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ref_node.c
3312 lines (2722 loc) · 104 KB
/
ref_node.c
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/* Copyright 2014 United States Government as represented by the
* Administrator of the National Aeronautics and Space
* Administration. No copyright is claimed in the United States under
* Title 17, U.S. Code. All Other Rights Reserved.
*
* The refine platform is licensed under the Apache License, Version
* 2.0 (the "License"); you may not use this file except in compliance
* with the License. You may obtain a copy of the License at
* http://www.apache.org/licenses/LICENSE-2.0.
*
* Unless required by applicable law or agreed to in writing, software
* distributed under the License is distributed on an "AS IS" BASIS,
* WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or
* implied. See the License for the specific language governing
* permissions and limitations under the License.
*/
#include "ref_node.h"
#include <math.h>
#include <stdio.h>
#include <stdlib.h>
#include "ref_malloc.h"
#include "ref_math.h"
#include "ref_matrix.h"
#include "ref_mpi.h"
#include "ref_sort.h"
/* REF_EMPTY is terminator, next available is shifted by 2*/
#define next2index(next) (-(next)-2)
#define index2next(index) (-2 - (index))
REF_STATUS ref_node_create(REF_NODE *ref_node_ptr, REF_MPI ref_mpi) {
REF_INT max, node;
REF_NODE ref_node;
ref_malloc(*ref_node_ptr, 1, REF_NODE_STRUCT);
ref_node = *ref_node_ptr;
max = 20;
ref_node_n(ref_node) = 0;
ref_node_max(ref_node) = max;
ref_malloc(ref_node->global, max, REF_GLOB);
for (node = 0; node < ref_node_max(ref_node); node++)
ref_node->global[node] = index2next(node + 1);
ref_node->global[(ref_node->max) - 1] = REF_EMPTY;
ref_node->blank = index2next(0);
ref_malloc(ref_node->sorted_global, max, REF_GLOB);
ref_malloc(ref_node->sorted_local, max, REF_INT);
ref_malloc(ref_node->part, max, REF_INT);
ref_malloc(ref_node->age, max, REF_INT);
ref_malloc(ref_node->real, REF_NODE_REAL_PER * max, REF_DBL);
ref_node_naux(ref_node) = 0;
ref_node->aux = NULL;
ref_node_mpi(ref_node) = ref_mpi; /* reference only */
ref_node_n_unused(ref_node) = 0;
ref_node_max_unused(ref_node) = 10;
ref_malloc(ref_node->unused_global, ref_node_max_unused(ref_node), REF_GLOB);
ref_node->old_n_global = REF_EMPTY;
ref_node->new_n_global = REF_EMPTY;
ref_node->min_volume = 1.0e-15;
ref_node->min_uv_area = 0.0;
/* acos(1.0-1.0e-8) ~ 0.0001 radian, 0.01 deg */
ref_node->same_normal_tol = 1.0 - 1.0e-8;
ref_node->tet_quality = REF_NODE_JAC_QUALITY;
ref_node->tri_quality = REF_NODE_JAC_QUALITY;
ref_node->ratio_method = REF_NODE_RATIO_GEOMETRIC;
return REF_SUCCESS;
}
REF_STATUS ref_node_free(REF_NODE ref_node) {
if (NULL == (void *)ref_node) return REF_NULL;
ref_free(ref_node->unused_global);
/* ref_mpi reference only */
ref_free(ref_node->aux);
ref_free(ref_node->real);
ref_free(ref_node->age);
ref_free(ref_node->part);
ref_free(ref_node->sorted_local);
ref_free(ref_node->sorted_global);
ref_free(ref_node->global);
ref_free(ref_node);
return REF_SUCCESS;
}
REF_STATUS ref_node_deep_copy(REF_NODE *ref_node_ptr, REF_NODE original) {
REF_INT max, node, i;
REF_NODE ref_node;
ref_malloc(*ref_node_ptr, 1, REF_NODE_STRUCT);
ref_node = *ref_node_ptr;
max = ref_node_max(original);
ref_node_n(ref_node) = ref_node_n(original);
ref_node_max(ref_node) = max;
ref_malloc(ref_node->global, max, REF_GLOB);
ref_node->blank = original->blank;
for (node = 0; node < max; node++)
