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ICP.h
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ICP.h
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///////////////////////////////////////////////////////////////////////////////
/// "Sparse Iterative Closest Point"
/// by Sofien Bouaziz, Andrea Tagliasacchi, Mark Pauly
/// Copyright (C) 2013 LGG, EPFL
///////////////////////////////////////////////////////////////////////////////
/// 1) This file contains different implementations of the ICP algorithm.
/// 2) This code requires EIGEN and NANOFLANN.
/// 3) If OPENMP is activated some part of the code will be parallelized.
/// 4) This code is for now designed for 3D registration
/// 5) Two main input types are Eigen::Matrix3Xd or Eigen::Map<Eigen::Matrix3Xd>
///////////////////////////////////////////////////////////////////////////////
/// namespace nanoflann: NANOFLANN KD-tree adaptor for EIGEN
/// namespace RigidMotionEstimator: functions to compute the rigid motion
/// namespace SICP: sparse ICP implementation
/// namespace ICP: reweighted ICP implementation
///////////////////////////////////////////////////////////////////////////////
#ifndef ICP_H
#define ICP_H
#include "nanoflann.hpp"
#include <Eigen/Dense>
///////////////////////////////////////////////////////////////////////////////
namespace nanoflann {
/// KD-tree adaptor for working with data directly stored in an Eigen Matrix, without duplicating the data storage.
/// This code is adapted from the KDTreeEigenMatrixAdaptor class of nanoflann.hpp
template <class MatrixType, int DIM = -1, class Distance = nanoflann::metric_L2, typename IndexType = int>
struct KDTreeAdaptor {
typedef KDTreeAdaptor<MatrixType,DIM,Distance> self_t;
typedef typename MatrixType::Scalar num_t;
typedef typename Distance::template traits<num_t,self_t>::distance_t metric_t;
typedef KDTreeSingleIndexAdaptor< metric_t,self_t,DIM,IndexType> index_t;
index_t* index;
KDTreeAdaptor(const MatrixType &mat, const int leaf_max_size = 10) : m_data_matrix(mat) {
const size_t dims = mat.rows();
index = new index_t( dims, *this, nanoflann::KDTreeSingleIndexAdaptorParams(leaf_max_size ) );
index->buildIndex();
}
~KDTreeAdaptor() {delete index;}
const MatrixType &m_data_matrix;
/// Query for the num_closest closest points to a given point (entered as query_point[0:dim-1]).
inline void query(const num_t *query_point, const size_t num_closest, IndexType *out_indices, num_t *out_distances_sq) const {
nanoflann::KNNResultSet<typename MatrixType::Scalar,IndexType> resultSet(num_closest);
resultSet.init(out_indices, out_distances_sq);
index->findNeighbors(resultSet, query_point, nanoflann::SearchParams());
}
/// Query for the closest points to a given point (entered as query_point[0:dim-1]).
inline IndexType closest(const num_t *query_point) const {
IndexType out_indices;
num_t out_distances_sq;
query(query_point, 1, &out_indices, &out_distances_sq);
return out_indices;
}
const self_t & derived() const {return *this;}
self_t & derived() {return *this;}
inline size_t kdtree_get_point_count() const {return m_data_matrix.cols();}
/// Returns the distance between the vector "p1[0:size-1]" and the data point with index "idx_p2" stored in the class:
inline num_t kdtree_distance(const num_t *p1, const size_t idx_p2,size_t size) const {
num_t s=0;
for (size_t i=0; i<size; i++) {
const num_t d= p1[i]-m_data_matrix.coeff(i,idx_p2);
s+=d*d;
}
return s;
}
/// Returns the dim'th component of the idx'th point in the class:
inline num_t kdtree_get_pt(const size_t idx, int dim) const {
return m_data_matrix.coeff(dim,idx);
}
/// Optional bounding-box computation: return false to default to a standard bbox computation loop.
