sequenzo 0.1.17__cp312-cp312-macosx_10_13_universal2.whl → 0.1.19__cp312-cp312-macosx_10_13_universal2.whl

sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h

@@ -1,812 +0,0 @@
-// This file is part of Eigen, a lightweight C++ template library
-// for linear algebra.
-//
-// Copyright (C) 2009-2010 Benoit Jacob <jacob.benoit.1@gmail.com>
-// Copyright (C) 2013-2014 Gael Guennebaud <gael.guennebaud@inria.fr>
-//
-// This Source Code Form is subject to the terms of the Mozilla
-// Public License v. 2.0. If a copy of the MPL was not distributed
-// with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
-
-#ifndef EIGEN_JACOBISVD_H
-#define EIGEN_JACOBISVD_H
-
-namespace Eigen { 
-
-namespace internal {
-// forward declaration (needed by ICC)
-// the empty body is required by MSVC
-template<typename MatrixType, int QRPreconditioner,
-         bool IsComplex = NumTraits<typename MatrixType::Scalar>::IsComplex>
-struct svd_precondition_2x2_block_to_be_real {};
-
-/*** QR preconditioners (R-SVD)
- ***
- *** Their role is to reduce the problem of computing the SVD to the case of a square matrix.
- *** This approach, known as R-SVD, is an optimization for rectangular-enough matrices, and is a requirement for
- *** JacobiSVD which by itself is only able to work on square matrices.
- ***/
-
-enum { PreconditionIfMoreColsThanRows, PreconditionIfMoreRowsThanCols };
-
-template<typename MatrixType, int QRPreconditioner, int Case>
-struct qr_preconditioner_should_do_anything
-{
-  enum { a = MatrixType::RowsAtCompileTime != Dynamic &&
-             MatrixType::ColsAtCompileTime != Dynamic &&
-             MatrixType::ColsAtCompileTime <= MatrixType::RowsAtCompileTime,
-         b = MatrixType::RowsAtCompileTime != Dynamic &&
-             MatrixType::ColsAtCompileTime != Dynamic &&
-             MatrixType::RowsAtCompileTime <= MatrixType::ColsAtCompileTime,
-         ret = !( (QRPreconditioner == NoQRPreconditioner) ||
-                  (Case == PreconditionIfMoreColsThanRows && bool(a)) ||
-                  (Case == PreconditionIfMoreRowsThanCols && bool(b)) )
-  };
-};
-
-template<typename MatrixType, int QRPreconditioner, int Case,
-         bool DoAnything = qr_preconditioner_should_do_anything<MatrixType, QRPreconditioner, Case>::ret
-> struct qr_preconditioner_impl {};
-
-template<typename MatrixType, int QRPreconditioner, int Case>
-class qr_preconditioner_impl<MatrixType, QRPreconditioner, Case, false>
-{
-public:
-  void allocate(const JacobiSVD<MatrixType, QRPreconditioner>&) {}
-  bool run(JacobiSVD<MatrixType, QRPreconditioner>&, const MatrixType&)
-  {
-    return false;
-  }
-};
-
-/*** preconditioner using FullPivHouseholderQR ***/
-
-template<typename MatrixType>
-class qr_preconditioner_impl<MatrixType, FullPivHouseholderQRPreconditioner, PreconditionIfMoreRowsThanCols, true>
-{
-public:
-  typedef typename MatrixType::Scalar Scalar;
-  enum
-  {
-    RowsAtCompileTime = MatrixType::RowsAtCompileTime,
-    MaxRowsAtCompileTime = MatrixType::MaxRowsAtCompileTime
-  };
-  typedef Matrix<Scalar, 1, RowsAtCompileTime, RowMajor, 1, MaxRowsAtCompileTime> WorkspaceType;
-
-  void allocate(const JacobiSVD<MatrixType, FullPivHouseholderQRPreconditioner>& svd)
-  {
-    if (svd.rows() != m_qr.rows() || svd.cols() != m_qr.cols())
-    {
-      m_qr.~QRType();
-      ::new (&m_qr) QRType(svd.rows(), svd.cols());
-    }
-    if (svd.m_computeFullU) m_workspace.resize(svd.rows());
-  }
-
-  bool run(JacobiSVD<MatrixType, FullPivHouseholderQRPreconditioner>& svd, const MatrixType& matrix)
-  {
-    if(matrix.rows() > matrix.cols())
-    {
-      m_qr.compute(matrix);
-      svd.m_workMatrix = m_qr.matrixQR().block(0,0,matrix.cols(),matrix.cols()).template triangularView<Upper>();
