sequenzo 0.1.18__cp311-cp311-macosx_10_9_universal2.whl → 0.1.20__cp311-cp311-macosx_10_9_universal2.whl

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  1. sequenzo/__init__.py +39 -7
  2. sequenzo/big_data/clara/utils/get_weighted_diss.c +155 -155
  3. sequenzo/big_data/clara/utils/get_weighted_diss.cpython-311-darwin.so +0 -0
  4. sequenzo/clustering/KMedoids.py +39 -0
  5. sequenzo/clustering/hierarchical_clustering.py +108 -6
  6. sequenzo/define_sequence_data.py +10 -1
  7. sequenzo/dissimilarity_measures/get_distance_matrix.py +2 -3
  8. sequenzo/dissimilarity_measures/get_substitution_cost_matrix.py +1 -1
  9. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c +155 -155
  10. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cpython-311-darwin.so +0 -0
  11. sequenzo/dissimilarity_measures/utils/seqconc.c +155 -155
  12. sequenzo/dissimilarity_measures/utils/seqconc.cpython-311-darwin.so +0 -0
  13. sequenzo/dissimilarity_measures/utils/seqdss.c +155 -155
  14. sequenzo/dissimilarity_measures/utils/seqdss.cpython-311-darwin.so +0 -0
  15. sequenzo/dissimilarity_measures/utils/seqdur.c +155 -155
  16. sequenzo/dissimilarity_measures/utils/seqdur.cpython-311-darwin.so +0 -0
  17. sequenzo/dissimilarity_measures/utils/seqlength.c +155 -155
  18. sequenzo/dissimilarity_measures/utils/seqlength.cpython-311-darwin.so +0 -0
  19. sequenzo/multidomain/cat.py +0 -53
  20. sequenzo/multidomain/dat.py +11 -3
  21. sequenzo/multidomain/idcd.py +0 -3
  22. sequenzo/multidomain/linked_polyad.py +0 -1
  23. sequenzo/openmp_setup.py +233 -0
  24. sequenzo/visualization/plot_transition_matrix.py +21 -22
  25. {sequenzo-0.1.18.dist-info → sequenzo-0.1.20.dist-info}/METADATA +71 -10
  26. sequenzo-0.1.20.dist-info/RECORD +215 -0
  27. sequenzo/dissimilarity_measures/setup.py +0 -35
  28. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LDLT.h +0 -688
  29. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT.h +0 -558
  30. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +0 -99
  31. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +0 -682
  32. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +0 -346
  33. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +0 -462
  34. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +0 -91
  35. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/EigenSolver.h +0 -622
  36. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +0 -418
  37. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +0 -226
  38. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +0 -374
  39. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +0 -158
  40. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealQZ.h +0 -657
  41. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur.h +0 -558
  42. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +0 -77
  43. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +0 -904
  44. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +0 -87
  45. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +0 -561
  46. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AlignedBox.h +0 -486
  47. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AngleAxis.h +0 -247
  48. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/EulerAngles.h +0 -114
  49. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Homogeneous.h +0 -501
  50. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Hyperplane.h +0 -282
  51. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/OrthoMethods.h +0 -235
  52. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/ParametrizedLine.h +0 -232
  53. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Quaternion.h +0 -870
  54. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Rotation2D.h +0 -199
  55. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/RotationBase.h +0 -206
  56. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Scaling.h +0 -188
  57. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Transform.h +0 -1563
  58. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Translation.h +0 -202
  59. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Umeyama.h +0 -166
  60. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/arch/Geometry_SIMD.h +0 -168
  61. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/BlockHouseholder.h +0 -110
  62. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/Householder.h +0 -176
  63. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/HouseholderSequence.h +0 -545
  64. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +0 -226
  65. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +0 -212
  66. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +0 -229
  67. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +0 -394
  68. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +0 -453
  69. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +0 -444
  70. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +0 -198
  71. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +0 -117
  72. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Jacobi/Jacobi.h +0 -483
  73. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/KLUSupport/KLUSupport.h +0 -358
  74. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/Determinant.h +0 -117
  75. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/FullPivLU.h +0 -877
  76. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/InverseImpl.h +0 -432
  77. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU.h +0 -624
  78. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +0 -83
  79. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/arch/InverseSize4.h +0 -351
  80. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/MetisSupport/MetisSupport.h +0 -137
  81. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Amd.h +0 -435
  82. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +0 -1863
  83. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Ordering.h +0 -153
  84. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +0 -678
  85. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +0 -545
  86. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR.h +0 -674
  87. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +0 -97
  88. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +0 -635
  89. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/FullPivHouseholderQR.h +0 -713
  90. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR.h +0 -434
  91. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +0 -68
  92. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +0 -335
  93. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/BDCSVD.h +0 -1366
  94. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h +0 -812
  95. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +0 -91
  96. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/SVDBase.h +0 -376
  97. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/UpperBidiagonalization.h +0 -414
  98. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +0 -697
  99. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +0 -174
  100. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/AmbiVector.h +0 -378
  101. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/CompressedStorage.h +0 -274
  102. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +0 -352
  103. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +0 -67
  104. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseAssign.h +0 -270
  105. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseBlock.h +0 -571
  106. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseColEtree.h +0 -206
  107. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +0 -370
  108. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +0 -722
  109. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +0 -150
  110. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +0 -342
  111. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +0 -138
  112. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDot.h +0 -98
  113. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseFuzzy.h +0 -29
  114. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMap.h +0 -305
  115. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrix.h +0 -1518
  116. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +0 -398
  117. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparsePermutation.h +0 -178
  118. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseProduct.h +0 -181
  119. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRedux.h +0 -49
  120. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRef.h +0 -397
  121. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +0 -659
  122. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSolverBase.h +0 -124
  123. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +0 -198
  124. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTranspose.h +0 -92
  125. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTriangularView.h +0 -189
  126. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseUtil.h +0 -186
  127. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseVector.h +0 -478
  128. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseView.h +0 -254
  129. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/TriangularSolver.h +0 -315
  130. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU.h +0 -923
  131. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLUImpl.h +0 -66
  132. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +0 -226
  133. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +0 -110
  134. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +0 -375
  135. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +0 -80
  136. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_bmod.h +0 -181
  137. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_dfs.h +0 -179
  138. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +0 -107
  139. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +0 -280
  140. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +0 -126
  141. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +0 -130
  142. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_bmod.h +0 -223
  143. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_dfs.h +0 -258
  144. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pivotL.h +0 -137
  145. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pruneL.h +0 -136
  146. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_relax_snode.h +0 -83
  147. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseQR/SparseQR.h +0 -758
  148. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdDeque.h +0 -116
  149. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdList.h +0 -106
  150. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdVector.h +0 -131
  151. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/details.h +0 -84
  152. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SuperLUSupport/SuperLUSupport.h +0 -1025
  153. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/UmfPackSupport/UmfPackSupport.h +0 -642
  154. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Image.h +0 -82
  155. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Kernel.h +0 -79
  156. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/RealSvd2x2.h +0 -55
  157. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/blas.h +0 -440
  158. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapack.h +0 -152
  159. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke.h +0 -16292
  160. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke_mangling.h +0 -17
  161. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseBinaryOps.h +0 -358
  162. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseUnaryOps.h +0 -696
  163. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/BlockMethods.h +0 -1442
  164. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseBinaryOps.h +0 -115
  165. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseUnaryOps.h +0 -177
  166. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/IndexedViewMethods.h +0 -262
  167. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseBinaryOps.h +0 -152
  168. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseUnaryOps.h +0 -95
  169. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ReshapedMethods.h +0 -149
  170. sequenzo/dissimilarity_measures/src/eigen/blas/BandTriangularSolver.h +0 -97
  171. sequenzo/dissimilarity_measures/src/eigen/blas/GeneralRank1Update.h +0 -44
  172. sequenzo/dissimilarity_measures/src/eigen/blas/PackedSelfadjointProduct.h +0 -53
  173. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularMatrixVector.h +0 -79
  174. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularSolverVector.h +0 -88
  175. sequenzo/dissimilarity_measures/src/eigen/blas/Rank2Update.h +0 -57
  176. sequenzo/dissimilarity_measures/src/eigen/blas/common.h +0 -175
  177. sequenzo/dissimilarity_measures/src/eigen/blas/f2c/datatypes.h +0 -24
  178. sequenzo/dissimilarity_measures/src/eigen/blas/level1_cplx_impl.h +0 -155
  179. sequenzo/dissimilarity_measures/src/eigen/blas/level1_impl.h +0 -144
  180. sequenzo/dissimilarity_measures/src/eigen/blas/level1_real_impl.h +0 -122
  181. sequenzo/dissimilarity_measures/src/eigen/blas/level2_cplx_impl.h +0 -360
  182. sequenzo/dissimilarity_measures/src/eigen/blas/level2_impl.h +0 -553
  183. sequenzo/dissimilarity_measures/src/eigen/blas/level2_real_impl.h +0 -306
  184. sequenzo/dissimilarity_measures/src/eigen/blas/level3_impl.h +0 -702
  185. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/__init__.py +0 -1
  186. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/printers.py +0 -314
  187. sequenzo/dissimilarity_measures/src/eigen/lapack/lapack_common.h +0 -29
  188. sequenzo/dissimilarity_measures/src/eigen/scripts/relicense.py +0 -69
  189. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/Tensor.h +0 -554
  190. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorArgMax.h +0 -329
  191. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorAssign.h +0 -247
  192. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBase.h +0 -1176
  193. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBlock.h +0 -1559
  194. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBroadcasting.h +0 -1093
  195. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorChipping.h +0 -518
  196. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConcatenation.h +0 -377
  197. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContraction.h +0 -1023
  198. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionBlocking.h +0 -73
  199. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionCuda.h +0 -6
  200. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionGpu.h +0 -1413
  201. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionMapper.h +0 -575
  202. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionSycl.h +0 -1650
  203. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionThreadPool.h +0 -1679
  204. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConversion.h +0 -456
  205. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolution.h +0 -1132
  206. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolutionSycl.h +0 -544
  207. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCostModel.h +0 -214
  208. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCustomOp.h +0 -347
  209. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDevice.h +0 -137
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  359. {sequenzo-0.1.18.dist-info → sequenzo-0.1.20.dist-info}/licenses/LICENSE +0 -0
  360. {sequenzo-0.1.18.dist-info → sequenzo-0.1.20.dist-info}/top_level.txt +0 -0
@@ -1,2045 +0,0 @@
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- // This file is part of Eigen, a lightweight C++ template library
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- // for linear algebra.