template <class BBOX> bool kdtree_get_bbox(BBOX&) const {return false;}
};
}
///////////////////////////////////////////////////////////////////////////////
/// Compute the rigid motion for point-to-point and point-to-plane distances
namespace RigidMotionEstimator {
/// @param Source (one 3D point per column)
/// @param Target (one 3D point per column)
/// @param Confidence weights
template <typename Derived1, typename Derived2, typename Derived3>
Eigen::Affine3d point_to_point(Eigen::MatrixBase<Derived1>& X,
Eigen::MatrixBase<Derived2>& Y,
const Eigen::MatrixBase<Derived3>& w) {
/// Normalize weight vector
Eigen::VectorXd w_normalized = w/w.sum();
/// De-mean
Eigen::Vector3d X_mean, Y_mean;
for(int i=0; i<3; ++i) {
X_mean(i) = (X.row(i).array()*w_normalized.transpose().array()).sum();
Y_mean(i) = (Y.row(i).array()*w_normalized.transpose().array()).sum();
}
X.colwise() -= X_mean;
Y.colwise() -= Y_mean;
/// Compute transformation
Eigen::Affine3d transformation;
Eigen::Matrix3d sigma = X * w_normalized.asDiagonal() * Y.transpose();
Eigen::JacobiSVD<Eigen::Matrix3d> svd(sigma, Eigen::ComputeFullU | Eigen::ComputeFullV);
if(svd.matrixU().determinant()*svd.matrixV().determinant() < 0.0) {
Eigen::Vector3d S = Eigen::Vector3d::Ones(); S(2) = -1.0;
transformation.linear().noalias() = svd.matrixV()*S.asDiagonal()*svd.matrixU().transpose();
} else {
transformation.linear().noalias() = svd.matrixV()*svd.matrixU().transpose();
}
transformation.translation().noalias() = Y_mean - transformation.linear()*X_mean;
/// Apply transformation
X = transformation*X;
/// Re-apply mean
X.colwise() += X_mean;
Y.colwise() += Y_mean;
/// Return transformation
return transformation;
}
/// @param Source (one 3D point per column)
/// @param Target (one 3D point per column)
template <typename Derived1, typename Derived2>
inline Eigen::Affine3d point_to_point(Eigen::MatrixBase<Derived1>& X,
Eigen::MatrixBase<Derived2>& Y) {
return point_to_point(X, Y, Eigen::VectorXd::Ones(X.cols()));
}
/// @param Source (one 3D point per column)
/// @param Target (one 3D point per column)
/// @param Target normals (one 3D normal per column)
/// @param Confidence weights
/// @param Right hand side
template <typename Derived1, typename Derived2, typename Derived3, typename Derived4, typename Derived5>
Eigen::Affine3d point_to_plane(Eigen::MatrixBase<Derived1>& X,
Eigen::MatrixBase<Derived2>& Y,
Eigen::MatrixBase<Derived3>& N,
const Eigen::MatrixBase<Derived4>& w,
const Eigen::MatrixBase<Derived5>& u) {
typedef Eigen::Matrix<double, 6, 6> Matrix66;
typedef Eigen::Matrix<double, 6, 1> Vector6;
typedef Eigen::Block<Matrix66, 3, 3> Block33;
/// Normalize weight vector
Eigen::VectorXd w_normalized = w/w.sum();
/// De-mean
Eigen::Vector3d X_mean;
for(int i=0; i<3; ++i)
X_mean(i) = (X.row(i).array()*w_normalized.transpose().array()).sum();
X.colwise() -= X_mean;
Y.colwise() -= X_mean;
/// Prepare LHS and RHS
Matrix66 LHS = Matrix66::Zero();
Vector6 RHS = Vector6::Zero();
Block33 TL = LHS.topLeftCorner<3,3>();
Block33 TR = LHS.topRightCorner<3,3>();
Block33 BR = LHS.bottomRightCorner<3,3>();
Eigen::MatrixXd C = Eigen::MatrixXd::Zero(3,X.cols());