-      if(svd.m_computeFullU) m_qr.matrixQ().evalTo(svd.m_matrixU, m_workspace);
-      if(svd.computeV()) svd.m_matrixV = m_qr.colsPermutation();
-      return true;
-    }
-    return false;
-  }
-private:
-  typedef FullPivHouseholderQR<MatrixType> QRType;
-  QRType m_qr;
-  WorkspaceType m_workspace;
-};
-
-template<typename MatrixType>
-class qr_preconditioner_impl<MatrixType, FullPivHouseholderQRPreconditioner, PreconditionIfMoreColsThanRows, true>
-{
-public:
-  typedef typename MatrixType::Scalar Scalar;
-  enum
-  {
-    RowsAtCompileTime = MatrixType::RowsAtCompileTime,
-    ColsAtCompileTime = MatrixType::ColsAtCompileTime,
-    MaxRowsAtCompileTime = MatrixType::MaxRowsAtCompileTime,
-    MaxColsAtCompileTime = MatrixType::MaxColsAtCompileTime,
-    Options = MatrixType::Options
-  };
-
-  typedef typename internal::make_proper_matrix_type<
-    Scalar, ColsAtCompileTime, RowsAtCompileTime, Options, MaxColsAtCompileTime, MaxRowsAtCompileTime
-  >::type TransposeTypeWithSameStorageOrder;
-
-  void allocate(const JacobiSVD<MatrixType, FullPivHouseholderQRPreconditioner>& svd)
-  {
-    if (svd.cols() != m_qr.rows() || svd.rows() != m_qr.cols())
-    {
-      m_qr.~QRType();
-      ::new (&m_qr) QRType(svd.cols(), svd.rows());
-    }
-    m_adjoint.resize(svd.cols(), svd.rows());
-    if (svd.m_computeFullV) m_workspace.resize(svd.cols());
-  }
-
-  bool run(JacobiSVD<MatrixType, FullPivHouseholderQRPreconditioner>& svd, const MatrixType& matrix)
-  {
-    if(matrix.cols() > matrix.rows())
-    {
-      m_adjoint = matrix.adjoint();
-      m_qr.compute(m_adjoint);
-      svd.m_workMatrix = m_qr.matrixQR().block(0,0,matrix.rows(),matrix.rows()).template triangularView<Upper>().adjoint();
-      if(svd.m_computeFullV) m_qr.matrixQ().evalTo(svd.m_matrixV, m_workspace);
-      if(svd.computeU()) svd.m_matrixU = m_qr.colsPermutation();
-      return true;
-    }
-    else return false;
-  }
-private:
-  typedef FullPivHouseholderQR<TransposeTypeWithSameStorageOrder> QRType;
-  QRType m_qr;
-  TransposeTypeWithSameStorageOrder m_adjoint;
-  typename internal::plain_row_type<MatrixType>::type m_workspace;
-};
-
-/*** preconditioner using ColPivHouseholderQR ***/
-
-template<typename MatrixType>
-class qr_preconditioner_impl<MatrixType, ColPivHouseholderQRPreconditioner, PreconditionIfMoreRowsThanCols, true>
-{
-public:
-  void allocate(const JacobiSVD<MatrixType, ColPivHouseholderQRPreconditioner>& svd)
-  {
-    if (svd.rows() != m_qr.rows() || svd.cols() != m_qr.cols())
-    {
-      m_qr.~QRType();
-      ::new (&m_qr) QRType(svd.rows(), svd.cols());
-    }
-    if (svd.m_computeFullU) m_workspace.resize(svd.rows());
-    else if (svd.m_computeThinU) m_workspace.resize(svd.cols());
-  }
-
-  bool run(JacobiSVD<MatrixType, ColPivHouseholderQRPreconditioner>& svd, const MatrixType& matrix)
-  {
-    if(matrix.rows() > matrix.cols())
-    {
-      m_qr.compute(matrix);
-      svd.m_workMatrix = m_qr.matrixQR().block(0,0,matrix.cols(),matrix.cols()).template triangularView<Upper>();
-      if(svd.m_computeFullU) m_qr.householderQ().evalTo(svd.m_matrixU, m_workspace);
-      else if(svd.m_computeThinU)
-      {
-        svd.m_matrixU.setIdentity(matrix.rows(), matrix.cols());
-        m_qr.householderQ().applyThisOnTheLeft(svd.m_matrixU, m_workspace);
-      }
-      if(svd.computeV()) svd.m_matrixV = m_qr.colsPermutation();
-      return true;
-    }
-    return false;
-  }
-
-private:
-  typedef ColPivHouseholderQR<MatrixType> QRType;
-  QRType m_qr;
-  typename internal::plain_col_type<MatrixType>::type m_workspace;
-};
-
-template<typename MatrixType>
-class qr_preconditioner_impl<MatrixType, ColPivHouseholderQRPreconditioner, PreconditionIfMoreColsThanRows, true>
-{
-public:
-  typedef typename MatrixType::Scalar Scalar;