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- //
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- // Copyright (C) 2015 Eugene Brevdo <ebrevdo@gmail.com>
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- //
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- // This Source Code Form is subject to the terms of the Mozilla
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- // Public License v. 2.0. If a copy of the MPL was not distributed
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- // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
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-
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- #ifndef EIGEN_SPECIAL_FUNCTIONS_H
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- #define EIGEN_SPECIAL_FUNCTIONS_H
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-
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- namespace Eigen {
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- namespace internal {
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-
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- // Parts of this code are based on the Cephes Math Library.
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- //
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- // Cephes Math Library Release 2.8: June, 2000
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- // Copyright 1984, 1987, 1992, 2000 by Stephen L. Moshier
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- //
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- // Permission has been kindly provided by the original author
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- // to incorporate the Cephes software into the Eigen codebase:
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- //
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- // From: Stephen Moshier
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- // To: Eugene Brevdo
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- // Subject: Re: Permission to wrap several cephes functions in Eigen
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- //
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- // Hello Eugene,
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- //
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- // Thank you for writing.
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- //
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- // If your licensing is similar to BSD, the formal way that has been
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- // handled is simply to add a statement to the effect that you are incorporating
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- // the Cephes software by permission of the author.
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- //
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- // Good luck with your project,
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- // Steve
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-
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-
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- /****************************************************************************
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- * Implementation of lgamma, requires C++11/C99 *
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- ****************************************************************************/
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-
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- template <typename Scalar>
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- struct lgamma_impl {
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- EIGEN_DEVICE_FUNC
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- static EIGEN_STRONG_INLINE Scalar run(const Scalar) {
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- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, Scalar>::value == false),
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- THIS_TYPE_IS_NOT_SUPPORTED);
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- return Scalar(0);
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- }
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- };
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-
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- template <typename Scalar>
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- struct lgamma_retval {
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- typedef Scalar type;
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- };
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-
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- #if EIGEN_HAS_C99_MATH
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- // Since glibc 2.19
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- #if defined(__GLIBC__) && ((__GLIBC__>=2 && __GLIBC_MINOR__ >= 19) || __GLIBC__>2) \
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- && (defined(_DEFAULT_SOURCE) || defined(_BSD_SOURCE) || defined(_SVID_SOURCE))
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- #define EIGEN_HAS_LGAMMA_R
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- #endif
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-
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- // Glibc versions before 2.19
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- #if defined(__GLIBC__) && ((__GLIBC__==2 && __GLIBC_MINOR__ < 19) || __GLIBC__<2) \
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- && (defined(_BSD_SOURCE) || defined(_SVID_SOURCE))
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- #define EIGEN_HAS_LGAMMA_R
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- #endif
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-
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- template <>
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- struct lgamma_impl<float> {
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- EIGEN_DEVICE_FUNC
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- static EIGEN_STRONG_INLINE float run(float x) {
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- #if !defined(EIGEN_GPU_COMPILE_PHASE) && defined (EIGEN_HAS_LGAMMA_R) && !defined(__APPLE__)
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- int dummy;
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- return ::lgammaf_r(x, &dummy);
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- #elif defined(SYCL_DEVICE_ONLY)
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- return cl::sycl::lgamma(x);
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- #else
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- return ::lgammaf(x);
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- #endif
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- }
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- };
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-
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- template <>
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- struct lgamma_impl<double> {
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- EIGEN_DEVICE_FUNC
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- static EIGEN_STRONG_INLINE double run(double x) {
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- #if !defined(EIGEN_GPU_COMPILE_PHASE) && defined(EIGEN_HAS_LGAMMA_R) && !defined(__APPLE__)
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- int dummy;
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- return ::lgamma_r(x, &dummy);
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- #elif defined(SYCL_DEVICE_ONLY)
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- return cl::sycl::lgamma(x);
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- #else
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- return ::lgamma(x);
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- #endif
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- }
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- };
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-
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- #undef EIGEN_HAS_LGAMMA_R
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- #endif
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-
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- /****************************************************************************
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- * Implementation of digamma (psi), based on Cephes *
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- ****************************************************************************/
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-
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- template <typename Scalar>
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- struct digamma_retval {
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- typedef Scalar type;
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- };
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-
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- /*
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- *
116
- * Polynomial evaluation helper for the Psi (digamma) function.
117
- *
118
- * digamma_impl_maybe_poly::run(s) evaluates the asymptotic Psi expansion for
119
- * input Scalar s, assuming s is above 10.0.
120
- *
121
- * If s is above a certain threshold for the given Scalar type, zero
122
- * is returned. Otherwise the polynomial is evaluated with enough
123
- * coefficients for results matching Scalar machine precision.
124
- *
125
- *
126
- */
127
- template <typename Scalar>
128
- struct digamma_impl_maybe_poly {
129
- EIGEN_DEVICE_FUNC
130
- static EIGEN_STRONG_INLINE Scalar run(const Scalar) {
131
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, Scalar>::value == false),
132
- THIS_TYPE_IS_NOT_SUPPORTED);
133
- return Scalar(0);
134
- }
135
- };
136
-
137
-
138
- template <>
139
- struct digamma_impl_maybe_poly<float> {
140
- EIGEN_DEVICE_FUNC
141
- static EIGEN_STRONG_INLINE float run(const float s) {
142
- const float A[] = {
143
- -4.16666666666666666667E-3f,
144
- 3.96825396825396825397E-3f,
145
- -8.33333333333333333333E-3f,
146
- 8.33333333333333333333E-2f
147
- };
148
-
149
- float z;
150
- if (s < 1.0e8f) {
151
- z = 1.0f / (s * s);
152
- return z * internal::ppolevl<float, 3>::run(z, A);
153
- } else return 0.0f;
154
- }
155
- };
156
-
157
- template <>
158
- struct digamma_impl_maybe_poly<double> {
159
- EIGEN_DEVICE_FUNC
160
- static EIGEN_STRONG_INLINE double run(const double s) {
161
- const double A[] = {
162
- 8.33333333333333333333E-2,
163
- -2.10927960927960927961E-2,
164
- 7.57575757575757575758E-3,
165
- -4.16666666666666666667E-3,
166
- 3.96825396825396825397E-3,
167
- -8.33333333333333333333E-3,
168
- 8.33333333333333333333E-2
169
- };
170
-
171
- double z;
172
- if (s < 1.0e17) {
173
- z = 1.0 / (s * s);
174
- return z * internal::ppolevl<double, 6>::run(z, A);
175
- }
176
- else return 0.0;
177
- }
178
- };
179
-
180
- template <typename Scalar>
181
- struct digamma_impl {
182
- EIGEN_DEVICE_FUNC
183
- static Scalar run(Scalar x) {
184
- /*
185
- *
186
- * Psi (digamma) function (modified for Eigen)
187
- *
188
- *
189
- * SYNOPSIS:
190
- *
191
- * double x, y, psi();
192
- *
193
- * y = psi( x );
194
- *
195
- *
196
- * DESCRIPTION:
197
- *
198
- * d -
199
- * psi(x) = -- ln | (x)
200
- * dx
201
- *
202
- * is the logarithmic derivative of the gamma function.
