Beispiel #1
0
bool convertMeshToGeo(const MeshLib::Mesh &mesh, GeoLib::GEOObjects &geo_objects, double eps)
{
    if (mesh.getDimension() != 2)
    {
        ERR ("Mesh to geometry conversion is only working for 2D meshes.");
        return false;
    }

    // nodes to points conversion
    std::string mesh_name(mesh.getName());
    {
        auto points = std::make_unique<std::vector<GeoLib::Point*>>();
        points->reserve(mesh.getNumberOfNodes());

        for (auto node_ptr : mesh.getNodes())
            points->push_back(new GeoLib::Point(*node_ptr, node_ptr->getID()));

        geo_objects.addPointVec(std::move(points), mesh_name, nullptr, eps);
    }
    const std::vector<std::size_t> id_map (geo_objects.getPointVecObj(mesh_name)->getIDMap());

    // elements to surface triangles conversion
    std::string const mat_name ("MaterialIDs");
    auto bounds (MeshInformation::getValueBounds<int>(mesh, mat_name));
    const unsigned nMatGroups(bounds.second-bounds.first+1);
    auto sfcs = std::make_unique<std::vector<GeoLib::Surface*>>();
    sfcs->reserve(nMatGroups);
    auto const& points = *geo_objects.getPointVec(mesh_name);
    for (unsigned i=0; i<nMatGroups; ++i)
        sfcs->push_back(new GeoLib::Surface(points));

    const std::vector<MeshLib::Element*> &elements = mesh.getElements();
    const std::size_t nElems (mesh.getNumberOfElements());

    MeshLib::PropertyVector<int> const*const materialIds =
        mesh.getProperties().existsPropertyVector<int>("MaterialIDs")
            ? mesh.getProperties().getPropertyVector<int>("MaterialIDs")
            : nullptr;

    for (unsigned i=0; i<nElems; ++i)
    {
        auto surfaceId = !materialIds ? 0 : ((*materialIds)[i] - bounds.first);
        MeshLib::Element* e (elements[i]);
        if (e->getGeomType() == MeshElemType::TRIANGLE)
            (*sfcs)[surfaceId]->addTriangle(id_map[e->getNodeIndex(0)], id_map[e->getNodeIndex(1)], id_map[e->getNodeIndex(2)]);
        if (e->getGeomType() == MeshElemType::QUAD)
        {
            (*sfcs)[surfaceId]->addTriangle(id_map[e->getNodeIndex(0)], id_map[e->getNodeIndex(1)], id_map[e->getNodeIndex(2)]);
            (*sfcs)[surfaceId]->addTriangle(id_map[e->getNodeIndex(0)], id_map[e->getNodeIndex(2)], id_map[e->getNodeIndex(3)]);
        }
        // all other element types are ignored (i.e. lines)
    }

    std::for_each(sfcs->begin(), sfcs->end(), [](GeoLib::Surface* sfc){ if (sfc->getNumberOfTriangles()==0) delete sfc; sfc = nullptr;});
    auto sfcs_end = std::remove(sfcs->begin(), sfcs->end(), nullptr);
    sfcs->erase(sfcs_end, sfcs->end());

    geo_objects.addSurfaceVec(std::move(sfcs), mesh_name);
    return true;
}
MeshLib::Mesh* MeshSurfaceExtraction::getMeshBoundary(const MeshLib::Mesh &mesh)
{
	if (mesh.getDimension()==1)
		return nullptr;

	// For 3D meshes return the 2D surface
	if (mesh.getDimension()==3)
	{
		MathLib::Vector3 dir(0,0,0);
		return getMeshSurface(mesh, dir, 90);
	}

	// For 2D meshes return the boundary lines
	std::vector<MeshLib::Node*> nodes = MeshLib::copyNodeVector(mesh.getNodes());
	std::vector<MeshLib::Element*> boundary_elements;

