GeoMapper.cpp

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#include "GeoMapper.h"
 
#include <algorithm>
#include <numeric>
#include <sstream>
 
#include "BaseLib/Algorithm.h"
#include "BaseLib/Logging.h"
#include "GeoLib/AABB.h"
#include "GeoLib/AnalyticalGeometry.h"
#include "GeoLib/GEOObjects.h"
#include "GeoLib/Raster.h"
#include "GeoLib/StationBorehole.h"
#include "MeshLib/Elements/Element.h"
#include "MeshLib/Elements/FaceRule.h"
#include "MeshLib/Mesh.h"
#include "MeshLib/MeshSearch/MeshElementGrid.h"
#include "MeshLib/Node.h"
#include "MeshToolsLib/MeshSurfaceExtraction.h"
 
namespace MeshGeoToolsLib
{
GeoMapper::GeoMapper(GeoLib::GEOObjects& geo_objects,
                     const std::string& geo_name)
    : _geo_objects(geo_objects),
      _geo_name(const_cast<std::string&>(geo_name)),
      _surface_mesh(nullptr),
      _grid(nullptr),
      _raster(nullptr)
{
}
 
GeoMapper::~GeoMapper()
{
    delete _surface_mesh;
}
 
void GeoMapper::mapOnDEM(std::unique_ptr<GeoLib::Raster const> raster)
{
    std::vector<GeoLib::Point*> const* pnts(
        _geo_objects.getPointVec(_geo_name));
    if (!pnts)
    {
        ERR("Geometry '{:s}' does not exist.", _geo_name);
        return;
    }
    _raster = std::move(raster);
 
    if (GeoLib::isStation((*pnts)[0]))
    {
        mapStationData(*pnts);
    }
    else
    {
        mapPointDataToDEM(*pnts);
    }
}
 
void GeoMapper::mapOnMesh(MeshLib::Mesh const* const mesh)
{
    std::vector<GeoLib::Point*> const* pnts(
        _geo_objects.getPointVec(_geo_name));
    if (!pnts)
    {
        ERR("Geometry '{:s}' does not exist.", _geo_name);
        return;
    }
 
    // the variable _surface_mesh is reused below, so first the existing
    // _surface_mesh has to be cleaned up
    delete _surface_mesh;
 
    if (mesh->getDimension() < 3)
    {
        _surface_mesh = new MeshLib::Mesh(*mesh);
    }
    else
    {
        Eigen::Vector3d const dir(0, 0, -1);
        _surface_mesh =
            MeshToolsLib::MeshSurfaceExtraction::getMeshSurface(*mesh, dir, 90);
    }
 
    // init grid
    MathLib::Point3d origin(std::array<double, 3>{{0, 0, 0}});
    std::vector<MeshLib::Node> flat_nodes;
    flat_nodes.reserve(_surface_mesh->getNumberOfNodes());
    // copy nodes and project the copied nodes to the x-y-plane, i.e. set
    // z-coordinate to zero
    for (auto n_ptr : _surface_mesh->getNodes())
    {
        flat_nodes.emplace_back(*n_ptr);
        flat_nodes.back()[2] = 0.0;
    }
    _grid =
        new GeoLib::Grid<MeshLib::Node>(flat_nodes.cbegin(), flat_nodes.cend());
 
    if (GeoLib::isStation((*pnts)[0]))
    {
        mapStationData(*pnts);
    }
    else
    {
        mapPointDataToMeshSurface(*pnts);
    }
 
    delete _grid;
}
 
void GeoMapper::mapToConstantValue(double value)
{
    std::vector<GeoLib::Point*> const* points(
        this->_geo_objects.getPointVec(this->_geo_name));
    if (points == nullptr)
    {
        ERR("Geometry '{:s}' not found.", this->_geo_name);
        return;
    }
    std::for_each(points->begin(), points->end(),
                  [value](GeoLib::Point* pnt) { (*pnt)[2] = value; });
}
 
void GeoMapper::mapStationData(std::vector<GeoLib::Point*> const& points)
{
    double min_val(0);
    double max_val(0);
    if (_surface_mesh)
    {
        GeoLib::AABB bounding_box(_surface_mesh->getNodes().begin(),
                                  _surface_mesh->getNodes().end());
        min_val = bounding_box.getMinPoint()[2];
        max_val = bounding_box.getMaxPoint()[2];
    }
 
    for (auto* pnt : points)
    {
        double offset =
            (_grid)
                ? (getMeshElevation((*pnt)[0], (*pnt)[1], min_val, max_val) -
                   (*pnt)[2])
                : getDemElevation(*pnt);
 