ref_node->global[node] = original->global[node];
ref_malloc(ref_node->sorted_global, max, REF_GLOB);
ref_malloc(ref_node->sorted_local, max, REF_INT);
for (node = 0; node < max; node++)
ref_node->sorted_global[node] = original->sorted_global[node];
for (node = 0; node < max; node++)
ref_node->sorted_local[node] = original->sorted_local[node];
ref_malloc(ref_node->part, max, REF_INT);
for (node = 0; node < max; node++)
ref_node_part(ref_node, node) = ref_node_part(original, node);
ref_malloc(ref_node->age, max, REF_INT);
for (node = 0; node < max; node++)
ref_node_age(ref_node, node) = ref_node_age(original, node);
ref_malloc(ref_node->real, REF_NODE_REAL_PER * max, REF_DBL);
for (node = 0; node < max; node++)
for (i = 0; i < REF_NODE_REAL_PER; i++)
ref_node_real(ref_node, i, node) = ref_node_real(original, i, node);
ref_node_naux(ref_node) = ref_node_naux(original);
ref_node->aux = NULL;
if (ref_node_naux(original) > 0) {
ref_realloc(ref_node->aux, ref_node_naux(ref_node) * ref_node_max(ref_node),
REF_DBL);
for (node = 0; node < max; node++)
for (i = 0; i < ref_node_naux(ref_node); i++)
ref_node_aux(ref_node, i, node) = ref_node_aux(original, i, node);
}
ref_node_mpi(ref_node) = ref_node_mpi(original); /* reference only */
ref_node->n_unused = original->n_unused;
ref_node->max_unused = original->max_unused;
ref_malloc(ref_node->unused_global, ref_node_max_unused(ref_node), REF_GLOB);
for (i = 0; i < ref_node_n_unused(ref_node); i++)
ref_node->unused_global[i] = original->unused_global[i];
ref_node->old_n_global = original->old_n_global;
ref_node->new_n_global = original->new_n_global;
ref_node->min_volume = original->min_volume;
ref_node->min_uv_area = original->min_uv_area;
ref_node->same_normal_tol = original->same_normal_tol;
ref_node->tet_quality = original->tet_quality;
ref_node->tri_quality = original->tri_quality;
ref_node->ratio_method = original->ratio_method;
return REF_SUCCESS;
}
REF_STATUS ref_node_pack(REF_NODE ref_node, REF_INT *o2n, REF_INT *n2o) {
REF_INT i, node;
REF_NODE copy;
RSS(ref_node_deep_copy(©, ref_node), "make a copy first");
for (node = 0; node < ref_node_n(ref_node); node++)
ref_node->global[node] = copy->global[n2o[node]];
if (ref_node_n(ref_node) < ref_node_max(ref_node)) {
for (node = ref_node_n(ref_node); node < ref_node_max(ref_node); node++)
ref_node->global[node] = index2next(node + 1);
ref_node->global[(ref_node->max) - 1] = REF_EMPTY;
ref_node->blank = index2next(ref_node_n(ref_node));
} else {
ref_node->blank = REF_EMPTY;
}
for (node = 0; node < ref_node_n(ref_node); node++)
ref_node->sorted_local[node] = o2n[copy->sorted_local[node]];
for (node = 0; node < ref_node_n(ref_node); node++)
ref_node->part[node] = copy->part[n2o[node]];
for (node = 0; node < ref_node_n(ref_node); node++)
ref_node->age[node] = copy->age[n2o[node]];
for (node = 0; node < ref_node_n(ref_node); node++)
for (i = 0; i < REF_NODE_REAL_PER; i++)
ref_node_real(ref_node, i, node) = ref_node_real(copy, i, n2o[node]);
if (ref_node_naux(ref_node) > 0) {
for (node = 0; node < ref_node_n(ref_node); node++)
for (i = 0; i < ref_node_naux(ref_node); i++)
ref_node_aux(ref_node, i, node) = ref_node_aux(copy, i, n2o[node]);
}
RSS(ref_node_free(copy), "release copy");
return REF_SUCCESS;
}
REF_STATUS ref_node_inspect(REF_NODE ref_node) {
REF_INT node;
printf("ref_node = %p\n", (void *)ref_node);
printf(" n = %d\n", ref_node_n(ref_node));
printf(" max = %d\n", ref_node_max(ref_node));
printf(" blank = %d\n", ref_node->blank);
