AxisAlignedBoundingBox DatabaseIO::get_bounding_box(const Ioss::ElementBlock *eb) const
{
if (elementBlockBoundingBoxes.empty()) {
// Calculate the bounding boxes for all element blocks...
std::vector<double> coordinates;
Ioss::NodeBlock * nb = get_region()->get_node_blocks()[0];
nb->get_field_data("mesh_model_coordinates", coordinates);
ssize_t nnode = nb->get_property("entity_count").get_int();
ssize_t ndim = nb->get_property("component_degree").get_int();
Ioss::ElementBlockContainer element_blocks = get_region()->get_element_blocks();
size_t nblock = element_blocks.size();
std::vector<double> minmax;
minmax.reserve(6 * nblock);
for (auto &block : element_blocks) {
double xmin, ymin, zmin, xmax, ymax, zmax;
if (block->get_database()->int_byte_size_api() == 8) {
std::vector<int64_t> connectivity;
block->get_field_data("connectivity_raw", connectivity);
calc_bounding_box(ndim, nnode, coordinates, connectivity, xmin, ymin, zmin, xmax, ymax,
zmax);
}
else {
std::vector<int> connectivity;
block->get_field_data("connectivity_raw", connectivity);
calc_bounding_box(ndim, nnode, coordinates, connectivity, xmin, ymin, zmin, xmax, ymax,
zmax);
}
minmax.push_back(xmin);
minmax.push_back(ymin);
minmax.push_back(zmin);
minmax.push_back(-xmax);
minmax.push_back(-ymax);
minmax.push_back(-zmax);
}
util().global_array_minmax(minmax, Ioss::ParallelUtils::DO_MIN);
for (size_t i = 0; i < element_blocks.size(); i++) {
Ioss::ElementBlock * block = element_blocks[i];
const std::string & name = block->name();
AxisAlignedBoundingBox bbox(minmax[6 * i + 0], minmax[6 * i + 1], minmax[6 * i + 2],
-minmax[6 * i + 3], -minmax[6 * i + 4], -minmax[6 * i + 5]);
elementBlockBoundingBoxes[name] = bbox;
}
}
return elementBlockBoundingBoxes[eb->name()];
}
void eliminate_omitted_nodes(RegionVector &part_mesh,
std::vector<INT> &global_node_map,
std::vector<INT> &local_node_map)
{
size_t offset = 0;
size_t j = 0;
size_t part_count = part_mesh.size();
for (size_t p = 0; p < part_count; p++) {
bool has_omissions = part_mesh[p]->get_property("block_omission_count").get_int() > 0;
Ioss::NodeBlock *nb = part_mesh[p]->get_node_blocks()[0];
size_t loc_size = nb->get_property("entity_count").get_int();
if (has_omissions) {
// If there are any omitted element blocks for this part, don't
// map the nodes that are only connected to omitted element
// blocks.
std::vector<char> node_status;
nb->get_field_data("node_connectivity_status", node_status);
for (size_t i=0; i < node_status.size(); i++) {
if (node_status[i] != 1) {
local_node_map[offset+i] = j;
global_node_map.push_back(j+1);
j++;
} else {
local_node_map[offset+i] = -1;
}
}
} else {
for (size_t i=0; i < loc_size; i++) {
local_node_map[offset+i] = j;
global_node_map.push_back(j+1);
j++;
}
}
offset += loc_size;
}
}
void build_reverse_node_map(Ioss::Region &global,
RegionVector &part_mesh,
std::vector<INT> &global_node_map,
std::vector<INT> &local_node_map)
{
// Instead of using <set> and <map>, consider using a sorted vector...
// Append all local node maps to the global node map.
// Sort the global node map
// Remove duplicates.
// Position within map is now the map...
