compbio
DenseBase.h
1 // This file is part of Eigen, a lightweight C++ template library
2 // for linear algebra.
3 //
4 // Copyright (C) 2007-2010 Benoit Jacob <jacob.benoit.1@gmail.com>
5 // Copyright (C) 2008-2010 Gael Guennebaud <gael.guennebaud@inria.fr>
6 //
7 // This Source Code Form is subject to the terms of the Mozilla
8 // Public License v. 2.0. If a copy of the MPL was not distributed
9 // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
10 
11 #ifndef EIGEN_DENSEBASE_H
12 #define EIGEN_DENSEBASE_H
13 
14 namespace Eigen {
15 
16 namespace internal {
17 
18 // The index type defined by EIGEN_DEFAULT_DENSE_INDEX_TYPE must be a signed type.
19 // This dummy function simply aims at checking that at compile time.
20 static inline void check_DenseIndex_is_signed() {
21  EIGEN_STATIC_ASSERT(NumTraits<DenseIndex>::IsSigned,THE_INDEX_TYPE_MUST_BE_A_SIGNED_TYPE);
22 }
23 
24 } // end namespace internal
25 
41 template<typename Derived> class DenseBase
42 #ifndef EIGEN_PARSED_BY_DOXYGEN
43  : public DenseCoeffsBase<Derived>
44 #else
45  : public DenseCoeffsBase<Derived,DirectWriteAccessors>
46 #endif // not EIGEN_PARSED_BY_DOXYGEN
47 {
48  public:
49 
54 
55  typedef typename internal::traits<Derived>::StorageKind StorageKind;
56 
64 
67 
71  typedef Scalar value_type;
72 
73  typedef typename NumTraits<Scalar>::Real RealScalar;
75 
76  using Base::derived;
77  using Base::const_cast_derived;
78  using Base::rows;
79  using Base::cols;
80  using Base::size;
81  using Base::rowIndexByOuterInner;
82  using Base::colIndexByOuterInner;
83  using Base::coeff;
84  using Base::coeffByOuterInner;
85  using Base::operator();
86  using Base::operator[];
87  using Base::x;
88  using Base::y;
89  using Base::z;
90  using Base::w;
91  using Base::stride;
92  using Base::innerStride;
93  using Base::outerStride;
94  using Base::rowStride;
95  using Base::colStride;
96  typedef typename Base::CoeffReturnType CoeffReturnType;
97 
98  enum {
99 
165  IsRowMajor = int(Flags) & RowMajorBit,
167  InnerSizeAtCompileTime = int(IsVectorAtCompileTime) ? int(SizeAtCompileTime)
168  : int(IsRowMajor) ? int(ColsAtCompileTime) : int(RowsAtCompileTime),
169 
170  InnerStrideAtCompileTime = internal::inner_stride_at_compile_time<Derived>::ret,
171  OuterStrideAtCompileTime = internal::outer_stride_at_compile_time<Derived>::ret
172  };
173 
174  typedef typename internal::find_best_packet<Scalar,SizeAtCompileTime>::type PacketScalar;
175 
176  enum { IsPlainObjectBase = 0 };
177 
187 
191  internal::traits<Derived>::RowsAtCompileTime,
192  internal::traits<Derived>::ColsAtCompileTime,
197 
206 
209  EIGEN_DEVICE_FUNC
210  inline Index nonZeros() const { return size(); }
211 
217  EIGEN_DEVICE_FUNC
218  Index outerSize() const
219  {
220  return IsVectorAtCompileTime ? 1
221  : int(IsRowMajor) ? this->rows() : this->cols();
222  }
223 
229  EIGEN_DEVICE_FUNC
230  Index innerSize() const
231  {
232  return IsVectorAtCompileTime ? this->size()
233  : int(IsRowMajor) ? this->cols() : this->rows();
234  }