203
- * For integer x,
204
- * n-1
205
- * -
206
- * psi(n) = -EUL + > 1/k.
207
- * -
208
- * k=1
209
- *
210
- * If x is negative, it is transformed to a positive argument by the
211
- * reflection formula psi(1-x) = psi(x) + pi cot(pi x).
212
- * For general positive x, the argument is made greater than 10
213
- * using the recurrence psi(x+1) = psi(x) + 1/x.
214
- * Then the following asymptotic expansion is applied:
215
- *
216
- * inf. B
217
- * - 2k
218
- * psi(x) = log(x) - 1/2x - > -------
219
- * - 2k
220
- * k=1 2k x
221
- *
222
- * where the B2k are Bernoulli numbers.
223
- *
224
- * ACCURACY (float):
225
- * Relative error (except absolute when |psi| < 1):
226
- * arithmetic domain # trials peak rms
227
- * IEEE 0,30 30000 1.3e-15 1.4e-16
228
- * IEEE -30,0 40000 1.5e-15 2.2e-16
229
- *
230
- * ACCURACY (double):
231
- * Absolute error, relative when |psi| > 1 :
232
- * arithmetic domain # trials peak rms
233
- * IEEE -33,0 30000 8.2e-7 1.2e-7
234
- * IEEE 0,33 100000 7.3e-7 7.7e-8
235
- *
236
- * ERROR MESSAGES:
237
- * message condition value returned
238
- * psi singularity x integer <=0 INFINITY
239
- */
240
-
241
- Scalar p, q, nz, s, w, y;
242
- bool negative = false;
243
-
244
- const Scalar nan = NumTraits<Scalar>::quiet_NaN();
245
- const Scalar m_pi = Scalar(EIGEN_PI);
246
-
247
- const Scalar zero = Scalar(0);
248
- const Scalar one = Scalar(1);
249
- const Scalar half = Scalar(0.5);
250
- nz = zero;
251
-
252
- if (x <= zero) {
253
- negative = true;
254
- q = x;
255
- p = numext::floor(q);
256
- if (p == q) {
257
- return nan;
258
- }
259
- /* Remove the zeros of tan(m_pi x)
260
- * by subtracting the nearest integer from x
261
- */
262
- nz = q - p;
263
- if (nz != half) {
264
- if (nz > half) {
265
- p += one;
266
- nz = q - p;
267
- }
268
- nz = m_pi / numext::tan(m_pi * nz);
269
- }
270
- else {
271
- nz = zero;
272
- }
273
- x = one - x;
274
- }
275
-
276
- /* use the recurrence psi(x+1) = psi(x) + 1/x. */
277
- s = x;
278
- w = zero;
279
- while (s < Scalar(10)) {
280
- w += one / s;
281
- s += one;
282
- }
283
-
284
- y = digamma_impl_maybe_poly<Scalar>::run(s);
285
-
286
- y = numext::log(s) - (half / s) - y - w;
287
-
288
- return (negative) ? y - nz : y;
289
- }
290
- };
291
-
292
- /****************************************************************************
293
- * Implementation of erf, requires C++11/C99 *
294
- ****************************************************************************/
295
-
296
- /** \internal \returns the error function of \a a (coeff-wise)
297
- Doesn't do anything fancy, just a 13/8-degree rational interpolant which
298
- is accurate up to a couple of ulp in the range [-4, 4], outside of which
299
- fl(erf(x)) = +/-1.
300
-
301
- This implementation works on both scalars and Ts.
302
- */
303
- template <typename T>
304
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE T generic_fast_erf_float(const T& a_x) {
305
- // Clamp the inputs to the range [-4, 4] since anything outside
306
- // this range is +/-1.0f in single-precision.
307
- const T plus_4 = pset1<T>(4.f);
308
- const T minus_4 = pset1<T>(-4.f);
309
- const T x = pmax(pmin(a_x, plus_4), minus_4);
310
- // The monomial coefficients of the numerator polynomial (odd).
311
- const T alpha_1 = pset1<T>(-1.60960333262415e-02f);
312
- const T alpha_3 = pset1<T>(-2.95459980854025e-03f);
313
- const T alpha_5 = pset1<T>(-7.34990630326855e-04f);
314
- const T alpha_7 = pset1<T>(-5.69250639462346e-05f);
315
- const T alpha_9 = pset1<T>(-2.10102402082508e-06f);
316
- const T alpha_11 = pset1<T>(2.77068142495902e-08f);
317
- const T alpha_13 = pset1<T>(-2.72614225801306e-10f);
318
-
319
- // The monomial coefficients of the denominator polynomial (even).
320
- const T beta_0 = pset1<T>(-1.42647390514189e-02f);
321
- const T beta_2 = pset1<T>(-7.37332916720468e-03f);
322
- const T beta_4 = pset1<T>(-1.68282697438203e-03f);
323
- const T beta_6 = pset1<T>(-2.13374055278905e-04f);
324
- const T beta_8 = pset1<T>(-1.45660718464996e-05f);
325
-
326
- // Since the polynomials are odd/even, we need x^2.
327
- const T x2 = pmul(x, x);
328
-
329
- // Evaluate the numerator polynomial p.
330
- T p = pmadd(x2, alpha_13, alpha_11);
331
- p = pmadd(x2, p, alpha_9);
332
- p = pmadd(x2, p, alpha_7);
333
- p = pmadd(x2, p, alpha_5);
334
- p = pmadd(x2, p, alpha_3);
335
- p = pmadd(x2, p, alpha_1);
336
- p = pmul(x, p);
337
-
338
- // Evaluate the denominator polynomial p.
339
- T q = pmadd(x2, beta_8, beta_6);
340
- q = pmadd(x2, q, beta_4);
341
- q = pmadd(x2, q, beta_2);
342
- q = pmadd(x2, q, beta_0);
343
-
344
- // Divide the numerator by the denominator.