	std::vector<MeshLib::Element*> const& org_elems (mesh.getElements());
	for (auto it=org_elems.begin(); it!=org_elems.end(); ++it)
	{
		MeshLib::Element* elem (*it);
		std::size_t const n_edges (elem->getNEdges());
		for (std::size_t i=0; i<n_edges; ++i)
			if (elem->getNeighbor(i) == nullptr)
			{
				MeshLib::Element const*const edge (elem->getEdge(i));
				boundary_elements.push_back(MeshLib::copyElement(edge, nodes));
				delete edge;
			}
	}
	MeshLib::Mesh* result = new MeshLib::Mesh("Boundary Mesh", nodes, boundary_elements);
	MeshLib::NodeSearch ns(*result);
	if (ns.searchUnused() == 0) {
		return result;
	} else {
		auto removed = MeshLib::removeNodes(*result, ns.getSearchedNodeIDs(), result->getName());
		delete result;
		return removed;
	}
}
std::unique_ptr<MeshLib::Mesh> appendLinesAlongPolylines(
    const MeshLib::Mesh& mesh, const GeoLib::PolylineVec& ply_vec)
{
    // copy existing nodes and elements
    std::vector<MeshLib::Node*> vec_new_nodes = MeshLib::copyNodeVector(mesh.getNodes());
    std::vector<MeshLib::Element*> vec_new_eles = MeshLib::copyElementVector(mesh.getElements(), vec_new_nodes);

    auto const material_ids = materialIDs(mesh);
    int const max_matID =
        material_ids
            ? *(std::max_element(begin(*material_ids), end(*material_ids)))
            : 0;

    std::vector<int> new_mat_ids;
    const std::size_t n_ply (ply_vec.size());
    // for each polyline
    for (std::size_t k(0); k < n_ply; k++)
    {
        const GeoLib::Polyline* ply = (*ply_vec.getVector())[k];

        // search nodes on the polyline
        MeshGeoToolsLib::MeshNodesAlongPolyline mshNodesAlongPoly(
            mesh, *ply, mesh.getMinEdgeLength() * 0.5,
            MeshGeoToolsLib::SearchAllNodes::Yes);
        auto &vec_nodes_on_ply = mshNodesAlongPoly.getNodeIDs();
        if (vec_nodes_on_ply.empty()) {
            std::string ply_name;
            ply_vec.getNameOfElementByID(k, ply_name);
            INFO("No nodes found on polyline %s", ply_name.c_str());
            continue;
        }

        // add line elements
        for (std::size_t i=0; i<vec_nodes_on_ply.size()-1; i++) {
            std::array<MeshLib::Node*, 2> element_nodes;
            element_nodes[0] = vec_new_nodes[vec_nodes_on_ply[i]];
            element_nodes[1] = vec_new_nodes[vec_nodes_on_ply[i+1]];
            vec_new_eles.push_back(
                new MeshLib::Line(element_nodes, vec_new_eles.size()));
            new_mat_ids.push_back(max_matID+k+1);
        }
    }

    // generate a mesh
    const std::string name = mesh.getName() + "_with_lines";
    auto new_mesh =
        std::make_unique<MeshLib::Mesh>(name, vec_new_nodes, vec_new_eles);
    auto new_material_ids =
        new_mesh->getProperties().createNewPropertyVector<int>(
            "MaterialIDs", MeshLib::MeshItemType::Cell);
    if (!new_material_ids)
    {
        OGS_FATAL("Could not create MaterialIDs cell vector in new mesh.");
    }
    new_material_ids->reserve(new_mesh->getNumberOfElements());
    if (material_ids != nullptr)
    {
        std::copy(begin(*material_ids), end(*material_ids),
                  std::back_inserter(*new_material_ids));
    }
    else
    {
        new_material_ids->resize(mesh.getNumberOfElements());
    }
    std::copy(begin(new_mat_ids), end(new_mat_ids),
              std::back_inserter(*new_material_ids));
    return new_mesh;
}
Beispiel #4
0
PostProcessTool::PostProcessTool(
    MeshLib::Mesh const& org_mesh,
    std::vector<MeshLib::Node*> const& vec_fracture_nodes,
    std::vector<MeshLib::Element*> const& vec_fracutre_matrix_elements)
    :_org_mesh(org_mesh)
{
    if (!org_mesh.getProperties().hasPropertyVector("displacement")
        || !org_mesh.getProperties().hasPropertyVector("displacement_jump1")
        || !org_mesh.getProperties().hasPropertyVector("levelset1")
        )
    {
        OGS_FATAL("The given mesh does not have relevant properties");
    }

    // clone nodes and elements
    std::vector<MeshLib::Node*> new_nodes(MeshLib::copyNodeVector(org_mesh.getNodes()));
    std::vector<MeshLib::Element*> new_eles(
        MeshLib::copyElementVector(org_mesh.getElements(), new_nodes));