235 
240  EIGEN_DEVICE_FUNC
241  void resize(Index newSize)
242  {
243  EIGEN_ONLY_USED_FOR_DEBUG(newSize);
244  eigen_assert(newSize == this->size()
245  && "DenseBase::resize() does not actually allow to resize.");
246  }
251  EIGEN_DEVICE_FUNC
252  void resize(Index rows, Index cols)
253  {
254  EIGEN_ONLY_USED_FOR_DEBUG(rows);
255  EIGEN_ONLY_USED_FOR_DEBUG(cols);
256  eigen_assert(rows == this->rows() && cols == this->cols()
257  && "DenseBase::resize() does not actually allow to resize.");
258  }
259 
260 #ifndef EIGEN_PARSED_BY_DOXYGEN
261 
266  typedef CwiseNullaryOp<internal::linspaced_op<Scalar,PacketScalar>,PlainObject> RandomAccessLinSpacedReturnType;
268  typedef Matrix<typename NumTraits<typename internal::traits<Derived>::Scalar>::Real, internal::traits<Derived>::ColsAtCompileTime, 1> EigenvaluesReturnType;
269 
270 #endif // not EIGEN_PARSED_BY_DOXYGEN
273  template<typename OtherDerived>
274  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE
275  Derived& operator=(const DenseBase<OtherDerived>& other);
276 
280  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE
281  Derived& operator=(const DenseBase& other);
282 
283  template<typename OtherDerived>
284  EIGEN_DEVICE_FUNC
285  Derived& operator=(const EigenBase<OtherDerived> &other);
286 
287  template<typename OtherDerived>
288  EIGEN_DEVICE_FUNC
289  Derived& operator+=(const EigenBase<OtherDerived> &other);
290 
291  template<typename OtherDerived>
292  EIGEN_DEVICE_FUNC
293  Derived& operator-=(const EigenBase<OtherDerived> &other);
294 
295  template<typename OtherDerived>
296  EIGEN_DEVICE_FUNC
297  Derived& operator=(const ReturnByValue<OtherDerived>& func);
298 
302  template<typename OtherDerived>
303  EIGEN_DEVICE_FUNC
304  Derived& lazyAssign(const DenseBase<OtherDerived>& other);
305 
306  EIGEN_DEVICE_FUNC
307  CommaInitializer<Derived> operator<< (const Scalar& s);
308 
310  template<unsigned int Added,unsigned int Removed>
311  EIGEN_DEPRECATED
312  const Derived& flagged() const
313  { return derived(); }
314 
315  template<typename OtherDerived>
316  EIGEN_DEVICE_FUNC
317  CommaInitializer<Derived> operator<< (const DenseBase<OtherDerived>& other);
318 
320  EIGEN_DEVICE_FUNC
321  TransposeReturnType transpose();
323  EIGEN_DEVICE_FUNC
324  ConstTransposeReturnType transpose() const;
325  EIGEN_DEVICE_FUNC
326  void transposeInPlace();
327 
328  EIGEN_DEVICE_FUNC static const ConstantReturnType
329  Constant(Index rows, Index cols, const Scalar& value);
330  EIGEN_DEVICE_FUNC static const ConstantReturnType
331  Constant(Index size, const Scalar& value);
332  EIGEN_DEVICE_FUNC static const ConstantReturnType
333  Constant(const Scalar& value);
334 
335  EIGEN_DEVICE_FUNC static const SequentialLinSpacedReturnType
336  LinSpaced(Sequential_t, Index size, const Scalar& low, const Scalar& high);
337  EIGEN_DEVICE_FUNC static const RandomAccessLinSpacedReturnType
338  LinSpaced(Index size, const Scalar& low, const Scalar& high);
339  EIGEN_DEVICE_FUNC static const SequentialLinSpacedReturnType