345
- return pdiv(p, q);
346
- }
347
-
348
- template <typename T>
349
- struct erf_impl {
350
- EIGEN_DEVICE_FUNC
351
- static EIGEN_STRONG_INLINE T run(const T& x) {
352
- return generic_fast_erf_float(x);
353
- }
354
- };
355
-
356
- template <typename Scalar>
357
- struct erf_retval {
358
- typedef Scalar type;
359
- };
360
-
361
- #if EIGEN_HAS_C99_MATH
362
- template <>
363
- struct erf_impl<float> {
364
- EIGEN_DEVICE_FUNC
365
- static EIGEN_STRONG_INLINE float run(float x) {
366
- #if defined(SYCL_DEVICE_ONLY)
367
- return cl::sycl::erf(x);
368
- #else
369
- return generic_fast_erf_float(x);
370
- #endif
371
- }
372
- };
373
-
374
- template <>
375
- struct erf_impl<double> {
376
- EIGEN_DEVICE_FUNC
377
- static EIGEN_STRONG_INLINE double run(double x) {
378
- #if defined(SYCL_DEVICE_ONLY)
379
- return cl::sycl::erf(x);
380
- #else
381
- return ::erf(x);
382
- #endif
383
- }
384
- };
385
- #endif // EIGEN_HAS_C99_MATH
386
-
387
- /***************************************************************************
388
- * Implementation of erfc, requires C++11/C99 *
389
- ****************************************************************************/
390
-
391
- template <typename Scalar>
392
- struct erfc_impl {
393
- EIGEN_DEVICE_FUNC
394
- static EIGEN_STRONG_INLINE Scalar run(const Scalar) {
395
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, Scalar>::value == false),
396
- THIS_TYPE_IS_NOT_SUPPORTED);
397
- return Scalar(0);
398
- }
399
- };
400
-
401
- template <typename Scalar>
402
- struct erfc_retval {
403
- typedef Scalar type;
404
- };
405
-
406
- #if EIGEN_HAS_C99_MATH
407
- template <>
408
- struct erfc_impl<float> {
409
- EIGEN_DEVICE_FUNC
410
- static EIGEN_STRONG_INLINE float run(const float x) {
411
- #if defined(SYCL_DEVICE_ONLY)
412
- return cl::sycl::erfc(x);
413
- #else
414
- return ::erfcf(x);
415
- #endif
416
- }
417
- };
418
-
419
- template <>
420
- struct erfc_impl<double> {
421
- EIGEN_DEVICE_FUNC
422
- static EIGEN_STRONG_INLINE double run(const double x) {
423
- #if defined(SYCL_DEVICE_ONLY)
424
- return cl::sycl::erfc(x);
425
- #else
426
- return ::erfc(x);
427
- #endif
428
- }
429
- };
430
- #endif // EIGEN_HAS_C99_MATH
431
-
432
-
433
- /***************************************************************************
434
- * Implementation of ndtri. *
435
- ****************************************************************************/
436
-
437
- /* Inverse of Normal distribution function (modified for Eigen).
438
- *
439
- *
440
- * SYNOPSIS:
441
- *
442
- * double x, y, ndtri();
443
- *
444
- * x = ndtri( y );
445
- *
446
- *
447
- *
448
- * DESCRIPTION:
449
- *
450
- * Returns the argument, x, for which the area under the
451
- * Gaussian probability density function (integrated from
452
- * minus infinity to x) is equal to y.
453
- *
454
- *
455
- * For small arguments 0 < y < exp(-2), the program computes
456
- * z = sqrt( -2.0 * log(y) ); then the approximation is
457
- * x = z - log(z)/z - (1/z) P(1/z) / Q(1/z).
458
- * There are two rational functions P/Q, one for 0 < y < exp(-32)
459
- * and the other for y up to exp(-2). For larger arguments,
460
- * w = y - 0.5, and x/sqrt(2pi) = w + w**3 R(w**2)/S(w**2)).
461
- *
462
- *
463
- * ACCURACY:
464
- *
465
- * Relative error:
466
- * arithmetic domain # trials peak rms
467
- * DEC 0.125, 1 5500 9.5e-17 2.1e-17
468
- * DEC 6e-39, 0.135 3500 5.7e-17 1.3e-17
469
- * IEEE 0.125, 1 20000 7.2e-16 1.3e-16
470
- * IEEE 3e-308, 0.135 50000 4.6e-16 9.8e-17
471
- *
472
- *
473
- * ERROR MESSAGES:
474
- *
475
- * message condition value returned
476
- * ndtri domain x <= 0 -MAXNUM
477
- * ndtri domain x >= 1 MAXNUM
478
- *
479
- */
480
- /*
481
- Cephes Math Library Release 2.2: June, 1992
482
- Copyright 1985, 1987, 1992 by Stephen L. Moshier
483
- Direct inquiries to 30 Frost Street, Cambridge, MA 02140
484
- */
485
-
486
-
487
- // TODO: Add a cheaper approximation for float.
488
-
489
-
490
- template<typename T>
491
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE T flipsign(
492
- const T& should_flipsign, const T& x) {
493
- typedef typename unpacket_traits<T>::type Scalar;
494
- const T sign_mask = pset1<T>(Scalar(-0.0));
495
- T sign_bit = pand<T>(should_flipsign, sign_mask);
496
- return pxor<T>(sign_bit, x);
497
- }
498
-
499
- template<>
500
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE double flipsign<double>(
501
- const double& should_flipsign, const double& x) {
502
- return should_flipsign == 0 ? x : -x;
503
- }
504
-
505
- template<>
506
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE float flipsign<float>(
507
- const float& should_flipsign, const float& x) {
508
- return should_flipsign == 0 ? x : -x;
509
- }
510
-
511
- // We split this computation in to two so that in the scalar path
512
- // only one branch is evaluated (due to our template specialization of pselect
513
- // being an if statement.)
514
-
515
- template <typename T, typename ScalarType>
516
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE T generic_ndtri_gt_exp_neg_two(const T& b) {
517
- const ScalarType p0[] = {
518
- ScalarType(-5.99633501014107895267e1),
519
- ScalarType(9.80010754185999661536e1),
520
- ScalarType(-5.66762857469070293439e1),
521
- ScalarType(1.39312609387279679503e1),
522
- ScalarType(-1.23916583867381258016e0)
523
- };
524
- const ScalarType q0[] = {
525
- ScalarType(1.0),
526
- ScalarType(1.95448858338141759834e0),
527
- ScalarType(4.67627912898881538453e0),
528
- ScalarType(8.63602421390890590575e1),
529
- ScalarType(-2.25462687854119370527e2),
530
- ScalarType(2.00260212380060660359e2),
531
- ScalarType(-8.20372256168333339912e1),
532
- ScalarType(1.59056225126211695515e1),
533
- ScalarType(-1.18331621121330003142e0)
534
- };
535
- const T sqrt2pi = pset1<T>(ScalarType(2.50662827463100050242e0));
536
- const T half = pset1<T>(ScalarType(0.5));
537
- T c, c2, ndtri_gt_exp_neg_two;
538
-
539
- c = psub(b, half);
540
- c2 = pmul(c, c);
541
- ndtri_gt_exp_neg_two = pmadd(c, pmul(
542
- c2, pdiv(
543
- internal::ppolevl<T, 4>::run(c2, p0),
544
- internal::ppolevl<T, 8>::run(c2, q0))), c);
545
- return pmul(ndtri_gt_exp_neg_two, sqrt2pi);
546
- }
547
-
548
- template <typename T, typename ScalarType>
549
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE T generic_ndtri_lt_exp_neg_two(
550
- const T& b, const T& should_flipsign) {
551
- /* Approximation for interval z = sqrt(-2 log a ) between 2 and 8
552
- * i.e., a between exp(-2) = .135 and exp(-32) = 1.27e-14.
553
- */
554
- const ScalarType p1[] = {
555
- ScalarType(4.05544892305962419923e0),
556
- ScalarType(3.15251094599893866154e1),
557
- ScalarType(5.71628192246421288162e1),
558
- ScalarType(4.40805073893200834700e1),
559
- ScalarType(1.46849561928858024014e1),
560
- ScalarType(2.18663306850790267539e0),
561
- ScalarType(-1.40256079171354495875e-1),
562
- ScalarType(-3.50424626827848203418e-2),
563
- ScalarType(-8.57456785154685413611e-4)
564
- };
565
- const ScalarType q1[] = {
566
- ScalarType(1.0),
567
- ScalarType(1.57799883256466749731e1),
568
- ScalarType(4.53907635128879210584e1),
569
- ScalarType(4.13172038254672030440e1),
570
- ScalarType(1.50425385692907503408e1),
571
- ScalarType(2.50464946208309415979e0),
572
- ScalarType(-1.42182922854787788574e-1),
573
- ScalarType(-3.80806407691578277194e-2),
574
- ScalarType(-9.33259480895457427372e-4)
575
- };
576
- /* Approximation for interval z = sqrt(-2 log a ) between 8 and 64
577
- * i.e., a between exp(-32) = 1.27e-14 and exp(-2048) = 3.67e-890.
