int main(int argc, char* argv[])
{
ApplicationsLib::LogogSetup logo_setup;
TCLAP::CmdLine cmd(
"Converts a geometry defined on a given mesh to distinct meshes.\n\n"
"OpenGeoSys-6 software, version " +
BaseLib::BuildInfo::git_describe +
".\n"
"Copyright (c) 2012-2018, OpenGeoSys Community "
"(http://www.opengeosys.org)",
' ', BaseLib::BuildInfo::git_describe);
TCLAP::ValueArg<double> search_length_arg(
"s",
"searchlength",
"search length determining radius for the node search algorithm. "
"Non-negative floating point number (default 1e-16) ",
false,
1e-16,
"float");
cmd.add(search_length_arg);
TCLAP::ValueArg<std::string> geometry_arg("g",
"geometry",
"the file name the geometry",
true,
"",
"geometry file name");
cmd.add(geometry_arg);
TCLAP::ValueArg<std::string> mesh_arg(
"m",
"mesh",
"the file name of the mesh where the geometry is defined",
true,
"",
"mesh file name");
cmd.add(mesh_arg);
cmd.parse(argc, argv);
std::unique_ptr<MeshLib::Mesh> mesh{
MeshLib::IO::readMeshFromFile(mesh_arg.getValue())};
auto const geo_objects = readGeometry(geometry_arg.getValue());
double const search_length = search_length_arg.getValue();
auto const extracted_meshes = constructAdditionalMeshesFromGeoObjects(
*geo_objects,
*mesh,
std::make_unique<MeshGeoToolsLib::SearchLength>(search_length));
for (auto const& m_ptr : extracted_meshes)
{
MeshLib::IO::writeMeshToFile(*m_ptr, m_ptr->getName() + ".vtu");
}
return EXIT_SUCCESS;
}
int main(int argc, char* argv[])
{
ApplicationsLib::LogogSetup logog_setup;
TCLAP::CmdLine cmd(
"Checks if the subdomain meshes are part of the bulk mesh and writes "
"the 'bulk_node_ids' and the 'bulk_element_ids' in each of them.\n\n"
"OpenGeoSys-6 software, version " +
BaseLib::BuildInfo::git_describe +
".\n"
"Copyright (c) 2012-2019, OpenGeoSys Community "
"(http://www.opengeosys.org)",
' ', BaseLib::BuildInfo::git_describe);
TCLAP::ValueArg<bool> force_overwrite_arg(
"f",
"force",
"Overwrites the existing subdomain meshes. (default: do not "
"overwrite.)",
false,
false,
"true/false");
cmd.add(force_overwrite_arg);
TCLAP::ValueArg<std::string> output_prefix_arg(
"o",
"output_prefix",
"Prefix the subdomain meshes' filenames with the output prefix/path.",
false,
"",
"path");
cmd.add(output_prefix_arg);
TCLAP::ValueArg<double> search_length_arg(
"s",
"searchlength",
"search length determining radius for the node search algorithm. "
"Non-negative floating point number (default 1e-16) ",
false,
1e-16,
"float");
cmd.add(search_length_arg);
TCLAP::ValueArg<std::string> bulk_mesh_arg(
"m", "mesh", "the file name of the bulk mesh", true, "", "mesh file");
cmd.add(bulk_mesh_arg);
// All the remaining arguments are used as file names for boundary/subdomain
// meshes.
TCLAP::UnlabeledMultiArg<std::string> subdomain_meshes_filenames_arg(
"subdomain_meshes_filenames", "mesh file names.", true,
"subdomain mesh file");
cmd.add(subdomain_meshes_filenames_arg);
cmd.parse(argc, argv);
//
// The bulk mesh.
//
std::unique_ptr<MeshLib::Mesh> bulk_mesh{
MeshLib::IO::readMeshFromFile(bulk_mesh_arg.getValue())};
if (bulk_mesh == nullptr)
{
OGS_FATAL("Could not read bulk mesh from '%s'",
bulk_mesh_arg.getValue().c_str());
}
//
// Read the subdomain meshes.
