triSurfaceMesh.C

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/*---------------------------------------------------------------------------*\
  =========                 |
  \\      /  F ield         | OpenFOAM: The Open Source CFD Toolbox
   \\    /   O peration     |
    \\  /    A nd           | Copyright (C) 2011-2015 OpenFOAM Foundation
     \\/     M anipulation  | Copyright (C) 2015 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/>.
 
\*---------------------------------------------------------------------------*/
 
#include "triSurfaceMesh.H"
#include "Random.H"
#include "addToRunTimeSelectionTable.H"
#include "EdgeMap.H"
#include "triSurfaceFields.H"
#include "Time.H"
#include "PatchTools.H"
 
// * * * * * * * * * * * * * * Static Data Members * * * * * * * * * * * * * //
 
namespace Foam
{
 
defineTypeNameAndDebug(triSurfaceMesh, 0);
addToRunTimeSelectionTable(searchableSurface, triSurfaceMesh, dict);
 
word triSurfaceMesh::meshSubDir = "triSurface";
 
}
 
// * * * * * * * * * * * * * Private Member Functions  * * * * * * * * * * * //
 
//Foam::word Foam::triSurfaceMesh::findRawInstance
//(
//    const Time& runTime,
//    const fileName& dir,
//    const word& name
//)
//{
//    // Check current time first
//    if (isFile(runTime.path()/runTime.timeName()/dir/name))
//    {
//        return runTime.timeName();
//    }
//    instantList ts = runTime.times();
//    label instanceI;
//
//    for (instanceI = ts.size()-1; instanceI >= 0; --instanceI)
//    {
//        if (ts[instanceI].value() <= runTime.timeOutputValue())
//        {
//            break;
//        }
//    }
//
//    // continue searching from here
//    for (; instanceI >= 0; --instanceI)
//    {
//        if (isFile(runTime.path()/ts[instanceI].name()/dir/name))
//        {
//            return ts[instanceI].name();
//        }
//    }
//
//
//    // not in any of the time directories, try constant
//
//    // Note. This needs to be a hard-coded constant, rather than the
//    // constant function of the time, because the latter points to
//    // the case constant directory in parallel cases
//
//    if (isFile(runTime.path()/runTime.constant()/dir/name))
//    {
//        return runTime.constant();
//    }
//
//    FatalErrorInFunction
//        << "Cannot find file \"" << name << "\" in directory "
//        << runTime.constant()/dir
//        << exit(FatalError);
//
//    return runTime.constant();
//}
 
 
//- Check file existence
const Foam::fileName& Foam::triSurfaceMesh::checkFile
(
    const fileName& fName,
    const fileName& objectName
)
{
    if (fName.empty())
    {
        FatalErrorInFunction
            << "Cannot find triSurfaceMesh starting from "
            << objectName << exit(FatalError);
    }
    return fName;
}
 
 
bool Foam::triSurfaceMesh::addFaceToEdge
(
    const edge& e,
    EdgeMap<label>& facesPerEdge
)
{
    EdgeMap<label>::iterator eFnd = facesPerEdge.find(e);
    if (eFnd != facesPerEdge.end())
    {
        if (eFnd() == 2)
        {
            return false;
        }
        eFnd()++;
    }
    else
    {
        facesPerEdge.insert(e, 1);
    }
    return true;
}
 
 
bool Foam::triSurfaceMesh::isSurfaceClosed() const
{
    const pointField& pts = triSurface::points();
 
    // Construct pointFaces. Let's hope surface has compact point
    // numbering ...
    labelListList pointFaces;
    invertManyToMany(pts.size(), *this, pointFaces);
 
    // Loop over all faces surrounding point. Count edges emanating from point.
    // Every edge should be used by two faces exactly.
    // To prevent doing work twice per edge only look at edges to higher
    // point
    EdgeMap<label> facesPerEdge(100);
    forAll(pointFaces, pointI)
    {
        const labelList& pFaces = pointFaces[pointI];
 
        facesPerEdge.clear();
        forAll(pFaces, i)
        {
            const triSurface::FaceType& f = triSurface::operator[](pFaces[i]);
            label fp = findIndex(f, pointI);
 
            // Something weird: if I expand the code of addFaceToEdge in both
            // below instances it gives a segmentation violation on some
            // surfaces. Compiler (4.3.2) problem?
 
