tomoto 0.2.3 → 0.3.0

data/vendor/eigen/Eigen/Householder

@@ -27,4 +27,3 @@
 #include "src/Core/util/ReenableStupidWarnings.h"
 
 #endif // EIGEN_HOUSEHOLDER_MODULE_H
-/* vim: set filetype=cpp et sw=2 ts=2 ai: */

data/vendor/eigen/Eigen/Jacobi

@@ -29,5 +29,4 @@
 #include "src/Core/util/ReenableStupidWarnings.h"
 
 #endif // EIGEN_JACOBI_MODULE_H
-/* vim: set filetype=cpp et sw=2 ts=2 ai: */
 

data/vendor/eigen/Eigen/KLUSupport

@@ -0,0 +1,41 @@
+// This file is part of Eigen, a lightweight C++ template library
+// for linear algebra.
+//
+// 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_KLUSUPPORT_MODULE_H
+#define EIGEN_KLUSUPPORT_MODULE_H
+
+#include <Eigen/SparseCore>
+
+#include <Eigen/src/Core/util/DisableStupidWarnings.h>
+
+extern "C" {
+#include <btf.h>
+#include <klu.h>
+   }
+
+/** \ingroup Support_modules
+  * \defgroup KLUSupport_Module KLUSupport module
+  *
+  * This module provides an interface to the KLU library which is part of the <a href="http://www.suitesparse.com">suitesparse</a> package.
+  * It provides the following factorization class:
+  * - class KLU: a sparse LU factorization, well-suited for circuit simulation.
+  *
+  * \code
+  * #include <Eigen/KLUSupport>
+  * \endcode
+  *
+  * In order to use this module, the klu and btf headers must be accessible from the include paths, and your binary must be linked to the klu library and its dependencies.
+  * The dependencies depend on how umfpack has been compiled.
+  * For a cmake based project, you can use our FindKLU.cmake module to help you in this task.
+  *
+  */
+
+#include "src/KLUSupport/KLUSupport.h"
+
+#include <Eigen/src/Core/util/ReenableStupidWarnings.h>
+
+#endif // EIGEN_KLUSUPPORT_MODULE_H

data/vendor/eigen/Eigen/LU

@@ -38,13 +38,10 @@
 #include "src/LU/Determinant.h"
 #include "src/LU/InverseImpl.h"
 
-// Use the SSE optimized version whenever possible. At the moment the
-// SSE version doesn't compile when AVX is enabled
-#if defined EIGEN_VECTORIZE_SSE && !defined EIGEN_VECTORIZE_AVX
-  #include "src/LU/arch/Inverse_SSE.h"
+#if defined EIGEN_VECTORIZE_SSE || defined EIGEN_VECTORIZE_NEON
+  #include "src/LU/arch/InverseSize4.h"
 #endif
 
 #include "src/Core/util/ReenableStupidWarnings.h"
 
 #endif // EIGEN_LU_MODULE_H
-/* vim: set filetype=cpp et sw=2 ts=2 ai: */

data/vendor/eigen/Eigen/OrderingMethods

@@ -63,10 +63,7 @@
   * \endcode
   */
 
-#ifndef EIGEN_MPL2_ONLY
 #include "src/OrderingMethods/Amd.h"
-#endif
-
 #include "src/OrderingMethods/Ordering.h"
 #include "src/Core/util/ReenableStupidWarnings.h"
 

data/vendor/eigen/Eigen/PaStiXSupport

@@ -36,6 +36,7 @@ extern "C" {
   * \endcode
   *
   * In order to use this module, the PaSTiX headers must be accessible from the include paths, and your binary must be linked to the PaSTiX library and its dependencies.
+  * This wrapper resuires PaStiX version 5.x compiled without MPI support.
   * The dependencies depend on how PaSTiX has been compiled.
   * For a cmake based project, you can use our FindPaSTiX.cmake module to help you in this task.
   *

data/vendor/eigen/Eigen/QR

@@ -10,12 +10,12 @@
 
 #include "Core"
 
-#include "src/Core/util/DisableStupidWarnings.h"
-
 #include "Cholesky"
 #include "Jacobi"
 #include "Householder"
 
+#include "src/Core/util/DisableStupidWarnings.h"
+
 /** \defgroup QR_Module QR module
   *
   *
@@ -48,4 +48,3 @@
 #include "src/Core/util/ReenableStupidWarnings.h"
 