#pragma omp parallel
{
#pragma omp for
for(int i=0; i<X.cols(); i++) {
C.col(i) = X.col(i).cross(N.col(i));
}
#pragma omp sections nowait
{
#pragma omp section
for(int i=0; i<X.cols(); i++) TL.selfadjointView<Eigen::Upper>().rankUpdate(C.col(i), w(i));
#pragma omp section
for(int i=0; i<X.cols(); i++) TR += (C.col(i)*N.col(i).transpose())*w(i);
#pragma omp section
for(int i=0; i<X.cols(); i++) BR.selfadjointView<Eigen::Upper>().rankUpdate(N.col(i), w(i));
#pragma omp section
for(int i=0; i<C.cols(); i++) {
double dist_to_plane = -((X.col(i) - Y.col(i)).dot(N.col(i)) - u(i))*w(i);
RHS.head<3>() += C.col(i)*dist_to_plane;
RHS.tail<3>() += N.col(i)*dist_to_plane;
}
}
}
LHS = LHS.selfadjointView<Eigen::Upper>();
/// Compute transformation
Eigen::Affine3d transformation;
Eigen::LDLT<Matrix66> ldlt(LHS);
RHS = ldlt.solve(RHS);
transformation = Eigen::AngleAxisd(RHS(0), Eigen::Vector3d::UnitX()) *
Eigen::AngleAxisd(RHS(1), Eigen::Vector3d::UnitY()) *
Eigen::AngleAxisd(RHS(2), Eigen::Vector3d::UnitZ());
transformation.translation() = RHS.tail<3>();
/// Apply transformation
X = transformation*X;
/// Re-apply mean
X.colwise() += X_mean;
Y.colwise() += X_mean;
/// Return transformation
return transformation;
}
/// @param Source (one 3D point per column)
/// @param Target (one 3D point per column)
/// @param Target normals (one 3D normal per column)
/// @param Confidence weights
template <typename Derived1, typename Derived2, typename Derived3, typename Derived4>
inline Eigen::Affine3d point_to_plane(Eigen::MatrixBase<Derived1>& X,
Eigen::MatrixBase<Derived2>& Yp,
Eigen::MatrixBase<Derived3>& Yn,
const Eigen::MatrixBase<Derived4>& w) {
return point_to_plane(X, Yp, Yn, w, Eigen::VectorXd::Zero(X.cols()));
}
}
///////////////////////////////////////////////////////////////////////////////
/// ICP implementation using ADMM/ALM/Penalty method
namespace SICP {
struct Parameters {
bool use_penalty = false; /// if use_penalty then penalty method else ADMM or ALM (see max_inner)
double p = 1.0; /// p norm
double mu = 10.0; /// penalty weight
double alpha = 1.2; /// penalty increase factor
double max_mu = 1e5; /// max penalty
int max_icp = 100; /// max ICP iteration
int max_outer = 100; /// max outer iteration
int max_inner = 1; /// max inner iteration. If max_inner=1 then ADMM else ALM
double stop = 1e-5; /// stopping criteria
bool print_icpn = false; /// (debug) print ICP iteration
};
/// Shrinkage operator (Automatic loop unrolling using template)
template<unsigned int I>
inline double shrinkage(double mu, double n, double p, double s) {
return shrinkage<I-1>(mu, n, p, 1.0 - (p/mu)*std::pow(n, p-2.0)*std::pow(s, p-1.0));
}
template<>
inline double shrinkage<0>(double, double, double, double s) {return s;}
/// 3D Shrinkage for point-to-point
template<unsigned int I>
inline void shrink(Eigen::Matrix3Xd& Q, double mu, double p) {
double Ba = std::pow((2.0/mu)*(1.0-p), 1.0/(2.0-p));
double ha = Ba + (p/mu)*std::pow(Ba, p-1.0);
#pragma omp parallel for
for(int i=0; i<Q.cols(); ++i) {
double n = Q.col(i).norm();
double w = 0.0;
if(n > ha) w = shrinkage<I>(mu, n, p, (Ba/n + 1.0)/2.0);
Q.col(i) *= w;
}
}
