conformalVoronoiMeshConformToSurface.C

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/*---------------------------------------------------------------------------*\
  =========                 |
  \\      /  F ield         | OpenFOAM: The Open Source CFD Toolbox
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     \\/     M anipulation  |
-------------------------------------------------------------------------------
    Copyright (C) 2012-2016 OpenFOAM Foundation
    Copyright (C) 2020 OpenCFD Ltd.
-------------------------------------------------------------------------------
License
    This file is part of OpenFOAM.
 
    OpenFOAM is free software: you can redistribute it and/or modify it
    under the terms of the GNU General Public License as published by
    the Free Software Foundation, either version 3 of the License, or
    (at your option) any later version.
 
    OpenFOAM is distributed in the hope that it will be useful, but WITHOUT
    ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or
    FITNESS FOR A PARTICULAR PURPOSE.  See the GNU General Public License
    for more details.
 
    You should have received a copy of the GNU General Public License
    along with OpenFOAM.  If not, see <http://www.gnu.org/licenses/>.
 
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#include "conformalVoronoiMesh.H"
#include "backgroundMeshDecomposition.H"
#include "vectorTools.H"
#include "indexedCellChecks.H"
#include "IOmanip.H"
#include "OBJstream.H"
 
using namespace Foam::vectorTools;
 
const Foam::scalar Foam::conformalVoronoiMesh::searchConeAngle
    = Foam::cos(degToRad(30.0));
 
const Foam::scalar Foam::conformalVoronoiMesh::searchAngleOppositeSurface
    = Foam::cos(degToRad(150.0));
 
 
// * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * * //
 
void Foam::conformalVoronoiMesh::conformToSurface()
{
    this->resetCellCount();
    // Index the cells
    for
    (
        Delaunay::Finite_cells_iterator cit = finite_cells_begin();
        cit != finite_cells_end();
        ++cit
    )
    {
        cit->cellIndex() = Cb::ctUnassigned;
    }
 
    if (!reconformToSurface())
    {
        // Reinsert stored surface conformation
        reinsertSurfaceConformation();
 
        if (Pstream::parRun())
        {
            sync(decomposition().procBounds());
        }
    }
    else
    {
        ptPairs_.clear();
 
        // Rebuild, insert and store new surface conformation
        buildSurfaceConformation();
 
        if (distributeBackground(*this))
        {
            if (Pstream::parRun())
            {
                sync(decomposition().procBounds());
            }
        }
 
        // Do not store the surface conformation until after it has been
        // (potentially) redistributed.
        storeSurfaceConformation();
    }
 
    // reportSurfaceConformationQuality();
}
 
 
bool Foam::conformalVoronoiMesh::reconformToSurface() const
{
    if
    (
        runTime_.timeIndex()
      % foamyHexMeshControls().surfaceConformationRebuildFrequency() == 0
    )
    {
        return true;
    }
 
    return false;
}
 
 
// TODO: Investigate topological tests
Foam::label Foam::conformalVoronoiMesh::findVerticesNearBoundaries()
{
    label countNearBoundaryVertices = 0;
 
    for
    (
        Delaunay::Finite_facets_iterator fit = finite_facets_begin();
        fit != finite_facets_end();
        ++fit
    )
    {
        Cell_handle c1 = fit->first;
        Cell_handle c2 = fit->first->neighbor(fit->second);
 
        if (is_infinite(c1) || is_infinite(c2))
        {
            continue;
        }
 
        pointFromPoint dE0 = c1->dual();
        pointFromPoint dE1 = c2->dual();
 
        if (!geometryToConformTo_.findSurfaceAnyIntersection(dE0, dE1))
        {
            continue;
        }
 
        for (label celli = 0; celli < 4; ++celli)
        {
            Vertex_handle v = c1->vertex(celli);
 
            if
            (
                !is_infinite(v)
             && v->internalPoint()
             && fit->second != celli
            )
            {
                v->setNearBoundary();
            }
        }
 
        for (label celli = 0; celli < 4; ++celli)
        {
            Vertex_handle v = c2->vertex(celli);
 
            if
            (
                !is_infinite(v)
             && v->internalPoint()
             && fit->second != celli
            )
            {
                v->setNearBoundary();
            }
        }
    }
 
    for
    (
        Delaunay::Finite_vertices_iterator vit = finite_vertices_begin();
        vit != finite_vertices_end();
        ++vit
    )
    {
        if (vit->nearBoundary())
        {
            countNearBoundaryVertices++;
        }
    }
 
    // Geometric test.
//    for
//    (
//        Delaunay::Finite_vertices_iterator vit = finite_vertices_begin();
//        vit != finite_vertices_end();
//        ++vit
//    )
//    {
//        if (vit->internalPoint() && !vit->nearBoundary())
//        {
//            pointFromPoint pt = topoint(vit->point());
//
//            const scalar range = sqr
//            (
//                foamyHexMeshControls().nearBoundaryDistanceCoeff()
//               *targetCellSize(pt)
//            );
//
//            pointIndexHit pHit;
//            label hitSurface;
//
//            geometryToConformTo_.findSurfaceNearest
//            (
//                pt,
//                range,
//                pHit,
//                hitSurface
//            );
//
//            if (pHit.hit())
//            {
//                vit->setNearBoundary();
//                countNearBoundaryVertices++;
//            }
//        }
//    }
 
    return countNearBoundaryVertices;
}
 
 
void Foam::conformalVoronoiMesh::buildSurfaceConformation()
{
    timeCheck("Start buildSurfaceConformation");
 
    Info<< nl
        << "Rebuilding surface conformation for more iterations"
        << endl;
 
    existingEdgeLocations_.clearStorage();
    existingSurfacePtLocations_.clearStorage();
 
    buildEdgeLocationTree(existingEdgeLocations_);
    buildSurfacePtLocationTree(existingSurfacePtLocations_);
 
    label initialTotalHits = 0;
 
    // Surface protrusion conformation is done in two steps.
    // 1. the dual edges (of all internal vertices) can stretch to
    //    'infinity' so any intersection would be badly behaved. So
    //    just find the nearest point on the geometry and insert point
    //    pairs.
    // Now most of the surface conformation will be done with some
    // residual protrusions / incursions.
    // 2. find any segments of dual edges outside the geometry. Shoot
    //    ray from Delaunay vertex to middle of this segment and introduce
    //    point pairs. This will handle e.g.
 
    // protruding section of face:
    //
    //     internal
    // \             /
    // -+-----------+-- boundary
    //   \         /
    //     --------
    //
    // Shoot ray and find intersection with outside segment (x) and
    // introduce point pair (..)
    //
    //        |
    // \      .      /
    // -+-----|-----+-- boundary
    //   \    .    /
    //     ---x----
 
    // Find vertices near boundaries to speed up subsequent checks.
    label countNearBoundaryVertices = findVerticesNearBoundaries();
 
    Info<< "    Vertices marked as being near a boundary: "
        << returnReduce(countNearBoundaryVertices, sumOp<label>())
        << " (estimated)" << endl;
 
    timeCheck("After set near boundary");
 
    const scalar edgeSearchDistCoeffSqr =
        foamyHexMeshControls().edgeSearchDistCoeffSqr();
 
    const scalar surfacePtReplaceDistCoeffSqr =
        foamyHexMeshControls().surfacePtReplaceDistCoeffSqr();
 
    const label AtoV = label(6/Foam::pow(scalar(number_of_vertices()), 3));
 