-  enum
-  {
-    RowsAtCompileTime = MatrixType::RowsAtCompileTime,
-    ColsAtCompileTime = MatrixType::ColsAtCompileTime,
-    MaxRowsAtCompileTime = MatrixType::MaxRowsAtCompileTime,
-    MaxColsAtCompileTime = MatrixType::MaxColsAtCompileTime,
-    Options = MatrixType::Options
-  };
-
-  typedef typename internal::make_proper_matrix_type<
-    Scalar, ColsAtCompileTime, RowsAtCompileTime, Options, MaxColsAtCompileTime, MaxRowsAtCompileTime
-  >::type TransposeTypeWithSameStorageOrder;
-
-  void allocate(const JacobiSVD<MatrixType, ColPivHouseholderQRPreconditioner>& svd)
-  {
-    if (svd.cols() != m_qr.rows() || svd.rows() != m_qr.cols())
-    {
-      m_qr.~QRType();
-      ::new (&m_qr) QRType(svd.cols(), svd.rows());
-    }
-    if (svd.m_computeFullV) m_workspace.resize(svd.cols());
-    else if (svd.m_computeThinV) m_workspace.resize(svd.rows());
-    m_adjoint.resize(svd.cols(), svd.rows());
-  }
-
-  bool run(JacobiSVD<MatrixType, ColPivHouseholderQRPreconditioner>& svd, const MatrixType& matrix)
-  {
-    if(matrix.cols() > matrix.rows())
-    {
-      m_adjoint = matrix.adjoint();
-      m_qr.compute(m_adjoint);
-
-      svd.m_workMatrix = m_qr.matrixQR().block(0,0,matrix.rows(),matrix.rows()).template triangularView<Upper>().adjoint();
-      if(svd.m_computeFullV) m_qr.householderQ().evalTo(svd.m_matrixV, m_workspace);
-      else if(svd.m_computeThinV)
-      {
-        svd.m_matrixV.setIdentity(matrix.cols(), matrix.rows());
-        m_qr.householderQ().applyThisOnTheLeft(svd.m_matrixV, m_workspace);
-      }
-      if(svd.computeU()) svd.m_matrixU = m_qr.colsPermutation();
-      return true;
-    }
-    else return false;
-  }
-
-private:
-  typedef ColPivHouseholderQR<TransposeTypeWithSameStorageOrder> QRType;
-  QRType m_qr;
-  TransposeTypeWithSameStorageOrder m_adjoint;
-  typename internal::plain_row_type<MatrixType>::type m_workspace;
-};
-
-/*** preconditioner using HouseholderQR ***/
-
-template<typename MatrixType>
-class qr_preconditioner_impl<MatrixType, HouseholderQRPreconditioner, PreconditionIfMoreRowsThanCols, true>
-{
-public:
-  void allocate(const JacobiSVD<MatrixType, HouseholderQRPreconditioner>& svd)
-  {
-    if (svd.rows() != m_qr.rows() || svd.cols() != m_qr.cols())
-    {
-      m_qr.~QRType();
-      ::new (&m_qr) QRType(svd.rows(), svd.cols());
-    }
-    if (svd.m_computeFullU) m_workspace.resize(svd.rows());
-    else if (svd.m_computeThinU) m_workspace.resize(svd.cols());
-  }
-
-  bool run(JacobiSVD<MatrixType, HouseholderQRPreconditioner>& svd, const MatrixType& matrix)
-  {
-    if(matrix.rows() > matrix.cols())
-    {
-      m_qr.compute(matrix);
-      svd.m_workMatrix = m_qr.matrixQR().block(0,0,matrix.cols(),matrix.cols()).template triangularView<Upper>();
-      if(svd.m_computeFullU) m_qr.householderQ().evalTo(svd.m_matrixU, m_workspace);
-      else if(svd.m_computeThinU)
-      {
-        svd.m_matrixU.setIdentity(matrix.rows(), matrix.cols());
-        m_qr.householderQ().applyThisOnTheLeft(svd.m_matrixU, m_workspace);
-      }
-      if(svd.computeV()) svd.m_matrixV.setIdentity(matrix.cols(), matrix.cols());
-      return true;
-    }
-    return false;
-  }
-private:
-  typedef HouseholderQR<MatrixType> QRType;
-  QRType m_qr;
-  typename internal::plain_col_type<MatrixType>::type m_workspace;
-};
-
-template<typename MatrixType>
-class qr_preconditioner_impl<MatrixType, HouseholderQRPreconditioner, PreconditionIfMoreColsThanRows, true>
-{
-public:
-  typedef typename MatrixType::Scalar Scalar;
-  enum
-  {
-    RowsAtCompileTime = MatrixType::RowsAtCompileTime,
-    ColsAtCompileTime = MatrixType::ColsAtCompileTime,
-    MaxRowsAtCompileTime = MatrixType::MaxRowsAtCompileTime,