340  LinSpaced(Sequential_t, const Scalar& low, const Scalar& high);
341  EIGEN_DEVICE_FUNC static const RandomAccessLinSpacedReturnType
342  LinSpaced(const Scalar& low, const Scalar& high);
343 
344  template<typename CustomNullaryOp> EIGEN_DEVICE_FUNC
346  NullaryExpr(Index rows, Index cols, const CustomNullaryOp& func);
347  template<typename CustomNullaryOp> EIGEN_DEVICE_FUNC
349  NullaryExpr(Index size, const CustomNullaryOp& func);
350  template<typename CustomNullaryOp> EIGEN_DEVICE_FUNC
352  NullaryExpr(const CustomNullaryOp& func);
353 
354  EIGEN_DEVICE_FUNC static const ConstantReturnType Zero(Index rows, Index cols);
355  EIGEN_DEVICE_FUNC static const ConstantReturnType Zero(Index size);
356  EIGEN_DEVICE_FUNC static const ConstantReturnType Zero();
357  EIGEN_DEVICE_FUNC static const ConstantReturnType Ones(Index rows, Index cols);
358  EIGEN_DEVICE_FUNC static const ConstantReturnType Ones(Index size);
359  EIGEN_DEVICE_FUNC static const ConstantReturnType Ones();
360 
361  EIGEN_DEVICE_FUNC void fill(const Scalar& value);
362  EIGEN_DEVICE_FUNC Derived& setConstant(const Scalar& value);
363  EIGEN_DEVICE_FUNC Derived& setLinSpaced(Index size, const Scalar& low, const Scalar& high);
364  EIGEN_DEVICE_FUNC Derived& setLinSpaced(const Scalar& low, const Scalar& high);
365  EIGEN_DEVICE_FUNC Derived& setZero();
366  EIGEN_DEVICE_FUNC Derived& setOnes();
367  EIGEN_DEVICE_FUNC Derived& setRandom();
368 
369  template<typename OtherDerived> EIGEN_DEVICE_FUNC
370  bool isApprox(const DenseBase<OtherDerived>& other,
371  const RealScalar& prec = NumTraits<Scalar>::dummy_precision()) const;
372  EIGEN_DEVICE_FUNC
373  bool isMuchSmallerThan(const RealScalar& other,
374  const RealScalar& prec = NumTraits<Scalar>::dummy_precision()) const;
375  template<typename OtherDerived> EIGEN_DEVICE_FUNC
376  bool isMuchSmallerThan(const DenseBase<OtherDerived>& other,
377  const RealScalar& prec = NumTraits<Scalar>::dummy_precision()) const;
378 
379  EIGEN_DEVICE_FUNC bool isApproxToConstant(const Scalar& value, const RealScalar& prec = NumTraits<Scalar>::dummy_precision()) const;
380  EIGEN_DEVICE_FUNC bool isConstant(const Scalar& value, const RealScalar& prec = NumTraits<Scalar>::dummy_precision()) const;
381  EIGEN_DEVICE_FUNC bool isZero(const RealScalar& prec = NumTraits<Scalar>::dummy_precision()) const;
382  EIGEN_DEVICE_FUNC bool isOnes(const RealScalar& prec = NumTraits<Scalar>::dummy_precision()) const;
383 
384  inline bool hasNaN() const;
385  inline bool allFinite() const;
386 
387  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE
388  Derived& operator*=(const Scalar& other);
389  EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE
390  Derived& operator/=(const Scalar& other);
391 
400  EIGEN_DEVICE_FUNC
401  EIGEN_STRONG_INLINE EvalReturnType eval() const
402  {
403  // Even though MSVC does not honor strong inlining when the return type
404  // is a dynamic matrix, we desperately need strong inlining for fixed
405  // size types on MSVC.