    // duplicate fracture nodes
    for (auto const* org_node : vec_fracture_nodes)
    {
        auto duplicated_node = new MeshLib::Node(org_node->getCoords(), new_nodes.size());
        new_nodes.push_back(duplicated_node);
        _map_dup_newNodeIDs[org_node->getID()] = duplicated_node->getID();
    }

    // split elements using the new duplicated nodes
    auto prop_levelset = org_mesh.getProperties().getPropertyVector<double>("levelset1");
    for (auto const* org_e : vec_fracutre_matrix_elements)
    {
        // only matrix elements
        if (org_e->getDimension() != org_mesh.getDimension())
            continue;

        auto const eid = org_e->getID();

        // keep original if the element has levelset=0
        if ((*prop_levelset)[eid] == 0)
            continue;

        // replace fracture nodes with duplicated ones
        MeshLib::Element* e = new_eles[eid];
        for (unsigned i=0; i<e->getNumberOfNodes(); i++)
        {
            // only fracture nodes
            auto itr = _map_dup_newNodeIDs.find(e->getNodeIndex(i));
            if (itr == _map_dup_newNodeIDs.end())
                continue;

            // check if a node belongs to the particular fracture group
            auto itr2 = std::find_if(vec_fracture_nodes.begin(), vec_fracture_nodes.end(),
                                     [&](MeshLib::Node const*node) { return node->getID()==e->getNodeIndex(i);});
            if (itr2 == vec_fracture_nodes.end())
                continue;

            e->setNode(i, new_nodes[itr->second]);
        }
    }

    // new mesh
    _output_mesh.reset(new MeshLib::Mesh(org_mesh.getName(), new_nodes, new_eles));
    createProperties<int>();
    createProperties<double>();
    copyProperties<int>();
    copyProperties<double>();
    calculateTotalDisplacement();
}
Beispiel #5
0
void ElementTreeModel::setMesh(MeshLib::Mesh const& mesh)
{
    this->clearView();

    QList<QVariant> mesh_name;
    mesh_name << "Name:" << QString::fromStdString(mesh.getName()) << "" << "" << "";
    TreeItem* name_item = new TreeItem(mesh_name, _rootItem);
    _rootItem->appendChild(name_item);

    QList<QVariant> nodes_number;
    nodes_number << "#Nodes: " << QString::number(mesh.getNumberOfNodes()) << "" << "";
    TreeItem* nodes_item = new TreeItem(nodes_number, _rootItem);
    _rootItem->appendChild(nodes_item);

    QList<QVariant> elements_number;
    elements_number << "#Elements: " << QString::number(mesh.getNumberOfElements()) << "" << "";
    TreeItem* elements_item = new TreeItem(elements_number, _rootItem);
    _rootItem->appendChild(elements_item);

    const std::array<QString, 7> n_element_names = {{ "Lines:", "Triangles:", "Quads:", "Tetrahedra:", "Hexahedra:", "Pyramids:", "Prisms:" }};
    const std::array<unsigned, 7>& n_element_types (MeshLib::MeshInformation::getNumberOfElementTypes(mesh));
    for (std::size_t i=0; i<n_element_types.size(); ++i)
    {
        if (n_element_types[i])
        {
            QList<QVariant> elements_number;
            elements_number << n_element_names[i] << QString::number(n_element_types[i]) << "" << "";
            TreeItem* type_item = new TreeItem(elements_number, elements_item);
            elements_item->appendChild(type_item);
        }
    }

    QList<QVariant> bounding_box;
    bounding_box << "Bounding Box" << "" << "" << "";
    TreeItem* aabb_item = new TreeItem(bounding_box, _rootItem);
    _rootItem->appendChild(aabb_item);

    const GeoLib::AABB aabb (MeshLib::MeshInformation::getBoundingBox(mesh));
    auto const& min = aabb.getMinPoint();
    auto const& max = aabb.getMaxPoint();

    QList<QVariant> min_aabb;
    min_aabb << "Min:" << QString::number(min[0], 'f') << QString::number(min[1], 'f') << QString::number(min[2], 'f');
    TreeItem* min_item = new TreeItem(min_aabb, aabb_item);
    aabb_item->appendChild(min_item);