for (node = 0; node < ref_node_max(ref_node); node++)
if (0 <= ref_node->global[node])
printf(" global[%d] = " REF_GLOB_FMT "; part[%d] = %3d;\n", node,
ref_node->global[node], node, ref_node->part[node]);
for (node = 0; node < ref_node_n(ref_node); node++)
printf(" sorted_global[%d] = " REF_GLOB_FMT " sorted_local[%d] = %d\n",
node, ref_node->sorted_global[node], node,
ref_node->sorted_local[node]);
printf(" old_n_global = " REF_GLOB_FMT "\n", ref_node->old_n_global);
printf(" new_n_global = " REF_GLOB_FMT "\n", ref_node->new_n_global);
return REF_SUCCESS;
}
REF_STATUS ref_node_location(REF_NODE ref_node, REF_INT node) {
printf("ref_node %d", node);
if (ref_node_valid(ref_node, node)) {
printf(" part %d mine %d glob " REF_GLOB_FMT " (%.15e,%.15e,%.15e)\n",
ref_node_part(ref_node, node), ref_mpi_rank(ref_node_mpi(ref_node)),
ref_node_global(ref_node, node), ref_node_xyz(ref_node, 0, node),
ref_node_xyz(ref_node, 1, node), ref_node_xyz(ref_node, 2, node));
} else {
printf(" invalid\n");
}
return REF_SUCCESS;
}
REF_STATUS ref_node_tattle_global(REF_NODE ref_node, REF_INT global) {
REF_INT local_from_sorted;
REF_INT local_from_exhaustive;
REF_BOOL found_from_sorted;
REF_BOOL found_from_exhaustive;
REF_INT node;
REF_STATUS ref_status;
ref_status = ref_node_local(ref_node, global, &local_from_sorted);
if (REF_NOT_FOUND == ref_status) {
found_from_sorted = REF_FALSE;
} else {
RSS(ref_status, "local search");
found_from_sorted = REF_TRUE;
}
found_from_exhaustive = REF_FALSE;
local_from_exhaustive = REF_EMPTY;
each_ref_node_valid_node(ref_node, node) {
if (global == ref_node_global(ref_node, node)) {
if (found_from_exhaustive) RSS(REF_FAILURE, "twice");
local_from_exhaustive = node;
found_from_exhaustive = REF_TRUE;
}
}
printf("%d: global %d: search%d %d exhaust%d %d\n",
ref_mpi_rank(ref_node_mpi(ref_node)), global, found_from_sorted,
local_from_sorted, found_from_exhaustive, local_from_exhaustive);
return REF_SUCCESS;
}
static REF_STATUS ref_node_add_core(REF_NODE ref_node, REF_GLOB global,
REF_INT *node) {
REF_INT orig, chunk, extra;
if (global < 0) RSS(REF_INVALID, "invalid global node");
if (REF_EMPTY == ref_node->blank) {
orig = ref_node_max(ref_node);
chunk = MAX(5000, (REF_INT)(1.5 * (REF_DBL)orig));
ref_node->max = orig + chunk;
ref_realloc(ref_node->global, ref_node_max(ref_node), REF_GLOB);
for (extra = orig; extra < ref_node_max(ref_node); extra++)
ref_node->global[extra] = index2next(extra + 1);
ref_node->global[ref_node_max(ref_node) - 1] = REF_EMPTY;
ref_node->blank = index2next(orig);
ref_realloc(ref_node->sorted_global, ref_node_max(ref_node), REF_GLOB);
ref_realloc(ref_node->sorted_local, ref_node_max(ref_node), REF_INT);
ref_realloc(ref_node->part, ref_node_max(ref_node), REF_INT);
ref_realloc(ref_node->age, ref_node_max(ref_node), REF_INT);
ref_realloc(ref_node->real,
((unsigned long)REF_NODE_REAL_PER *
(unsigned long)ref_node_max(ref_node)),
REF_DBL);
if (ref_node_naux(ref_node) > 0)
ref_realloc(ref_node->aux,
((unsigned long)ref_node_naux(ref_node) *
(unsigned long)ref_node_max(ref_node)),
REF_DBL);
}
*node = next2index(ref_node->blank);
ref_node->blank = (REF_INT)ref_node->global[*node];
ref_node->global[*node] = global;
ref_node->part[*node] =
ref_mpi_rank(ref_node_mpi(ref_node)); /*local default*/
ref_node->age[*node] = 0; /* default new born */
RSS(ref_node_metric_form(ref_node, *node, 1, 0, 0, 1, 0, 1), "set ident");
(ref_node->n)++;
return REF_SUCCESS;
}
REF_STATUS ref_node_add(REF_NODE ref_node, REF_GLOB global, REF_INT *node) {