406  return typename internal::eval<Derived>::type(derived());
407  }
408 
412  template<typename OtherDerived>
413  EIGEN_DEVICE_FUNC
414  void swap(const DenseBase<OtherDerived>& other)
415  {
416  EIGEN_STATIC_ASSERT(!OtherDerived::IsPlainObjectBase,THIS_EXPRESSION_IS_NOT_A_LVALUE__IT_IS_READ_ONLY);
417  eigen_assert(rows()==other.rows() && cols()==other.cols());
418  call_assignment(derived(), other.const_cast_derived(), internal::swap_assign_op<Scalar>());
419  }
420 
424  template<typename OtherDerived>
425  EIGEN_DEVICE_FUNC
427  {
428  eigen_assert(rows()==other.rows() && cols()==other.cols());
429  call_assignment(derived(), other.derived(), internal::swap_assign_op<Scalar>());
430  }
431 
432  EIGEN_DEVICE_FUNC inline const NestByValue<Derived> nestByValue() const;
433  EIGEN_DEVICE_FUNC inline const ForceAlignedAccess<Derived> forceAlignedAccess() const;
434  EIGEN_DEVICE_FUNC inline ForceAlignedAccess<Derived> forceAlignedAccess();
435  template<bool Enable> EIGEN_DEVICE_FUNC
436  inline const typename internal::conditional<Enable,ForceAlignedAccess<Derived>,Derived&>::type forceAlignedAccessIf() const;
437  template<bool Enable> EIGEN_DEVICE_FUNC
438  inline typename internal::conditional<Enable,ForceAlignedAccess<Derived>,Derived&>::type forceAlignedAccessIf();
439 
440  EIGEN_DEVICE_FUNC Scalar sum() const;
441  EIGEN_DEVICE_FUNC Scalar mean() const;
442  EIGEN_DEVICE_FUNC Scalar trace() const;
443 
444  EIGEN_DEVICE_FUNC Scalar prod() const;
445 
446  EIGEN_DEVICE_FUNC typename internal::traits<Derived>::Scalar minCoeff() const;
447  EIGEN_DEVICE_FUNC typename internal::traits<Derived>::Scalar maxCoeff() const;
448 
449  template<typename IndexType> EIGEN_DEVICE_FUNC
450  typename internal::traits<Derived>::Scalar minCoeff(IndexType* row, IndexType* col) const;
451  template<typename IndexType> EIGEN_DEVICE_FUNC
452  typename internal::traits<Derived>::Scalar maxCoeff(IndexType* row, IndexType* col) const;
453  template<typename IndexType> EIGEN_DEVICE_FUNC
454  typename internal::traits<Derived>::Scalar minCoeff(IndexType* index) const;
455  template<typename IndexType> EIGEN_DEVICE_FUNC
456  typename internal::traits<Derived>::Scalar maxCoeff(IndexType* index) const;
457 
458  template<typename BinaryOp>
459  EIGEN_DEVICE_FUNC
460  Scalar redux(const BinaryOp& func) const;
461 
462  template<typename Visitor>
463  EIGEN_DEVICE_FUNC
464  void visit(Visitor& func) const;
465 
466  inline const WithFormat<Derived> format(const IOFormat& fmt) const;
467 
469  EIGEN_DEVICE_FUNC
470  CoeffReturnType value() const
471  {
472  EIGEN_STATIC_ASSERT_SIZE_1x1(Derived)
473  eigen_assert(this->rows() == 1 && this->cols() == 1);
474  return derived().coeff(0,0);
475  }
476 
477  bool all() const;
478  bool any() const;
479  Index count() const;
480 
485 
493  //Code moved here due to a CUDA compiler bug
494  EIGEN_DEVICE_FUNC inline ConstRowwiseReturnType rowwise() const {
495  return ConstRowwiseReturnType(derived());
496  }
497  EIGEN_DEVICE_FUNC RowwiseReturnType rowwise();
498 
506  EIGEN_DEVICE_FUNC inline ConstColwiseReturnType colwise() const {
507  return ConstColwiseReturnType(derived());
508  }
509  EIGEN_DEVICE_FUNC ColwiseReturnType colwise();
510 
512  static const RandomReturnType Random(Index rows, Index cols);
513  static const RandomReturnType Random(Index size);
514  static const RandomReturnType Random();
515 
516  template<typename ThenDerived,typename ElseDerived>
518  select(const DenseBase<ThenDerived>& thenMatrix,
519  const DenseBase<ElseDerived>& elseMatrix) const;
520 
521  template<typename ThenDerived>