/// 1D Shrinkage for point-to-plane
template<unsigned int I>
inline void shrink(Eigen::VectorXd& y, double mu, double p) {
double Ba = std::pow((2.0/mu)*(1.0-p), 1.0/(2.0-p));
double ha = Ba + (p/mu)*std::pow(Ba, p-1.0);
#pragma omp parallel for
for(int i=0; i<y.rows(); ++i) {
double n = std::abs(y(i));
double s = 0.0;
if(n > ha) s = shrinkage<I>(mu, n, p, (Ba/n + 1.0)/2.0);
y(i) *= s;
}
}
/// Sparse ICP with point to point
/// @param Source (one 3D point per column)
/// @param Target (one 3D point per column)
/// @param Parameters
template <typename Derived1, typename Derived2>
void point_to_point(Eigen::MatrixBase<Derived1>& X,
Eigen::MatrixBase<Derived2>& Y,
Parameters par = Parameters()) {
/// Build kd-tree
nanoflann::KDTreeAdaptor<Eigen::MatrixBase<Derived2>, 3, nanoflann::metric_L2_Simple> kdtree(Y);
/// Buffers
Eigen::Matrix3Xd Q = Eigen::Matrix3Xd::Zero(3, X.cols());
Eigen::Matrix3Xd Z = Eigen::Matrix3Xd::Zero(3, X.cols());
Eigen::Matrix3Xd C = Eigen::Matrix3Xd::Zero(3, X.cols());
Eigen::Matrix3Xd Xo1 = X;
Eigen::Matrix3Xd Xo2 = X;
/// ICP
for(int icp=0; icp<par.max_icp; ++icp) {
if(par.print_icpn) std::cout << "Iteration #" << icp << "/" << par.max_icp << std::endl;
/// Find closest point
#pragma omp parallel for
for(int i=0; i<X.cols(); ++i) {
Q.col(i) = Y.col(kdtree.closest(X.col(i).data()));
}
/// Computer rotation and translation
double mu = par.mu;
for(int outer=0; outer<par.max_outer; ++outer) {
double dual = 0.0;
for(int inner=0; inner<par.max_inner; ++inner) {
/// Z update (shrinkage)
Z = X-Q+C/mu;
shrink<3>(Z, mu, par.p);
/// Rotation and translation update
Eigen::Matrix3Xd U = Q+Z-C/mu;
RigidMotionEstimator::point_to_point(X, U);
/// Stopping criteria
dual = (X-Xo1).colwise().norm().maxCoeff();
Xo1 = X;
if(dual < par.stop) break;
}
/// C update (lagrange multipliers)
Eigen::Matrix3Xd P = X-Q-Z;
if(!par.use_penalty) C.noalias() += mu*P;
/// mu update (penalty)
if(mu < par.max_mu) mu *= par.alpha;
/// Stopping criteria
double primal = P.colwise().norm().maxCoeff();
if(primal < par.stop && dual < par.stop) break;
}
/// Stopping criteria
double stop = (X-Xo2).colwise().norm().maxCoeff();
Xo2 = X;
if(stop < par.stop) break;
}
}
/// Sparse ICP with point to plane
/// @param Source (one 3D point per column)
/// @param Target (one 3D point per column)
/// @param Target normals (one 3D normal per column)
/// @param Parameters
template <typename Derived1, typename Derived2, typename Derived3>
void point_to_plane(Eigen::MatrixBase<Derived1>& X,
Eigen::MatrixBase<Derived2>& Y,
Eigen::MatrixBase<Derived3>& N,
Parameters par = Parameters()) {
/// Build kd-tree
nanoflann::KDTreeAdaptor<Eigen::MatrixBase<Derived2>, 3, nanoflann::metric_L2_Simple> kdtree(Y);
/// Buffers
Eigen::Matrix3Xd Qp = Eigen::Matrix3Xd::Zero(3, X.cols());
Eigen::Matrix3Xd Qn = Eigen::Matrix3Xd::Zero(3, X.cols());
Eigen::VectorXd Z = Eigen::VectorXd::Zero(X.cols());
Eigen::VectorXd C = Eigen::VectorXd::Zero(X.cols());
Eigen::Matrix3Xd Xo1 = X;
Eigen::Matrix3Xd Xo2 = X;
/// ICP
for(int icp=0; icp<par.max_icp; ++icp) {
if(par.print_icpn) std::cout << "Iteration #" << icp << "/" << par.max_icp << std::endl;