REF_INT location, insert_point;
REF_STATUS status;
if (global < 0) RSS(REF_INVALID, "invalid global node");
status = ref_node_local(ref_node, global, node);
if (REF_SUCCESS == status) return REF_SUCCESS;
RXS(status, REF_NOT_FOUND, "ref_node_local unexpected status");
RSS(ref_node_add_core(ref_node, global, node), "core");
/* general case of non-ascending global node, requires:
search and shift (but looks to see if bigger than last early) */
insert_point = 0;
for (location = ref_node_n(ref_node) - 2; location >= 0; location--) {
if (ref_node->sorted_global[location] < global) {
insert_point = location + 1;
break;
}
}
/* shift down to clear insert_point */
for (location = ref_node_n(ref_node) - 1; location > insert_point; location--)
ref_node->sorted_global[location] = ref_node->sorted_global[location - 1];
for (location = ref_node_n(ref_node) - 1; location > insert_point; location--)
ref_node->sorted_local[location] = ref_node->sorted_local[location - 1];
/* insert in empty location */
ref_node->sorted_global[insert_point] = global;
ref_node->sorted_local[insert_point] = *node;
return REF_SUCCESS;
}
REF_STATUS ref_node_add_many(REF_NODE ref_node, REF_INT n,
REF_GLOB *global_orig) {
REF_STATUS status;
REF_INT i, j, local, nadd;
REF_GLOB *global;
REF_INT *sorted;
/* copy, removing existing nodes from list */
ref_malloc(global, n, REF_GLOB);
nadd = 0;
for (i = 0; i < n; i++) {
status = ref_node_local(ref_node, global_orig[i], &local);
if (REF_NOT_FOUND == status) {
global[nadd] = global_orig[i];
nadd++;
}
}
/* remove duplicates from list so core add can be used with existing check */
ref_malloc(sorted, nadd, REF_INT);
RSS(ref_sort_heap_glob(nadd, global, sorted), "heap");
j = 0;
for (i = 1; i < nadd; i++) {
if (global[sorted[i]] != global[sorted[j]]) {
j = i;
continue;
}
global[sorted[i]] = REF_EMPTY;
}
/* add remaining via core */
for (i = 0; i < nadd; i++)
if (REF_EMPTY != global[i]) {
RSS(ref_node_add_core(ref_node, global[i], &local), "add core");
}
RSS(ref_node_rebuild_sorted_global(ref_node), "rebuild globals");
ref_free(sorted);
ref_free(global);
return REF_SUCCESS;
}
REF_STATUS ref_node_remove(REF_NODE ref_node, REF_INT node) {
REF_INT location, sorted_node;
if (!ref_node_valid(ref_node, node)) return REF_INVALID;
RSS(ref_sort_search_glob(ref_node_n(ref_node), ref_node->sorted_global,
ref_node->global[node], &location),
"find global in sort list");
for (sorted_node = location; sorted_node < ref_node_n(ref_node) - 1;
sorted_node++)
ref_node->sorted_global[sorted_node] =
ref_node->sorted_global[sorted_node + 1];
for (sorted_node = location; sorted_node < ref_node_n(ref_node) - 1;
sorted_node++)
ref_node->sorted_local[sorted_node] =
ref_node->sorted_local[sorted_node + 1];
RSS(ref_node_push_unused(ref_node, ref_node->global[node]),
"store unused global");
ref_node->global[node] = ref_node->blank;
ref_node->blank = index2next(node);
(ref_node->n)--;
return REF_SUCCESS;
}
REF_STATUS ref_node_remove_invalidates_sorted(REF_NODE ref_node, REF_INT node) {
if (!ref_node_valid(ref_node, node)) return REF_INVALID;
RSS(ref_node_push_unused(ref_node, ref_node->global[node]),
"store unused global");
ref_node->global[node] = ref_node->blank;
ref_node->blank = index2next(node);
(ref_node->n)--;
return REF_SUCCESS;
}
REF_STATUS ref_node_remove_without_global(REF_NODE ref_node, REF_INT node) {
REF_INT location, sorted_node;
if (!ref_node_valid(ref_node, node)) return REF_INVALID;