// When building the local-part node to global id, use binary_search...
size_t part_count = part_mesh.size();
// Global node map and count.
std::vector<std::vector<int> > global_nodes(part_count);
size_t tot_size = 0;
for (size_t p = 0; p < part_count; p++) {
Ioss::NodeBlock *nb = part_mesh[p]->get_node_blocks()[0];
size_t loc_size = nb->get_property("entity_count").get_int();
tot_size += loc_size;
global_nodes[p].resize(loc_size);
}
global_node_map.resize(tot_size);
size_t offset = 0;
bool any_omitted_nodes = false;
for (size_t p = 0; p < part_count; p++) {
Ioss::NodeBlock *nb = part_mesh[p]->get_node_blocks()[0];
nb->get_field_data("ids", global_nodes[p]);
// If there are any omitted element blocks for this part, set
// the global id of any nodes that are only connected to omitted
// element blocks to 0.
bool has_omissions = part_mesh[p]->get_property("block_omission_count").get_int() > 0;
if (has_omissions) {
std::vector<char> node_status;
nb->get_field_data("node_connectivity_status", node_status);
for (size_t i=0; i < node_status.size(); i++) {
if (node_status[i] == 1) {
any_omitted_nodes = true;
global_nodes[p][i] = 0;
}
}
}
std::copy(global_nodes[p].begin(), global_nodes[p].end(), &global_node_map[offset]);
offset += global_nodes[p].size();
}
// Now, sort the global_node_map array and remove duplicates...
uniqify(global_node_map);
// If any omitted nodes, remove them from the global_node_map.
// The id will be 0
if (any_omitted_nodes) {
typename std::vector<INT>::iterator pos = std::remove(global_node_map.begin(),
global_node_map.end(), 0);
global_node_map.erase(pos, global_node_map.end());
}
size_t output_node_count = global_node_map.size();
// See whether the node numbers are contiguous. If so, we can map
// the nodes back to their original location. Since the nodes are
// sorted and there are no duplicates, we just need to see if the id
// at global_node_map.size() == global_node_map.size();
size_t max_id = global_node_map[output_node_count-1];
bool is_contiguous = max_id == output_node_count;
std::cerr << "Node map " << (is_contiguous ? "is" : "is not") << " contiguous.\n";
// Create the map that maps from a local part node to the
// global map. This combines the mapping local part node to
// 'global id' and then 'global id' to global position. The
// mapping is now a direct lookup instead of a lookup followed by
// a reverse map.
typedef typename std::vector<INT>::iterator V_INT_iterator;
V_INT_iterator cur_pos = global_node_map.begin();
for (size_t p = 0; p < part_count; p++) {
size_t noffset = part_mesh[p]->get_property("node_offset").get_int();
size_t node_count = global_nodes[p].size();
for (size_t i = 0; i < node_count; i++) {
INT global_node = global_nodes[p][i];
if (global_node > 0) {
if (cur_pos == global_node_map.end() || *cur_pos != global_node) {
std::pair<V_INT_iterator, V_INT_iterator> iter = std::equal_range(global_node_map.begin(),
global_node_map.end(),
global_node);
if (iter.first == iter.second) {
INT n = global_node;
std::cerr << n << "\n";
SMART_ASSERT(iter.first != iter.second);
}
cur_pos = iter.first;
}
size_t nodal_value = cur_pos - global_node_map.begin();
local_node_map[noffset+i] = nodal_value;
++cur_pos;
} else {
local_node_map[noffset+i] = -1;
}
}
}
// Update the nodal ids to give a unique, non-repeating set. If contiguous, then
// there is nothing to do. If not contiguous, then need to determine if there are any
// repeats (id reuse) and if so, generate a new id for the repeated uses.
if (!is_contiguous) {
bool repeat_found = false;
INT id_last = global_node_map[0];
for (size_t i=1; i < output_node_count; i++) {
if (global_node_map[i] == id_last) {
global_node_map[i] = ++max_id;
repeat_found = true;
} else {
id_last = global_node_map[i];
}
}
if (repeat_found) {
std::cerr << "Duplicate node ids were found. Their ids have been renumbered to remove duplicates.\n";
}
}
}