    // Initial surface protrusion conformation - nearest surface point
    {
        pointIndexHitAndFeatureDynList featureEdgeHits(AtoV/4);
        pointIndexHitAndFeatureDynList surfaceHits(AtoV);
        DynamicList<label> edgeToTreeShape(AtoV/4);
        DynamicList<label> surfaceToTreeShape(AtoV);
 
        Map<scalar> surfacePtToEdgePtDist(AtoV/4);
 
        for
        (
            Delaunay::Finite_vertices_iterator vit = finite_vertices_begin();
            vit != finite_vertices_end();
            vit++
        )
        {
            if (vit->nearBoundary())
            {
                pointIndexHitAndFeatureDynList surfaceIntersections(AtoV);
 
                if
                (
                    dualCellSurfaceAllIntersections
                    (
                        vit,
                        surfaceIntersections
                    )
                )
                {
                    // meshTools::writeOBJ(Pout, vert);
                    // meshTools::writeOBJ(Pout, surfHit.hitPoint());
                    // Pout<< "l cr0 cr1" << endl;
 
                    addSurfaceAndEdgeHits
                    (
                        topoint(vit->point()),
                        surfaceIntersections,
                        surfacePtReplaceDistCoeffSqr,
                        edgeSearchDistCoeffSqr,
                        surfaceHits,
                        featureEdgeHits,
                        surfaceToTreeShape,
                        edgeToTreeShape,
                        surfacePtToEdgePtDist,
                        true
                    );
                }
                else
                {
                    vit->setInternal();
                    countNearBoundaryVertices--;
                }
            }
        }
 
        Info<< "    Vertices marked as being near a boundary: "
            << returnReduce(countNearBoundaryVertices, sumOp<label>())
            << " (after dual surface intersection)" << endl;
 
        label nVerts = number_of_vertices();
        label nSurfHits = surfaceHits.size();
        label nFeatEdHits = featureEdgeHits.size();
 
        if (Pstream::parRun())
        {
            reduce(nVerts, sumOp<label>());
            reduce(nSurfHits, sumOp<label>());
            reduce(nFeatEdHits, sumOp<label>());
        }
 
        Info<< nl << "Initial conformation" << nl
            << "    Number of vertices " << nVerts << nl
            << "    Number of surface hits " << nSurfHits << nl
            << "    Number of edge hits " << nFeatEdHits
            << endl;
 
        // In parallel, synchronise the surface trees
        if (Pstream::parRun())
        {
            synchroniseSurfaceTrees(surfaceToTreeShape, surfaceHits);
        }
 
        DynamicList<Vb> pts(2*surfaceHits.size() + 3*featureEdgeHits.size());
 
        insertSurfacePointPairs
        (
            surfaceHits,
            "surfaceConformationLocations_initial.obj",
            pts
        );
 
        // In parallel, synchronise the edge trees
        if (Pstream::parRun())
        {
            synchroniseEdgeTrees(edgeToTreeShape, featureEdgeHits);
        }
 
        insertEdgePointGroups
        (
            featureEdgeHits,
            "edgeConformationLocations_initial.obj",
            pts
        );
 
        pts.shrink();
 
        Map<label> oldToNewIndices = insertPointPairs(pts, true, true);
 
        // Re-index the point pairs
        ptPairs_.reIndex(oldToNewIndices);
 
        //writePointPairs("pointPairs_initial.obj");
 
        // Remove location from surface/edge tree
 
        timeCheck("After initial conformation");
 
        initialTotalHits = nSurfHits + nFeatEdHits;
    }
 
    // Remember which vertices were referred to each processor so only updates
    // are sent.
    PtrList<labelPairHashSet> referralVertices(Pstream::nProcs());
 
    // Store the vertices that have been received and added from each processor
    // already so that there is no attempt to add them more than once.
    autoPtr<labelPairHashSet> receivedVertices;
 
    if (Pstream::parRun())
    {
        forAll(referralVertices, proci)
        {
            if (proci != Pstream::myProcNo())
            {
                referralVertices.set
                (
                    proci,
                    new labelPairHashSet(number_of_vertices()/Pstream::nProcs())
                );
            }
        }
 
        receivedVertices.reset
        (
            new labelPairHashSet(number_of_vertices()/Pstream::nProcs())
        );
 
        // Build the parallel interface the initial surface conformation
        sync
        (
            decomposition_().procBounds(),
            referralVertices,
            receivedVertices()
        );
    }
 
    label iterationNo = 0;
 
    label maxIterations = foamyHexMeshControls().maxConformationIterations();
 
    scalar iterationToInitialHitRatioLimit =
        foamyHexMeshControls().iterationToInitialHitRatioLimit();
 
    label hitLimit = label(iterationToInitialHitRatioLimit*initialTotalHits);
 
    Info<< nl << "Stopping iterations when: " << nl
        << "    total number of hits drops below "
        << iterationToInitialHitRatioLimit
        << " of initial hits (" << hitLimit << ")" << nl
        << " or " << nl
        << "    maximum number of iterations (" << maxIterations
        << ") is reached"
        << endl;
 
    // Set totalHits to a large enough positive value to enter the while loop on
    // the first iteration
    label totalHits = initialTotalHits;
 
    while
    (
        totalHits > 0
     && totalHits >= hitLimit
     && iterationNo < maxIterations
    )
    {
        pointIndexHitAndFeatureDynList surfaceHits(0.5*AtoV);
        pointIndexHitAndFeatureDynList featureEdgeHits(0.25*AtoV);
        DynamicList<label> surfaceToTreeShape(AtoV/2);
        DynamicList<label> edgeToTreeShape(AtoV/4);
 
        Map<scalar> surfacePtToEdgePtDist;
 
        for
        (
            Delaunay::Finite_vertices_iterator vit = finite_vertices_begin();
            vit != finite_vertices_end();
            ++vit
        )
        {
            // The initial surface conformation has already identified the
            // nearBoundary set of vertices.  Previously inserted boundary
            // points and referred internal vertices from other processors can
            // also generate protrusions and must be assessed too.
            if
            (
                vit->nearBoundary()
             || vit->internalBoundaryPoint()
             || (vit->internalOrBoundaryPoint() && vit->referred())
            )
            {
                pointIndexHitAndFeatureDynList surfaceIntersections(0.5*AtoV);
 
                pointIndexHit surfHit;
                label hitSurface;
 
                // Find segments of dual face outside the geometry and find the
                // the middle of this
                dualCellLargestSurfaceProtrusion(vit, surfHit, hitSurface);
 
                if (surfHit.hit())
                {
                    surfaceIntersections.append
                    (
                        pointIndexHitAndFeature(surfHit, hitSurface)
                    );
 
                    addSurfaceAndEdgeHits
                    (
                        topoint(vit->point()),
                        surfaceIntersections,
                        surfacePtReplaceDistCoeffSqr,
                        edgeSearchDistCoeffSqr,
                        surfaceHits,
                        featureEdgeHits,
                        surfaceToTreeShape,
                        edgeToTreeShape,
                        surfacePtToEdgePtDist,
                        false
                    );
                }
                else
                {
                    // No surface hit detected so if internal then don't check
                    // again
                    if (vit->nearBoundary())
                    {
                        vit->setInternal();
                    }
                }
            }
            else if
            (
                vit->externalBoundaryPoint()
             || (vit->externalBoundaryPoint() && vit->referred())
            )
            {
                pointIndexHitAndFeatureDynList surfaceIntersections(0.5*AtoV);
 
                pointIndexHit surfHit;
                label hitSurface;
 