        if (!GeoLib::isBorehole(pnt))
        {
            (*pnt)[2] = offset;
            continue;
        }
        auto const& layers =
            static_cast<GeoLib::StationBorehole*>(pnt)->getProfile();
        for (auto* layer_pnt : layers)
        {
            (*layer_pnt)[2] = (*layer_pnt)[2] + offset;
        }
    }
}
 
void GeoMapper::mapPointDataToDEM(
    std::vector<GeoLib::Point*> const& points) const
{
    for (auto* pnt : points)
    {
        GeoLib::Point& p(*pnt);
        p[2] = getDemElevation(p);
    }
}
 
void GeoMapper::mapPointDataToMeshSurface(
    std::vector<GeoLib::Point*> const& pnts)
{
    GeoLib::AABB const aabb(_surface_mesh->getNodes().cbegin(),
                            _surface_mesh->getNodes().cend());
    auto const [min, max] = aabb.getMinMaxPoints();
 
    for (auto* pnt : pnts)
    {
        // check if pnt is inside of the bounding box of the _surface_mesh
        // projected onto the y-x plane
        GeoLib::Point& p(*pnt);
        if (p[0] < min[0] || max[0] < p[0])
        {
            continue;
        }
        if (p[1] < min[1] || max[1] < p[1])
        {
            continue;
        }
 
        p[2] = getMeshElevation(p[0], p[1], min[2], max[2]);
    }
}
 
float GeoMapper::getDemElevation(GeoLib::Point const& pnt) const
{
    double const elevation(_raster->getValueAtPoint(pnt));
    if (std::abs(elevation - _raster->getHeader().no_data) <
        std::numeric_limits<double>::epsilon())
    {
        return 0.0;
    }
    return static_cast<float>(elevation);
}
 
double GeoMapper::getMeshElevation(double x, double y, double min_val,
                                   double max_val) const
{
    const MeshLib::Node* pnt =
        _grid->getNearestPoint(MathLib::Point3d{{{x, y, 0}}});
    auto const elements(
        _surface_mesh->getElementsConnectedToNode(pnt->getID()));
    std::unique_ptr<GeoLib::Point> intersection;
 
    for (auto const& element : elements)
    {
        if (intersection == nullptr &&
            element->getGeomType() != MeshLib::MeshElemType::LINE)
        {
            intersection = GeoLib::triangleLineIntersection(
                *element->getNode(0), *element->getNode(1),
                *element->getNode(2), GeoLib::Point(x, y, max_val),
                GeoLib::Point(x, y, min_val));
        }
 
        if (intersection == nullptr &&
            element->getGeomType() == MeshLib::MeshElemType::QUAD)
        {
            intersection = GeoLib::triangleLineIntersection(
                *element->getNode(0), *element->getNode(2),
                *element->getNode(3), GeoLib::Point(x, y, max_val),
                GeoLib::Point(x, y, min_val));
        }
    }
    if (intersection)
    {
        return (*intersection)[2];
    }
    // if something goes wrong, simply take the elevation of the nearest mesh
    // node
    return (*(_surface_mesh->getNode(pnt->getID())))[2];
}
 
static MeshLib::Element const* findElementContainingPointXY(
    std::vector<MeshLib::Element const*> const& elements,
    MathLib::Point3d const& p)
{
    for (auto const elem : elements)
    {
        std::unique_ptr<MeshLib::Element> elem_2d(elem->clone());
        // reset/copy the nodes
        for (std::size_t k(0); k < elem_2d->getNumberOfNodes(); ++k)
        {
            elem_2d->setNode(k, new MeshLib::Node(*elem_2d->getNode(k)));
        }
        // project to xy
        for (std::size_t k(0); k < elem_2d->getNumberOfNodes(); ++k)
        {
            (*const_cast<MeshLib::Node*>(elem_2d->getNode(k)))[2] = 0.0;
        }
        if (elem_2d->isPntInElement(MathLib::Point3d{{{p[0], p[1], 0.0}}}))
        {
            // clean up the copied nodes
            for (std::size_t k(0); k < elem_2d->getNumberOfNodes(); ++k)
            {
                delete elem_2d->getNode(k);
            }
            return elem;
        }
        // clean up the copied nodes
        for (std::size_t k(0); k < elem_2d->getNumberOfNodes(); ++k)
        {
            delete elem_2d->getNode(k);
        }
    }
    return nullptr;
}
 
