CCLib::ReferenceCloud* ccGenericPointCloud::getTheVisiblePoints()
{
if (!m_visibilityArray || m_visibilityArray->currentSize()<size())
return 0;
unsigned i,count = size();
assert(count == m_visibilityArray->currentSize());
//we create an entity with the 'visible' vertices only
CCLib::ReferenceCloud* rc = new CCLib::ReferenceCloud(this);
for (i=0;i<count;++i)
if (m_visibilityArray->getValue(i) > 0)
rc->addPointIndex(i);
return rc;
}
CCLib::ReferenceCloud* ccGenericPointCloud::getTheVisiblePoints() const
{
unsigned count = size();
assert(count == m_pointsVisibility->currentSize());
if (!m_pointsVisibility || m_pointsVisibility->currentSize() != count)
{
ccLog::Warning("[ccGenericPointCloud::getTheVisiblePoints] No visibility table instantiated!");
return 0;
}
//count the number of points to copy
unsigned pointCount = 0;
{
for (unsigned i=0; i<count; ++i)
if (m_pointsVisibility->getValue(i) == POINT_VISIBLE)
++pointCount;
}
if (pointCount == 0)
{
ccLog::Warning("[ccGenericPointCloud::getTheVisiblePoints] No point in selection");
return 0;
}
//we create an entity with the 'visible' vertices only
CCLib::ReferenceCloud* rc = new CCLib::ReferenceCloud(const_cast<ccGenericPointCloud*>(this));
if (rc->reserve(pointCount))
{
for (unsigned i=0; i<count; ++i)
if (m_pointsVisibility->getValue(i) == POINT_VISIBLE)
rc->addPointIndex(i); //can't fail (see above)
}
else
{
delete rc;
rc = 0;
ccLog::Error("[ccGenericPointCloud::getTheVisiblePoints] Not enough memory!");
}
return rc;
}
bool ccRegistrationTools::ICP( ccHObject* data,
ccHObject* model,
ccGLMatrix& transMat,
double &finalScale,
double& finalRMS,
unsigned& finalPointCount,
double minRMSDecrease,
unsigned maxIterationCount,
unsigned randomSamplingLimit,
bool removeFarthestPoints,
CCLib::ICPRegistrationTools::CONVERGENCE_TYPE method,
bool adjustScale,
double finalOverlapRatio/*=1.0*/,
bool useDataSFAsWeights/*=false*/,
bool useModelSFAsWeights/*=false*/,
int filters/*=CCLib::ICPRegistrationTools::SKIP_NONE*/,
int maxThreadCount/*=0*/,
QWidget* parent/*=0*/)
{
//progress bar
QScopedPointer<ccProgressDialog> progressDlg;
if (parent)
{
progressDlg.reset(new ccProgressDialog(false, parent));
}
Garbage<CCLib::GenericIndexedCloudPersist> cloudGarbage;
//if the 'model' entity is a mesh, we need to sample points on it
CCLib::GenericIndexedCloudPersist* modelCloud = nullptr;
ccGenericMesh* modelMesh = nullptr;
if (model->isKindOf(CC_TYPES::MESH))
{
modelMesh = ccHObjectCaster::ToGenericMesh(model);
modelCloud = modelMesh->getAssociatedCloud();
}
else
{
modelCloud = ccHObjectCaster::ToGenericPointCloud(model);
}
//if the 'data' entity is a mesh, we need to sample points on it
CCLib::GenericIndexedCloudPersist* dataCloud = nullptr;
if (data->isKindOf(CC_TYPES::MESH))
{
dataCloud = CCLib::MeshSamplingTools::samplePointsOnMesh(ccHObjectCaster::ToGenericMesh(data), s_defaultSampledPointsOnDataMesh, progressDlg.data());
if (!dataCloud)
{
ccLog::Error("[ICP] Failed to sample points on 'data' mesh!");
return false;
}
cloudGarbage.add(dataCloud);
}
else
{
dataCloud = ccHObjectCaster::ToGenericPointCloud(data);
}
//we activate a temporary scalar field for registration distances computation
CCLib::ScalarField* dataDisplayedSF = nullptr;
int oldDataSfIdx = -1, dataSfIdx = -1;
//if the 'data' entity is a real ccPointCloud, we can even create a proper temporary SF for registration distances
if (data->isA(CC_TYPES::POINT_CLOUD))
{
ccPointCloud* pc = static_cast<ccPointCloud*>(data);
dataDisplayedSF = pc->getCurrentDisplayedScalarField();
oldDataSfIdx = pc->getCurrentInScalarFieldIndex();
dataSfIdx = pc->getScalarFieldIndexByName(REGISTRATION_DISTS_SF);
if (dataSfIdx < 0)
dataSfIdx = pc->addScalarField(REGISTRATION_DISTS_SF);
if (dataSfIdx >= 0)
pc->setCurrentScalarField(dataSfIdx);
else
{