 
            // Forward edge
            label nextPointI = f[f.fcIndex(fp)];
 
            if (nextPointI > pointI)
            {
                bool okFace = addFaceToEdge
                (
                    edge(pointI, nextPointI),
                    facesPerEdge
                );
 
                if (!okFace)
                {
                    return false;
                }
            }
            // Reverse edge
            label prevPointI = f[f.rcIndex(fp)];
 
            if (prevPointI > pointI)
            {
                bool okFace = addFaceToEdge
                (
                    edge(pointI, prevPointI),
                    facesPerEdge
                );
 
                if (!okFace)
                {
                    return false;
                }
            }
        }
 
        // Check for any edges used only once.
        forAllConstIter(EdgeMap<label>, facesPerEdge, iter)
        {
            if (iter() != 2)
            {
                return false;
            }
        }
    }
 
    return true;
}
 
 
// * * * * * * * * * * * * * * * * Constructors  * * * * * * * * * * * * * * //
 
Foam::triSurfaceMesh::triSurfaceMesh(const IOobject& io, const triSurface& s)
:
    searchableSurface(io),
    objectRegistry
    (
        IOobject
        (
            io.name(),
            io.instance(),
            io.local(),  //"triSurfaceFields",
            io.db(),
            io.readOpt(),
            io.writeOpt(),
            false       // searchableSurface already registered under name
        )
    ),
    triSurface(s),
    triSurfaceRegionSearch(static_cast<const triSurface&>(*this)),
    minQuality_(-1),
    surfaceClosed_(-1),
    outsideVolType_(volumeType::UNKNOWN)
{
    const pointField& pts = triSurface::points();
 
    bounds() = boundBox(pts, false);
}
 
 
Foam::triSurfaceMesh::triSurfaceMesh(const IOobject& io)
:
    // Find instance for triSurfaceMesh
    searchableSurface(io),
    //(
    //    IOobject
    //    (
    //        io.name(),
    //        io.time().findInstance(io.local(), word::null),
    //        io.local(),
    //        io.db(),
    //        io.readOpt(),
    //        io.writeOpt(),
    //        io.registerObject()
    //    )
    //),
    // Reused found instance in objectRegistry
    objectRegistry
    (
        IOobject
        (
            io.name(),
            static_cast<const searchableSurface&>(*this).instance(),
            io.local(), //"triSurfaceFields",
            io.db(),
            io.readOpt(),
            io.writeOpt(),
            false       // searchableSurface already registered under name
        )
    ),
    triSurface
    (
        checkFile
        (
            searchableSurface::filePath(),
            searchableSurface::objectPath()
        )
    ),
    triSurfaceRegionSearch(static_cast<const triSurface&>(*this)),
    minQuality_(-1),
    surfaceClosed_(-1),
    outsideVolType_(volumeType::UNKNOWN)
{
    const pointField& pts = triSurface::points();
 
    bounds() = boundBox(pts, false);
}
 
 
Foam::triSurfaceMesh::triSurfaceMesh
(
    const IOobject& io,
    const dictionary& dict
)
:
    searchableSurface(io),
    //(
    //    IOobject
    //    (
    //        io.name(),
    //        io.time().findInstance(io.local(), word::null),
    //        io.local(),
    //        io.db(),
    //        io.readOpt(),
    //        io.writeOpt(),
    //        io.registerObject()
    //    )
    //),
    // Reused found instance in objectRegistry
    objectRegistry
    (
        IOobject
        (
            io.name(),
            static_cast<const searchableSurface&>(*this).instance(),
            io.local(), //"triSurfaceFields",
            io.db(),
            io.readOpt(),
            io.writeOpt(),
            false       // searchableSurface already registered under name
        )
    ),
    triSurface
    (
        checkFile
        (
            searchableSurface::filePath(),
            searchableSurface::objectPath()
        )
    ),
    triSurfaceRegionSearch(static_cast<const triSurface&>(*this), dict),
    minQuality_(-1),
    surfaceClosed_(-1),
    outsideVolType_(volumeType::UNKNOWN)
{
    scalar scaleFactor = 0;
 