RSS(ref_sort_search_glob(ref_node_n(ref_node), ref_node->sorted_global,
ref_node->global[node], &location),
"find global in sort list");
for (sorted_node = location; sorted_node < ref_node_n(ref_node) - 1;
sorted_node++)
ref_node->sorted_global[sorted_node] =
ref_node->sorted_global[sorted_node + 1];
for (sorted_node = location; sorted_node < ref_node_n(ref_node) - 1;
sorted_node++)
ref_node->sorted_local[sorted_node] =
ref_node->sorted_local[sorted_node + 1];
ref_node->global[node] = ref_node->blank;
ref_node->blank = index2next(node);
(ref_node->n)--;
return REF_SUCCESS;
}
REF_STATUS ref_node_remove_without_global_invalidates_sorted(REF_NODE ref_node,
REF_INT node) {
if (!ref_node_valid(ref_node, node)) return REF_INVALID;
ref_node->global[node] = ref_node->blank;
ref_node->blank = index2next(node);
(ref_node->n)--;
return REF_SUCCESS;
}
REF_STATUS ref_node_rebuild_sorted_global(REF_NODE ref_node) {
REF_INT node, nnode, *pack;
ref_malloc(pack, ref_node_n(ref_node), REF_INT);
nnode = 0;
each_ref_node_valid_node(ref_node, node) {
ref_node->sorted_global[nnode] = ref_node->global[node];
pack[nnode] = node;
nnode++;
}
RSS(ref_sort_heap_glob(ref_node_n(ref_node), ref_node->sorted_global,
ref_node->sorted_local),
"heap");
for (node = 0; node < ref_node_n(ref_node); node++) {
ref_node->sorted_local[node] = pack[ref_node->sorted_local[node]];
ref_node->sorted_global[node] =
ref_node->global[ref_node->sorted_local[node]];
}
ref_free(pack);
return REF_SUCCESS;
}
REF_STATUS ref_node_initialize_n_global(REF_NODE ref_node, REF_GLOB n_global) {
ref_node->old_n_global = n_global;
ref_node->new_n_global = n_global;
return REF_SUCCESS;
}
REF_STATUS ref_node_next_global(REF_NODE ref_node, REF_GLOB *global) {
if (0 < ref_node_n_unused(ref_node)) {
RSS(ref_node_pop_unused(ref_node, global),
"grab an unused global from list");
} else {
if (REF_EMPTY == ref_node->new_n_global)
RSS(ref_node_initialize_n_global(ref_node, ref_node_n(ref_node)),
"init with n");
(*global) = ref_node->new_n_global;
(ref_node->new_n_global)++;
}
return REF_SUCCESS;
}
REF_STATUS ref_node_push_unused(REF_NODE ref_node, REF_GLOB unused_global) {
if (ref_node_max_unused(ref_node) == ref_node_n_unused(ref_node)) {
ref_node_max_unused(ref_node) += 1000;
ref_realloc(ref_node->unused_global, ref_node_max_unused(ref_node),
REF_GLOB);
}
ref_node->unused_global[ref_node_n_unused(ref_node)] = unused_global;
ref_node_n_unused(ref_node)++;
return REF_SUCCESS;
}
REF_STATUS ref_node_pop_unused(REF_NODE ref_node, REF_GLOB *new_global) {
if (0 == ref_node_n_unused(ref_node)) {
*new_global = REF_EMPTY;
return REF_FAILURE;
}
ref_node_n_unused(ref_node)--;
*new_global = ref_node->unused_global[ref_node_n_unused(ref_node)];
return REF_SUCCESS;
}
REF_STATUS ref_node_shift_unused(REF_NODE ref_node, REF_GLOB equal_and_above,
REF_GLOB shift) {
REF_INT i;
for (i = 0; i < ref_node_n_unused(ref_node); i++) {
if (ref_node->unused_global[i] >= equal_and_above) {
ref_node->unused_global[i] += shift;
}
}
return REF_SUCCESS;
}
REF_STATUS ref_node_eliminate_unused_offset(REF_INT nglobal,
REF_GLOB *sorted_globals,
REF_INT nunused,
REF_GLOB *sorted_unused) {
REF_INT offset;
REF_INT i;
offset = 0;
for (i = 0; i < nglobal; i++) {
while ((offset < nunused) && (sorted_unused[offset] < sorted_globals[i])) {
offset++;
}
/* assert there are no unused in global list */
sorted_globals[i] -= (REF_GLOB)offset;
}
return REF_SUCCESS;
}
REF_STATUS ref_node_eliminate_active_parts(REF_INT n, REF_INT *counts,