ccLog::Error("[ICP] Couldn't create temporary scalar field! Not enough memory?");
return false;
}
}
else
{
if (!dataCloud->enableScalarField())
{
ccLog::Error("[ICP] Couldn't create temporary scalar field! Not enough memory?");
return false;
}
}
//add a 'safety' margin to input ratio
static double s_overlapMarginRatio = 0.2;
finalOverlapRatio = std::max(finalOverlapRatio, 0.01); //1% minimum
//do we need to reduce the input point cloud (so as to be close
//to the theoretical number of overlapping points - but not too
//low so as we are not registered yet ;)
if (finalOverlapRatio < 1.0 - s_overlapMarginRatio)
{
//DGM we can now use 'approximate' distances as SAITO algorithm is exact (but with a coarse resolution)
//level = 7 if < 1.000.000
//level = 8 if < 10.000.000
//level = 9 if > 10.000.000
int gridLevel = static_cast<int>(floor(log10(static_cast<double>(std::max(dataCloud->size(), modelCloud->size()))))) + 2;
gridLevel = std::min(std::max(gridLevel, 7), 9);
int result = -1;
if (modelMesh)
{
CCLib::DistanceComputationTools::Cloud2MeshDistanceComputationParams c2mParams;
c2mParams.octreeLevel = gridLevel;
c2mParams.maxSearchDist = 0;
c2mParams.useDistanceMap = true;
c2mParams.signedDistances = false;
c2mParams.flipNormals = false;
c2mParams.multiThread = false;
result = CCLib::DistanceComputationTools::computeCloud2MeshDistance(dataCloud, modelMesh, c2mParams, progressDlg.data());
}
else
{
result = CCLib::DistanceComputationTools::computeApproxCloud2CloudDistance( dataCloud,
modelCloud,
gridLevel,
-1,
progressDlg.data());
}
if (result < 0)
{
ccLog::Error("Failed to determine the max (overlap) distance (not enough memory?)");
return false;
}
//determine the max distance that (roughly) corresponds to the input overlap ratio
ScalarType maxSearchDist = 0;
{
unsigned count = dataCloud->size();
std::vector<ScalarType> distances;
try
{
distances.resize(count);
}
catch (const std::bad_alloc&)
{
ccLog::Error("Not enough memory!");
return false;
}
for (unsigned i=0; i<count; ++i)
{
distances[i] = dataCloud->getPointScalarValue(i);
}
ParallelSort(distances.begin(), distances.end());
//now look for the max value at 'finalOverlapRatio+margin' percent
maxSearchDist = distances[static_cast<unsigned>(std::max(1.0,count*(finalOverlapRatio+s_overlapMarginRatio)))-1];
}
//evntually select the points with distance below 'maxSearchDist'
//(should roughly correspond to 'finalOverlapRatio + margin' percent)
{
CCLib::ReferenceCloud* refCloud = new CCLib::ReferenceCloud(dataCloud);
cloudGarbage.add(refCloud);
unsigned countBefore = dataCloud->size();
unsigned baseIncrement = static_cast<unsigned>(std::max(100.0,countBefore*finalOverlapRatio*0.05));
for (unsigned i=0; i<countBefore; ++i)
{
if (dataCloud->getPointScalarValue(i) <= maxSearchDist)
{
if ( refCloud->size() == refCloud->capacity()
&& !refCloud->reserve(refCloud->size() + baseIncrement) )
{
ccLog::Error("Not enough memory!");
return false;
}
refCloud->addPointIndex(i);
}
}
refCloud->resize(refCloud->size());
dataCloud = refCloud;
unsigned countAfter = dataCloud->size();
double keptRatio = static_cast<double>(countAfter)/countBefore;
ccLog::Print(QString("[ICP][Partial overlap] Selecting %1 points out of %2 (%3%) for registration").arg(countAfter).arg(countBefore).arg(static_cast<int>(100*keptRatio)));
//update the relative 'final overlap' ratio
finalOverlapRatio /= keptRatio;
}
}
//weights
CCLib::ScalarField* modelWeights = nullptr;
CCLib::ScalarField* dataWeights = nullptr;
{
if (!modelMesh && useModelSFAsWeights)
{
if (modelCloud == dynamic_cast<CCLib::GenericIndexedCloudPersist*>(model) && model->isA(CC_TYPES::POINT_CLOUD))
{
ccPointCloud* pc = static_cast<ccPointCloud*>(model);
modelWeights = pc->getCurrentDisplayedScalarField();
if (!modelWeights)