                // Detect slave (external vertices) whose dual face incurs
                // into nearby (other than originating) geometry
                dualCellLargestSurfaceIncursion(vit, surfHit, hitSurface);
 
                if (surfHit.hit())
                {
                    surfaceIntersections.append
                    (
                        pointIndexHitAndFeature(surfHit, hitSurface)
                    );
 
                    addSurfaceAndEdgeHits
                    (
                        topoint(vit->point()),
                        surfaceIntersections,
                        surfacePtReplaceDistCoeffSqr,
                        edgeSearchDistCoeffSqr,
                        surfaceHits,
                        featureEdgeHits,
                        surfaceToTreeShape,
                        edgeToTreeShape,
                        surfacePtToEdgePtDist,
                        false
                    );
                }
            }
        }
 
        label nVerts = number_of_vertices();
        label nSurfHits = surfaceHits.size();
        label nFeatEdHits = featureEdgeHits.size();
 
        if (Pstream::parRun())
        {
            reduce(nVerts, sumOp<label>());
            reduce(nSurfHits, sumOp<label>());
            reduce(nFeatEdHits, sumOp<label>());
        }
 
        Info<< nl << "Conformation iteration " << iterationNo << nl
            << "    Number of vertices " << nVerts << nl
            << "    Number of surface hits " << nSurfHits << nl
            << "    Number of edge hits " << nFeatEdHits
            << endl;
 
        totalHits = nSurfHits + nFeatEdHits;
 
        label nNotInserted = 0;
 
        if (totalHits > 0)
        {
            // In parallel, synchronise the surface trees
            if (Pstream::parRun())
            {
                nNotInserted +=
                    synchroniseSurfaceTrees(surfaceToTreeShape, surfaceHits);
            }
 
            DynamicList<Vb> pts
            (
                2*surfaceHits.size() + 3*featureEdgeHits.size()
            );
 
            insertSurfacePointPairs
            (
                surfaceHits,
                "surfaceConformationLocations_" + name(iterationNo) + ".obj",
                pts
            );
 
            // In parallel, synchronise the edge trees
            if (Pstream::parRun())
            {
                nNotInserted +=
                    synchroniseEdgeTrees(edgeToTreeShape, featureEdgeHits);
            }
 
            insertEdgePointGroups
            (
                featureEdgeHits,
                "edgeConformationLocations_" + name(iterationNo) + ".obj",
                pts
            );
 
            pts.shrink();
 
            Map<label> oldToNewIndices = insertPointPairs(pts, true, true);
 
            // Reindex the point pairs
            ptPairs_.reIndex(oldToNewIndices);
 
            //writePointPairs("pointPairs_" + name(iterationNo) + ".obj");
 
            if (Pstream::parRun())
            {
                sync
                (
                    decomposition_().procBounds(),
                    referralVertices,
                    receivedVertices()
                );
            }
        }
 
        timeCheck("Conformation iteration " + name(iterationNo));
 
        iterationNo++;
 
        if (iterationNo == maxIterations)
        {
            WarningInFunction
                << "Maximum surface conformation iterations ("
                << maxIterations <<  ") reached." << endl;
        }
 
        if (totalHits <= nNotInserted)
        {
            Info<< nl << "Total hits (" << totalHits
                << ") less than number of failed insertions (" << nNotInserted
                << "), stopping iterations" << endl;
            break;
        }
 
        if (totalHits < hitLimit)
        {
            Info<< nl << "Total hits (" << totalHits
                << ") less than limit (" << hitLimit
                << "), stopping iterations" << endl;
        }
    }
 
    edgeLocationTreePtr_.clear();
    surfacePtLocationTreePtr_.clear();
}
 
 
Foam::label Foam::conformalVoronoiMesh::synchroniseSurfaceTrees
(
    const DynamicList<label>& surfaceToTreeShape,
    pointIndexHitAndFeatureList& surfaceHits
)
{
    Info<< "    Surface tree synchronisation" << endl;
 
    pointIndexHitAndFeatureDynList synchronisedSurfLocations
    (
        surfaceHits.size()
    );
 
    List<pointIndexHitAndFeatureDynList> procSurfLocations(Pstream::nProcs());
 
    procSurfLocations[Pstream::myProcNo()] = surfaceHits;
 
    Pstream::gatherList(procSurfLocations);
    Pstream::scatterList(procSurfLocations);
 
    List<labelHashSet> hits(Pstream::nProcs());
 
    label nStoppedInsertion = 0;
 
    // Do the nearness tests here
    for (label proci = 0; proci < Pstream::nProcs(); ++proci)
    {
        // Skip own points
        if (proci >= Pstream::myProcNo())
        {
            continue;
        }
 
        const pointIndexHitAndFeatureList& otherSurfEdges =
            procSurfLocations[proci];
 
        forAll(otherSurfEdges, peI)
        {
            const Foam::point& pt = otherSurfEdges[peI].first().hitPoint();
 
            pointIndexHit nearest;
            pointIsNearSurfaceLocation(pt, nearest);
 
            pointIndexHit nearestEdge;
            pointIsNearFeatureEdgeLocation(pt, nearestEdge);
 
            if (nearest.hit() || nearestEdge.hit())
            {
                nStoppedInsertion++;
 
                if (!hits[proci].found(peI))
                {
                    hits[proci].insert(peI);
                }
            }
        }
    }
 
    Pstream::listCombineGather(hits, plusEqOp<labelHashSet>());
    Pstream::listCombineScatter(hits);
 
    forAll(surfaceHits, eI)
    {
        if (!hits[Pstream::myProcNo()].found(eI))
        {
            synchronisedSurfLocations.append(surfaceHits[eI]);
        }
        else
        {
            surfacePtLocationTreePtr_().remove(surfaceToTreeShape[eI]);
        }
    }
 
//    forAll(synchronisedSurfLocations, pI)
//    {
//        appendToSurfacePtTree
//        (
//            synchronisedSurfLocations[pI].first().hitPoint()
//        );
//    }
 
    const label nNotInserted = returnReduce(nStoppedInsertion, sumOp<label>());
 
    Info<< "        Not inserting total of " << nNotInserted << " locations"
        << endl;
 
    surfaceHits = synchronisedSurfLocations;
 
    return nNotInserted;
}
 
 
Foam::label Foam::conformalVoronoiMesh::synchroniseEdgeTrees
(
    const DynamicList<label>& edgeToTreeShape,
    pointIndexHitAndFeatureList& featureEdgeHits
)
{
    Info<< "    Edge tree synchronisation" << endl;
 
    pointIndexHitAndFeatureDynList synchronisedEdgeLocations
    (
        featureEdgeHits.size()
    );
 
    List<pointIndexHitAndFeatureDynList> procEdgeLocations(Pstream::nProcs());
 
    procEdgeLocations[Pstream::myProcNo()] = featureEdgeHits;
 
    Pstream::gatherList(procEdgeLocations);
    Pstream::scatterList(procEdgeLocations);
 
    List<labelHashSet> hits(Pstream::nProcs());
 
    label nStoppedInsertion = 0;
 