-    MaxColsAtCompileTime = MatrixType::MaxColsAtCompileTime,
-    Options = MatrixType::Options
-  };
-
-  typedef typename internal::make_proper_matrix_type<
-    Scalar, ColsAtCompileTime, RowsAtCompileTime, Options, MaxColsAtCompileTime, MaxRowsAtCompileTime
-  >::type TransposeTypeWithSameStorageOrder;
-
-  void allocate(const JacobiSVD<MatrixType, HouseholderQRPreconditioner>& svd)
-  {
-    if (svd.cols() != m_qr.rows() || svd.rows() != m_qr.cols())
-    {
-      m_qr.~QRType();
-      ::new (&m_qr) QRType(svd.cols(), svd.rows());
-    }
-    if (svd.m_computeFullV) m_workspace.resize(svd.cols());
-    else if (svd.m_computeThinV) m_workspace.resize(svd.rows());
-    m_adjoint.resize(svd.cols(), svd.rows());
-  }
-
-  bool run(JacobiSVD<MatrixType, HouseholderQRPreconditioner>& svd, const MatrixType& matrix)
-  {
-    if(matrix.cols() > matrix.rows())
-    {
-      m_adjoint = matrix.adjoint();
-      m_qr.compute(m_adjoint);
-
-      svd.m_workMatrix = m_qr.matrixQR().block(0,0,matrix.rows(),matrix.rows()).template triangularView<Upper>().adjoint();
-      if(svd.m_computeFullV) m_qr.householderQ().evalTo(svd.m_matrixV, m_workspace);
-      else if(svd.m_computeThinV)
-      {
-        svd.m_matrixV.setIdentity(matrix.cols(), matrix.rows());
-        m_qr.householderQ().applyThisOnTheLeft(svd.m_matrixV, m_workspace);
-      }
-      if(svd.computeU()) svd.m_matrixU.setIdentity(matrix.rows(), matrix.rows());
-      return true;
-    }
-    else return false;
-  }
-
-private:
-  typedef HouseholderQR<TransposeTypeWithSameStorageOrder> QRType;
-  QRType m_qr;
-  TransposeTypeWithSameStorageOrder m_adjoint;
-  typename internal::plain_row_type<MatrixType>::type m_workspace;
-};
-
-/*** 2x2 SVD implementation
- ***
- *** JacobiSVD consists in performing a series of 2x2 SVD subproblems
- ***/
-
-template<typename MatrixType, int QRPreconditioner>
-struct svd_precondition_2x2_block_to_be_real<MatrixType, QRPreconditioner, false>
-{
-  typedef JacobiSVD<MatrixType, QRPreconditioner> SVD;
-  typedef typename MatrixType::RealScalar RealScalar;
-  static bool run(typename SVD::WorkMatrixType&, SVD&, Index, Index, RealScalar&) { return true; }
-};
-
-template<typename MatrixType, int QRPreconditioner>
-struct svd_precondition_2x2_block_to_be_real<MatrixType, QRPreconditioner, true>
-{
-  typedef JacobiSVD<MatrixType, QRPreconditioner> SVD;
-  typedef typename MatrixType::Scalar Scalar;
-  typedef typename MatrixType::RealScalar RealScalar;
-  static bool run(typename SVD::WorkMatrixType& work_matrix, SVD& svd, Index p, Index q, RealScalar& maxDiagEntry)
-  {
-    using std::sqrt;
-    using std::abs;
-    Scalar z;
-    JacobiRotation<Scalar> rot;
-    RealScalar n = sqrt(numext::abs2(work_matrix.coeff(p,p)) + numext::abs2(work_matrix.coeff(q,p)));
-
-    const RealScalar considerAsZero = (std::numeric_limits<RealScalar>::min)();
-    const RealScalar precision = NumTraits<Scalar>::epsilon();
-
-    if(n==0)
-    {
-      // make sure first column is zero
-      work_matrix.coeffRef(p,p) = work_matrix.coeffRef(q,p) = Scalar(0);
-
-      if(abs(numext::imag(work_matrix.coeff(p,q)))>considerAsZero)
-      {
-        // work_matrix.coeff(p,q) can be zero if work_matrix.coeff(q,p) is not zero but small enough to underflow when computing n
-        z = abs(work_matrix.coeff(p,q)) / work_matrix.coeff(p,q);
-        work_matrix.row(p) *= z;
-        if(svd.computeU()) svd.m_matrixU.col(p) *= conj(z);
-      }
-      if(abs(numext::imag(work_matrix.coeff(q,q)))>considerAsZero)
-      {
-        z = abs(work_matrix.coeff(q,q)) / work_matrix.coeff(q,q);
-        work_matrix.row(q) *= z;
-        if(svd.computeU()) svd.m_matrixU.col(q) *= conj(z);
-      }
-      // otherwise the second row is already zero, so we have nothing to do.