REF_INT chunk, REF_INT active0,
REF_INT *active1, REF_INT *nactive) {
(*nactive) = counts[active0];
(*active1) = active0 + 1;
while ((*active1) < n && ((*nactive) + counts[(*active1)]) <= chunk) {
(*nactive) += counts[(*active1)];
(*active1)++;
}
return REF_SUCCESS;
}
REF_STATUS ref_node_eliminate_unused_globals(REF_NODE ref_node) {
REF_MPI ref_mpi = ref_node_mpi(ref_node);
REF_INT *counts, *active_counts;
REF_GLOB *unused;
REF_GLOB total_unused;
REF_INT total_active;
REF_INT part, chunk;
REF_INT active0, active1, nactive;
REF_INT i, local;
/* sort so that decrement of future processed unused works */
RSS(ref_sort_in_place_glob(ref_node_n_unused(ref_node),
ref_node->unused_global),
"in place");
/* share unused count */
ref_malloc(counts, ref_mpi_n(ref_mpi), REF_INT);
ref_malloc(active_counts, ref_mpi_n(ref_mpi), REF_INT);
RSS(ref_mpi_allgather(ref_mpi, &(ref_node_n_unused(ref_node)), counts,
REF_INT_TYPE),
"gather size");
total_unused = 0;
each_ref_mpi_part(ref_mpi, part) total_unused += counts[part];
/* heuristic of max to process at a time */
chunk = (REF_INT)(total_unused / ref_mpi_n(ref_mpi) + 1);
chunk = MAX(chunk, 100000);
/* while have unused to process */
active0 = 0;
while (active0 < ref_mpi_n(ref_mpi)) {
/* processor [active0, active1) slice of at least one and less than chunk */
RSS(ref_node_eliminate_active_parts(ref_mpi_n(ref_mpi), counts, chunk,
active0, &active1, &nactive),
"active part range");
/* active unused count and share active unused list, sorted */
each_ref_mpi_part(ref_mpi, part) active_counts[part] = 0;
for (part = active0; part < active1; part++) {
active_counts[part] = counts[part];
}
/* count active unused (between active0 and active1-1) */
total_active = 0;
for (part = active0; part < active1; part++) {
total_active += active_counts[part];
}
/* gather active unused, and sort */
ref_malloc(unused, total_active, REF_GLOB);
RSS(ref_mpi_allgatherv(ref_mpi, ref_node->unused_global, active_counts,
unused, REF_GLOB_TYPE),
"gather active unused");
/* (each part already sorted, merge sort faster? */
RSS(ref_sort_in_place_glob(total_active, unused), "in place sort");
/* erase unused gathered in active unused list */
if (active0 <= ref_mpi_rank(ref_mpi) && ref_mpi_rank(ref_mpi) < active1)
ref_node_n_unused(ref_node) = 0;
/* shift ref_node sorted_globals */
RSS(ref_node_eliminate_unused_offset(ref_node_n(ref_node),
ref_node->sorted_global, total_active,
unused),
"offset sorted globals");
/* shift unprocessed unused */
RSS(ref_node_eliminate_unused_offset(ref_node_n_unused(ref_node),
ref_node->unused_global, total_active,
unused),
"offset sorted unused");
ref_free(unused);
active0 = active1;
}
/* update node global with shifted sorted_global */
for (i = 0; i < ref_node_n(ref_node); i++) {
local = ref_node->sorted_local[i];
ref_node->global[local] = ref_node->sorted_global[i];
}
/* set compact global count */
RSS(ref_node_initialize_n_global(ref_node,
ref_node->old_n_global - total_unused),
"re-init");
ref_free(active_counts);
ref_free(counts);
return REF_SUCCESS;
}
REF_STATUS ref_node_synchronize_globals(REF_NODE ref_node) {
RSS(ref_node_shift_new_globals(ref_node), "shift");
RSS(ref_node_eliminate_unused_globals(ref_node), "shift");
return REF_SUCCESS;
}
REF_STATUS ref_node_shift_new_globals(REF_NODE ref_node) {
REF_MPI ref_mpi = ref_node_mpi(ref_node);
REF_INT new_nodes;
REF_INT *everyones_new_nodes;
REF_GLOB offset, total_new_nodes;
REF_INT proc, node;
ref_malloc(everyones_new_nodes, ref_mpi_n(ref_mpi), REF_INT);