    // Do the nearness tests here
    for (label proci = 0; proci < Pstream::nProcs(); ++proci)
    {
        // Skip own points
        if (proci >= Pstream::myProcNo())
        {
            continue;
        }
 
        pointIndexHitAndFeatureList& otherProcEdges = procEdgeLocations[proci];
 
        forAll(otherProcEdges, peI)
        {
            const Foam::point& pt = otherProcEdges[peI].first().hitPoint();
 
            pointIndexHit nearest;
            pointIsNearFeatureEdgeLocation(pt, nearest);
 
            if (nearest.hit())
            {
//                Pout<< "Not inserting " << peI << " " << pt << " "
//                    << nearest.rawPoint() << " on proc " << proci
//                    << ", near edge = " << nearest
//                    << " near ftPt = "<< info
//                    << " " << featureEdgeExclusionDistanceSqr(pt)
//                    << endl;
 
                nStoppedInsertion++;
 
                if (!hits[proci].found(peI))
                {
                    hits[proci].insert(peI);
                }
            }
        }
    }
 
    Pstream::listCombineGather(hits, plusEqOp<labelHashSet>());
    Pstream::listCombineScatter(hits);
 
    forAll(featureEdgeHits, eI)
    {
        if (!hits[Pstream::myProcNo()].found(eI))
        {
            synchronisedEdgeLocations.append(featureEdgeHits[eI]);
        }
        else
        {
            edgeLocationTreePtr_().remove(edgeToTreeShape[eI]);
        }
    }
 
//    forAll(synchronisedEdgeLocations, pI)
//    {
//        appendToEdgeLocationTree
//        (
//            synchronisedEdgeLocations[pI].first().hitPoint()
//        );
//    }
 
    const label nNotInserted = returnReduce(nStoppedInsertion, sumOp<label>());
 
    Info<< "        Not inserting total of " << nNotInserted << " locations"
        << endl;
 
    featureEdgeHits = synchronisedEdgeLocations;
 
    return nNotInserted;
}
 
 
bool Foam::conformalVoronoiMesh::surfaceLocationConformsToInside
(
    const pointIndexHitAndFeature& info
) const
{
    if (info.first().hit())
    {
        vectorField norm(1);
 
        geometryToConformTo_.getNormal
        (
            info.second(),
            List<pointIndexHit>(1, info.first()),
            norm
        );
 
        const vector& n = norm[0];
 
        const scalar ppDist = pointPairDistance(info.first().hitPoint());
 
        const Foam::point innerPoint = info.first().hitPoint() - ppDist*n;
 
        if (!geometryToConformTo_.inside(innerPoint))
        {
            return false;
        }
 
        return true;
    }
 
    return false;
}
 
 
bool Foam::conformalVoronoiMesh::dualCellSurfaceAnyIntersection
(
    const Delaunay::Finite_vertices_iterator& vit
) const
{
    std::list<Facet> facets;
    incident_facets(vit, std::back_inserter(facets));
 
    for
    (
        std::list<Facet>::iterator fit=facets.begin();
        fit != facets.end();
        ++fit
    )
    {
        if
        (
            is_infinite(fit->first)
         || is_infinite(fit->first->neighbor(fit->second))
         || !fit->first->hasInternalPoint()
         || !fit->first->neighbor(fit->second)->hasInternalPoint()
        )
        {
            continue;
        }
 
        Foam::point dE0 = fit->first->dual();
        Foam::point dE1 = fit->first->neighbor(fit->second)->dual();
 
        if (Pstream::parRun())
        {
            Foam::point& a = dE0;
            Foam::point& b = dE1;
 
            bool inProc = clipLineToProc(topoint(vit->point()), a, b);
 
            // Check for the edge passing through a surface
            if
            (
                inProc
             && geometryToConformTo_.findSurfaceAnyIntersection(a, b)
            )
            {
                return true;
            }
        }
        else
        {
            if (geometryToConformTo_.findSurfaceAnyIntersection(dE0, dE1))
            {
                return true;
            }
        }
    }
 
    return false;
}
 
 
bool Foam::conformalVoronoiMesh::dualCellSurfaceAllIntersections
(
    const Delaunay::Finite_vertices_iterator& vit,
    pointIndexHitAndFeatureDynList& infoList
) const
{
    bool flagIntersection = false;
 
    std::list<Facet> facets;
    incident_facets(vit, std::back_inserter(facets));
 
    for
    (
        std::list<Facet>::iterator fit = facets.begin();
        fit != facets.end();
        ++fit
    )
    {
        if
        (
            is_infinite(fit->first)
         || is_infinite(fit->first->neighbor(fit->second))
         || !fit->first->hasInternalPoint()
         || !fit->first->neighbor(fit->second)->hasInternalPoint()
        )
        {
            continue;
        }
 
        // Construct the dual edge and search for intersections of the edge
        // with the surface
        Foam::point dE0 = fit->first->dual();
        Foam::point dE1 = fit->first->neighbor(fit->second)->dual();
 
        pointIndexHit infoIntersection;
        label hitSurfaceIntersection = -1;
 
        if (Pstream::parRun())
        {
            bool inProc = clipLineToProc(topoint(vit->point()), dE0, dE1);
 
            if (!inProc)
            {
                continue;
            }
        }
 
        geometryToConformTo_.findSurfaceNearestIntersection
        (
            dE0,
            dE1,
            infoIntersection,
            hitSurfaceIntersection
        );
 
        if (infoIntersection.hit())
        {
            vectorField norm(1);
 
            geometryToConformTo_.getNormal
            (
                hitSurfaceIntersection,
                List<pointIndexHit>(1, infoIntersection),
                norm
            );
 
            const vector& n = norm[0];
 
            pointFromPoint vertex = topoint(vit->point());
 
            const plane p(infoIntersection.hitPoint(), n);
 
            const plane::ray r(vertex, n);
 
            const scalar d = p.normalIntersect(r);
 
            Foam::point newPoint = vertex + d*n;
 
            pointIndexHitAndFeature info;
            geometryToConformTo_.findSurfaceNearest
            (
                newPoint,
                4.0*magSqr(newPoint - vertex),
                info.first(),
                info.second()
            );
 
            bool rejectPoint = false;
 
            if (!surfaceLocationConformsToInside(info))
            {
                rejectPoint = true;
            }
 
            if (!rejectPoint && info.first().hit())
            {
                if (!infoList.empty())
                {
                    forAll(infoList, hitI)
                    {
                        // Reject point if the point is already added
                        if
                        (
                            infoList[hitI].first().index()
                         == info.first().index()
                        )
                        {
                            rejectPoint = true;
                            break;
                        }
 
                        const Foam::point& p
                            = infoList[hitI].first().hitPoint();
 
                        const scalar separationDistance =
                            mag(p - info.first().hitPoint());
 
                        const scalar minSepDist =
                            sqr
                            (
                                foamyHexMeshControls().removalDistCoeff()
                               *targetCellSize(p)
                            );
 
                        // Reject the point if it is too close to another
                        // surface point.
                        // Could merge the points?
                        if (separationDistance < minSepDist)
                        {
                            rejectPoint = true;
                            break;
                        }
                    }
                }
            }
 