/// Find closest point
#pragma omp parallel for
for(int i=0; i<X.cols(); ++i) {
int id = kdtree.closest(X.col(i).data());
Qp.col(i) = Y.col(id);
Qn.col(i) = N.col(id);
}
/// Computer rotation and translation
double mu = par.mu;
for(int outer=0; outer<par.max_outer; ++outer) {
double dual = 0.0;
for(int inner=0; inner<par.max_inner; ++inner) {
/// Z update (shrinkage)
Z = (Qn.array()*(X-Qp).array()).colwise().sum().transpose()+C.array()/mu;
shrink<3>(Z, mu, par.p);
/// Rotation and translation update
Eigen::VectorXd U = Z-C/mu;
RigidMotionEstimator::point_to_plane(X, Qp, Qn, Eigen::VectorXd::Ones(X.cols()), U);
/// Stopping criteria
dual = (X-Xo1).colwise().norm().maxCoeff();
Xo1 = X;
if(dual < par.stop) break;
}
/// C update (lagrange multipliers)
Eigen::VectorXf P = (Qn.array()*(X-Qp).array()).colwise().sum().transpose()-Z.array();
if(!par.use_penalty) C.noalias() += mu*P;
/// mu update (penalty)
if(mu < par.max_mu) mu *= par.alpha;
/// Stopping criteria
double primal = P.array().abs().maxCoeff();
if(primal < par.stop && dual < par.stop) break;
}
/// Stopping criteria
double stop = (X-Xo2).colwise().norm().maxCoeff();
Xo2 = X;
if(stop < par.stop) break;
}
}
}
///////////////////////////////////////////////////////////////////////////////
/// ICP implementation using iterative reweighting
namespace ICP {
enum Function {
PNORM,
TUKEY,
FAIR,
LOGISTIC,
TRIMMED,
NONE
};
class Parameters {
public:
Parameters() : f(NONE),
p(0.1),
max_icp(100),
max_outer(100),
stop(1e-5) {}
/// Parameters
Function f; /// robust function type
double p; /// paramter of the robust function
int max_icp; /// max ICP iteration
int max_outer; /// max outer iteration
double stop; /// stopping criteria
};
/// Weight functions
/// @param Residuals
/// @param Parameter
void uniform_weight(Eigen::VectorXd& r) {
r = Eigen::VectorXd::Ones(r.rows());
}
/// @param Residuals
/// @param Parameter
void pnorm_weight(Eigen::VectorXd& r, double p, double reg=1e-8) {
for(int i=0; i<r.rows(); ++i) {
r(i) = p/(std::pow(r(i),2-p) + reg);
}
}
/// @param Residuals
/// @param Parameter
void tukey_weight(Eigen::VectorXd& r, double p) {
for(int i=0; i<r.rows(); ++i) {
if(r(i) > p) r(i) = 0.0;
else r(i) = std::pow((1.0 - std::pow(r(i)/p,2.0)), 2.0);
}
}
/// @param Residuals
/// @param Parameter
void fair_weight(Eigen::VectorXd& r, double p) {
for(int i=0; i<r.rows(); ++i) {
r(i) = 1.0/(1.0 + r(i)/p);
}
}
/// @param Residuals
/// @param Parameter
void logistic_weight(Eigen::VectorXd& r, double p) {
for(int i=0; i<r.rows(); ++i) {
r(i) = (p/r(i))*std::tanh(r(i)/p);
}
}
struct sort_pred {
bool operator()(const std::pair<int,double> &left,
const std::pair<int,double> &right) {
return left.second < right.second;
}
};
/// @param Residuals
/// @param Parameter
void trimmed_weight(Eigen::VectorXd& r, double p) {
std::vector<std::pair<int, double> > sortedDist(r.rows());
for(int i=0; i<r.rows(); ++i) {
sortedDist[i] = std::pair<int, double>(i,r(i));
}
std::sort(sortedDist.begin(), sortedDist.end(), sort_pred());
r.setZero();
int nbV = r.rows()*p;
for(int i=0; i<nbV; ++i) {
r(sortedDist[i].first) = 1.0;
}
}
/// @param Function type
/// @param Residuals