    QList<QVariant> max_aabb;
    max_aabb << "Max:" << QString::number(max[0], 'f') << QString::number(max[1], 'f') << QString::number(max[2], 'f');
    TreeItem* max_item = new TreeItem(max_aabb, aabb_item);
    aabb_item->appendChild(max_item);

    QList<QVariant> edges;
    edges << "Edge Length: " << "[" + QString::number(mesh.getMinEdgeLength(), 'f') + "," << QString::number(mesh.getMaxEdgeLength(), 'f') + "]" << "";
    TreeItem* edge_item = new TreeItem(edges, _rootItem);
    _rootItem->appendChild(edge_item);

    std::vector<std::string> const& vec_names (mesh.getProperties().getPropertyVectorNames());
    for (std::size_t i=0; i<vec_names.size(); ++i)
    {
        QList<QVariant> array_info;
        array_info << QString::fromStdString(vec_names[i]) + ": ";
        auto vec_bounds (MeshLib::MeshInformation::getValueBounds<int>(mesh, vec_names[i]));
        if (vec_bounds.second != std::numeric_limits<int>::max())
            array_info << "[" + QString::number(vec_bounds.first) + "," << QString::number(vec_bounds.second) + "]" << "";
        else
        {
            auto vec_bounds (MeshLib::MeshInformation::getValueBounds<double>(mesh, vec_names[i]));
            if (vec_bounds.second != std::numeric_limits<double>::max())
                array_info  << "[" + QString::number(vec_bounds.first) + "," << QString::number(vec_bounds.second) + "]" << "";
        }
        if (array_info.size() == 1)
            array_info << "[ ?" << "? ]" << "";
        TreeItem* vec_item = new TreeItem(array_info, _rootItem);
        _rootItem->appendChild(vec_item);
    }

    reset();

}
std::unique_ptr<MeshLib::Mesh> appendLinesAlongPolylines(
    const MeshLib::Mesh& mesh, const GeoLib::PolylineVec& ply_vec)
{
    // copy existing nodes and elements
    std::vector<MeshLib::Node*> vec_new_nodes = MeshLib::copyNodeVector(mesh.getNodes());
    std::vector<MeshLib::Element*> vec_new_eles = MeshLib::copyElementVector(mesh.getElements(), vec_new_nodes);

    std::vector<int> new_mat_ids;
    {
        if (mesh.getProperties().existsPropertyVector<int>("MaterialIDs")) {
            auto ids =
                mesh.getProperties().getPropertyVector<int>("MaterialIDs");
            new_mat_ids.reserve(ids->size());
            std::copy(ids->cbegin(), ids->cend(),
                      std::back_inserter(new_mat_ids));
        }
    }
    int max_matID(0);
    if (!new_mat_ids.empty())
        max_matID = *(std::max_element(new_mat_ids.cbegin(), new_mat_ids.cend()));

    const std::size_t n_ply (ply_vec.size());
    // for each polyline
    for (std::size_t k(0); k < n_ply; k++)
    {
        const GeoLib::Polyline* ply = (*ply_vec.getVector())[k];

        // search nodes on the polyline
        MeshGeoToolsLib::MeshNodesAlongPolyline mshNodesAlongPoly(
            mesh, *ply, mesh.getMinEdgeLength() * 0.5,
            MeshGeoToolsLib::SearchAllNodes::Yes);
        auto &vec_nodes_on_ply = mshNodesAlongPoly.getNodeIDs();
        if (vec_nodes_on_ply.empty()) {
            std::string ply_name;
            ply_vec.getNameOfElementByID(k, ply_name);
            INFO("No nodes found on polyline %s", ply_name.c_str());
            continue;
        }

        // add line elements
        for (std::size_t i=0; i<vec_nodes_on_ply.size()-1; i++) {
            std::array<MeshLib::Node*, 2> element_nodes;
            element_nodes[0] = vec_new_nodes[vec_nodes_on_ply[i]];
            element_nodes[1] = vec_new_nodes[vec_nodes_on_ply[i+1]];
            vec_new_eles.push_back(
                new MeshLib::Line(element_nodes, vec_new_eles.size()));
            new_mat_ids.push_back(max_matID+k+1);
        }
    }