            // The normal ray from the vertex will not always result in a hit
            // because another surface may be in the way.
            if (!rejectPoint && info.first().hit())
            {
                flagIntersection = true;
                infoList.append(info);
            }
        }
    }
 
    return flagIntersection;
}
 
 
bool Foam::conformalVoronoiMesh::clipLineToProc
(
    const Foam::point& pt,
    Foam::point& a,
    Foam::point& b
) const
{
    bool inProc = false;
 
    pointIndexHit findAnyIntersection = decomposition_().findLine(a, b);
 
    if (!findAnyIntersection.hit())
    {
        pointIndexHit info = decomposition_().findLine(a, pt);
 
        if (!info.hit())
        {
            inProc = true;
        }
        else
        {
            inProc = false;
        }
    }
    else
    {
        pointIndexHit info = decomposition_().findLine(a, pt);
 
        if (!info.hit())
        {
            inProc = true;
            b = findAnyIntersection.hitPoint();
        }
        else
        {
            inProc = true;
            a = findAnyIntersection.hitPoint();
        }
    }
 
    return inProc;
}
 
 
void Foam::conformalVoronoiMesh::dualCellLargestSurfaceProtrusion
(
    const Delaunay::Finite_vertices_iterator& vit,
    pointIndexHit& surfHitLargest,
    label& hitSurfaceLargest
) const
{
    // Set no-hit data
    surfHitLargest = pointIndexHit();
    hitSurfaceLargest = -1;
 
    std::list<Facet> facets;
    finite_incident_facets(vit, std::back_inserter(facets));
 
    pointFromPoint vert = topoint(vit->point());
 
    scalar maxProtrusionDistance = maxSurfaceProtrusion(vert);
 
    for
    (
        std::list<Facet>::iterator fit = facets.begin();
        fit != facets.end();
        ++fit
    )
    {
        Cell_handle c1 = fit->first;
        Cell_handle c2 = fit->first->neighbor(fit->second);
 
        if
        (
            is_infinite(c1) || is_infinite(c2)
         || (
                !c1->internalOrBoundaryDualVertex()
             || !c2->internalOrBoundaryDualVertex()
            )
         || !c1->real() || !c2->real()
        )
        {
            continue;
        }
 
//        Foam::point endPt = 0.5*(c1->dual() + c2->dual());
        Foam::point endPt = c1->dual();
 
        if (magSqr(vert - c1->dual()) < magSqr(vert - c2->dual()))
        {
            endPt = c2->dual();
        }
 
        if
        (
            magSqr(vert - endPt)
          > magSqr(geometryToConformTo().globalBounds().mag())
        )
        {
            continue;
        }
 
        pointIndexHit surfHit;
        label hitSurface;
 
        geometryToConformTo_.findSurfaceNearestIntersection
        (
            vert,
            endPt,
            surfHit,
            hitSurface
        );
 
        if (surfHit.hit())
        {
            vectorField norm(1);
 
            allGeometry_[hitSurface].getNormal
            (
                List<pointIndexHit>(1, surfHit),
                norm
            );
 
            const vector& n = norm[0];
 
            const scalar normalProtrusionDistance
            (
                (endPt - surfHit.hitPoint()) & n
            );
 
            if (normalProtrusionDistance > maxProtrusionDistance)
            {
                const plane p(surfHit.hitPoint(), n);
 
                const plane::ray r(endPt, -n);
 
                const scalar d = p.normalIntersect(r);
 
                Foam::point newPoint = endPt - d*n;
 
                pointIndexHitAndFeature info;
                geometryToConformTo_.findSurfaceNearest
                (
                    newPoint,
                    4.0*magSqr(newPoint - endPt),
                    info.first(),
                    info.second()
                );
 
                if (info.first().hit())
                {
                    if
                    (
                        surfaceLocationConformsToInside
                        (
                            pointIndexHitAndFeature(info.first(), info.second())
                        )
                    )
                    {
                        surfHitLargest = info.first();
                        hitSurfaceLargest = info.second();
 
                        maxProtrusionDistance = normalProtrusionDistance;
                    }
                }
            }
        }
    }
 
    // Relying on short-circuit evaluation to not call for hitPoint when this
    // is a miss
    if
    (
        surfHitLargest.hit()
     && (
            Pstream::parRun()
         && !decomposition().positionOnThisProcessor(surfHitLargest.hitPoint())
        )
    )
    {
        // A protrusion was identified, but not penetrating on this processor,
        // so set no-hit data and allow the other that should have this point
        // referred to generate it.
        surfHitLargest = pointIndexHit();
        hitSurfaceLargest = -1;
    }
}
 
 
void Foam::conformalVoronoiMesh::dualCellLargestSurfaceIncursion
(
    const Delaunay::Finite_vertices_iterator& vit,
    pointIndexHit& surfHitLargest,
    label& hitSurfaceLargest
) const
{
    // Set no-hit data
    surfHitLargest = pointIndexHit();
    hitSurfaceLargest = -1;
 
    std::list<Facet> facets;
    finite_incident_facets(vit, std::back_inserter(facets));
 
    pointFromPoint vert = topoint(vit->point());
 
    scalar minIncursionDistance = -maxSurfaceProtrusion(vert);
 
    for
    (
        std::list<Facet>::iterator fit = facets.begin();
        fit != facets.end();
        ++fit
    )
    {
        Cell_handle c1 = fit->first;
        Cell_handle c2 = fit->first->neighbor(fit->second);
 
        if
        (
            is_infinite(c1) || is_infinite(c2)
         || (
                !c1->internalOrBoundaryDualVertex()
             || !c2->internalOrBoundaryDualVertex()
            )
         || !c1->real() || !c2->real()
        )
        {
            continue;
        }
 
//        Foam::point endPt = 0.5*(c1->dual() + c2->dual());
        Foam::point endPt = c1->dual();
 
        if (magSqr(vert - c1->dual()) < magSqr(vert - c2->dual()))
        {
            endPt = c2->dual();
        }
 
        if
        (
            magSqr(vert - endPt)
          > magSqr(geometryToConformTo().globalBounds().mag())
        )
        {
            continue;
        }
 
        pointIndexHit surfHit;
        label hitSurface;
 
        geometryToConformTo_.findSurfaceNearestIntersection
        (
            vert,
            endPt,
            surfHit,
            hitSurface
        );
 
        if (surfHit.hit())
        {
            vectorField norm(1);
 
            allGeometry_[hitSurface].getNormal
            (
                List<pointIndexHit>(1, surfHit),
                norm
            );
 
            const vector& n = norm[0];
 
            scalar normalIncursionDistance
            (
                (endPt - surfHit.hitPoint()) & n
            );
 
            if (normalIncursionDistance < minIncursionDistance)
            {
                const plane p(surfHit.hitPoint(), n);
 
                const plane::ray r(endPt, n);
 
                const scalar d = p.normalIntersect(r);
 
                Foam::point newPoint = endPt + d*n;
 
                pointIndexHitAndFeature info;
                geometryToConformTo_.findSurfaceNearest
                (
                    newPoint,
                    4.0*magSqr(newPoint - endPt),
                    info.first(),
                    info.second()
                );
 
                if (info.first().hit())
                {
                    if
                    (
                        surfaceLocationConformsToInside
                        (
                            pointIndexHitAndFeature(info.first(), info.second())
                        )
                    )
                    {
                        surfHitLargest = info.first();
                        hitSurfaceLargest = info.second();
 
                        minIncursionDistance = normalIncursionDistance;
                    }
                }
            }
        }
    }
 
    // Relying on short-circuit evaluation to not call for hitPoint when this
    // is a miss
    if
    (
        surfHitLargest.hit()
     && (
            Pstream::parRun()
         && !decomposition().positionOnThisProcessor(surfHitLargest.hitPoint())
        )
    )
    {
        // A protrusion was identified, but not penetrating on this processor,
        // so set no-hit data and allow the other that should have this point
        // referred to generate it.
        surfHitLargest = pointIndexHit();
        hitSurfaceLargest = -1;
    }
}
 
 
void Foam::conformalVoronoiMesh::reportProcessorOccupancy()
{
    for
    (
        Delaunay::Finite_vertices_iterator vit = finite_vertices_begin();
        vit != finite_vertices_end();
        vit++
    )
    {
        if (vit->real())
        {
            if
            (
                Pstream::parRun()
             && !decomposition().positionOnThisProcessor(topoint(vit->point()))
            )
            {
                Pout<< topoint(vit->point()) << " is not on this processor "
                    << endl;
            }
        }
    }
}
 