//
auto const subdomain_meshes =
readMeshes(subdomain_meshes_filenames_arg.getValue());
//
// Bulk mesh node searcher.
//
auto const& mesh_node_searcher =
MeshGeoToolsLib::MeshNodeSearcher::getMeshNodeSearcher(
*bulk_mesh,
std::make_unique<MeshGeoToolsLib::SearchLength>(
search_length_arg.getValue()));
//
// Identify the subdomains in the bulk mesh.
//
for (auto& mesh_ptr : subdomain_meshes)
{
// If force overwrite is set or the output is to different mesh than
// the input mesh.
bool const overwrite_property_vectors =
force_overwrite_arg.getValue() ||
!output_prefix_arg.getValue().empty();
identifySubdomainMesh(*mesh_ptr, *bulk_mesh, mesh_node_searcher,
overwrite_property_vectors);
}
//
// Output after the successful subdomain mesh identification.
//
for (auto const& mesh_ptr : subdomain_meshes)
{
MeshLib::IO::writeMeshToFile(
*mesh_ptr,
output_prefix_arg.getValue() + mesh_ptr->getName() + ".vtu");
}
return EXIT_SUCCESS;
}
int main (int argc, char* argv[])
{
ApplicationsLib::LogogSetup logog_setup;
TCLAP::CmdLine cmd(
"Creates boundary conditions for mesh nodes along polylines."
"The documentation is available at https://docs.opengeosys.org/docs/tools/model-preparation/create-boundary-conditions-along-a-polyline",
' ',
"0.1");
TCLAP::ValueArg<bool> gml_arg("", "gml",
"if switched on write found nodes to file in gml format", false, 0, "bool");
cmd.add(gml_arg);
TCLAP::ValueArg<std::string> output_base_fname("o", "output-base-file-name",
"the base name of the file the output (geometry (gli) and boundary"\
"condition (bc)) will be written to", true,
"", "file name");
cmd.add(output_base_fname);
TCLAP::ValueArg<std::string> bc_type("t", "type",
"the process type the boundary condition will be written for "\
"currently LIQUID_FLOW (primary variable PRESSURE1) and "\
"GROUNDWATER_FLOW (primary variable HEAD, default) are supported", true,
"",
"process type as string (LIQUID_FLOW or GROUNDWATER_FLOW (default))");
cmd.add(bc_type);
TCLAP::ValueArg<double> search_length_arg("s", "search-length",
"The size of the search length. The default value is "
"std::numeric_limits<double>::epsilon()", false,
std::numeric_limits<double>::epsilon(), "floating point number");
cmd.add(search_length_arg);
TCLAP::ValueArg<std::string> geometry_fname("i", "input-geometry",
"the name of the file containing the input geometry", true,
"", "file name");
cmd.add(geometry_fname);
TCLAP::ValueArg<std::string> mesh_arg("m", "mesh-file",
"the name of the file containing the mesh", true,
"", "file name");
cmd.add(mesh_arg);
cmd.parse(argc, argv);
// *** read mesh
INFO("Reading mesh \"%s\" ... ", mesh_arg.getValue().c_str());
MeshLib::Mesh * subsurface_mesh(FileIO::readMeshFromFile(mesh_arg.getValue()));
INFO("done.");
INFO("Extracting top surface of mesh \"%s\" ... ",
mesh_arg.getValue().c_str());
const MathLib::Vector3 dir(0,0,-1);
double const angle(90);
std::unique_ptr<MeshLib::Mesh> surface_mesh(
MeshLib::MeshSurfaceExtraction::getMeshSurface(*subsurface_mesh, dir,
angle));
INFO("done.");
delete subsurface_mesh;
subsurface_mesh = nullptr;
// *** read geometry
GeoLib::GEOObjects geometries;
FileIO::readGeometryFromFile(geometry_fname.getValue(), geometries);