578
- */
579
- const ScalarType p2[] = {
580
- ScalarType(3.23774891776946035970e0),
581
- ScalarType(6.91522889068984211695e0),
582
- ScalarType(3.93881025292474443415e0),
583
- ScalarType(1.33303460815807542389e0),
584
- ScalarType(2.01485389549179081538e-1),
585
- ScalarType(1.23716634817820021358e-2),
586
- ScalarType(3.01581553508235416007e-4),
587
- ScalarType(2.65806974686737550832e-6),
588
- ScalarType(6.23974539184983293730e-9)
589
- };
590
- const ScalarType q2[] = {
591
- ScalarType(1.0),
592
- ScalarType(6.02427039364742014255e0),
593
- ScalarType(3.67983563856160859403e0),
594
- ScalarType(1.37702099489081330271e0),
595
- ScalarType(2.16236993594496635890e-1),
596
- ScalarType(1.34204006088543189037e-2),
597
- ScalarType(3.28014464682127739104e-4),
598
- ScalarType(2.89247864745380683936e-6),
599
- ScalarType(6.79019408009981274425e-9)
600
- };
601
- const T eight = pset1<T>(ScalarType(8.0));
602
- const T one = pset1<T>(ScalarType(1));
603
- const T neg_two = pset1<T>(ScalarType(-2));
604
- T x, x0, x1, z;
605
-
606
- x = psqrt(pmul(neg_two, plog(b)));
607
- x0 = psub(x, pdiv(plog(x), x));
608
- z = pdiv(one, x);
609
- x1 = pmul(
610
- z, pselect(
611
- pcmp_lt(x, eight),
612
- pdiv(internal::ppolevl<T, 8>::run(z, p1),
613
- internal::ppolevl<T, 8>::run(z, q1)),
614
- pdiv(internal::ppolevl<T, 8>::run(z, p2),
615
- internal::ppolevl<T, 8>::run(z, q2))));
616
- return flipsign(should_flipsign, psub(x0, x1));
617
- }
618
-
619
- template <typename T, typename ScalarType>
620
- EIGEN_DEVICE_FUNC EIGEN_ALWAYS_INLINE
621
- T generic_ndtri(const T& a) {
622
- const T maxnum = pset1<T>(NumTraits<ScalarType>::infinity());
623
- const T neg_maxnum = pset1<T>(-NumTraits<ScalarType>::infinity());
624
-
625
- const T zero = pset1<T>(ScalarType(0));
626
- const T one = pset1<T>(ScalarType(1));
627
- // exp(-2)
628
- const T exp_neg_two = pset1<T>(ScalarType(0.13533528323661269189));
629
- T b, ndtri, should_flipsign;
630
-
631
- should_flipsign = pcmp_le(a, psub(one, exp_neg_two));
632
- b = pselect(should_flipsign, a, psub(one, a));
633
-
634
- ndtri = pselect(
635
- pcmp_lt(exp_neg_two, b),
636
- generic_ndtri_gt_exp_neg_two<T, ScalarType>(b),
637
- generic_ndtri_lt_exp_neg_two<T, ScalarType>(b, should_flipsign));
638
-
639
- return pselect(
640
- pcmp_le(a, zero), neg_maxnum,
641
- pselect(pcmp_le(one, a), maxnum, ndtri));
642
- }
643
-
644
- template <typename Scalar>
645
- struct ndtri_retval {
646
- typedef Scalar type;
647
- };
648
-
649
- #if !EIGEN_HAS_C99_MATH
650
-
651
- template <typename Scalar>
652
- struct ndtri_impl {
653
- EIGEN_DEVICE_FUNC
654
- static EIGEN_STRONG_INLINE Scalar run(const Scalar) {
655
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, Scalar>::value == false),
656
- THIS_TYPE_IS_NOT_SUPPORTED);
657
- return Scalar(0);
658
- }
659
- };
660
-
661
- # else
662
-
663
- template <typename Scalar>
664
- struct ndtri_impl {
665
- EIGEN_DEVICE_FUNC
666
- static EIGEN_STRONG_INLINE Scalar run(const Scalar x) {
667
- return generic_ndtri<Scalar, Scalar>(x);
668
- }
669
- };
670
-
671
- #endif // EIGEN_HAS_C99_MATH
672
-
673
-
674
- /**************************************************************************************************************
675
- * Implementation of igammac (complemented incomplete gamma integral), based on Cephes but requires C++11/C99 *
676
- **************************************************************************************************************/
677
-
678
- template <typename Scalar>
679
- struct igammac_retval {
680
- typedef Scalar type;
681
- };
682
-
683
- // NOTE: cephes_helper is also used to implement zeta
684
- template <typename Scalar>
685
- struct cephes_helper {
686
- EIGEN_DEVICE_FUNC
687
- static EIGEN_STRONG_INLINE Scalar machep() { assert(false && "machep not supported for this type"); return 0.0; }
688
- EIGEN_DEVICE_FUNC
689
- static EIGEN_STRONG_INLINE Scalar big() { assert(false && "big not supported for this type"); return 0.0; }
690
- EIGEN_DEVICE_FUNC
691
- static EIGEN_STRONG_INLINE Scalar biginv() { assert(false && "biginv not supported for this type"); return 0.0; }
692
- };
693
-
694
- template <>
695
- struct cephes_helper<float> {
696
- EIGEN_DEVICE_FUNC
697
- static EIGEN_STRONG_INLINE float machep() {
698
- return NumTraits<float>::epsilon() / 2; // 1.0 - machep == 1.0
699
- }
700
- EIGEN_DEVICE_FUNC
701
- static EIGEN_STRONG_INLINE float big() {
702
- // use epsneg (1.0 - epsneg == 1.0)
703
- return 1.0f / (NumTraits<float>::epsilon() / 2);
704
- }
705
- EIGEN_DEVICE_FUNC
706
- static EIGEN_STRONG_INLINE float biginv() {
707
- // epsneg
708
- return machep();
709
- }
710
- };
711
-
712
- template <>
713
- struct cephes_helper<double> {
714
- EIGEN_DEVICE_FUNC
715
- static EIGEN_STRONG_INLINE double machep() {
716
- return NumTraits<double>::epsilon() / 2; // 1.0 - machep == 1.0
717
- }
718
- EIGEN_DEVICE_FUNC
719
- static EIGEN_STRONG_INLINE double big() {
720
- return 1.0 / NumTraits<double>::epsilon();
721
- }
722
- EIGEN_DEVICE_FUNC
723
- static EIGEN_STRONG_INLINE double biginv() {
724
- // inverse of eps
725
- return NumTraits<double>::epsilon();
726
- }
727
- };
728
-
729
- enum IgammaComputationMode { VALUE, DERIVATIVE, SAMPLE_DERIVATIVE };
730
-
731
- template <typename Scalar>
732
- EIGEN_DEVICE_FUNC
733
- static EIGEN_STRONG_INLINE Scalar main_igamma_term(Scalar a, Scalar x) {
734
- /* Compute x**a * exp(-x) / gamma(a) */
735
- Scalar logax = a * numext::log(x) - x - lgamma_impl<Scalar>::run(a);
736
- if (logax < -numext::log(NumTraits<Scalar>::highest()) ||
737
- // Assuming x and a aren't Nan.
738
- (numext::isnan)(logax)) {
739
- return Scalar(0);
740
- }
741
- return numext::exp(logax);
742
- }
743
-
744
- template <typename Scalar, IgammaComputationMode mode>
745
- EIGEN_DEVICE_FUNC
746
- int igamma_num_iterations() {
747
- /* Returns the maximum number of internal iterations for igamma computation.
748
- */
749
- if (mode == VALUE) {
750
- return 2000;
751
- }
752
-
753
- if (internal::is_same<Scalar, float>::value) {
754
- return 200;
755
- } else if (internal::is_same<Scalar, double>::value) {
756
- return 500;
757
- } else {
758
- return 2000;
759
- }
760
- }
761
-
762
- template <typename Scalar, IgammaComputationMode mode>
763
- struct igammac_cf_impl {
764
- /* Computes igamc(a, x) or derivative (depending on the mode)
765
- * using the continued fraction expansion of the complementary
766
- * incomplete Gamma function.
767
- *
768
- * Preconditions:
769
- * a > 0
770
- * x >= 1
771
- * x >= a
772
- */
773
- EIGEN_DEVICE_FUNC
774
- static Scalar run(Scalar a, Scalar x) {
775
- const Scalar zero = 0;
776
- const Scalar one = 1;
777
- const Scalar two = 2;
778
- const Scalar machep = cephes_helper<Scalar>::machep();
779
- const Scalar big = cephes_helper<Scalar>::big();
780
- const Scalar biginv = cephes_helper<Scalar>::biginv();
781
-
782
- if ((numext::isinf)(x)) {
783
- return zero;
784
- }
785
-
786
- Scalar ax = main_igamma_term<Scalar>(a, x);
787
- // This is independent of mode. If this value is zero,
788
- // then the function value is zero. If the function value is zero,
789
- // then we are in a neighborhood where the function value evalutes to zero,
790
- // so the derivative is zero.
