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//
// Copyright (C) 2004-2008 Greg Landrum and Rational Discovery LLC
//
// @@ All Rights Reserved @@
// This file is part of the RDKit.
// The contents are covered by the terms of the BSD license
// which is included in the file license.txt, found at the root
// of the RDKit source tree.
//
#ifndef __RD_ALIGN_POINTS_H__
#define __RD_ALIGN_POINTS_H__
#include <Geometry/point.h>
#include <Geometry/Transform3D.h>
#include <Numerics/Vector.h>
namespace RDNumeric {
namespace Alignments {
//! \brief Compute an optimal alignment (minimum sum of squared distance) between
//! two sets of points in 3D
/*!
\param refPoints A vector of pointers to the reference points
\param probePoints A vector of pointers to the points to be aligned to the refPoints
\param trans A RDGeom::Transform3D object to capture the necessary transformation
\param weights A vector of weights for each of the points
\param reflect Add reflection is true
\param maxIterations Maximum number of iterations
\return The sum of squared distances between the points
<b>Note</b>
This function returns the sum of squared distance (SSR) not the RMSD
RMSD = sqrt(SSR/numPoints)
*/
double AlignPoints(const RDGeom::Point3DConstPtrVect &refPoints,
const RDGeom::Point3DConstPtrVect &probePoints,
RDGeom::Transform3D &trans,
const DoubleVector *weights=0, bool reflect=false,
unsigned int maxIterations=50);
}
}
#endif
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