-    }
-    else
-    {
-      rot.c() = conj(work_matrix.coeff(p,p)) / n;
-      rot.s() = work_matrix.coeff(q,p) / n;
-      work_matrix.applyOnTheLeft(p,q,rot);
-      if(svd.computeU()) svd.m_matrixU.applyOnTheRight(p,q,rot.adjoint());
-      if(abs(numext::imag(work_matrix.coeff(p,q)))>considerAsZero)
-      {
-        z = abs(work_matrix.coeff(p,q)) / work_matrix.coeff(p,q);
-        work_matrix.col(q) *= z;
-        if(svd.computeV()) svd.m_matrixV.col(q) *= z;
-      }
-      if(abs(numext::imag(work_matrix.coeff(q,q)))>considerAsZero)
-      {
-        z = abs(work_matrix.coeff(q,q)) / work_matrix.coeff(q,q);
-        work_matrix.row(q) *= z;
-        if(svd.computeU()) svd.m_matrixU.col(q) *= conj(z);
-      }
-    }
-
-    // update largest diagonal entry
-    maxDiagEntry = numext::maxi<RealScalar>(maxDiagEntry,numext::maxi<RealScalar>(abs(work_matrix.coeff(p,p)), abs(work_matrix.coeff(q,q))));
-    // and check whether the 2x2 block is already diagonal
-    RealScalar threshold = numext::maxi<RealScalar>(considerAsZero, precision * maxDiagEntry);
-    return abs(work_matrix.coeff(p,q))>threshold || abs(work_matrix.coeff(q,p)) > threshold;
-  }
-};
-
-template<typename _MatrixType, int QRPreconditioner> 
-struct traits<JacobiSVD<_MatrixType,QRPreconditioner> >
-        : traits<_MatrixType>
-{
-  typedef _MatrixType MatrixType;
-};
-
-} // end namespace internal
-
-/** \ingroup SVD_Module
-  *
-  *
-  * \class JacobiSVD
-  *
-  * \brief Two-sided Jacobi SVD decomposition of a rectangular matrix
-  *
-  * \tparam _MatrixType the type of the matrix of which we are computing the SVD decomposition
-  * \tparam QRPreconditioner this optional parameter allows to specify the type of QR decomposition that will be used internally
-  *                        for the R-SVD step for non-square matrices. See discussion of possible values below.
-  *
-  * SVD decomposition consists in decomposing any n-by-p matrix \a A as a product
-  *   \f[ A = U S V^* \f]
-  * where \a U is a n-by-n unitary, \a V is a p-by-p unitary, and \a S is a n-by-p real positive matrix which is zero outside of its main diagonal;
-  * the diagonal entries of S are known as the \em singular \em values of \a A and the columns of \a U and \a V are known as the left
-  * and right \em singular \em vectors of \a A respectively.
-  *
-  * Singular values are always sorted in decreasing order.
-  *
-  * This JacobiSVD decomposition computes only the singular values by default. If you want \a U or \a V, you need to ask for them explicitly.
-  *
-  * You can ask for only \em thin \a U or \a V to be computed, meaning the following. In case of a rectangular n-by-p matrix, letting \a m be the
-  * smaller value among \a n and \a p, there are only \a m singular vectors; the remaining columns of \a U and \a V do not correspond to actual
-  * singular vectors. Asking for \em thin \a U or \a V means asking for only their \a m first columns to be formed. So \a U is then a n-by-m matrix,
-  * and \a V is then a p-by-m matrix. Notice that thin \a U and \a V are all you need for (least squares) solving.
-  *
-  * Here's an example demonstrating basic usage:
-  * \include JacobiSVD_basic.cpp
-  * Output: \verbinclude JacobiSVD_basic.out
-  *
-  * This JacobiSVD class is a two-sided Jacobi R-SVD decomposition, ensuring optimal reliability and accuracy. The downside is that it's slower than
-  * bidiagonalizing SVD algorithms for large square matrices; however its complexity is still \f$ O(n^2p) \f$ where \a n is the smaller dimension and
-  * \a p is the greater dimension, meaning that it is still of the same order of complexity as the faster bidiagonalizing R-SVD algorithms.
-  * In particular, like any R-SVD, it takes advantage of non-squareness in that its complexity is only linear in the greater dimension.
-  *
-  * If the input matrix has inf or nan coefficients, the result of the computation is undefined, but the computation is guaranteed to
-  * terminate in finite (and reasonable) time.
-  *
-  * The possible values for QRPreconditioner are:
-  * \li ColPivHouseholderQRPreconditioner is the default. In practice it's very safe. It uses column-pivoting QR.
-  * \li FullPivHouseholderQRPreconditioner, is the safest and slowest. It uses full-pivoting QR.
-  *     Contrary to other QRs, it doesn't allow computing thin unitaries.
-  * \li HouseholderQRPreconditioner is the fastest, and less safe and accurate than the pivoting variants. It uses non-pivoting QR.
-  *     This is very similar in safety and accuracy to the bidiagonalization process used by bidiagonalizing SVD algorithms (since bidiagonalization
-  *     is inherently non-pivoting). However the resulting SVD is still more reliable than bidiagonalizing SVDs because the Jacobi-based iterarive
-  *     process is more reliable than the optimized bidiagonal SVD iterations.
-  * \li NoQRPreconditioner allows not to use a QR preconditioner at all. This is useful if you know that you will only be computing
-  *     JacobiSVD decompositions of square matrices. Non-square matrices require a QR preconditioner. Using this option will result in
-  *     faster compilation and smaller executable code. It won't significantly speed up computation, since JacobiSVD is always checking
-  *     if QR preconditioning is needed before applying it anyway.