791
- if (ax == zero) {
792
- return zero;
793
- }
794
-
795
- // continued fraction
796
- Scalar y = one - a;
797
- Scalar z = x + y + one;
798
- Scalar c = zero;
799
- Scalar pkm2 = one;
800
- Scalar qkm2 = x;
801
- Scalar pkm1 = x + one;
802
- Scalar qkm1 = z * x;
803
- Scalar ans = pkm1 / qkm1;
804
-
805
- Scalar dpkm2_da = zero;
806
- Scalar dqkm2_da = zero;
807
- Scalar dpkm1_da = zero;
808
- Scalar dqkm1_da = -x;
809
- Scalar dans_da = (dpkm1_da - ans * dqkm1_da) / qkm1;
810
-
811
- for (int i = 0; i < igamma_num_iterations<Scalar, mode>(); i++) {
812
- c += one;
813
- y += one;
814
- z += two;
815
-
816
- Scalar yc = y * c;
817
- Scalar pk = pkm1 * z - pkm2 * yc;
818
- Scalar qk = qkm1 * z - qkm2 * yc;
819
-
820
- Scalar dpk_da = dpkm1_da * z - pkm1 - dpkm2_da * yc + pkm2 * c;
821
- Scalar dqk_da = dqkm1_da * z - qkm1 - dqkm2_da * yc + qkm2 * c;
822
-
823
- if (qk != zero) {
824
- Scalar ans_prev = ans;
825
- ans = pk / qk;
826
-
827
- Scalar dans_da_prev = dans_da;
828
- dans_da = (dpk_da - ans * dqk_da) / qk;
829
-
830
- if (mode == VALUE) {
831
- if (numext::abs(ans_prev - ans) <= machep * numext::abs(ans)) {
832
- break;
833
- }
834
- } else {
835
- if (numext::abs(dans_da - dans_da_prev) <= machep) {
836
- break;
837
- }
838
- }
839
- }
840
-
841
- pkm2 = pkm1;
842
- pkm1 = pk;
843
- qkm2 = qkm1;
844
- qkm1 = qk;
845
-
846
- dpkm2_da = dpkm1_da;
847
- dpkm1_da = dpk_da;
848
- dqkm2_da = dqkm1_da;
849
- dqkm1_da = dqk_da;
850
-
851
- if (numext::abs(pk) > big) {
852
- pkm2 *= biginv;
853
- pkm1 *= biginv;
854
- qkm2 *= biginv;
855
- qkm1 *= biginv;
856
-
857
- dpkm2_da *= biginv;
858
- dpkm1_da *= biginv;
859
- dqkm2_da *= biginv;
860
- dqkm1_da *= biginv;
861
- }
862
- }
863
-
864
- /* Compute x**a * exp(-x) / gamma(a) */
865
- Scalar dlogax_da = numext::log(x) - digamma_impl<Scalar>::run(a);
866
- Scalar dax_da = ax * dlogax_da;
867
-
868
- switch (mode) {
869
- case VALUE:
870
- return ans * ax;
871
- case DERIVATIVE:
872
- return ans * dax_da + dans_da * ax;
873
- case SAMPLE_DERIVATIVE:
874
- default: // this is needed to suppress clang warning
875
- return -(dans_da + ans * dlogax_da) * x;
876
- }
877
- }
878
- };
879
-
880
- template <typename Scalar, IgammaComputationMode mode>
881
- struct igamma_series_impl {
882
- /* Computes igam(a, x) or its derivative (depending on the mode)
883
- * using the series expansion of the incomplete Gamma function.
884
- *
885
- * Preconditions:
886
- * x > 0
887
- * a > 0
888
- * !(x > 1 && x > a)
889
- */
890
- EIGEN_DEVICE_FUNC
891
- static Scalar run(Scalar a, Scalar x) {
892
- const Scalar zero = 0;
893
- const Scalar one = 1;
894
- const Scalar machep = cephes_helper<Scalar>::machep();
895
-
896
- Scalar ax = main_igamma_term<Scalar>(a, x);
897
-
898
- // This is independent of mode. If this value is zero,
899
- // then the function value is zero. If the function value is zero,
900
- // then we are in a neighborhood where the function value evalutes to zero,
901
- // so the derivative is zero.
902
- if (ax == zero) {
903
- return zero;
904
- }
905
-
906
- ax /= a;
907
-
908
- /* power series */
909
- Scalar r = a;
910
- Scalar c = one;
911
- Scalar ans = one;
912
-
913
- Scalar dc_da = zero;
914
- Scalar dans_da = zero;
915
-
916
- for (int i = 0; i < igamma_num_iterations<Scalar, mode>(); i++) {
917
- r += one;
918
- Scalar term = x / r;
919
- Scalar dterm_da = -x / (r * r);
920
- dc_da = term * dc_da + dterm_da * c;
921
- dans_da += dc_da;
922
- c *= term;
923
- ans += c;
924
-
925
- if (mode == VALUE) {
926
- if (c <= machep * ans) {
927
- break;
928
- }
929
- } else {
930
- if (numext::abs(dc_da) <= machep * numext::abs(dans_da)) {
931
- break;
932
- }
933
- }
934
- }
935
-
936
- Scalar dlogax_da = numext::log(x) - digamma_impl<Scalar>::run(a + one);
937
- Scalar dax_da = ax * dlogax_da;
938
-
939
- switch (mode) {
940
- case VALUE:
941
- return ans * ax;
942
- case DERIVATIVE:
943
- return ans * dax_da + dans_da * ax;
944
- case SAMPLE_DERIVATIVE:
945
- default: // this is needed to suppress clang warning
946
- return -(dans_da + ans * dlogax_da) * x / a;
947
- }
948
- }
949
- };
950
-
951
- #if !EIGEN_HAS_C99_MATH
952
-
953
- template <typename Scalar>
954
- struct igammac_impl {
955
- EIGEN_DEVICE_FUNC
956
- static Scalar run(Scalar a, Scalar x) {
957
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, Scalar>::value == false),
958
- THIS_TYPE_IS_NOT_SUPPORTED);
959
- return Scalar(0);
960
- }
961
- };
962
-
963
- #else
964
-
965
- template <typename Scalar>
966
- struct igammac_impl {
967
- EIGEN_DEVICE_FUNC
968
- static Scalar run(Scalar a, Scalar x) {
969
- /* igamc()
970
- *
971
- * Incomplete gamma integral (modified for Eigen)
972
- *
973
- *
974
- *
975
- * SYNOPSIS:
976
- *
977
- * double a, x, y, igamc();
978
- *
979
- * y = igamc( a, x );
980
- *
981
- * DESCRIPTION:
982
- *
983
- * The function is defined by
984
- *
985
- *
986
- * igamc(a,x) = 1 - igam(a,x)
987
- *
988
- * inf.
989
- * -
990
- * 1 | | -t a-1
991
- * = ----- | e t dt.
992
- * - | |
993
- * | (a) -
994
- * x
995
- *
996
- *
997
- * In this implementation both arguments must be positive.
998
- * The integral is evaluated by either a power series or
999
- * continued fraction expansion, depending on the relative
1000
- * values of a and x.
1001
- *
1002
- * ACCURACY (float):
1003
- *
1004
- * Relative error:
1005
- * arithmetic domain # trials peak rms
1006
- * IEEE 0,30 30000 7.8e-6 5.9e-7
1007
- *
1008
- *
1009
- * ACCURACY (double):
1010
- *
1011
- * Tested at random a, x.