 
//void Foam::conformalVoronoiMesh::reportSurfaceConformationQuality()
//{
//    Info<< nl << "Check surface conformation quality" << endl;
//
//    for
//    (
//        Delaunay::Finite_vertices_iterator vit = finite_vertices_begin();
//        vit != finite_vertices_end();
//        vit++
//    )
//    {
//        if (vit->internalOrBoundaryPoint())
//        {
//            Foam::point vert(topoint(vit->point()));
//            pointIndexHit surfHit;
//            label hitSurface;
//
//            dualCellLargestSurfaceProtrusion(vit, surfHit, hitSurface);
//
//            if (surfHit.hit())
//            {
//                Pout<< nl << "Residual penetration: " << nl
//                    << vit->index() << nl
//                    << vit->type() << nl
//                    << vit->ppMaster() << nl
//                    << "nearFeaturePt "
//                    << nearFeaturePt(surfHit.hitPoint()) << nl
//                    << vert << nl
//                    << surfHit.hitPoint()
//                    << endl;
//            }
//        }
//    }
//
//    {
//        // Assess close surface points
//
//        setVertexSizeAndAlignment();
//
//        for
//        (
//            Delaunay::Finite_vertices_iterator vit = finite_vertices_begin();
//            vit != finite_vertices_end();
//            vit++
//        )
//        {
//            if (vit->ppMaster())
//            {
//                std::list<Vertex_handle> adjacentVertices;
//
//                adjacent_vertices(vit, std::back_inserter(adjacentVertices));
//
//                Foam::point pt = topoint(vit->point());
//
//                // Pout<< nl << "vit: " << vit->index() << " "
//                //     << topoint(vit->point())
//                //     << endl;
//
//                // Pout<< adjacentVertices.size() << endl;
//
//                for
//                (
//                    std::list<Vertex_handle>::iterator
//                    avit = adjacentVertices.begin();
//                    avit != adjacentVertices.end();
//                    ++avit
//                )
//                {
//                    Vertex_handle avh = *avit;
//
//                    // The lower indexed vertex will perform the assessment
//                    if
//                    (
//                        avh->ppMaster()
//                     && vit->index() < avh->index()
//                     && vit->type() != avh->type()
//                    )
//                    {
//                        scalar targetSize = 0.2*averageAnyCellSize(vit, avh);
//
//                        // Pout<< "diff " << mag(pt - topoint(avh->point()))
//                        //     << " " << targetSize << endl;
//
//                        if
//                        (
//                            magSqr(pt - topoint(avh->point()))
//                          < sqr(targetSize)
//                        )
//                        {
//                            Pout<< nl << "vit: " << vit->index() << " "
//                                << topoint(vit->point())
//                                << endl;
//
//                            Pout<< "    adjacent too close: "
//                                << avh->index() << " "
//                                << topoint(avh->point())
//                                << endl;
//                        }
//                    }
//                }
//            }
//        }
//    }
//}
 
void Foam::conformalVoronoiMesh::limitDisplacement
(
    const Delaunay::Finite_vertices_iterator& vit,
    vector& displacement,
    label callCount
) const
{
    callCount++;
 
    // Do not allow infinite recursion
    if (callCount > 7)
    {
        displacement = Zero;
        return;
    }
 
    pointFromPoint pt = topoint(vit->point());
    Foam::point dispPt = pt + displacement;
 
    bool limit = false;
 
    pointIndexHit surfHit;
    label hitSurface;
 
    if (!geometryToConformTo_.globalBounds().contains(dispPt))
    {
        // If dispPt is outside bounding box then displacement cuts boundary
        limit = true;
    }
    else if (geometryToConformTo_.findSurfaceAnyIntersection(pt, dispPt))
    {
        // Full surface penetration test
        limit = true;
    }
    else
    {
        // Testing if the displaced position is too close to the surface.
        // Within twice the local surface point pair insertion distance is
        // considered "too close"
 
        scalar searchDistanceSqr = sqr
        (
            2*vit->targetCellSize()
           *foamyHexMeshControls().pointPairDistanceCoeff()
        );
 
        geometryToConformTo_.findSurfaceNearest
        (
            dispPt,
            searchDistanceSqr,
            surfHit,
            hitSurface
        );
 
        if (surfHit.hit())
        {
            limit = true;
 
            if (magSqr(pt - surfHit.hitPoint()) <= searchDistanceSqr)
            {
                // Cannot limit displacement, point closer than tolerance
                displacement = Zero;
                return;
            }
        }
    }
 
    if (limit)
    {
        // Halve the displacement and call this function again.  Will continue
        // recursively until the displacement is small enough.
 
        displacement *= 0.5;
 
        limitDisplacement(vit, displacement, callCount);
    }
}
 
 
Foam::scalar Foam::conformalVoronoiMesh::angleBetweenSurfacePoints
(
    Foam::point pA,
    Foam::point pB
) const
{
    pointIndexHit pAhit;
    label pAsurfaceHit = -1;
 
    const scalar searchDist = 5.0*targetCellSize(pA);
 
    geometryToConformTo_.findSurfaceNearest
    (
        pA,
        searchDist,
        pAhit,
        pAsurfaceHit
    );
 
    if (!pAhit.hit())
    {
        return constant::mathematical::pi;
    }
 
    vectorField norm(1);
 
    allGeometry_[pAsurfaceHit].getNormal
    (
        List<pointIndexHit>(1, pAhit),
        norm
    );
 
    const vector nA = norm[0];
 
    pointIndexHit pBhit;
    label pBsurfaceHit = -1;
 
    geometryToConformTo_.findSurfaceNearest
    (
        pB,
        searchDist,
        pBhit,
        pBsurfaceHit
    );
 
    if (!pBhit.hit())
    {
        return constant::mathematical::pi;
    }
 
    allGeometry_[pBsurfaceHit].getNormal
    (
        List<pointIndexHit>(1, pBhit),
        norm
    );
 
    const vector nB = norm[0];
 
    return vectorTools::cosPhi(nA, nB);
}
 
 
bool Foam::conformalVoronoiMesh::nearSurfacePoint
(
    pointIndexHitAndFeature& pHit
) const
{
    const Foam::point& pt = pHit.first().hitPoint();
 
    pointIndexHit closePoint;
    const bool closeToSurfacePt = pointIsNearSurfaceLocation(pt, closePoint);
 
    if
    (
        closeToSurfacePt
     && (
            magSqr(pt - closePoint.hitPoint())
          > sqr(pointPairDistance(pt))
        )
    )
    {
        const scalar cosAngle =
            angleBetweenSurfacePoints(pt, closePoint.hitPoint());
 