 #endif // EIGEN_QR_MODULE_H
-/* vim: set filetype=cpp et sw=2 ts=2 ai: */

data/vendor/eigen/Eigen/QtAlignedMalloc

@@ -37,4 +37,3 @@ void *qRealloc(void *ptr, std::size_t size)
 #endif
 
 #endif // EIGEN_QTMALLOC_MODULE_H
-/* vim: set filetype=cpp et sw=2 ts=2 ai: */

data/vendor/eigen/Eigen/SVD

@@ -48,4 +48,3 @@
 #include "src/Core/util/ReenableStupidWarnings.h"
 
 #endif // EIGEN_SVD_MODULE_H
-/* vim: set filetype=cpp et sw=2 ts=2 ai: */

data/vendor/eigen/Eigen/Sparse

@@ -25,9 +25,7 @@
 
 #include "SparseCore"
 #include "OrderingMethods"
-#ifndef EIGEN_MPL2_ONLY
 #include "SparseCholesky"
-#endif
 #include "SparseLU"
 #include "SparseQR"
 #include "IterativeLinearSolvers"

data/vendor/eigen/Eigen/SparseCholesky

@@ -30,16 +30,8 @@
   * \endcode
   */
 
-#ifdef EIGEN_MPL2_ONLY
-#error The SparseCholesky module has nothing to offer in MPL2 only mode
-#endif
-
 #include "src/SparseCholesky/SimplicialCholesky.h"
-
-#ifndef EIGEN_MPL2_ONLY
 #include "src/SparseCholesky/SimplicialCholesky_impl.h"
-#endif
-
 #include "src/Core/util/ReenableStupidWarnings.h"
 
 #endif // EIGEN_SPARSECHOLESKY_MODULE_H

data/vendor/eigen/Eigen/SparseLU

@@ -23,6 +23,8 @@
 // Ordering interface
 #include "OrderingMethods"
 
+#include "src/Core/util/DisableStupidWarnings.h"
+
 #include "src/SparseLU/SparseLU_gemm_kernel.h"
 
 #include "src/SparseLU/SparseLU_Structs.h"
@@ -43,4 +45,6 @@
 #include "src/SparseLU/SparseLU_Utils.h"
 #include "src/SparseLU/SparseLU.h"
 
+#include "src/Core/util/ReenableStupidWarnings.h"
+
 #endif // EIGEN_SPARSELU_MODULE_H

data/vendor/eigen/Eigen/SparseQR

@@ -28,7 +28,6 @@
   * 
   */
 
-#include "OrderingMethods"
 #include "src/SparseCore/SparseColEtree.h"
 #include "src/SparseQR/SparseQR.h"
 

data/vendor/eigen/Eigen/src/Cholesky/LDLT.h

@@ -16,6 +16,15 @@
 namespace Eigen {
 
 namespace internal {
+  template<typename _MatrixType, int _UpLo> struct traits<LDLT<_MatrixType, _UpLo> >
+   : traits<_MatrixType>
+  {
+    typedef MatrixXpr XprKind;
+    typedef SolverStorage StorageKind;
+    typedef int StorageIndex;
+    enum { Flags = 0 };
+  };
+
   template<typename MatrixType, int UpLo> struct LDLT_Traits;
 
   // PositiveSemiDef means positive semi-definite and non-zero; same for NegativeSemiDef
@@ -36,7 +45,7 @@ namespace internal {
   * matrix \f$ A \f$ such that \f$ A =  P^TLDL^*P \f$, where P is a permutation matrix, L
   * is lower triangular with a unit diagonal and D is a diagonal matrix.
   *
-  * The decomposition uses pivoting to ensure stability, so that L will have
+  * The decomposition uses pivoting to ensure stability, so that D will have
   * zeros in the bottom right rank(A) - n submatrix. Avoiding the square root
   * on D also stabilizes the computation.
   *
@@ -44,24 +53,23 @@ namespace internal {
   * decomposition to determine whether a system of equations has a solution.
   *
   * This class supports the \link InplaceDecomposition inplace decomposition \endlink mechanism.
-  * 
+  *
   * \sa MatrixBase::ldlt(), SelfAdjointView::ldlt(), class LLT
   */
 template<typename _MatrixType, int _UpLo> class LDLT
+        : public SolverBase<LDLT<_MatrixType, _UpLo> >
 {
   public:
     typedef _MatrixType MatrixType;
+    typedef SolverBase<LDLT> Base;
+    friend class SolverBase<LDLT>;
+
+    EIGEN_GENERIC_PUBLIC_INTERFACE(LDLT)
     enum {
-      RowsAtCompileTime = MatrixType::RowsAtCompileTime,
-      ColsAtCompileTime = MatrixType::ColsAtCompileTime,
       MaxRowsAtCompileTime = MatrixType::MaxRowsAtCompileTime,
       MaxColsAtCompileTime = MatrixType::MaxColsAtCompileTime,
       UpLo = _UpLo
     };
-    typedef typename MatrixType::Scalar Scalar;
-    typedef typename NumTraits<typename MatrixType::Scalar>::Real RealScalar;
-    typedef Eigen::Index Index; ///< \deprecated since Eigen 3.3
-    typedef typename MatrixType::StorageIndex StorageIndex;
     typedef Matrix<Scalar, RowsAtCompileTime, 1, 0, MaxRowsAtCompileTime, 1> TmpMatrixType;
 