    // allow rescaling of the surface points
    // eg, CAD geometries are often done in millimeters
    if (dict.readIfPresent("scale", scaleFactor) && scaleFactor > 0)
    {
        Info<< searchableSurface::name() << " : using scale " << scaleFactor
            << endl;
        triSurface::scalePoints(scaleFactor);
    }
 
    const pointField& pts = triSurface::points();
 
    bounds() = boundBox(pts, false);
 
    // Have optional minimum quality for normal calculation
    if (dict.readIfPresent("minQuality", minQuality_) && minQuality_ > 0)
    {
        Info<< searchableSurface::name()
            << " : ignoring triangles with quality < "
            << minQuality_ << " for normals calculation." << endl;
    }
}
 
 
// * * * * * * * * * * * * * * * * Destructor  * * * * * * * * * * * * * * * //
 
Foam::triSurfaceMesh::~triSurfaceMesh()
{
    clearOut();
}
 
 
void Foam::triSurfaceMesh::clearOut()
{
    outsideVolType_ = volumeType::UNKNOWN;
    triSurfaceRegionSearch::clearOut();
    edgeTree_.clear();
    triSurface::clearOut();
}
 
 
// * * * * * * * * * * * * * * * Member Functions  * * * * * * * * * * * * * //
 
Foam::tmp<Foam::pointField> Foam::triSurfaceMesh::coordinates() const
{
    tmp<pointField> tPts(new pointField(8));
    pointField& pt = tPts();
 
    // Use copy to calculate face centres so they don't get stored
    pt = PrimitivePatch<triSurface::FaceType, SubList, const pointField&>
    (
        SubList<triSurface::FaceType>(*this, triSurface::size()),
        triSurface::points()
    ).faceCentres();
 
    return tPts;
}
 
 
void Foam::triSurfaceMesh::boundingSpheres
(
    pointField& centres,
    scalarField& radiusSqr
) const
{
    centres = coordinates();
    radiusSqr.setSize(size());
    radiusSqr = 0.0;
 
    const pointField& pts = triSurface::points();
 
    forAll(*this, faceI)
    {
        const labelledTri& f = triSurface::operator[](faceI);
        const point& fc = centres[faceI];
        forAll(f, fp)
        {
            const point& pt = pts[f[fp]];
            radiusSqr[faceI] = max(radiusSqr[faceI], Foam::magSqr(fc-pt));
        }
    }
 
    // Add a bit to make sure all points are tested inside
    radiusSqr += Foam::sqr(SMALL);
}
 
 
Foam::tmp<Foam::pointField> Foam::triSurfaceMesh::points() const
{
    return triSurface::points();
}
 
 
bool Foam::triSurfaceMesh::overlaps(const boundBox& bb) const
{
     const indexedOctree<treeDataTriSurface>& octree = tree();
 
     labelList indices = octree.findBox(treeBoundBox(bb));
 
     return !indices.empty();
}
 
 
void Foam::triSurfaceMesh::movePoints(const pointField& newPoints)
{
    outsideVolType_ = volumeType::UNKNOWN;
 
    // Update local information (instance, event number)
    searchableSurface::instance() = objectRegistry::time().timeName();
    objectRegistry::instance() = searchableSurface::instance();
 
    label event = getEvent();
    searchableSurface::eventNo() = event;
    objectRegistry::eventNo() = searchableSurface::eventNo();
 
    // Clear additional addressing
    triSurfaceRegionSearch::clearOut();
    edgeTree_.clear();
    triSurface::movePoints(newPoints);
 
    bounds() = boundBox(triSurface::points(), false);
}
 
 
const Foam::indexedOctree<Foam::treeDataEdge>&
Foam::triSurfaceMesh::edgeTree() const
{
    if (edgeTree_.empty())
    {
        // Boundary edges
        labelList bEdges
        (
            identity
            (
                nEdges()
               -nInternalEdges()
            )
          + nInternalEdges()
        );
 
        treeBoundBox bb(vector::zero, vector::zero);
 
        if (bEdges.size())
        {
            label nPoints;
            PatchTools::calcBounds
            (
                static_cast<const triSurface&>(*this),
                bb,
                nPoints
            );
 
            // Random number generator. Bit dodgy since not exactly random ;-)
            Random rndGen(65431);
 
            // Slightly extended bb. Slightly off-centred just so on symmetric
            // geometry there are less face/edge aligned items.
 