new_nodes = (REF_INT)(ref_node->new_n_global - ref_node->old_n_global);
RSS(ref_mpi_allgather(ref_mpi, &new_nodes, everyones_new_nodes, REF_INT_TYPE),
"allgather");
offset = 0;
for (proc = 0; proc < ref_mpi_rank(ref_mpi); proc++) {
offset += everyones_new_nodes[proc];
}
total_new_nodes = 0;
each_ref_mpi_part(ref_mpi, proc) {
total_new_nodes += everyones_new_nodes[proc];
}
ref_free(everyones_new_nodes);
if (0 != offset) {
each_ref_node_valid_node(ref_node, node) {
if (ref_node_global(ref_node, node) >= ref_node->old_n_global) {
(ref_node->global[node]) += offset;
}
}
for (node = ref_node_n(ref_node) - 1;
node >= 0 && ref_node->sorted_global[node] >= ref_node->old_n_global;
node--)
ref_node->sorted_global[node] += offset;
RSS(ref_node_shift_unused(ref_node, ref_node->old_n_global, offset),
"shift");
}
RSS(ref_node_initialize_n_global(ref_node,
total_new_nodes + ref_node->old_n_global),
"re-init");
return REF_SUCCESS;
}
REF_STATUS ref_node_implicit_global_from_local(REF_NODE ref_node) {
REF_MPI ref_mpi = ref_node_mpi(ref_node);
REF_INT node, proc;
REF_GLOB nnode, *global;
REF_GLOB *everyones_nnode, offset;
RSS(ref_node_synchronize_globals(ref_node), "sync");
nnode = 0;
each_ref_node_valid_node(ref_node, node) {
if (ref_node_owned(ref_node, node)) {
nnode++;
}
}
ref_malloc(everyones_nnode, ref_mpi_n(ref_mpi), REF_GLOB);
RSS(ref_mpi_allgather(ref_mpi, &nnode, everyones_nnode, REF_GLOB_TYPE),
"allgather");
offset = 0;
for (proc = 0; proc < ref_mpi_rank(ref_mpi); proc++)
offset += everyones_nnode[proc];
ref_free(everyones_nnode);
ref_malloc(global, ref_node_max(ref_node), REF_GLOB);
nnode = 0;
each_ref_node_valid_node(ref_node, node) {
if (ref_node_owned(ref_node, node)) {
global[node] = offset + nnode;
nnode++;
}
}
RSS(ref_node_ghost_glob(ref_node, global, 1), "ghost int");
each_ref_node_valid_node(ref_node, node) {
ref_node->global[node] = global[node];
}
ref_free(global);
RSS(ref_node_rebuild_sorted_global(ref_node), "rebuild globals");
return REF_SUCCESS;
}
REF_STATUS ref_node_collect_ghost_age(REF_NODE ref_node) {
RSS(ref_node_localize_ghost_int(ref_node, (ref_node->age)),
"localize ghost age");
return REF_SUCCESS;
}
REF_STATUS ref_node_local(REF_NODE ref_node, REF_GLOB global, REF_INT *local) {
REF_INT location;
(*local) = REF_EMPTY;
RAISE(ref_sort_search_glob(ref_node_n(ref_node), ref_node->sorted_global,
global, &location));
if ((location) == REF_EMPTY) return REF_NOT_FOUND;
(*local) = ref_node->sorted_local[location];
return REF_SUCCESS;
}
REF_STATUS ref_node_stable_compact(REF_NODE ref_node, REF_INT **o2n_ptr,
REF_INT **n2o_ptr) {
REF_INT node;
REF_INT nnode;
REF_INT *o2n, *n2o;
ref_malloc_init(*o2n_ptr, ref_node_max(ref_node), REF_INT, REF_EMPTY);
o2n = *o2n_ptr;
ref_malloc(*n2o_ptr, ref_node_n(ref_node), REF_INT);
n2o = *n2o_ptr;
nnode = 0;
each_ref_node_valid_node(ref_node, node) {
o2n[node] = nnode;
nnode++;
}
RES(nnode, ref_node_n(ref_node), "nnode miscount");
each_ref_node_valid_node(ref_node, node) n2o[o2n[node]] = node;
return REF_SUCCESS;
}
REF_STATUS ref_node_compact(REF_NODE ref_node, REF_INT **o2n_ptr,
REF_INT **n2o_ptr) {
REF_INT node;
REF_INT nnode;
REF_INT *o2n, *n2o;
ref_malloc_init(*o2n_ptr, ref_node_max(ref_node), REF_INT, REF_EMPTY);
o2n = *o2n_ptr;
ref_malloc(*n2o_ptr, ref_node_n(ref_node), REF_INT);
n2o = *n2o_ptr;
nnode = 0;
each_ref_node_valid_node(ref_node, node) {
if (ref_mpi_rank(ref_node_mpi(ref_node)) == ref_node_part(ref_node, node)) {
o2n[node] = nnode;
nnode++;
}
}