     typedef Transpositions<RowsAtCompileTime, MaxRowsAtCompileTime> TranspositionType;
@@ -180,6 +188,7 @@ template<typename _MatrixType, int _UpLo> class LDLT
       return m_sign == internal::NegativeSemiDef || m_sign == internal::ZeroSign;
     }
 
+    #ifdef EIGEN_PARSED_BY_DOXYGEN
     /** \returns a solution x of \f$ A x = b \f$ using the current decomposition of A.
       *
       * This function also supports in-place solves using the syntax <tt>x = decompositionObject.solve(x)</tt> .
@@ -191,19 +200,14 @@ template<typename _MatrixType, int _UpLo> class LDLT
       * \f$ L^* y_4 = y_3 \f$ and \f$ P x = y_4 \f$ in succession. If the matrix \f$ A \f$ is singular, then
       * \f$ D \f$ will also be singular (all the other matrices are invertible). In that case, the
       * least-square solution of \f$ D y_3 = y_2 \f$ is computed. This does not mean that this function
-      * computes the least-square solution of \f$ A x = b \f$ is \f$ A \f$ is singular.
+      * computes the least-square solution of \f$ A x = b \f$ if \f$ A \f$ is singular.
       *
       * \sa MatrixBase::ldlt(), SelfAdjointView::ldlt()
       */
     template<typename Rhs>
     inline const Solve<LDLT, Rhs>
-    solve(const MatrixBase<Rhs>& b) const
-    {
-      eigen_assert(m_isInitialized && "LDLT is not initialized.");
-      eigen_assert(m_matrix.rows()==b.rows()
-                && "LDLT::solve(): invalid number of rows of the right hand side matrix b");
-      return Solve<LDLT, Rhs>(*this, b.derived());
-    }
+    solve(const MatrixBase<Rhs>& b) const;
+    #endif
 
     template<typename Derived>
     bool solveInPlace(MatrixBase<Derived> &bAndX) const;
@@ -242,12 +246,12 @@ template<typename _MatrixType, int _UpLo> class LDLT
       */
     const LDLT& adjoint() const { return *this; };
 
-    inline Index rows() const { return m_matrix.rows(); }
-    inline Index cols() const { return m_matrix.cols(); }
+    EIGEN_DEVICE_FUNC inline EIGEN_CONSTEXPR Index rows() const EIGEN_NOEXCEPT { return m_matrix.rows(); }
+    EIGEN_DEVICE_FUNC inline EIGEN_CONSTEXPR Index cols() const EIGEN_NOEXCEPT { return m_matrix.cols(); }
 
     /** \brief Reports whether previous computation was successful.
       *
-      * \returns \c Success if computation was succesful,
+      * \returns \c Success if computation was successful,
       *          \c NumericalIssue if the factorization failed because of a zero pivot.
       */
     ComputationInfo info() const
@@ -258,8 +262,10 @@ template<typename _MatrixType, int _UpLo> class LDLT
 
     #ifndef EIGEN_PARSED_BY_DOXYGEN
     template<typename RhsType, typename DstType>
-    EIGEN_DEVICE_FUNC
     void _solve_impl(const RhsType &rhs, DstType &dst) const;
+
+    template<bool Conjugate, typename RhsType, typename DstType>
+    void _solve_impl_transposed(const RhsType &rhs, DstType &dst) const;
     #endif
 
   protected:
@@ -560,14 +566,22 @@ template<typename _MatrixType, int _UpLo>
 template<typename RhsType, typename DstType>
 void LDLT<_MatrixType,_UpLo>::_solve_impl(const RhsType &rhs, DstType &dst) const
 {
-  eigen_assert(rhs.rows() == rows());
+  _solve_impl_transposed<true>(rhs, dst);
+}
+
+template<typename _MatrixType,int _UpLo>
+template<bool Conjugate, typename RhsType, typename DstType>
+void LDLT<_MatrixType,_UpLo>::_solve_impl_transposed(const RhsType &rhs, DstType &dst) const
+{
   // dst = P b
   dst = m_transpositions * rhs;
 