    // generate a mesh
    const std::string name = mesh.getName() + "_with_lines";
    auto new_mesh =
        std::make_unique<MeshLib::Mesh>(name, vec_new_nodes, vec_new_eles);
    auto opt_mat_pv = new_mesh->getProperties().createNewPropertyVector<int>(
        "MaterialIDs", MeshLib::MeshItemType::Cell);
    if (opt_mat_pv) {
        auto & mat_pv = *opt_mat_pv;
        mat_pv.reserve(new_mat_ids.size());
        std::copy(new_mat_ids.cbegin(), new_mat_ids.cend(),
            std::back_inserter(mat_pv));
    }
    return new_mesh;
}
Beispiel #7
0
int main (int argc, char* argv[])
{
	LOGOG_INITIALIZE();
	logog::Cout* logog_cout (new logog::Cout);
	BaseLib::LogogSimpleFormatter *custom_format (new BaseLib::LogogSimpleFormatter);
	logog_cout->SetFormatter(*custom_format);

	TCLAP::CmdLine cmd("Remove mesh elements.", ' ', "0.1");
	TCLAP::ValueArg<std::string> mesh_in("i", "mesh-input-file",
	                                     "the name of the file containing the input mesh", true,
	                                     "", "file name of input mesh");
	cmd.add(mesh_in);
	TCLAP::ValueArg<std::string> mesh_out("o", "mesh-output-file",
	                                      "the name of the file the mesh will be written to", true,
	                                      "", "file name of output mesh");
	cmd.add(mesh_out);
	TCLAP::SwitchArg zveArg("z", "zero-volume", "remove zero volume elements", false);
	cmd.add(zveArg);
	TCLAP::MultiArg<std::string> eleTypeArg("t", "element-type",
	                                      "element type to be removed", false, "element type");
	cmd.add(eleTypeArg);
	TCLAP::MultiArg<unsigned> matIDArg("m", "material-id",
	                                      "material id", false, "material id");
	cmd.add(matIDArg);
	cmd.parse(argc, argv);

	MeshLib::Mesh* mesh (FileIO::readMeshFromFile(mesh_in.getValue()));
	INFO("Mesh read: %d nodes, %d elements.", mesh->getNNodes(), mesh->getNElements());

	// search elements IDs to be removed
	std::vector<std::size_t> vec_elementIDs_removed;
	if (zveArg.isSet()) {
		std::vector<std::size_t> vec_matched = searchByZeroContent(mesh->getElements());
		updateUnion(vec_matched, vec_elementIDs_removed);
		INFO("%d zero volume elements found.", vec_matched.size());
	}
	if (eleTypeArg.isSet()) {
		std::vector<std::string> eleTypeNames = eleTypeArg.getValue();
		for (auto typeName : eleTypeNames) {
			MeshElemType type = String2MeshElemType(typeName);
			if (type == MeshElemType::INVALID) continue;
			std::vector<std::size_t> vec_matched = searchByElementType(mesh->getElements(), type);
			updateUnion(vec_matched, vec_elementIDs_removed);
			INFO("%d %s elements found.", vec_matched.size(), typeName.c_str());
		}
	}
	if (matIDArg.isSet()) {
		std::vector<unsigned> vec_matID = matIDArg.getValue();
		for (auto matID : vec_matID) {
			std::vector<std::size_t> vec_matched = searchByMaterialID(mesh->getElements(), matID);
			updateUnion(vec_matched, vec_elementIDs_removed);
			INFO("%d elements with material ID %d found.", vec_matched.size(), matID);
		}
	}

	// remove the elements
	INFO("Removing total %d elements...", vec_elementIDs_removed.size());
	std::vector<MeshLib::Element*> tmp_eles = excludeElements(mesh->getElements(), vec_elementIDs_removed);
	INFO("%d elements remained.", tmp_eles.size());
	std::vector<MeshLib::Node*> new_nodes;
	std::vector<MeshLib::Element*> new_eles;
	copyNodesElements(mesh->getNodes(), tmp_eles, new_nodes, new_eles);

	// create a new mesh object. Unsued nodes are removed while construction
	MeshLib::Mesh* new_mesh(new MeshLib::Mesh(mesh->getName(), new_nodes, new_eles));

	// write into a file
	FileIO::Legacy::MeshIO meshIO;
	meshIO.setMesh(new_mesh);
	meshIO.writeToFile(mesh_out.getValue());

	delete custom_format;
	delete logog_cout;
	LOGOG_SHUTDOWN();

	return 0;
}