static std::vector<MathLib::Point3d> computeElementSegmentIntersections(
    MeshLib::Element const& elem, GeoLib::LineSegment const& segment)
{
    std::vector<MathLib::Point3d> element_intersections;
    for (std::size_t k(0); k < elem.getNumberOfEdges(); ++k)
    {
        auto const edge =
            std::unique_ptr<MeshLib::Element const>(elem.getEdge(k));
        GeoLib::LineSegment elem_segment{
            new GeoLib::Point(*dynamic_cast<MathLib::Point3d*>(
                                  const_cast<MeshLib::Node*>(edge->getNode(0))),
                              0),
            new GeoLib::Point(*dynamic_cast<MathLib::Point3d*>(
                                  const_cast<MeshLib::Node*>(edge->getNode(1))),
                              0),
            true};
        std::vector<MathLib::Point3d> const intersections(
            GeoLib::lineSegmentIntersect2d(segment, elem_segment));
        element_intersections.insert(end(element_intersections),
                                     begin(intersections), end(intersections));
    }
    return element_intersections;
}
 
static std::vector<GeoLib::LineSegment> createSubSegmentsForElement(
    std::vector<MathLib::Point3d> const& intersections,
    MeshLib::Element const* const beg_elem,
    MeshLib::Element const* const end_elem, MathLib::Point3d const& beg_pnt,
    MathLib::Point3d const& end_pnt, MeshLib::Element const* const elem)
{
    std::vector<GeoLib::LineSegment> sub_segments;
    if (intersections.size() > 2)
    {
        std::stringstream out;
        out << "element with id " << elem->getID() << " and seg "
            << " intersecting at more than two edges\n";
        for (std::size_t k(0); k < intersections.size(); ++k)
        {
            out << k << " " << intersections[k] << "\n";
        }
        out << "Could not map segment on element. Aborting.\n";
        OGS_FATAL("{:s}", out.str());
    }
 
    if (intersections.size() == 1 && elem == beg_elem)
    {
        // The line segment intersects the element that contains the begin
        // point of the line segment. Here the first sub line segment is
        // added.
        if (MathLib::sqrDist(beg_pnt, intersections[0]) >
            std::numeric_limits<double>::epsilon())
        {
            sub_segments.emplace_back(new GeoLib::Point{beg_pnt, 0},
                                      new GeoLib::Point{intersections[0], 0},
                                      true);
        }
    }
 
    if (intersections.size() == 1 && elem == end_elem)
    {
        // The line segment intersects the element that contains the end
        // point of the line segment. Here the last sub line segment is
        // added.
        if (MathLib::sqrDist(end_pnt, intersections[0]) >
            std::numeric_limits<double>::epsilon())
        {
            sub_segments.emplace_back(new GeoLib::Point{intersections[0], 0},
                                      new GeoLib::Point{end_pnt, 0}, true);
        }
    }
 
    if (intersections.size() == 1 && (elem != beg_elem && elem != end_elem))
    {
        // Since the line segment enters and leaves the element in the same
        // point there isn't any need to insert a new sub line segment.
        return sub_segments;
    }
 
    // create sub segment for the current element
    if (intersections.size() == 2)
    {
        sub_segments.emplace_back(new GeoLib::Point{intersections[0], 0},
                                  new GeoLib::Point{intersections[1], 0}, true);
    }
    return sub_segments;
}
 
static std::vector<GeoLib::LineSegment> mapLineSegment(
    GeoLib::LineSegment const& segment,
    std::vector<MeshLib::Element const*> const& surface_elements,
    MeshLib::Element const* const beg_elem,
    MeshLib::Element const* const end_elem)
{
    std::vector<GeoLib::LineSegment> sub_segments;
    MathLib::Point3d const& beg_pnt(segment.getBeginPoint());
    MathLib::Point3d const& end_pnt(segment.getEndPoint());
 
    for (auto const elem : surface_elements)
    {
        // compute element-segment-intersections (2d in x-y-plane)
        std::vector<MathLib::Point3d> element_intersections(
            computeElementSegmentIntersections(*elem, segment));
        if (element_intersections.empty())
        {
            continue;
        }
 
        BaseLib::makeVectorUnique(element_intersections);
 
        std::vector<GeoLib::LineSegment> sub_seg_elem(
            createSubSegmentsForElement(element_intersections, beg_elem,
                                        end_elem, beg_pnt, end_pnt, elem));
        sub_segments.insert(sub_segments.end(), sub_seg_elem.begin(),
                            sub_seg_elem.end());
    }
 