/// @param Parameter
void robust_weight(Function f, Eigen::VectorXd& r, double p) {
switch(f) {
case PNORM: pnorm_weight(r,p); break;
case TUKEY: tukey_weight(r,p); break;
case FAIR: fair_weight(r,p); break;
case LOGISTIC: logistic_weight(r,p); break;
case TRIMMED: trimmed_weight(r,p); break;
case NONE: uniform_weight(r); break;
default: uniform_weight(r); break;
}
}
/// Reweighted ICP with point to point
/// @param Source (one 3D point per column)
/// @param Target (one 3D point per column)
/// @param Parameters
void point_to_point(Eigen::Matrix3Xd& X,
Eigen::Matrix3Xd& Y,
Parameters par = Parameters()) {
/// Build kd-tree
nanoflann::KDTreeAdaptor<Eigen::Matrix3Xd, 3, nanoflann::metric_L2_Simple> kdtree(Y);
/// Buffers
Eigen::Matrix3Xd Q = Eigen::Matrix3Xd::Zero(3, X.cols());
Eigen::VectorXd W = Eigen::VectorXd::Zero(X.cols());
Eigen::Matrix3Xd Xo1 = X;
Eigen::Matrix3Xd Xo2 = X;
/// ICP
for(int icp=0; icp<par.max_icp; ++icp) {
/// Find closest point
#pragma omp parallel for
for(int i=0; i<X.cols(); ++i) {
Q.col(i) = Y.col(kdtree.closest(X.col(i).data()));
}
/// Computer rotation and translation
for(int outer=0; outer<par.max_outer; ++outer) {
/// Compute weights
W = (X-Q).colwise().norm();
robust_weight(par.f, W, par.p);
/// Rotation and translation update
RigidMotionEstimator::point_to_point(X, Q, W);
/// Stopping criteria
double stop1 = (X-Xo1).colwise().norm().maxCoeff();
Xo1 = X;
if(stop1 < par.stop) break;
}
/// Stopping criteria
double stop2 = (X-Xo2).colwise().norm().maxCoeff();
Xo2 = X;
if(stop2 < par.stop) break;
}
}
/// Reweighted ICP with point to plane
/// @param Source (one 3D point per column)
/// @param Target (one 3D point per column)
/// @param Target normals (one 3D normal per column)
/// @param Parameters
template <typename Derived1, typename Derived2, typename Derived3>
void point_to_plane(Eigen::MatrixBase<Derived1>& X,
Eigen::MatrixBase<Derived2>& Y,
Eigen::MatrixBase<Derived3>& N,
Parameters par = Parameters()) {
/// Build kd-tree
nanoflann::KDTreeAdaptor<Eigen::MatrixBase<Derived2>, 3, nanoflann::metric_L2_Simple> kdtree(Y);
/// Buffers
Eigen::Matrix3Xd Qp = Eigen::Matrix3Xd::Zero(3, X.cols());
Eigen::Matrix3Xd Qn = Eigen::Matrix3Xd::Zero(3, X.cols());
Eigen::VectorXd W = Eigen::VectorXd::Zero(X.cols());
Eigen::Matrix3Xd Xo1 = X;
Eigen::Matrix3Xd Xo2 = X;
/// ICP
for(int icp=0; icp<par.max_icp; ++icp) {
/// Find closest point
#pragma omp parallel for
for(int i=0; i<X.cols(); ++i) {
int id = kdtree.closest(X.col(i).data());
Qp.col(i) = Y.col(id);
Qn.col(i) = N.col(id);
}
/// Computer rotation and translation
for(int outer=0; outer<par.max_outer; ++outer) {
/// Compute weights
W = (Qn.array()*(X-Qp).array()).colwise().sum().abs().transpose();
robust_weight(par.f, W, par.p);
/// Rotation and translation update
RigidMotionEstimator::point_to_plane(X, Qp, Qn, W);
/// Stopping criteria
double stop1 = (X-Xo1).colwise().norm().maxCoeff();
Xo1 = X;
if(stop1 < par.stop) break;
}
/// Stopping criteria
double stop2 = (X-Xo2).colwise().norm().maxCoeff() ;
Xo2 = X;
if(stop2 < par.stop) break;
}
}
}
///////////////////////////////////////////////////////////////////////////////
#endif