-  *
-  * \sa MatrixBase::jacobiSvd()
-  */
-template<typename _MatrixType, int QRPreconditioner> class JacobiSVD
- : public SVDBase<JacobiSVD<_MatrixType,QRPreconditioner> >
-{
-    typedef SVDBase<JacobiSVD> Base;
-  public:
-
-    typedef _MatrixType MatrixType;
-    typedef typename MatrixType::Scalar Scalar;
-    typedef typename NumTraits<typename MatrixType::Scalar>::Real RealScalar;
-    enum {
-      RowsAtCompileTime = MatrixType::RowsAtCompileTime,
-      ColsAtCompileTime = MatrixType::ColsAtCompileTime,
-      DiagSizeAtCompileTime = EIGEN_SIZE_MIN_PREFER_DYNAMIC(RowsAtCompileTime,ColsAtCompileTime),
-      MaxRowsAtCompileTime = MatrixType::MaxRowsAtCompileTime,
-      MaxColsAtCompileTime = MatrixType::MaxColsAtCompileTime,
-      MaxDiagSizeAtCompileTime = EIGEN_SIZE_MIN_PREFER_FIXED(MaxRowsAtCompileTime,MaxColsAtCompileTime),
-      MatrixOptions = MatrixType::Options
-    };
-
-    typedef typename Base::MatrixUType MatrixUType;
-    typedef typename Base::MatrixVType MatrixVType;
-    typedef typename Base::SingularValuesType SingularValuesType;
-    
-    typedef typename internal::plain_row_type<MatrixType>::type RowType;
-    typedef typename internal::plain_col_type<MatrixType>::type ColType;
-    typedef Matrix<Scalar, DiagSizeAtCompileTime, DiagSizeAtCompileTime,
-                   MatrixOptions, MaxDiagSizeAtCompileTime, MaxDiagSizeAtCompileTime>
-            WorkMatrixType;
-
-    /** \brief Default Constructor.
-      *
-      * The default constructor is useful in cases in which the user intends to
-      * perform decompositions via JacobiSVD::compute(const MatrixType&).
-      */
-    JacobiSVD()
-    {}
-
-
-    /** \brief Default Constructor with memory preallocation
-      *
-      * Like the default constructor but with preallocation of the internal data
-      * according to the specified problem size.
-      * \sa JacobiSVD()
-      */
-    JacobiSVD(Index rows, Index cols, unsigned int computationOptions = 0)
-    {
-      allocate(rows, cols, computationOptions);
-    }
-
-    /** \brief Constructor performing the decomposition of given matrix.
-     *
-     * \param matrix the matrix to decompose
-     * \param computationOptions optional parameter allowing to specify if you want full or thin U or V unitaries to be computed.
-     *                           By default, none is computed. This is a bit-field, the possible bits are #ComputeFullU, #ComputeThinU,
-     *                           #ComputeFullV, #ComputeThinV.
-     *
-     * Thin unitaries are only available if your matrix type has a Dynamic number of columns (for example MatrixXf). They also are not
-     * available with the (non-default) FullPivHouseholderQR preconditioner.
-     */
-    explicit JacobiSVD(const MatrixType& matrix, unsigned int computationOptions = 0)
-    {
-      compute(matrix, computationOptions);
-    }
-
-    /** \brief Method performing the decomposition of given matrix using custom options.
-     *
-     * \param matrix the matrix to decompose
-     * \param computationOptions optional parameter allowing to specify if you want full or thin U or V unitaries to be computed.
-     *                           By default, none is computed. This is a bit-field, the possible bits are #ComputeFullU, #ComputeThinU,
-     *                           #ComputeFullV, #ComputeThinV.
-     *
-     * Thin unitaries are only available if your matrix type has a Dynamic number of columns (for example MatrixXf). They also are not
-     * available with the (non-default) FullPivHouseholderQR preconditioner.
-     */
-    JacobiSVD& compute(const MatrixType& matrix, unsigned int computationOptions);
-
-    /** \brief Method performing the decomposition of given matrix using current options.
-     *
-     * \param matrix the matrix to decompose
-     *
-     * This method uses the current \a computationOptions, as already passed to the constructor or to compute(const MatrixType&, unsigned int).