   // dst = L^-1 (P b)
-  matrixL().solveInPlace(dst);
+  // dst = L^-*T (P b)
+  matrixL().template conjugateIf<!Conjugate>().solveInPlace(dst);
 
-  // dst = D^-1 (L^-1 P b)
+  // dst = D^-* (L^-1 P b)
+  // dst = D^-1 (L^-*T P b)
   // more precisely, use pseudo-inverse of D (see bug 241)
   using std::abs;
   const typename Diagonal<const MatrixType>::RealReturnType vecD(vectorD());
@@ -579,7 +593,6 @@ void LDLT<_MatrixType,_UpLo>::_solve_impl(const RhsType &rhs, DstType &dst) cons
   // Moreover, Lapack's xSYTRS routines use 0 for the tolerance.
   // Using numeric_limits::min() gives us more robustness to denormals.
   RealScalar tolerance = (std::numeric_limits<RealScalar>::min)();
-
   for (Index i = 0; i < vecD.size(); ++i)
   {
     if(abs(vecD(i)) > tolerance)
@@ -588,10 +601,12 @@ void LDLT<_MatrixType,_UpLo>::_solve_impl(const RhsType &rhs, DstType &dst) cons
       dst.row(i).setZero();
   }
 
-  // dst = L^-T (D^-1 L^-1 P b)
-  matrixU().solveInPlace(dst);
+  // dst = L^-* (D^-* L^-1 P b)
+  // dst = L^-T (D^-1 L^-*T P b)
+  matrixL().transpose().template conjugateIf<Conjugate>().solveInPlace(dst);
 
-  // dst = P^-1 (L^-T D^-1 L^-1 P b) = A^-1 b
+  // dst = P^T (L^-* D^-* L^-1 P b) = A^-1 b
+  // dst = P^-T (L^-T D^-1 L^-*T P b) = A^-1 b
   dst = m_transpositions.transpose() * dst;
 }
 #endif

data/vendor/eigen/Eigen/src/Cholesky/LLT.h

@@ -13,6 +13,16 @@
 namespace Eigen {
 
 namespace internal{
+
+template<typename _MatrixType, int _UpLo> struct traits<LLT<_MatrixType, _UpLo> >
+ : traits<_MatrixType>
+{
+  typedef MatrixXpr XprKind;
+  typedef SolverStorage StorageKind;
+  typedef int StorageIndex;
+  enum { Flags = 0 };
+};
+
 template<typename MatrixType, int UpLo> struct LLT_Traits;
 }
 
@@ -54,18 +64,17 @@ template<typename MatrixType, int UpLo> struct LLT_Traits;
   * \sa MatrixBase::llt(), SelfAdjointView::llt(), class LDLT
   */
 template<typename _MatrixType, int _UpLo> class LLT
+        : public SolverBase<LLT<_MatrixType, _UpLo> >
 {
   public:
     typedef _MatrixType MatrixType;
+    typedef SolverBase<LLT> Base;
+    friend class SolverBase<LLT>;
+
+    EIGEN_GENERIC_PUBLIC_INTERFACE(LLT)
     enum {
-      RowsAtCompileTime = MatrixType::RowsAtCompileTime,
-      ColsAtCompileTime = MatrixType::ColsAtCompileTime,
       MaxColsAtCompileTime = MatrixType::MaxColsAtCompileTime
     };
-    typedef typename MatrixType::Scalar Scalar;
-    typedef typename NumTraits<typename MatrixType::Scalar>::Real RealScalar;
-    typedef Eigen::Index Index; ///< \deprecated since Eigen 3.3
-    typedef typename MatrixType::StorageIndex StorageIndex;
 
     enum {
       PacketSize = internal::packet_traits<Scalar>::size,
@@ -100,7 +109,7 @@ template<typename _MatrixType, int _UpLo> class LLT
       compute(matrix.derived());
     }
 
-    /** \brief Constructs a LDLT factorization from a given matrix
+    /** \brief Constructs a LLT factorization from a given matrix
       *
       * This overloaded constructor is provided for \link InplaceDecomposition inplace decomposition \endlink when
       * \c MatrixType is a Eigen::Ref.
@@ -129,6 +138,7 @@ template<typename _MatrixType, int _UpLo> class LLT
       return Traits::getL(m_matrix);
     }
 