1012
- * a x Relative error:
1013
- * arithmetic domain domain # trials peak rms
1014
- * IEEE 0.5,100 0,100 200000 1.9e-14 1.7e-15
1015
- * IEEE 0.01,0.5 0,100 200000 1.4e-13 1.6e-15
1016
- *
1017
- */
1018
- /*
1019
- Cephes Math Library Release 2.2: June, 1992
1020
- Copyright 1985, 1987, 1992 by Stephen L. Moshier
1021
- Direct inquiries to 30 Frost Street, Cambridge, MA 02140
1022
- */
1023
- const Scalar zero = 0;
1024
- const Scalar one = 1;
1025
- const Scalar nan = NumTraits<Scalar>::quiet_NaN();
1026
-
1027
- if ((x < zero) || (a <= zero)) {
1028
- // domain error
1029
- return nan;
1030
- }
1031
-
1032
- if ((numext::isnan)(a) || (numext::isnan)(x)) { // propagate nans
1033
- return nan;
1034
- }
1035
-
1036
- if ((x < one) || (x < a)) {
1037
- return (one - igamma_series_impl<Scalar, VALUE>::run(a, x));
1038
- }
1039
-
1040
- return igammac_cf_impl<Scalar, VALUE>::run(a, x);
1041
- }
1042
- };
1043
-
1044
- #endif // EIGEN_HAS_C99_MATH
1045
-
1046
- /************************************************************************************************
1047
- * Implementation of igamma (incomplete gamma integral), based on Cephes but requires C++11/C99 *
1048
- ************************************************************************************************/
1049
-
1050
- #if !EIGEN_HAS_C99_MATH
1051
-
1052
- template <typename Scalar, IgammaComputationMode mode>
1053
- struct igamma_generic_impl {
1054
- EIGEN_DEVICE_FUNC
1055
- static EIGEN_STRONG_INLINE Scalar run(Scalar a, Scalar x) {
1056
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, Scalar>::value == false),
1057
- THIS_TYPE_IS_NOT_SUPPORTED);
1058
- return Scalar(0);
1059
- }
1060
- };
1061
-
1062
- #else
1063
-
1064
- template <typename Scalar, IgammaComputationMode mode>
1065
- struct igamma_generic_impl {
1066
- EIGEN_DEVICE_FUNC
1067
- static Scalar run(Scalar a, Scalar x) {
1068
- /* Depending on the mode, returns
1069
- * - VALUE: incomplete Gamma function igamma(a, x)
1070
- * - DERIVATIVE: derivative of incomplete Gamma function d/da igamma(a, x)
1071
- * - SAMPLE_DERIVATIVE: implicit derivative of a Gamma random variable
1072
- * x ~ Gamma(x | a, 1), dx/da = -1 / Gamma(x | a, 1) * d igamma(a, x) / dx
1073
- *
1074
- * Derivatives are implemented by forward-mode differentiation.
1075
- */
1076
- const Scalar zero = 0;
1077
- const Scalar one = 1;
1078
- const Scalar nan = NumTraits<Scalar>::quiet_NaN();
1079
-
1080
- if (x == zero) return zero;
1081
-
1082
- if ((x < zero) || (a <= zero)) { // domain error
1083
- return nan;
1084
- }
1085
-
1086
- if ((numext::isnan)(a) || (numext::isnan)(x)) { // propagate nans
1087
- return nan;
1088
- }
1089
-
1090
- if ((x > one) && (x > a)) {
1091
- Scalar ret = igammac_cf_impl<Scalar, mode>::run(a, x);
1092
- if (mode == VALUE) {
1093
- return one - ret;
1094
- } else {
1095
- return -ret;
1096
- }
1097
- }
1098
-
1099
- return igamma_series_impl<Scalar, mode>::run(a, x);
1100
- }
1101
- };
1102
-
1103
- #endif // EIGEN_HAS_C99_MATH
1104
-
1105
- template <typename Scalar>
1106
- struct igamma_retval {
1107
- typedef Scalar type;
1108
- };
1109
-
1110
- template <typename Scalar>
1111
- struct igamma_impl : igamma_generic_impl<Scalar, VALUE> {
1112
- /* igam()
1113
- * Incomplete gamma integral.
1114
- *
1115
- * The CDF of Gamma(a, 1) random variable at the point x.
1116
- *
1117
- * Accuracy estimation. For each a in [10^-2, 10^-1...10^3] we sample
1118
- * 50 Gamma random variables x ~ Gamma(x | a, 1), a total of 300 points.
1119
- * The ground truth is computed by mpmath. Mean absolute error:
1120
- * float: 1.26713e-05
1121
- * double: 2.33606e-12
1122
- *
1123
- * Cephes documentation below.
1124
- *
1125
- * SYNOPSIS:
1126
- *
1127
- * double a, x, y, igam();
1128
- *
1129
- * y = igam( a, x );
1130
- *
1131
- * DESCRIPTION:
1132
- *
1133
- * The function is defined by
1134
- *
1135
- * x
1136
- * -
1137
- * 1 | | -t a-1
1138
- * igam(a,x) = ----- | e t dt.
1139
- * - | |
1140
- * | (a) -
1141
- * 0
1142
- *
1143
- *
1144
- * In this implementation both arguments must be positive.
1145
- * The integral is evaluated by either a power series or
1146
- * continued fraction expansion, depending on the relative
1147
- * values of a and x.
1148
- *
1149
- * ACCURACY (double):
1150
- *
1151
- * Relative error:
1152
- * arithmetic domain # trials peak rms
1153
- * IEEE 0,30 200000 3.6e-14 2.9e-15
1154
- * IEEE 0,100 300000 9.9e-14 1.5e-14
1155
- *
1156
- *
1157
- * ACCURACY (float):
1158
- *
1159
- * Relative error:
1160
- * arithmetic domain # trials peak rms
1161
- * IEEE 0,30 20000 7.8e-6 5.9e-7
1162
- *
1163
- */
1164
- /*
1165
- Cephes Math Library Release 2.2: June, 1992
1166
- Copyright 1985, 1987, 1992 by Stephen L. Moshier
1167
- Direct inquiries to 30 Frost Street, Cambridge, MA 02140
1168
- */
1169
-
1170
- /* left tail of incomplete gamma function:
1171
- *
1172
- * inf. k
1173
- * a -x - x
1174
- * x e > ----------
1175
- * - -
1176
- * k=0 | (a+k+1)
1177
- *
1178
- */
1179
- };
1180
-
1181
- template <typename Scalar>
1182
- struct igamma_der_a_retval : igamma_retval<Scalar> {};
1183
-
1184
- template <typename Scalar>
1185
- struct igamma_der_a_impl : igamma_generic_impl<Scalar, DERIVATIVE> {
1186
- /* Derivative of the incomplete Gamma function with respect to a.
1187
- *
1188
- * Computes d/da igamma(a, x) by forward differentiation of the igamma code.
1189
- *
1190
- * Accuracy estimation. For each a in [10^-2, 10^-1...10^3] we sample
1191
- * 50 Gamma random variables x ~ Gamma(x | a, 1), a total of 300 points.
1192
- * The ground truth is computed by mpmath. Mean absolute error:
1193
- * float: 6.17992e-07
1194
- * double: 4.60453e-12
1195
- *
1196
- * Reference:
1197
- * R. Moore. "Algorithm AS 187: Derivatives of the incomplete gamma
1198
- * integral". Journal of the Royal Statistical Society. 1982
1199
- */
1200
- };
1201
-
1202
- template <typename Scalar>
1203
- struct gamma_sample_der_alpha_retval : igamma_retval<Scalar> {};
1204
-
1205
- template <typename Scalar>
1206
- struct gamma_sample_der_alpha_impl
1207
- : igamma_generic_impl<Scalar, SAMPLE_DERIVATIVE> {
1208
- /* Derivative of a Gamma random variable sample with respect to alpha.
1209
- *
1210
- * Consider a sample of a Gamma random variable with the concentration
1211
- * parameter alpha: sample ~ Gamma(alpha, 1). The reparameterization
1212
- * derivative that we want to compute is dsample / dalpha =
1213
- * d igammainv(alpha, u) / dalpha, where u = igamma(alpha, sample).
1214
- * However, this formula is numerically unstable and expensive, so instead
1215
- * we use implicit differentiation:
1216
- *
1217
- * igamma(alpha, sample) = u, where u ~ Uniform(0, 1).
1218
- * Apply d / dalpha to both sides:
1219
- * d igamma(alpha, sample) / dalpha
1220
- * + d igamma(alpha, sample) / dsample * dsample/dalpha = 0
1221
- * d igamma(alpha, sample) / dalpha
1222
- * + Gamma(sample | alpha, 1) dsample / dalpha = 0
1223
- * dsample/dalpha = - (d igamma(alpha, sample) / dalpha)
1224
- * / Gamma(sample | alpha, 1)
1225
- *
1226
- * Here Gamma(sample | alpha, 1) is the PDF of the Gamma distribution
1227
- * (note that the derivative of the CDF w.r.t. sample is the PDF).