            bb = bb.extend(rndGen, 1e-4);
            bb.min() -= point(ROOTVSMALL, ROOTVSMALL, ROOTVSMALL);
            bb.max() += point(ROOTVSMALL, ROOTVSMALL, ROOTVSMALL);
        }
 
        scalar oldTol = indexedOctree<treeDataEdge>::perturbTol();
        indexedOctree<treeDataEdge>::perturbTol() = tolerance();
 
        edgeTree_.reset
        (
            new indexedOctree<treeDataEdge>
            (
                treeDataEdge
                (
                    false,          // cachebb
                    edges(),        // edges
                    localPoints(),  // points
                    bEdges          // selected edges
                ),
                bb,                 // bb
                maxTreeDepth(),      // maxLevel
                10,                 // leafsize
                3.0                 // duplicity
            )
        );
 
        indexedOctree<treeDataEdge>::perturbTol() = oldTol;
    }
    return edgeTree_();
}
 
 
const Foam::wordList& Foam::triSurfaceMesh::regions() const
{
    if (regions_.empty())
    {
        regions_.setSize(patches().size());
        forAll(regions_, regionI)
        {
            regions_[regionI] = patches()[regionI].name();
        }
    }
    return regions_;
}
 
 
// Find out if surface is closed.
bool Foam::triSurfaceMesh::hasVolumeType() const
{
    if (surfaceClosed_ == -1)
    {
        if (isSurfaceClosed())
        {
            surfaceClosed_ = 1;
        }
        else
        {
            surfaceClosed_ = 0;
        }
    }
 
    return surfaceClosed_ == 1;
}
 
 
void Foam::triSurfaceMesh::findNearest
(
    const pointField& samples,
    const scalarField& nearestDistSqr,
    List<pointIndexHit>& info
) const
{
    triSurfaceSearch::findNearest(samples, nearestDistSqr, info);
}
 
 
void Foam::triSurfaceMesh::findNearest
(
    const pointField& samples,
    const scalarField& nearestDistSqr,
    const labelList& regionIndices,
    List<pointIndexHit>& info
) const
{
    triSurfaceRegionSearch::findNearest
    (
        samples,
        nearestDistSqr,
        regionIndices,
        info
    );
}
 
 
void Foam::triSurfaceMesh::findLine
(
    const pointField& start,
    const pointField& end,
    List<pointIndexHit>& info
) const
{
    triSurfaceSearch::findLine(start, end, info);
}
 
 
void Foam::triSurfaceMesh::findLineAny
(
    const pointField& start,
    const pointField& end,
    List<pointIndexHit>& info
) const
{
    triSurfaceSearch::findLineAny(start, end, info);
}
 
 
void Foam::triSurfaceMesh::findLineAll
(
    const pointField& start,
    const pointField& end,
    List<List<pointIndexHit> >& info
) const
{
    triSurfaceSearch::findLineAll(start, end, info);
}
 
 
void Foam::triSurfaceMesh::getRegion
(
    const List<pointIndexHit>& info,
    labelList& region
) const
{
    region.setSize(info.size());
    forAll(info, i)
    {
        if (info[i].hit())
        {
            region[i] = triSurface::operator[](info[i].index()).region();
        }
        else
        {
            region[i] = -1;
        }
    }
}
 
 
void Foam::triSurfaceMesh::getNormal
(
    const List<pointIndexHit>& info,
    vectorField& normal
) const
{
    const triSurface& s = static_cast<const triSurface&>(*this);
    const pointField& pts = s.points();
 
    normal.setSize(info.size());
 
    if (minQuality_ >= 0)
    {
        // Make sure we don't use triangles with low quality since
        // normal is not reliable.
 
        const labelListList& faceFaces = s.faceFaces();
 
        forAll(info, i)
        {
            if (info[i].hit())
            {
                label faceI = info[i].index();
                normal[i] = s[faceI].normal(pts);
 
                scalar qual = s[faceI].tri(pts).quality();
 
                if (qual < minQuality_)
                {
                    // Search neighbouring triangles
                    const labelList& fFaces = faceFaces[faceI];
 
                    forAll(fFaces, j)
                    {
                        label nbrI = fFaces[j];
                        scalar nbrQual = s[nbrI].tri(pts).quality();
                        if (nbrQual > qual)
                        {
                            qual = nbrQual;
                            normal[i] = s[nbrI].normal(pts);
                        }
                    }
                }
 
                normal[i] /= mag(normal[i]) + VSMALL;
            }
            else
            {
                // Set to what?
                normal[i] = vector::zero;
            }
        }
    }
    else
    {
        forAll(info, i)
        {
            if (info[i].hit())
            {
                label faceI = info[i].index();
                //- Cached:
                //normal[i] = faceNormals()[faceI];
 