    // beg_elem == nullptr means there isn't any element corresponding to the
    // beg_pnt and as a consequence the above algorithm doesn't insert a sub
    // segment
    if (beg_elem == nullptr)
    {
        auto min_dist_segment = std::min_element(
            sub_segments.begin(), sub_segments.end(),
            [&beg_pnt](GeoLib::LineSegment const& seg0,
                       GeoLib::LineSegment const& seg1)
            {
                // min dist for segment 0
                const double d0(
                    std::min(MathLib::sqrDist(beg_pnt, seg0.getBeginPoint()),
                             MathLib::sqrDist(beg_pnt, seg0.getEndPoint())));
                // min dist for segment 1
                const double d1(
                    std::min(MathLib::sqrDist(beg_pnt, seg1.getBeginPoint()),
                             MathLib::sqrDist(beg_pnt, seg1.getEndPoint())));
                return d0 < d1;
            });
        GeoLib::Point* pnt{
            MathLib::sqrDist(beg_pnt, min_dist_segment->getBeginPoint()) <
                    MathLib::sqrDist(beg_pnt, min_dist_segment->getEndPoint())
                ? new GeoLib::Point{min_dist_segment->getBeginPoint()}
                : new GeoLib::Point{min_dist_segment->getEndPoint()}};
        sub_segments.emplace_back(new GeoLib::Point{beg_pnt, 0}, pnt, true);
    }
    // sort all sub segments for the given segment (beg_pnt, end_pnt)
    GeoLib::sortSegments(beg_pnt, sub_segments);
 
    sub_segments.erase(std::unique(sub_segments.begin(), sub_segments.end()),
                       sub_segments.end());
 
    return sub_segments;
}
 
static void mapPointOnSurfaceElement(MeshLib::Element const& elem,
                                     MathLib::Point3d& q)
{
    // create plane equation: n*p = d
    auto const& p = elem.getNode(0)->asEigenVector3d();
    Eigen::Vector3d const n(MeshLib::FaceRule::getSurfaceNormal(elem));
    if (n[2] == 0.0)
    {  // vertical plane, z coordinate is arbitrary
        q[2] = p[2];
    }
    else
    {
        double const d(n.dot(p));
        q[2] = (d - n[0] * q[0] - n[1] * q[1]) / n[2];
    }
}
 
static std::vector<MeshLib::Element const*>
getCandidateElementsForLineSegmentIntersection(
    MeshLib::MeshElementGrid const& mesh_element_grid,
    GeoLib::LineSegment const& segment)
{
    GeoLib::LineSegment seg_deep_copy(
        new GeoLib::Point(segment.getBeginPoint()),
        new GeoLib::Point(segment.getEndPoint()), true);
    // modify z coordinates such that all surface elements around the line
    // segment are found
    seg_deep_copy.getBeginPoint()[2] = mesh_element_grid.getMinPoint()[2];
    seg_deep_copy.getEndPoint()[2] = mesh_element_grid.getMaxPoint()[2];
    std::array<MathLib::Point3d, 2> const pnts{
        {seg_deep_copy.getBeginPoint(), seg_deep_copy.getEndPoint()}};
    GeoLib::AABB aabb(pnts.cbegin(), pnts.cend());
 
    // TODO TF: remove after getElementsInVolume interface change
    auto convert_to_Point3d = [](Eigen::Vector3d const& v) {
        return MathLib::Point3d{std::array{v[0], v[1], v[2]}};
    };
 
    auto const min = convert_to_Point3d(aabb.getMinPoint());
    auto const max = convert_to_Point3d(aabb.getMaxPoint());
    auto candidate_elements = mesh_element_grid.getElementsInVolume(min, max);
 
    // make candidate elements unique
    BaseLib::makeVectorUnique(candidate_elements);
 
    return candidate_elements;
}
 
static bool snapPointToElementNode(MathLib::Point3d& p,
                                   MeshLib::Element const& elem, double rel_eps)
{
    // values will be initialized within computeSqrNodeDistanceRange
    auto const [sqr_min, sqr_max] = MeshLib::computeSqrNodeDistanceRange(elem);
 