        // TODO: make this tolerance run-time selectable?
        if (cosAngle < searchAngleOppositeSurface)
        {
            pointIndexHit pCloseHit;
            label pCloseSurfaceHit = -1;
 
            const scalar searchDist = targetCellSize(closePoint.hitPoint());
 
            geometryToConformTo_.findSurfaceNearest
            (
                closePoint.hitPoint(),
                searchDist,
                pCloseHit,
                pCloseSurfaceHit
            );
 
            vectorField norm(1);
 
            allGeometry_[pCloseSurfaceHit].getNormal
            (
                List<pointIndexHit>(1, pCloseHit),
                norm
            );
 
            const vector& nA = norm[0];
 
            pointIndexHit oppositeHit;
            label oppositeSurfaceHit = -1;
 
            geometryToConformTo_.findSurfaceNearestIntersection
            (
                closePoint.hitPoint() + 0.5*pointPairDistance(pt)*nA,
                closePoint.hitPoint() + 5*targetCellSize(pt)*nA,
                oppositeHit,
                oppositeSurfaceHit
            );
 
            if (oppositeHit.hit())
            {
                // Replace point
                pHit.first() = oppositeHit;
                pHit.second() = oppositeSurfaceHit;
 
                return !closeToSurfacePt;
            }
        }
    }
 
    return closeToSurfacePt;
}
 
 
bool Foam::conformalVoronoiMesh::appendToSurfacePtTree
(
    const Foam::point& pt
) const
{
   label startIndex = existingSurfacePtLocations_.size();
 
   existingSurfacePtLocations_.append(pt);
 
   label endIndex = existingSurfacePtLocations_.size();
 
   return surfacePtLocationTreePtr_().insert(startIndex, endIndex);
}
 
 
bool Foam::conformalVoronoiMesh::appendToEdgeLocationTree
(
    const Foam::point& pt
) const
{
   label startIndex = existingEdgeLocations_.size();
 
   existingEdgeLocations_.append(pt);
 
   label endIndex = existingEdgeLocations_.size();
 
   return edgeLocationTreePtr_().insert(startIndex, endIndex);
}
 
 
Foam::List<Foam::pointIndexHit>
Foam::conformalVoronoiMesh::nearestFeatureEdgeLocations
(
    const Foam::point& pt
) const
{
    const scalar exclusionRangeSqr = featureEdgeExclusionDistanceSqr(pt);
 
    labelList elems
        = edgeLocationTreePtr_().findSphere(pt, exclusionRangeSqr);
 
    DynamicList<pointIndexHit> dynPointHit;
 
    forAll(elems, elemI)
    {
        label index = elems[elemI];
 
        const Foam::point& pointi
            = edgeLocationTreePtr_().shapes().shapePoints()[index];
 
        pointIndexHit nearHit(true, pointi, index);
 
        dynPointHit.append(nearHit);
    }
 
    return dynPointHit;
}
 
 
bool Foam::conformalVoronoiMesh::pointIsNearFeatureEdgeLocation
(
    const Foam::point& pt
) const
{
    const scalar exclusionRangeSqr = featureEdgeExclusionDistanceSqr(pt);
 
    pointIndexHit info
        = edgeLocationTreePtr_().findNearest(pt, exclusionRangeSqr);
 
    return info.hit();
}
 
 
bool Foam::conformalVoronoiMesh::pointIsNearFeatureEdgeLocation
(
    const Foam::point& pt,
    pointIndexHit& info
) const
{
    const scalar exclusionRangeSqr = featureEdgeExclusionDistanceSqr(pt);
 
    info = edgeLocationTreePtr_().findNearest(pt, exclusionRangeSqr);
 
    return info.hit();
}
 
 
bool Foam::conformalVoronoiMesh::pointIsNearSurfaceLocation
(
    const Foam::point& pt
) const
{
    pointIndexHit info;
 
    pointIsNearSurfaceLocation(pt, info);
 
    return info.hit();
}
 
 
bool Foam::conformalVoronoiMesh::pointIsNearSurfaceLocation
(
    const Foam::point& pt,
    pointIndexHit& info
) const
{
    const scalar exclusionRangeSqr = surfacePtExclusionDistanceSqr(pt);
 
    info = surfacePtLocationTreePtr_().findNearest(pt, exclusionRangeSqr);
 
    return info.hit();
}
 
 
bool Foam::conformalVoronoiMesh::nearFeatureEdgeLocation
(
    const pointIndexHit& pHit,
    pointIndexHit& nearestEdgeHit
) const
{
    const Foam::point& pt = pHit.hitPoint();
 
    const scalar exclusionRangeSqr = featureEdgeExclusionDistanceSqr(pt);
 
    bool closeToFeatureEdge =
        pointIsNearFeatureEdgeLocation(pt, nearestEdgeHit);
 
    if (closeToFeatureEdge)
    {
        List<pointIndexHit> nearHits = nearestFeatureEdgeLocations(pt);
 
        forAll(nearHits, elemI)
        {
            pointIndexHit& info = nearHits[elemI];
 
            // Check if the edge location that the new edge location is near to
            // "might" be on a different edge. If so, add it anyway.
            pointIndexHit edgeHit;
            label featureHit = -1;
 
            geometryToConformTo_.findEdgeNearest
            (
                pt,
                exclusionRangeSqr,
                edgeHit,
                featureHit
            );
 
            const extendedFeatureEdgeMesh& eMesh
                = geometryToConformTo_.features()[featureHit];
 
            const vector& edgeDir = eMesh.edgeDirections()[edgeHit.index()];
 
            const vector lineBetweenPoints = pt - info.hitPoint();
 
            const scalar cosAngle
                = vectorTools::cosPhi(edgeDir, lineBetweenPoints);
 
            // Allow the point to be added if it is almost at right angles to
            // the other point. Also check it is not the same point.
    //        Info<< cosAngle<< " "
    //            << radToDeg(acos(cosAngle)) << " "
    //            << searchConeAngle << " "
    //            << radToDeg(acos(searchConeAngle)) << endl;
 
            if
            (
                mag(cosAngle) < searchConeAngle
             && (mag(lineBetweenPoints) > pointPairDistance(pt))
            )
            {
                //pt = edgeHit.hitPoint();
                //pHit.setPoint(pt);
                closeToFeatureEdge = false;
            }
            else
            {
                closeToFeatureEdge = true;
                break;
            }
        }
    }
 
    return closeToFeatureEdge;
}
 
 
void Foam::conformalVoronoiMesh::buildEdgeLocationTree
(
    const DynamicList<Foam::point>& existingEdgeLocations
) const
{
    treeBoundBox overallBb
    (
        geometryToConformTo_.globalBounds().extend(rndGen_, 1e-4)
    );
 
    overallBb.min() -= Foam::point::uniform(ROOTVSMALL);
    overallBb.max() += Foam::point::uniform(ROOTVSMALL);
 
    edgeLocationTreePtr_.reset
    (
        new dynamicIndexedOctree<dynamicTreeDataPoint>
        (
            dynamicTreeDataPoint(existingEdgeLocations),
            overallBb,  // overall search domain
            10,         // max levels, n/a
            20.0,       // maximum ratio of cubes v.s. cells
            100.0       // max. duplicity; n/a since no bounding boxes.
        )
    );
}
 
 
void Foam::conformalVoronoiMesh::buildSurfacePtLocationTree
(
    const DynamicList<Foam::point>& existingSurfacePtLocations
) const
{
    treeBoundBox overallBb
    (
        geometryToConformTo_.globalBounds().extend(rndGen_, 1e-4)
    );
 
    overallBb.min() -= Foam::point::uniform(ROOTVSMALL);
    overallBb.max() += Foam::point::uniform(ROOTVSMALL);
 
    surfacePtLocationTreePtr_.reset
    (
        new dynamicIndexedOctree<dynamicTreeDataPoint>
        (
            dynamicTreeDataPoint(existingSurfacePtLocations),
            overallBb,  // overall search domain
            10,         // max levels, n/a
            20.0,       // maximum ratio of cubes v.s. cells
            100.0       // max. duplicity; n/a since no bounding boxes.
        )
    );
}
 