+    #ifdef EIGEN_PARSED_BY_DOXYGEN
     /** \returns the solution x of \f$ A x = b \f$ using the current decomposition of A.
       *
       * Since this LLT class assumes anyway that the matrix A is invertible, the solution
@@ -141,13 +151,8 @@ template<typename _MatrixType, int _UpLo> class LLT
       */
     template<typename Rhs>
     inline const Solve<LLT, Rhs>
-    solve(const MatrixBase<Rhs>& b) const
-    {
-      eigen_assert(m_isInitialized && "LLT is not initialized.");
-      eigen_assert(m_matrix.rows()==b.rows()
-                && "LLT::solve(): invalid number of rows of the right hand side matrix b");
-      return Solve<LLT, Rhs>(*this, b.derived());
-    }
+    solve(const MatrixBase<Rhs>& b) const;
+    #endif
 
     template<typename Derived>
     void solveInPlace(const MatrixBase<Derived> &bAndX) const;
@@ -180,7 +185,7 @@ template<typename _MatrixType, int _UpLo> class LLT
 
     /** \brief Reports whether previous computation was successful.
       *
-      * \returns \c Success if computation was succesful,
+      * \returns \c Success if computation was successful,
       *          \c NumericalIssue if the matrix.appears not to be positive definite.
       */
     ComputationInfo info() const
@@ -194,18 +199,20 @@ template<typename _MatrixType, int _UpLo> class LLT
       * This method is provided for compatibility with other matrix decompositions, thus enabling generic code such as:
       * \code x = decomposition.adjoint().solve(b) \endcode
       */
-    const LLT& adjoint() const { return *this; };
+    const LLT& adjoint() const EIGEN_NOEXCEPT { return *this; };
 
-    inline Index rows() const { return m_matrix.rows(); }
-    inline Index cols() const { return m_matrix.cols(); }
+    inline EIGEN_CONSTEXPR Index rows() const EIGEN_NOEXCEPT { return m_matrix.rows(); }
+    inline EIGEN_CONSTEXPR Index cols() const EIGEN_NOEXCEPT { return m_matrix.cols(); }
 
     template<typename VectorType>
-    LLT rankUpdate(const VectorType& vec, const RealScalar& sigma = 1);
+    LLT & rankUpdate(const VectorType& vec, const RealScalar& sigma = 1);
 
     #ifndef EIGEN_PARSED_BY_DOXYGEN
     template<typename RhsType, typename DstType>
-    EIGEN_DEVICE_FUNC
     void _solve_impl(const RhsType &rhs, DstType &dst) const;
+
+    template<bool Conjugate, typename RhsType, typename DstType>
+    void _solve_impl_transposed(const RhsType &rhs, DstType &dst) const;
     #endif
 
   protected:
@@ -459,7 +466,7 @@ LLT<MatrixType,_UpLo>& LLT<MatrixType,_UpLo>::compute(const EigenBase<InputType>
   */
 template<typename _MatrixType, int _UpLo>
 template<typename VectorType>
-LLT<_MatrixType,_UpLo> LLT<_MatrixType,_UpLo>::rankUpdate(const VectorType& v, const RealScalar& sigma)
+LLT<_MatrixType,_UpLo> & LLT<_MatrixType,_UpLo>::rankUpdate(const VectorType& v, const RealScalar& sigma)
 {
   EIGEN_STATIC_ASSERT_VECTOR_ONLY(VectorType);
   eigen_assert(v.size()==m_matrix.cols());
@@ -477,8 +484,17 @@ template<typename _MatrixType,int _UpLo>
 template<typename RhsType, typename DstType>
 void LLT<_MatrixType,_UpLo>::_solve_impl(const RhsType &rhs, DstType &dst) const
 {
-  dst = rhs;
-  solveInPlace(dst);
+  _solve_impl_transposed<true>(rhs, dst);
+}
+
+template<typename _MatrixType,int _UpLo>
+template<bool Conjugate, typename RhsType, typename DstType>
+void LLT<_MatrixType,_UpLo>::_solve_impl_transposed(const RhsType &rhs, DstType &dst) const
+{
+    dst = rhs;
+
+    matrixL().template conjugateIf<!Conjugate>().solveInPlace(dst);
+    matrixU().template conjugateIf<!Conjugate>().solveInPlace(dst);
 }
 #endif