ccLog::Warning("[ICP] 'useDataSFAsWeights' is true but model has no displayed scalar field!");
}
else
{
ccLog::Warning("[ICP] 'useDataSFAsWeights' is true but only point cloud scalar fields can be used as weights!");
}
}
if (useDataSFAsWeights)
{
if (!dataDisplayedSF)
{
if (dataCloud == ccHObjectCaster::ToPointCloud(data))
ccLog::Warning("[ICP] 'useDataSFAsWeights' is true but data has no displayed scalar field!");
else
ccLog::Warning("[ICP] 'useDataSFAsWeights' is true but only point cloud scalar fields can be used as weights!");
}
else
{
dataWeights = dataDisplayedSF;
}
}
}
CCLib::ICPRegistrationTools::RESULT_TYPE result;
CCLib::PointProjectionTools::Transformation transform;
CCLib::ICPRegistrationTools::Parameters params;
{
params.convType = method;
params.minRMSDecrease = minRMSDecrease;
params.nbMaxIterations = maxIterationCount;
params.adjustScale = adjustScale;
params.filterOutFarthestPoints = removeFarthestPoints;
params.samplingLimit = randomSamplingLimit;
params.finalOverlapRatio = finalOverlapRatio;
params.modelWeights = modelWeights;
params.dataWeights = dataWeights;
params.transformationFilters = filters;
params.maxThreadCount = maxThreadCount;
}
result = CCLib::ICPRegistrationTools::Register( modelCloud,
modelMesh,
dataCloud,
params,
transform,
finalRMS,
finalPointCount,
static_cast<CCLib::GenericProgressCallback*>(progressDlg.data()));
if (result >= CCLib::ICPRegistrationTools::ICP_ERROR)
{
ccLog::Error("Registration failed: an error occurred (code %i)",result);
}
else if (result == CCLib::ICPRegistrationTools::ICP_APPLY_TRANSFO)
{
transMat = FromCCLibMatrix<PointCoordinateType, float>(transform.R, transform.T, transform.s);
finalScale = transform.s;
}
//remove temporary SF (if any)
if (dataSfIdx >= 0)
{
assert(data->isA(CC_TYPES::POINT_CLOUD));
ccPointCloud* pc = static_cast<ccPointCloud*>(data);
pc->setCurrentScalarField(oldDataSfIdx);
pc->deleteScalarField(dataSfIdx);
}
return (result < CCLib::ICPRegistrationTools::ICP_ERROR);
}
CCLib::ReferenceCloud* qHPR::removeHiddenPoints(CCLib::GenericIndexedCloudPersist* theCloud, const CCVector3d& viewPoint, double fParam)
{
assert(theCloud);
unsigned nbPoints = theCloud->size();
if (nbPoints == 0)
return 0;
//less than 4 points? no need for calculation, we return the whole cloud
if (nbPoints < 4)
{
CCLib::ReferenceCloud* visiblePoints = new CCLib::ReferenceCloud(theCloud);
if (!visiblePoints->addPointIndex(0,nbPoints)) //well even for less than 4 points we never know ;)
{
//not enough memory!
delete visiblePoints;
visiblePoints = 0;
}
return visiblePoints;
}
double maxRadius = 0;
//convert point cloud to an array of double triplets (for qHull)
coordT* pt_array = new coordT[(nbPoints+1)*3];
{
coordT* _pt_array = pt_array;
for (unsigned i=0; i<nbPoints; ++i)
{
CCVector3d P = CCVector3d::fromArray(theCloud->getPoint(i)->u) - viewPoint;
*_pt_array++ = static_cast<coordT>(P.x);
*_pt_array++ = static_cast<coordT>(P.y);
*_pt_array++ = static_cast<coordT>(P.z);
//we keep track of the highest 'radius'
double r2 = P.norm2();
if (maxRadius < r2)
maxRadius = r2;
}
//we add the view point (Cf. HPR)
*_pt_array++ = 0;
*_pt_array++ = 0;
*_pt_array++ = 0;
maxRadius = sqrt(maxRadius);
}
//apply spherical flipping
{
maxRadius *= pow(10.0,fParam) * 2;
coordT* _pt_array = pt_array;
for (unsigned i=0; i<nbPoints; ++i)
{
CCVector3d P = CCVector3d::fromArray(theCloud->getPoint(i)->u) - viewPoint;
double r = (maxRadius/P.norm()) - 1.0;
*_pt_array++ *= r;
*_pt_array++ *= r;
*_pt_array++ *= r;
}
}
//array to flag points on the convex hull
std::vector<bool> pointBelongsToCvxHull;
static char qHullCommand[] = "qhull QJ Qci";
if (!qh_new_qhull(3,nbPoints+1,pt_array,False,qHullCommand,0,stderr))
{
try
{
pointBelongsToCvxHull.resize(nbPoints+1,false);
}
catch (const std::bad_alloc&)
{
//not enough memory!