 
void Foam::conformalVoronoiMesh::addSurfaceAndEdgeHits
(
    const Foam::point& vit,
    const pointIndexHitAndFeatureDynList& surfaceIntersections,
    scalar surfacePtReplaceDistCoeffSqr,
    scalar edgeSearchDistCoeffSqr,
    pointIndexHitAndFeatureDynList& surfaceHits,
    pointIndexHitAndFeatureDynList& featureEdgeHits,
    DynamicList<label>& surfaceToTreeShape,
    DynamicList<label>& edgeToTreeShape,
    Map<scalar>& surfacePtToEdgePtDist,
    bool firstPass
) const
{
    const scalar cellSize = targetCellSize(vit);
    const scalar cellSizeSqr = sqr(cellSize);
 
    forAll(surfaceIntersections, sI)
    {
        pointIndexHitAndFeature surfHitI = surfaceIntersections[sI];
 
        bool keepSurfacePoint = true;
 
        if (!surfHitI.first().hit())
        {
            continue;
        }
 
        const Foam::point& surfPt = surfHitI.first().hitPoint();
 
        bool isNearFeaturePt = nearFeaturePt(surfPt);
 
        bool isNearFeatureEdge = surfacePtNearFeatureEdge(surfPt);
 
        bool isNearSurfacePt = nearSurfacePoint(surfHitI);
 
        if (isNearFeaturePt || isNearSurfacePt || isNearFeatureEdge)
        {
            keepSurfacePoint = false;
        }
 
        List<List<pointIndexHit>> edHitsByFeature;
 
        labelList featuresHit;
 
        const scalar searchRadiusSqr = edgeSearchDistCoeffSqr*cellSizeSqr;
 
        geometryToConformTo_.findAllNearestEdges
        (
            surfPt,
            searchRadiusSqr,
            edHitsByFeature,
            featuresHit
        );
 
        forAll(edHitsByFeature, i)
        {
            const label featureHit = featuresHit[i];
 
            List<pointIndexHit>& edHits = edHitsByFeature[i];
 
            forAll(edHits, eHitI)
            {
                pointIndexHit& edHit = edHits[eHitI];
 
                if (edHit.hit())
                {
                    const Foam::point& edPt = edHit.hitPoint();
 
                    if
                    (
                        Pstream::parRun()
                     && !decomposition().positionOnThisProcessor(edPt)
                    )
                    {
                        // Do not insert
                        continue;
                    }
 
                    if (!nearFeaturePt(edPt))
                    {
                        if
                        (
                            magSqr(edPt - surfPt)
                          < surfacePtReplaceDistCoeffSqr*cellSizeSqr
                        )
                        {
                            // If the point is within a given distance of a
                            // feature edge, give control to edge control points
                            // instead, this will prevent "pits" forming.
 
                            // Allow if different surfaces
 
 
                            keepSurfacePoint = false;
                        }
 
                        pointIndexHit nearestEdgeHit;
 
                        if
                        (
//                            !pointIsNearFeatureEdgeLocation
//                            (
//                                edPt,
//                                nearestEdgeHit
//                            )
                            !nearFeatureEdgeLocation(edHit, nearestEdgeHit)
                        )
                        {
                            appendToEdgeLocationTree(edPt);
 
                            edgeToTreeShape.append
                            (
                                existingEdgeLocations_.size() - 1
                            );
 
                            // Do not place edge control points too close to a
                            // feature point or existing edge control points
                            featureEdgeHits.append
                            (
                                pointIndexHitAndFeature(edHit, featureHit)
                            );
 
//                            Info<< "Add " << existingEdgeLocations_.size() - 1
//                                << " " << magSqr(edPt - surfPt) << endl;
 
                            surfacePtToEdgePtDist.insert
                            (
                                existingEdgeLocations_.size() - 1,
                                magSqr(edPt - surfPt)
                            );
                        }
                        else if (firstPass)
                        {
                            label hitIndex = nearestEdgeHit.index();
 
//                            Info<< "Close to " << nearestEdgeHit << endl;
 
                            if
                            (
                                magSqr(edPt - surfPt)
                              < surfacePtToEdgePtDist[hitIndex]
                            )
                            {
                                featureEdgeHits[hitIndex] =
                                   pointIndexHitAndFeature(edHit, featureHit);
 
                                existingEdgeLocations_[hitIndex] =
                                    edHit.hitPoint();
                                surfacePtToEdgePtDist[hitIndex] =
                                    magSqr(edPt - surfPt);
 
                                // Change edge location in featureEdgeHits
                                // remove index from edge tree
                                // reinsert new point into tree
                                edgeLocationTreePtr_().remove(hitIndex);
                                edgeLocationTreePtr_().insert
                                (
                                    hitIndex,
                                    hitIndex + 1
                                );
                            }
                        }
                    }
                }
            }
        }
 
        if (keepSurfacePoint)
        {
            surfaceHits.append(surfHitI);
            appendToSurfacePtTree(surfPt);
            surfaceToTreeShape.append(existingSurfacePtLocations_.size() - 1);
 
//            addedPoints.write(surfPt);
        }
        else
        {
//            removedPoints.write(surfPt);
        }
    }
}
 
 
void Foam::conformalVoronoiMesh::storeSurfaceConformation()
{
    Info<< nl << "Storing surface conformation" << endl;
 
    surfaceConformationVertices_.clear();
 
    // Use a temporary dynamic list to speed up insertion.
    DynamicList<Vb> tempSurfaceVertices(number_of_vertices()/10);
 
    for
    (
        Delaunay::Finite_vertices_iterator vit = finite_vertices_begin();
        vit != finite_vertices_end();
        vit++
    )
    {
        // Store points that are not referred, part of a pair, but not feature
        // points
        if
        (
            !vit->referred()
         && vit->boundaryPoint()
         && !vit->featurePoint()
         && !vit->constrained()
        )
        {
            tempSurfaceVertices.append
            (
                Vb
                (
                    vit->point(),
                    vit->index(),
                    vit->type(),
                    Pstream::myProcNo()
                )
            );
        }
    }
 
    tempSurfaceVertices.shrink();
 
    surfaceConformationVertices_.transfer(tempSurfaceVertices);
 
    Info<< "    Stored "
        << returnReduce
        (
            label(surfaceConformationVertices_.size()),
            sumOp<label>()
        )
        << " vertices" << nl << endl;
}
 
 
void Foam::conformalVoronoiMesh::reinsertSurfaceConformation()
{
    Info<< nl << "Reinserting stored surface conformation" << endl;
 
    Map<label> oldToNewIndices =
        insertPointPairs(surfaceConformationVertices_, true, true);
 
    ptPairs_.reIndex(oldToNewIndices);
 
    bitSet selectedElems(surfaceConformationVertices_.size(), true);
 
    forAll(surfaceConformationVertices_, vI)
    {
        Vb& v = surfaceConformationVertices_[vI];
        label& vIndex = v.index();
 
        const auto iter = oldToNewIndices.cfind(vIndex);
 
        if (iter.found())
        {
            const label newIndex = *iter;
 
            if (newIndex != -1)
            {
                vIndex = newIndex;
            }
            else
            {
                selectedElems.unset(vI);
            }
        }
    }
 
    inplaceSubset<bitSet, List<Vb>>
    (
        selectedElems,
        surfaceConformationVertices_
    );
}
 
 
// ************************************************************************* //