523  select(const DenseBase<ThenDerived>& thenMatrix, const typename ThenDerived::Scalar& elseScalar) const;
524 
525  template<typename ElseDerived>
527  select(const typename ElseDerived::Scalar& thenScalar, const DenseBase<ElseDerived>& elseMatrix) const;
528 
529  template<int p> RealScalar lpNorm() const;
530 
531  template<int RowFactor, int ColFactor>
532  EIGEN_DEVICE_FUNC
533  const Replicate<Derived,RowFactor,ColFactor> replicate() const;
542  //Code moved here due to a CUDA compiler bug
543  EIGEN_DEVICE_FUNC
544  const Replicate<Derived, Dynamic, Dynamic> replicate(Index rowFactor, Index colFactor) const
545  {
546  return Replicate<Derived, Dynamic, Dynamic>(derived(), rowFactor, colFactor);
547  }
548 
551  EIGEN_DEVICE_FUNC ReverseReturnType reverse();
553  //Code moved here due to a CUDA compiler bug
554  EIGEN_DEVICE_FUNC ConstReverseReturnType reverse() const
555  {
556  return ConstReverseReturnType(derived());
557  }
558  EIGEN_DEVICE_FUNC void reverseInPlace();
559 
560 #define EIGEN_CURRENT_STORAGE_BASE_CLASS Eigen::DenseBase
561 #define EIGEN_DOC_BLOCK_ADDONS_NOT_INNER_PANEL
562 #define EIGEN_DOC_BLOCK_ADDONS_INNER_PANEL_IF(COND)
563 # include "../plugins/BlockMethods.h"
564 # ifdef EIGEN_DENSEBASE_PLUGIN
565 # include EIGEN_DENSEBASE_PLUGIN
566 # endif
567 #undef EIGEN_CURRENT_STORAGE_BASE_CLASS
568 #undef EIGEN_DOC_BLOCK_ADDONS_NOT_INNER_PANEL
569 #undef EIGEN_DOC_BLOCK_ADDONS_INNER_PANEL_IF
570 
571  // disable the use of evalTo for dense objects with a nice compilation error
572  template<typename Dest>
573  EIGEN_DEVICE_FUNC
574  inline void evalTo(Dest& ) const
575  {
576  EIGEN_STATIC_ASSERT((internal::is_same<Dest,void>::value),THE_EVAL_EVALTO_FUNCTION_SHOULD_NEVER_BE_CALLED_FOR_DENSE_OBJECTS);
577  }
578 
579  protected:
581  EIGEN_DEVICE_FUNC DenseBase()
582  {
583  /* Just checks for self-consistency of the flags.
584  * Only do it when debugging Eigen, as this borders on paranoiac and could slow compilation down
585  */
586 #ifdef EIGEN_INTERNAL_DEBUGGING
587  EIGEN_STATIC_ASSERT((EIGEN_IMPLIES(MaxRowsAtCompileTime==1 && MaxColsAtCompileTime!=1, int(IsRowMajor))
588  && EIGEN_IMPLIES(MaxColsAtCompileTime==1 && MaxRowsAtCompileTime!=1, int(!IsRowMajor))),
589  INVALID_STORAGE_ORDER_FOR_THIS_VECTOR_EXPRESSION)
590 #endif
591  }
592 
593  private:
594  EIGEN_DEVICE_FUNC explicit DenseBase(int);
595  EIGEN_DEVICE_FUNC DenseBase(int,int);
596  template<typename OtherDerived> EIGEN_DEVICE_FUNC explicit DenseBase(const DenseBase<OtherDerived>&);
597 };
598 
599 } // end namespace Eigen
600 
601 #endif // EIGEN_DENSEBASE_H
Generic expression of a matrix where all coefficients are defined by a functor.
Definition: CwiseNullaryOp.h:60
EIGEN_DEVICE_FUNC ConstReverseReturnType reverse() const
This is the const version of reverse().
Definition: DenseBase.h:554
Enforce aligned packet loads and stores regardless of what is requested.
Definition: ForceAlignedAccess.h:34
internal::traits< Derived >::Scalar Scalar
The numeric type of the expression&#39; coefficients, e.g.
Definition: DenseBase.h:66
Storage order is column major (see TopicStorageOrders).
Definition: Constants.h:320
EIGEN_DEVICE_FUNC DenseBase()
Default constructor.
Definition: DenseBase.h:581
EIGEN_DEVICE_FUNC Index outerSize() const
Definition: DenseBase.h:218
Definition: AssignmentFunctors.h:142
Definition: Meta.h:63
EIGEN_DEVICE_FUNC ConstColwiseReturnType colwise() const
Definition: DenseBase.h:506
Expression of the transpose of a matrix.
Definition: Transpose.h:52
EIGEN_DEVICE_FUNC void swap(const DenseBase< OtherDerived > &other)
swaps *this with the expression other.
Definition: DenseBase.h:414
Namespace containing all symbols from the Eigen library.