std::string geo_name;
{
std::vector<std::string> geo_names;
geometries.getGeometryNames(geo_names);
geo_name = geo_names[0];
}
// *** check if the data is usable
// *** get vector of polylines
std::vector<GeoLib::Polyline*> const* plys(geometries.getPolylineVec(geo_name));
if (!plys) {
ERR("Could not get vector of polylines out of geometry \"%s\".",
geo_name.c_str());
return -1;
}
MeshGeoToolsLib::SearchLength search_length_strategy;
if (search_length_arg.isSet()) {
search_length_strategy =
MeshGeoToolsLib::SearchLength(search_length_arg.getValue());
}
GeoLib::GEOObjects geometry_sets;
MeshGeoToolsLib::MeshNodeSearcher mesh_searcher(*surface_mesh,
search_length_strategy);
for(std::size_t k(0); k<plys->size(); k++) {
std::vector<std::size_t> ids
(mesh_searcher.getMeshNodeIDsAlongPolyline(*((*plys)[k])));
if (ids.empty())
continue;
std::string geo_name("Polyline-"+std::to_string(k));
convertMeshNodesToGeometry(surface_mesh->getNodes(), ids, geo_name,
geometry_sets);
}
// merge all together
std::vector<std::string> geo_names;
geometry_sets.getGeometryNames(geo_names);
if (geo_names.empty()) {
ERR("Did not find mesh nodes along polylines.");
return -1;
}
std::string merge_name("AllMeshNodesAlongPolylines");
if (geometry_sets.mergeGeometries(geo_names, merge_name) == 2)
merge_name = geo_names[0];
GeoLib::PointVec const* pnt_vec(geometry_sets.getPointVecObj(merge_name));
std::vector<GeoLib::Point*> const* merged_pnts(pnt_vec->getVector());
std::vector<GeoLib::Point> pnts_with_id;
const std::size_t n_merged_pnts(merged_pnts->size());
for(std::size_t k(0); k<n_merged_pnts; ++k) {
pnts_with_id.emplace_back(*((*merged_pnts)[k]), k);
}
std::sort(pnts_with_id.begin(), pnts_with_id.end(),
[](GeoLib::Point const& p0, GeoLib::Point const& p1)
{ return p0 < p1; }
);
double const eps (std::numeric_limits<double>::epsilon());
auto surface_pnts = std::unique_ptr<std::vector<GeoLib::Point*>>(
new std::vector<GeoLib::Point*>);
std::map<std::string, std::size_t> *name_id_map(
new std::map<std::string, std::size_t>
);
// insert first point
surface_pnts->push_back(
new GeoLib::Point(pnts_with_id[0], surface_pnts->size()));
std::string element_name;
pnt_vec->getNameOfElementByID(0, element_name);
name_id_map->insert(
std::pair<std::string, std::size_t>(element_name,0)
);
for (std::size_t k(1); k < n_merged_pnts; ++k) {
const GeoLib::Point& p0 (pnts_with_id[k-1]);
const GeoLib::Point& p1 (pnts_with_id[k]);
if (std::abs (p0[0] - p1[0]) > eps || std::abs (p0[1] - p1[1]) > eps) {
surface_pnts->push_back(new GeoLib::Point(pnts_with_id[k],
surface_pnts->size()));
std::string element_name;
pnt_vec->getNameOfElementByID(k, element_name);
name_id_map->insert(
std::pair<std::string, std::size_t>(element_name,
surface_pnts->size()-1)
);
}
}
std::string surface_name(BaseLib::dropFileExtension(mesh_arg.getValue())+"-MeshNodesAlongPolylines");
geometry_sets.addPointVec(std::move(surface_pnts), surface_name, name_id_map, 1e-6);
// write the BCs and the merged geometry set to file
std::string const base_fname(
BaseLib::dropFileExtension(output_base_fname.getValue()));
writeBCsAndGeometry(geometry_sets, surface_name, base_fname,
bc_type.getValue(), gml_arg.getValue());
return 0;
}