delete[] pt_array;
return 0;
}
vertexT *vertex = 0,**vertexp = 0;
facetT *facet = 0;
FORALLfacets
{
//if (!facet->simplicial)
// error("convhulln: non-simplicial facet"); // should never happen with QJ
setT* vertices = qh_facet3vertex(facet);
FOREACHvertex_(vertices)
{
pointBelongsToCvxHull[qh_pointid(vertex->point)] = true;
}
qh_settempfree(&vertices);
}
}
delete[] pt_array;
pt_array = 0;
qh_freeqhull(!qh_ALL);
//free long memory
int curlong, totlong;
qh_memfreeshort (&curlong, &totlong);
//free short memory and memory allocator
if (!pointBelongsToCvxHull.empty())
{
//compute the number of points belonging to the convex hull
unsigned cvxHullSize = 0;
{
for (unsigned i=0; i<nbPoints; ++i)
if (pointBelongsToCvxHull[i])
++cvxHullSize;
}
CCLib::ReferenceCloud* visiblePoints = new CCLib::ReferenceCloud(theCloud);
if (cvxHullSize!=0 && visiblePoints->reserve(cvxHullSize))
{
for (unsigned i=0; i<nbPoints; ++i)
if (pointBelongsToCvxHull[i])
visiblePoints->addPointIndex(i); //can't fail, see above
return visiblePoints;
}
else //not enough memory
{
delete visiblePoints;
visiblePoints = 0;
}
}
return 0;
}
int Cropper::compute()
{
ccHObject::Container outcrops = vombat::theInstance()->getAllObjectsSelectedBySPCDti(&spc::VirtualOutcrop::Type);
if (outcrops.size() > 1) {
LOG(INFO) << "please select only one virtual outcrop on which to operate";
return 1;
}
else if (outcrops.size() == 1) {
m_root_outcrop = dynamic_cast<ccVirtualOutcrop*>(outcrops.at(0));
}
else
m_root_outcrop = new ccVirtualOutcrop();
ccHObject::Container selections = m_dialog->getSelections();
// ccHObject::Container clouds = m_dialog->getClouds();
ccHObject::Container croppables = m_dialog->getCroppables();
LOG(INFO) << "found " << selections.size() << " to be processed";
// LOG(INFO) << "Found " << clouds.size() << " point clouds to be analyzed";
LOG(INFO) << "Found " << croppables.size() << " polylines";
// if (m_dialog->generateRegions())
// first create selections out of regions
for (ccHObject* obj : selections) {
ccPlanarSelection* sel = dynamic_cast<ccPlanarSelection*>(obj);
for (ccHObject* to_crop : croppables) {
if (to_crop->isA(CC_TYPES::POLY_LINE)) {
// if (to_crop->isA(CC_TYPES::POINT_CLOUD)) {
ccPolyline* pline = ccHObjectCaster::ToPolyline(to_crop);
ccPointCloud* vertices = dynamic_cast<ccPointCloud*>(pline->getAssociatedCloud());
ccPointCloud* cropped_vertices = sel->crop(vertices);
if (cropped_vertices) {
ccPolyline* cropped_pline = new ccPolyline(cropped_vertices);
cropped_pline->addPointIndex(0, cropped_vertices->size() - 1);
cropped_pline->setVisible(true);
// if (m_dialog->cropStrataTraces())
sel->addChild(cropped_pline);
}
}
else if (to_crop->isA(CC_TYPES::POINT_CLOUD)) {
LOG(INFO) << "cropping point cloud with name " << to_crop->getName().toStdString();
ccPointCloud* cloud = ccHObjectCaster::ToPointCloud(to_crop);
spc::PointCloudBase::Ptr asspc = spcCCPointCloud::fromccPointCloud(cloud);
spc::SelectionExtractor<Eigen::Vector3f, int> ext;
ext.setInputSet(asspc);
ext.setSelection(sel->getSPCElement<spc::SelectionBase<Eigen::Vector3f> >());
ext.compute();
std::vector<int> inside = ext.getInsideIds();
if (inside.size() == 0)
{
LOG(WARNING) << "the selection did not find anything inside it. Skipping";
continue;
}
CCLib::ReferenceCloud* ref = new CCLib::ReferenceCloud(cloud);
for (int i : inside) {
ref->addPointIndex(i);
}
ccPointCloud* outcloud = cloud->partialClone(ref);
LOG(INFO) << "done with cropping, calling add child on object: " << sel->getName().toStdString();
sel->addChild(outcloud);
newEntity(outcloud);
}
}
}
return 1;
}
CCLib::ReferenceCloud* qHPR::removeHiddenPoints(CCLib::GenericIndexedCloudPersist* theCloud, float viewPoint[], float fParam)
{
assert(theCloud);
unsigned i,nbPoints = theCloud->size();
if (nbPoints==0)
return 0;
CCLib::ReferenceCloud* newCloud = new CCLib::ReferenceCloud(theCloud);
//less than 4 points ? no need for calculation, we return the whole cloud
if (nbPoints<4)
{
if (!newCloud->reserve(nbPoints)) //well, we never know ;)
{
//not enough memory!