-     */
-    JacobiSVD& compute(const MatrixType& matrix)
-    {
-      return compute(matrix, m_computationOptions);
-    }
-
-    using Base::computeU;
-    using Base::computeV;
-    using Base::rows;
-    using Base::cols;
-    using Base::rank;
-
-  private:
-    void allocate(Index rows, Index cols, unsigned int computationOptions);
-
-  protected:
-    using Base::m_matrixU;
-    using Base::m_matrixV;
-    using Base::m_singularValues;
-    using Base::m_info;
-    using Base::m_isInitialized;
-    using Base::m_isAllocated;
-    using Base::m_usePrescribedThreshold;
-    using Base::m_computeFullU;
-    using Base::m_computeThinU;
-    using Base::m_computeFullV;
-    using Base::m_computeThinV;
-    using Base::m_computationOptions;
-    using Base::m_nonzeroSingularValues;
-    using Base::m_rows;
-    using Base::m_cols;
-    using Base::m_diagSize;
-    using Base::m_prescribedThreshold;
-    WorkMatrixType m_workMatrix;
-
-    template<typename __MatrixType, int _QRPreconditioner, bool _IsComplex>
-    friend struct internal::svd_precondition_2x2_block_to_be_real;
-    template<typename __MatrixType, int _QRPreconditioner, int _Case, bool _DoAnything>
-    friend struct internal::qr_preconditioner_impl;
-
-    internal::qr_preconditioner_impl<MatrixType, QRPreconditioner, internal::PreconditionIfMoreColsThanRows> m_qr_precond_morecols;
-    internal::qr_preconditioner_impl<MatrixType, QRPreconditioner, internal::PreconditionIfMoreRowsThanCols> m_qr_precond_morerows;
-    MatrixType m_scaledMatrix;
-};
-
-template<typename MatrixType, int QRPreconditioner>
-void JacobiSVD<MatrixType, QRPreconditioner>::allocate(Eigen::Index rows, Eigen::Index cols, unsigned int computationOptions)
-{
-  eigen_assert(rows >= 0 && cols >= 0);
-
-  if (m_isAllocated &&
-      rows == m_rows &&
-      cols == m_cols &&
-      computationOptions == m_computationOptions)
-  {
-    return;
-  }
-
-  m_rows = rows;
-  m_cols = cols;
-  m_info = Success;
-  m_isInitialized = false;
-  m_isAllocated = true;
-  m_computationOptions = computationOptions;
-  m_computeFullU = (computationOptions & ComputeFullU) != 0;
-  m_computeThinU = (computationOptions & ComputeThinU) != 0;
-  m_computeFullV = (computationOptions & ComputeFullV) != 0;
-  m_computeThinV = (computationOptions & ComputeThinV) != 0;
-  eigen_assert(!(m_computeFullU && m_computeThinU) && "JacobiSVD: you can't ask for both full and thin U");
-  eigen_assert(!(m_computeFullV && m_computeThinV) && "JacobiSVD: you can't ask for both full and thin V");
-  eigen_assert(EIGEN_IMPLIES(m_computeThinU || m_computeThinV, MatrixType::ColsAtCompileTime==Dynamic) &&
-              "JacobiSVD: thin U and V are only available when your matrix has a dynamic number of columns.");
-  if (QRPreconditioner == FullPivHouseholderQRPreconditioner)
-  {
-      eigen_assert(!(m_computeThinU || m_computeThinV) &&
-              "JacobiSVD: can't compute thin U or thin V with the FullPivHouseholderQR preconditioner. "
-              "Use the ColPivHouseholderQR preconditioner instead.");
-  }
-  m_diagSize = (std::min)(m_rows, m_cols);
-  m_singularValues.resize(m_diagSize);
-  if(RowsAtCompileTime==Dynamic)
-    m_matrixU.resize(m_rows, m_computeFullU ? m_rows
-                            : m_computeThinU ? m_diagSize
-                            : 0);
-  if(ColsAtCompileTime==Dynamic)
-    m_matrixV.resize(m_cols, m_computeFullV ? m_cols
-                            : m_computeThinV ? m_diagSize
-                            : 0);
-  m_workMatrix.resize(m_diagSize, m_diagSize);
-  
-  if(m_cols>m_rows)   m_qr_precond_morecols.allocate(*this);
-  if(m_rows>m_cols)   m_qr_precond_morerows.allocate(*this);
-  if(m_rows!=m_cols)  m_scaledMatrix.resize(rows,cols);
-}
-
-template<typename MatrixType, int QRPreconditioner>
-JacobiSVD<MatrixType, QRPreconditioner>&
-JacobiSVD<MatrixType, QRPreconditioner>::compute(const MatrixType& matrix, unsigned int computationOptions)
-{
-  using std::abs;
-  allocate(matrix.rows(), matrix.cols(), computationOptions);
-
-  // currently we stop when we reach precision 2*epsilon as the last bit of precision can require an unreasonable number of iterations,
-  // only worsening the precision of U and V as we accumulate more rotations
-  const RealScalar precision = RealScalar(2) * NumTraits<Scalar>::epsilon();
-
-  // limit for denormal numbers to be considered zero in order to avoid infinite loops (see bug 286)
-  const RealScalar considerAsZero = (std::numeric_limits<RealScalar>::min)();
-
-  // Scaling factor to reduce over/under-flows
-  RealScalar scale = matrix.cwiseAbs().template maxCoeff<PropagateNaN>();
-  if (!(numext::isfinite)(scale)) {
-    m_isInitialized = true;
-    m_info = InvalidInput;
-    return *this;
-  }
-  if(scale==RealScalar(0)) scale = RealScalar(1);
-  
-  /*** step 1. The R-SVD step: we use a QR decomposition to reduce to the case of a square matrix */
-
-  if(m_rows!=m_cols)
-  {
-    m_scaledMatrix = matrix / scale;
-    m_qr_precond_morecols.run(*this, m_scaledMatrix);
-    m_qr_precond_morerows.run(*this, m_scaledMatrix);
-  }
-  else
-  {
-    m_workMatrix = matrix.block(0,0,m_diagSize,m_diagSize) / scale;
-    if(m_computeFullU) m_matrixU.setIdentity(m_rows,m_rows);
-    if(m_computeThinU) m_matrixU.setIdentity(m_rows,m_diagSize);
-    if(m_computeFullV) m_matrixV.setIdentity(m_cols,m_cols);
-    if(m_computeThinV) m_matrixV.setIdentity(m_cols, m_diagSize);
-  }
-
-  /*** step 2. The main Jacobi SVD iteration. ***/
-  RealScalar maxDiagEntry = m_workMatrix.cwiseAbs().diagonal().maxCoeff();
-
-  bool finished = false;
-  while(!finished)
-  {
-    finished = true;
-
-    // do a sweep: for all index pairs (p,q), perform SVD of the corresponding 2x2 sub-matrix
-
-    for(Index p = 1; p < m_diagSize; ++p)
-    {
-      for(Index q = 0; q < p; ++q)
-      {
-        // if this 2x2 sub-matrix is not diagonal already...