Definition: bench_norm.cpp:85
Scalar value_type
The numeric type of the expression&#39; coefficients, e.g.
Definition: DenseBase.h:71
EIGEN_DEVICE_FUNC CoeffReturnType value() const
Definition: DenseBase.h:470
Holds information about the various numeric (i.e.
Definition: NumTraits.h:150
Definition: ForwardDeclarations.h:54
Definition: Meta.h:58
EIGEN_DEVICE_FUNC void resize(Index newSize)
Only plain matrices/arrays, not expressions, may be resized; therefore the only useful resize methods...
Definition: DenseBase.h:241
Pseudo expression providing partial reduction operations.
Definition: ForwardDeclarations.h:245
const unsigned int RowMajorBit
for a matrix, this means that the storage order is row-major.
Definition: Constants.h:61
Base class for all dense matrices, vectors, and arrays.
Definition: DenseBase.h:41
Helper class used by the comma initializer operator.
Definition: CommaInitializer.h:28
internal::traits< Derived >::StorageIndex StorageIndex
The type used to store indices.
Definition: DenseBase.h:63
Common base class for all classes T such that MatrixBase has an operator=(T) and a constructor Matrix...
Definition: EigenBase.h:28
The type used to identify a matrix expression.
Definition: Constants.h:506
Definition: ReturnByValue.h:50
Align the matrix itself if it is vectorizable fixed-size.
Definition: Constants.h:324
EIGEN_DEVICE_FUNC const Replicate< Derived, Dynamic, Dynamic > replicate(Index rowFactor, Index colFactor) const
Definition: DenseBase.h:544
EIGEN_DEFAULT_DENSE_INDEX_TYPE Index
The Index type as used for the API.
Definition: Meta.h:33
Dense storage base class for matrices and arrays.
Definition: PlainObjectBase.h:92
Expression of the multiple replication of a matrix or vector.
Definition: Replicate.h:61
EIGEN_DEVICE_FUNC ConstRowwiseReturnType rowwise() const
Definition: DenseBase.h:494
EIGEN_DEVICE_FUNC Index nonZeros() const
Definition: DenseBase.h:210
EIGEN_DEPRECATED const Derived & flagged() const
Definition: DenseBase.h:312
Expression which must be nested by value.
Definition: NestByValue.h:34
EIGEN_DEVICE_FUNC void swap(PlainObjectBase< OtherDerived > &other)
swaps *this with the matrix or array other.
Definition: DenseBase.h:426
EIGEN_DEVICE_FUNC Index innerSize() const
Definition: DenseBase.h:230
Definition: benchGeometry.cpp:23
EIGEN_DEVICE_FUNC void resize(Index rows, Index cols)
Only plain matrices/arrays, not expressions, may be resized; therefore the only useful resize methods...
Definition: DenseBase.h:252
Definition: BandTriangularSolver.h:13
internal::conditional< internal::is_same< typename internal::traits< Derived >::XprKind, MatrixXpr >::value, PlainMatrix, PlainArray >::type PlainObject
The plain matrix or array type corresponding to this expression.
Definition: DenseBase.h:205
Definition: Meta.h:112
General-purpose arrays with easy API for coefficient-wise operations.
Definition: Array.h:45
Storage order is row major (see TopicStorageOrders).
Definition: Constants.h:322
EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE EvalReturnType eval() const
Definition: DenseBase.h:401
The matrix class, also used for vectors and row-vectors.
Definition: Matrix.h:178
Pseudo expression providing matrix output with given format.
Definition: IO.h:94
Expression of the reverse of a vector or matrix.
Definition: Reverse.h:63
Stores a set of parameters controlling the way matrices are printed.
Definition: IO.h:50
Definition: ForwardDeclarations.h:17
Definition: XprHelper.h:312
Definition: XprHelper.h:261
Eigen::InnerIterator< Derived > InnerIterator
Inner iterator type to iterate over the coefficients of a row or column.
Definition: DenseBase.h:53
Expression of a coefficient wise version of the C++ ternary operator ?:
Definition: Select.h:52
An InnerIterator allows to loop over the element of any matrix expression.
Definition: CoreIterators.h:33