each_ref_node_valid_node(ref_node, node) {
if (ref_mpi_rank(ref_node_mpi(ref_node)) != ref_node_part(ref_node, node)) {
o2n[node] = nnode;
nnode++;
}
}
RES(nnode, ref_node_n(ref_node), "nnode miscount");
each_ref_node_valid_node(ref_node, node) n2o[o2n[node]] = node;
return REF_SUCCESS;
}
REF_STATUS ref_node_ghost_real(REF_NODE ref_node) {
RSS(ref_node_ghost_dbl(ref_node, ref_node->real, REF_NODE_REAL_PER),
"ghost dbl");
if (ref_node_naux(ref_node) > 0)
RSS(ref_node_ghost_dbl(ref_node, ref_node->aux, ref_node_naux(ref_node)),
"ghost dbl");
return REF_SUCCESS;
}
REF_STATUS ref_node_ghost_int(REF_NODE ref_node, REF_INT *vector,
REF_INT ldim) {
REF_MPI ref_mpi = ref_node_mpi(ref_node);
REF_INT *a_size, *b_size;
REF_INT a_total, b_total;
REF_GLOB *a_global, *b_global;
REF_INT part, node;
REF_INT *a_next;
REF_INT *a_vector, *b_vector;
REF_INT i, local;
if (!ref_mpi_para(ref_mpi)) return REF_SUCCESS;
ref_malloc_init(a_size, ref_mpi_n(ref_mpi), REF_INT, 0);
ref_malloc_init(b_size, ref_mpi_n(ref_mpi), REF_INT, 0);
each_ref_node_valid_node(ref_node, node) {
if (!ref_node_owned(ref_node, node)) {
a_size[ref_node_part(ref_node, node)]++;
}
}
RSS(ref_mpi_alltoall(ref_mpi, a_size, b_size, REF_INT_TYPE),
"alltoall sizes");
a_total = 0;
each_ref_mpi_part(ref_mpi, part) { a_total += a_size[part]; }
ref_malloc(a_global, a_total, REF_GLOB);
b_total = 0;
each_ref_mpi_part(ref_mpi, part) { b_total += b_size[part]; }
ref_malloc(b_global, b_total, REF_GLOB);
ref_malloc(a_next, ref_mpi_n(ref_mpi), REF_INT);
a_next[0] = 0;
each_ref_mpi_worker(ref_mpi, part) {
a_next[part] = a_next[part - 1] + a_size[part - 1];
}
each_ref_node_valid_node(ref_node, node) {
if (!ref_node_owned(ref_node, node)) {
part = ref_node_part(ref_node, node);
a_global[a_next[part]] = ref_node_global(ref_node, node);
a_next[ref_node_part(ref_node, node)]++;
}
}
RSS(ref_mpi_alltoallv(ref_mpi, a_global, a_size, b_global, b_size, 1,
REF_GLOB_TYPE),
"alltoallv global");
if (a_total < REF_INT_MAX / ldim && b_total < REF_INT_MAX / ldim) {
ref_malloc(a_vector, ldim * a_total, REF_INT);
ref_malloc(b_vector, ldim * b_total, REF_INT);
for (node = 0; node < b_total; node++) {
RSS(ref_node_local(ref_node, b_global[node], &local), "g2l");
for (i = 0; i < ldim; i++)
b_vector[i + ldim * node] = vector[i + ldim * local];
}
RSS(ref_mpi_alltoallv(ref_mpi, b_vector, b_size, a_vector, a_size, ldim,
REF_INT_TYPE),
"alltoallv vector");
for (node = 0; node < a_total; node++) {
RSS(ref_node_local(ref_node, a_global[node], &local), "g2l");
for (i = 0; i < ldim; i++)
vector[i + ldim * local] = a_vector[i + ldim * node];
}
free(b_vector);
free(a_vector);
} else {
ref_malloc(a_vector, a_total, REF_INT);
ref_malloc(b_vector, b_total, REF_INT);
for (i = 0; i < ldim; i++) {
for (node = 0; node < b_total; node++) {
RSS(ref_node_local(ref_node, b_global[node], &local), "g2l");
b_vector[node] = vector[i + ldim * local];
}
RSS(ref_mpi_alltoallv(ref_mpi, b_vector, b_size, a_vector, a_size, 1,
REF_INT_TYPE),
"alltoallv vector");
for (node = 0; node < a_total; node++) {
RSS(ref_node_local(ref_node, a_global[node], &local), "g2l");
vector[i + ldim * local] = a_vector[node];
}
}
free(b_vector);
free(a_vector);
}
free(a_next);
free(b_global);
free(a_global);
free(b_size);
free(a_size);
return REF_SUCCESS;
}
REF_STATUS ref_node_ghost_glob(REF_NODE ref_node, REF_GLOB *vector,
REF_INT ldim) {
REF_MPI ref_mpi = ref_node_mpi(ref_node);
REF_INT *a_size, *b_size;
REF_INT a_total, b_total;
REF_GLOB *a_global, *b_global;