                //- Uncached
                normal[i] = s[faceI].normal(pts);
                normal[i] /= mag(normal[i]) + VSMALL;
            }
            else
            {
                // Set to what?
                normal[i] = vector::zero;
            }
        }
    }
}
 
 
void Foam::triSurfaceMesh::setField(const labelList& values)
{
    if (foundObject<triSurfaceLabelField>("values"))
    {
        triSurfaceLabelField& fld = const_cast<triSurfaceLabelField&>
        (
            lookupObject<triSurfaceLabelField>
            (
                "values"
            )
        );
        fld.field() = values;
    }
    else
    {
        autoPtr<triSurfaceLabelField> fldPtr
        (
            new triSurfaceLabelField
            (
                IOobject
                (
                    "values",
                    objectRegistry::time().timeName(),  // instance
                    meshSubDir,                         // local
                    *this,
                    IOobject::NO_READ,
                    IOobject::AUTO_WRITE
                ),
                *this,
                dimless,
                labelField(values)
            )
        );
 
        // Store field on triMesh
        fldPtr.ptr()->store();
    }
}
 
 
void Foam::triSurfaceMesh::getField
(
    const List<pointIndexHit>& info,
    labelList& values
) const
{
    if (foundObject<triSurfaceLabelField>("values"))
    {
        values.setSize(info.size());
 
        const triSurfaceLabelField& fld = lookupObject<triSurfaceLabelField>
        (
            "values"
        );
 
        forAll(info, i)
        {
            if (info[i].hit())
            {
                values[i] = fld[info[i].index()];
            }
        }
    }
}
 
 
void Foam::triSurfaceMesh::getVolumeType
(
    const pointField& points,
    List<volumeType>& volType
) const
{
    volType.setSize(points.size());
 
    scalar oldTol = indexedOctree<treeDataTriSurface>::perturbTol();
    indexedOctree<treeDataTriSurface>::perturbTol() = tolerance();
 
    forAll(points, pointI)
    {
        const point& pt = points[pointI];
 
        if (!tree().bb().contains(pt))
        {
            if (hasVolumeType())
            {
                // Precalculate and cache value for this outside point
                if (outsideVolType_ == volumeType::UNKNOWN)
                {
                    outsideVolType_ = tree().shapes().getVolumeType(tree(), pt);
                }
                volType[pointI] = outsideVolType_;
            }
            else
            {
                // Have to calculate directly as outside the octree
                volType[pointI] = tree().shapes().getVolumeType(tree(), pt);
            }
        }
        else
        {
            // - use cached volume type per each tree node
            volType[pointI] = tree().getVolumeType(pt);
        }
    }
 
    indexedOctree<treeDataTriSurface>::perturbTol() = oldTol;
}
 
 
//- Write using given format, version and compression
bool Foam::triSurfaceMesh::writeObject
(
    IOstream::streamFormat fmt,
    IOstream::versionNumber ver,
    IOstream::compressionType cmp
) const
{
    const Time& runTime = searchableSurface::time();
    const fileName& instance = searchableSurface::instance();
 
    if
    (
        instance != runTime.timeName()
     && instance != runTime.system()
     && instance != runTime.caseSystem()
     && instance != runTime.constant()
     && instance != runTime.caseConstant()
    )
    {
        const_cast<triSurfaceMesh&>(*this).searchableSurface::instance() =
            runTime.timeName();
        const_cast<triSurfaceMesh&>(*this).objectRegistry::instance() =
            runTime.timeName();
    }
 
    fileName fullPath(searchableSurface::objectPath());
 
    if (!mkDir(fullPath.path()))
    {
        return false;
    }
 
    triSurface::write(fullPath);
 
    if (!isFile(fullPath))
    {
        return false;
    }
 
    //return objectRegistry::writeObject(fmt, ver, cmp);
    return true;
}
 
 
// ************************************************************************* //