delete newCloud;
return 0;
}
newCloud->addPointIndex(0,nbPoints);
return newCloud;
}
//view point
coordT Cx = viewPoint[0];
coordT Cy = viewPoint[1];
coordT Cz = viewPoint[2];
float* radius = new float[nbPoints];
if (!radius)
{
//not enough memory!
delete newCloud;
return 0;
}
float r,maxRadius = 0.0;
//table of points
coordT* pt_array = new coordT[(nbPoints+1)*3];
coordT* _pt_array = pt_array;
theCloud->placeIteratorAtBegining();
//#define BACKUP_PROJECTED_CLOUDS
#ifdef BACKUP_PROJECTED_CLOUDS
FILE* fp = fopen("output_centered.asc","wt");
#endif
double x,y,z;
for (i=0;i<nbPoints;++i)
{
const CCVector3* P = theCloud->getNextPoint();
*(_pt_array++)=x=coordT(P->x)-Cx;
*(_pt_array++)=y=coordT(P->y)-Cy;
*(_pt_array++)=z=coordT(P->z)-Cz;
//we pre-compute the radius ...
r = (float)sqrt(x*x+y*y+z*z);
//in order to determine the max radius
if (maxRadius<r)
maxRadius = r;
radius[i] = r;
#ifdef BACKUP_PROJECTED_CLOUDS
fprintf(fp,"%f %f %f %f\n",x,y,z,r);
#endif
}
//we add the view point (Cf. HPR)
*(_pt_array++)=0.0;
*(_pt_array++)=0.0;
*(_pt_array++)=0.0;
#ifdef BACKUP_PROJECTED_CLOUDS
fprintf(fp,"%f %f %f %f\n",0,0,0,0);
fclose(fp);
#endif
maxRadius *= 2.0f*pow(10.0f,fParam);
_pt_array = pt_array;
#ifdef BACKUP_PROJECTED_CLOUDS
fp = fopen("output_transformed.asc","wt");
#endif
for (i=0;i<nbPoints;++i)
{
//Spherical flipping
r = maxRadius/radius[i]-1.0f;
#ifndef BACKUP_PROJECTED_CLOUDS
*(_pt_array++) *= double(r);
*(_pt_array++) *= double(r);
*(_pt_array++) *= double(r);
#else
x = *_pt_array * double(r);
*(_pt_array++) = x;
y = *_pt_array * double(r);
*(_pt_array++) = y;
z = *_pt_array * double(r);
*(_pt_array++) = z;
fprintf(fp,"%f %f %f %f\n",x,y,z,r);
#endif
}
#ifdef BACKUP_PROJECTED_CLOUDS
fclose(fp);
#endif
//we re-use the radius to record if each point belongs to the convex hull
//delete[] radius;
//uchar* pointBelongsToCvxHull = new uchar[nbPoints];
uchar* pointBelongsToCvxHull = (uchar*)radius;
memset(pointBelongsToCvxHull,0,sizeof(uchar)*(nbPoints+1));
if (!qh_new_qhull(3,nbPoints+1,pt_array,False,(char*)"qhull QJ s Qci Tcv",0,stderr))
{
vertexT *vertex,**vertexp;
facetT *facet;
setT *vertices;
int j, i = 0;
FORALLfacets
{
/*if (!facet->simplicial)
error("convhulln: non-simplicial facet"); // should never happen with QJ
*/
j = 0;
vertices = qh_facet3vertex (facet);
FOREACHvertex_(vertices)
{
pointBelongsToCvxHull[qh_pointid(vertex->point)]=1;
++j;
}
qh_settempfree(&vertices);
if (j < 3)
printf("Warning, facet %d only has %d vertices\n",i,j); // likewise but less fatal
i++;
}
}