_type> subdomains;
949 146 : std::vector<dof_id_type> elem_ids = get_disconnected_subdomains(&subdomains);
950 :
951 4 : std::unordered_map<dof_id_type, std::vector<std::vector<Point>>> boundary_points;
952 :
953 : // get all boundary sides that are to be erased later during visiting
954 : // use a comparison functor to avoid run-time randomness due to pointers
955 : struct boundary_side_compare
956 : {
957 1584 : bool operator()(const std::pair<const Elem *, unsigned int> & lhs,
958 : const std::pair<const Elem *, unsigned int> & rhs) const
959 : {
960 42340 : if (lhs.first->id() < rhs.first->id())
961 328 : return true;
962 29298 : else if (lhs.first->id() == rhs.first->id())
963 : {
964 14668 : if (lhs.second < rhs.second)
965 112 : return true;
966 : }
967 1144 : return false;
968 : }
969 : };
970 8 : std::set<std::pair<const Elem *, unsigned int>, boundary_side_compare> boundary_elements;
971 3592 : for (const auto & elem : active_element_ptr_range())
972 8568 : for (auto s : elem->side_index_range())
973 7008 : if (elem->neighbor_ptr(s) == nullptr)
974 3542 : boundary_elements.insert(std::pair<const Elem *, unsigned int>(elem, s));
975 :
976 568 : while (!boundary_elements.empty())
977 : {
978 : // get the first entry as the seed
979 426 : const Elem * eseed = boundary_elements.begin()->first;
980 426 : unsigned int sseed = boundary_elements.begin()->second;
981 :
982 : // get the subdomain ID that these boundary sides attached to
983 438 : subdomain_id_type subdomain_id = subdomains[eseed->id()];
984 :
985 : // start visiting the mesh to find all boundary nodes with the seed
986 24 : std::vector<Point> bpoints;
987 426 : const Elem * elem = eseed;
988 12 : unsigned int s = sseed;
989 438 : std::vector<unsigned int> local_side_nodes = elem->nodes_on_side(s);
990 : while (true)
991 : {
992 96 : std::pair<const Elem *, unsigned int> side(elem, s);
993 96 : libmesh_assert(boundary_elements.count(side));
994 96 : boundary_elements.erase(side);
995 :
996 : // push all nodes on the side except the node on the other end of the side (index 1)
997 11928 : for (auto i : index_range(local_side_nodes))
998 8520 : if (i != 1)
999 5400 : bpoints.push_back(*static_cast<const Point *>(elem->node_ptr(local_side_nodes[i])));
1000 :
1001 : // use the last node to find next element and side
1002 3408 : const Node * node = elem->node_ptr(local_side_nodes[1]);
1003 96 : std::set<const Elem *> neighbors;
1004 3408 : elem->find_point_neighbors(*node, neighbors);
1005 :
1006 : // if only one neighbor is found (itself), this node is a cornor node on boundary
1007 3408 : if (neighbors.size() != 1)
1008 64 : neighbors.erase(elem);
1009 :
1010 : // find the connecting side
1011 96 : bool found = false;
1012 3696 : for (const auto & neighbor : neighbors)
1013 : {
1014 10064 : for (auto ss : neighbor->side_index_range())
1015 9944 : if (neighbor->neighbor_ptr(ss) == nullptr && !(elem == neighbor && s == ss))
1016 : {
1017 4978 : local_side_nodes = neighbor->nodes_on_side(ss);
1018 : // we expect the starting point of the side to be the same as the end of the previous side
1019 5118 : if (neighbor->node_ptr(local_side_nodes[0]) == node)
1020 : {
1021 3408 : elem = neighbor;
1022 96 : s = ss;
1023 96 : found = true;
1024 96 : break;
1025 : }
1026 1614 : else if (neighbor->node_ptr(local_side_nodes[1]) == node)
1027 : {
1028 0 : elem = neighbor;
1029 0 : s = ss;
1030 0 : found = true;
1031 : // flip nodes in local_side_nodes because the side is in an opposite direction
1032 0 : auto temp(local_side_nodes);
1033 0 : local_side_nodes[0] = temp[1];
1034 0 : local_side_nodes[1] = temp[0];
1035 0 : for (unsigned int i = 2; i < temp.size(); ++i)
1036 0 : local_side_nodes[temp.size() + 1 - i] = temp[i];
1037 0 : break;
1038 : }
1039 : }
1040 103 : if (found)
1041 96 : break;
1042 : }
1043 :
1044 3408 : libmesh_error_msg_if(!found, "ERROR: mesh topology error on visiting boundary sides");
1045 :
1046 : // exit if we reach the starting point
1047 3408 : if (elem == eseed && s == sseed)
1048 12 : break;
1049 84 : }
1050 426 : boundary_points[elem_ids[subdomain_id]].push_back(bpoints);
1051 : }
1052 :
1053 146 : return boundary_points;
1054 : }
1055 :
1056 : } // namespace libMesh
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