-        // notice that this comparison will evaluate to false if any NaN is involved, ensuring that NaN's don't
-        // keep us iterating forever. Similarly, small denormal numbers are considered zero.
-        RealScalar threshold = numext::maxi<RealScalar>(considerAsZero, precision * maxDiagEntry);
-        if(abs(m_workMatrix.coeff(p,q))>threshold || abs(m_workMatrix.coeff(q,p)) > threshold)
-        {
-          finished = false;
-          // perform SVD decomposition of 2x2 sub-matrix corresponding to indices p,q to make it diagonal
-          // the complex to real operation returns true if the updated 2x2 block is not already diagonal
-          if(internal::svd_precondition_2x2_block_to_be_real<MatrixType, QRPreconditioner>::run(m_workMatrix, *this, p, q, maxDiagEntry))
-          {
-            JacobiRotation<RealScalar> j_left, j_right;
-            internal::real_2x2_jacobi_svd(m_workMatrix, p, q, &j_left, &j_right);
-
-            // accumulate resulting Jacobi rotations
-            m_workMatrix.applyOnTheLeft(p,q,j_left);
-            if(computeU()) m_matrixU.applyOnTheRight(p,q,j_left.transpose());
-
-            m_workMatrix.applyOnTheRight(p,q,j_right);
-            if(computeV()) m_matrixV.applyOnTheRight(p,q,j_right);
-
-            // keep track of the largest diagonal coefficient
-            maxDiagEntry = numext::maxi<RealScalar>(maxDiagEntry,numext::maxi<RealScalar>(abs(m_workMatrix.coeff(p,p)), abs(m_workMatrix.coeff(q,q))));
-          }
-        }
-      }
-    }
-  }
-
-  /*** step 3. The work matrix is now diagonal, so ensure it's positive so its diagonal entries are the singular values ***/
-
-  for(Index i = 0; i < m_diagSize; ++i)
-  {
-    // For a complex matrix, some diagonal coefficients might note have been
-    // treated by svd_precondition_2x2_block_to_be_real, and the imaginary part
-    // of some diagonal entry might not be null.
-    if(NumTraits<Scalar>::IsComplex && abs(numext::imag(m_workMatrix.coeff(i,i)))>considerAsZero)
-    {
-      RealScalar a = abs(m_workMatrix.coeff(i,i));
-      m_singularValues.coeffRef(i) = abs(a);
-      if(computeU()) m_matrixU.col(i) *= m_workMatrix.coeff(i,i)/a;
-    }
-    else
-    {
-      // m_workMatrix.coeff(i,i) is already real, no difficulty:
-      RealScalar a = numext::real(m_workMatrix.coeff(i,i));
-      m_singularValues.coeffRef(i) = abs(a);
-      if(computeU() && (a<RealScalar(0))) m_matrixU.col(i) = -m_matrixU.col(i);
-    }
-  }
-  
-  m_singularValues *= scale;
-
-  /*** step 4. Sort singular values in descending order and compute the number of nonzero singular values ***/
-
-  m_nonzeroSingularValues = m_diagSize;
-  for(Index i = 0; i < m_diagSize; i++)
-  {
-    Index pos;
-    RealScalar maxRemainingSingularValue = m_singularValues.tail(m_diagSize-i).maxCoeff(&pos);
-    if(maxRemainingSingularValue == RealScalar(0))
-    {
-      m_nonzeroSingularValues = i;
-      break;
-    }
-    if(pos)
-    {
-      pos += i;
-      std::swap(m_singularValues.coeffRef(i), m_singularValues.coeffRef(pos));
-      if(computeU()) m_matrixU.col(pos).swap(m_matrixU.col(i));
-      if(computeV()) m_matrixV.col(pos).swap(m_matrixV.col(i));
-    }
-  }
-
-  m_isInitialized = true;
-  return *this;
-}
-
-/** \svd_module
-  *
-  * \return the singular value decomposition of \c *this computed by two-sided
-  * Jacobi transformations.
-  *
-  * \sa class JacobiSVD
-  */
-template<typename Derived>
-JacobiSVD<typename MatrixBase<Derived>::PlainObject>
-MatrixBase<Derived>::jacobiSvd(unsigned int computationOptions) const
-{
-  return JacobiSVD<PlainObject>(*this, computationOptions);
-}
-
-} // end namespace Eigen
-
-#endif // EIGEN_JACOBISVD_H