    double const sqr_eps(rel_eps * rel_eps * sqr_min);
    for (std::size_t k(0); k < elem.getNumberOfNodes(); ++k)
    {
        auto const& node(*elem.getNode(k));
        double const sqr_dist_2d(MathLib::sqrDist2d(p, node));
        if (sqr_dist_2d < sqr_eps)
        {
#ifdef DEBUG_GEOMAPPER
            std::stringstream out;
            out.precision(std::numeric_limits<double>::digits10);
            out << "Segment point snapped from " << p;
#endif
            p = node;
#ifdef DEBUG_GEOMAPPER
            out << "to " << p;
            DBUG("{:s}", out.str());
#endif
            return true;
        }
    }
    return false;
}
 
static void insertSubSegments(
    GeoLib::Polyline& ply, GeoLib::PointVec& points,
    GeoLib::Polyline::SegmentIterator& segment_it,
    std::vector<GeoLib::LineSegment> const& sub_segments)
{
    std::size_t const j(segment_it.getSegmentNumber());
    std::size_t new_pnts_cnt(0);
    for (auto const& segment : sub_segments)
    {
        auto const begin_id(points.push_back(
            new GeoLib::Point(segment.getBeginPoint(), points.size())));
        if (ply.insertPoint(j + new_pnts_cnt + 1, begin_id))
        {
            new_pnts_cnt++;
        }
        auto const end_id(points.push_back(
            new GeoLib::Point(segment.getEndPoint(), points.size())));
        if (ply.insertPoint(j + new_pnts_cnt + 1, end_id))
        {
            new_pnts_cnt++;
        }
    }
    segment_it += new_pnts_cnt;
}
 
static void mapPolylineOnSurfaceMesh(
    GeoLib::Polyline& ply,
    GeoLib::PointVec& orig_points,
    MeshLib::MeshElementGrid const& mesh_element_grid)
{
    // for each segment ...
    for (auto segment_it(ply.begin()); segment_it != ply.end(); ++segment_it)
    {
        auto candidate_elements(getCandidateElementsForLineSegmentIntersection(
            mesh_element_grid, *segment_it));
 
        auto mapPoint = [&candidate_elements](MathLib::Point3d& p)
        {
            auto const* elem(
                findElementContainingPointXY(candidate_elements, p));
            if (elem)
            {
                if (!snapPointToElementNode(p, *elem, 1e-3))
                {
                    mapPointOnSurfaceElement(*elem, p);
                }
            }
            return elem;
        };
 
        // map segment begin and end point
        auto const* beg_elem(mapPoint((*segment_it).getBeginPoint()));
        auto const* end_elem(mapPoint((*segment_it).getEndPoint()));
 
        // Since the mapping of the segment begin and end points the coordinates
        // changed. The internal data structures of PointVec are possibly
        // invalid and hence it is necessary to re-create them.
        orig_points.resetInternalDataStructures();
 
        if (beg_elem == end_elem)
        {
            // TODO: handle cases: beg_elem == end_elem == nullptr
            // There are further checks necessary to determine which case we are
            // in:
            // 1. beg_elem == end_elem and the segment intersects elements
            // 2. beg_elem == end_elem and the segment does not intersect any
            // element, i.e., the segment is located outside of the mesh area
            //
            // Case 1 needs additional work.
            continue;
        }
 
        // map the line segment (and if necessary for the mapping partition it)
        std::vector<GeoLib::LineSegment> sub_segments(mapLineSegment(
            *segment_it, candidate_elements, beg_elem, end_elem));
 
        if (sub_segments.empty())
        {
            continue;
        }
 
        // The case sub_segment.size() == 1 is already handled above.
 
        if (sub_segments.size() > 1)
        {
            insertSubSegments(ply, orig_points, segment_it, sub_segments);
        }
    }
}
 
void GeoMapper::advancedMapOnMesh(MeshLib::Mesh const& mesh)
{
    // 1. extract surface
    delete _surface_mesh;
 
    if (mesh.getDimension() < 3)
    {
        _surface_mesh = new MeshLib::Mesh(mesh);
    }
    else
    {
        Eigen::Vector3d const dir({0, 0, -1});
        _surface_mesh = MeshToolsLib::MeshSurfaceExtraction::getMeshSurface(
            mesh, dir, 90 + 1e-6);
    }
 
    // 2. compute mesh grid for surface
    MeshLib::MeshElementGrid const mesh_element_grid(*_surface_mesh);
 
    // 3. map each polyline
    auto org_lines(_geo_objects.getPolylineVec(_geo_name));
    auto org_points(_geo_objects.getPointVecObj(_geo_name));
    for (auto org_line : *org_lines)
    {
        mapPolylineOnSurfaceMesh(*org_line, *org_points, mesh_element_grid);
    }
}
 
}  // end namespace MeshGeoToolsLib