1228
- * See the reference below for more details.
1229
- *
1230
- * The derivative of igamma(alpha, sample) is computed by forward
1231
- * differentiation of the igamma code. Division by the Gamma PDF is performed
1232
- * in the same code, increasing the accuracy and speed due to cancellation
1233
- * of some terms.
1234
- *
1235
- * Accuracy estimation. For each alpha in [10^-2, 10^-1...10^3] we sample
1236
- * 50 Gamma random variables sample ~ Gamma(sample | alpha, 1), a total of 300
1237
- * points. The ground truth is computed by mpmath. Mean absolute error:
1238
- * float: 2.1686e-06
1239
- * double: 1.4774e-12
1240
- *
1241
- * Reference:
1242
- * M. Figurnov, S. Mohamed, A. Mnih "Implicit Reparameterization Gradients".
1243
- * 2018
1244
- */
1245
- };
1246
-
1247
- /*****************************************************************************
1248
- * Implementation of Riemann zeta function of two arguments, based on Cephes *
1249
- *****************************************************************************/
1250
-
1251
- template <typename Scalar>
1252
- struct zeta_retval {
1253
- typedef Scalar type;
1254
- };
1255
-
1256
- template <typename Scalar>
1257
- struct zeta_impl_series {
1258
- EIGEN_DEVICE_FUNC
1259
- static EIGEN_STRONG_INLINE Scalar run(const Scalar) {
1260
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, Scalar>::value == false),
1261
- THIS_TYPE_IS_NOT_SUPPORTED);
1262
- return Scalar(0);
1263
- }
1264
- };
1265
-
1266
- template <>
1267
- struct zeta_impl_series<float> {
1268
- EIGEN_DEVICE_FUNC
1269
- static EIGEN_STRONG_INLINE bool run(float& a, float& b, float& s, const float x, const float machep) {
1270
- int i = 0;
1271
- while(i < 9)
1272
- {
1273
- i += 1;
1274
- a += 1.0f;
1275
- b = numext::pow( a, -x );
1276
- s += b;
1277
- if( numext::abs(b/s) < machep )
1278
- return true;
1279
- }
1280
-
1281
- //Return whether we are done
1282
- return false;
1283
- }
1284
- };
1285
-
1286
- template <>
1287
- struct zeta_impl_series<double> {
1288
- EIGEN_DEVICE_FUNC
1289
- static EIGEN_STRONG_INLINE bool run(double& a, double& b, double& s, const double x, const double machep) {
1290
- int i = 0;
1291
- while( (i < 9) || (a <= 9.0) )
1292
- {
1293
- i += 1;
1294
- a += 1.0;
1295
- b = numext::pow( a, -x );
1296
- s += b;
1297
- if( numext::abs(b/s) < machep )
1298
- return true;
1299
- }
1300
-
1301
- //Return whether we are done
1302
- return false;
1303
- }
1304
- };
1305
-
1306
- template <typename Scalar>
1307
- struct zeta_impl {
1308
- EIGEN_DEVICE_FUNC
1309
- static Scalar run(Scalar x, Scalar q) {
1310
- /* zeta.c
1311
- *
1312
- * Riemann zeta function of two arguments
1313
- *
1314
- *
1315
- *
1316
- * SYNOPSIS:
1317
- *
1318
- * double x, q, y, zeta();
1319
- *
1320
- * y = zeta( x, q );
1321
- *
1322
- *
1323
- *
1324
- * DESCRIPTION:
1325
- *
1326
- *
1327
- *
1328
- * inf.
1329
- * - -x
1330
- * zeta(x,q) = > (k+q)
1331
- * -
1332
- * k=0
1333
- *
1334
- * where x > 1 and q is not a negative integer or zero.
1335
- * The Euler-Maclaurin summation formula is used to obtain
1336
- * the expansion
1337
- *
1338
- * n
1339
- * - -x
1340
- * zeta(x,q) = > (k+q)
1341
- * -
1342
- * k=1
1343
- *
1344
- * 1-x inf. B x(x+1)...(x+2j)
1345
- * (n+q) 1 - 2j
1346
- * + --------- - ------- + > --------------------
1347
- * x-1 x - x+2j+1
1348
- * 2(n+q) j=1 (2j)! (n+q)
1349
- *
1350
- * where the B2j are Bernoulli numbers. Note that (see zetac.c)
1351
- * zeta(x,1) = zetac(x) + 1.
1352
- *
1353
- *
1354
- *
1355
- * ACCURACY:
1356
- *
1357
- * Relative error for single precision:
1358
- * arithmetic domain # trials peak rms
1359
- * IEEE 0,25 10000 6.9e-7 1.0e-7
1360
- *
1361
- * Large arguments may produce underflow in powf(), in which
1362
- * case the results are inaccurate.
1363
- *
1364
- * REFERENCE:
1365
- *
1366
- * Gradshteyn, I. S., and I. M. Ryzhik, Tables of Integrals,
1367
- * Series, and Products, p. 1073; Academic Press, 1980.
1368
- *
1369
- */
1370
-
1371
- int i;
1372
- Scalar p, r, a, b, k, s, t, w;
1373
-
1374
- const Scalar A[] = {
1375
- Scalar(12.0),
1376
- Scalar(-720.0),
1377
- Scalar(30240.0),
1378
- Scalar(-1209600.0),
1379
- Scalar(47900160.0),
1380
- Scalar(-1.8924375803183791606e9), /*1.307674368e12/691*/
1381
- Scalar(7.47242496e10),
1382
- Scalar(-2.950130727918164224e12), /*1.067062284288e16/3617*/
1383
- Scalar(1.1646782814350067249e14), /*5.109094217170944e18/43867*/
1384
- Scalar(-4.5979787224074726105e15), /*8.028576626982912e20/174611*/
1385
- Scalar(1.8152105401943546773e17), /*1.5511210043330985984e23/854513*/
1386
- Scalar(-7.1661652561756670113e18) /*1.6938241367317436694528e27/236364091*/
1387
- };
1388
-
1389
- const Scalar maxnum = NumTraits<Scalar>::infinity();
1390
- const Scalar zero = 0.0, half = 0.5, one = 1.0;
1391
- const Scalar machep = cephes_helper<Scalar>::machep();
1392
- const Scalar nan = NumTraits<Scalar>::quiet_NaN();
1393
-
1394
- if( x == one )
1395
- return maxnum;
1396
-
1397
- if( x < one )
1398
- {
1399
- return nan;
1400
- }
1401
-
1402
- if( q <= zero )
1403
- {
1404
- if(q == numext::floor(q))
1405
- {
1406
- if (x == numext::floor(x) && long(x) % 2 == 0) {
1407
- return maxnum;
1408
- }
1409
- else {
1410
- return nan;
1411
- }
1412
- }
1413
- p = x;
1414
- r = numext::floor(p);
1415
- if (p != r)
1416
- return nan;
1417
- }
1418
-
1419
- /* Permit negative q but continue sum until n+q > +9 .
1420
- * This case should be handled by a reflection formula.
1421
- * If q<0 and x is an integer, there is a relation to
1422
- * the polygamma function.
1423
- */
1424
- s = numext::pow( q, -x );
1425
- a = q;
1426
- b = zero;
1427
- // Run the summation in a helper function that is specific to the floating precision
1428
- if (zeta_impl_series<Scalar>::run(a, b, s, x, machep)) {
1429
- return s;
1430
- }
1431
-
1432
- w = a;
1433
- s += b*w/(x-one);
1434
- s -= half * b;
1435
- a = one;
1436
- k = zero;
1437
- for( i=0; i<12; i++ )
1438
- {
1439
- a *= x + k;
1440
- b /= w;
1441
- t = a*b/A[i];
1442
- s = s + t;
1443
- t = numext::abs(t/s);
1444
- if( t < machep ) {
1445
- break;
1446
- }
1447
- k += one;
1448
- a *= x + k;
1449
- b /= w;
1450
- k += one;
1451
- }
1452
- return s;
1453
- }
1454
- };
1455
-
1456
- /****************************************************************************
1457
- * Implementation of polygamma function, requires C++11/C99 *
1458
- ****************************************************************************/
1459
-
1460
- template <typename Scalar>
1461
- struct polygamma_retval {
1462
- typedef Scalar type;
1463
- };
1464
-
1465
- #if !EIGEN_HAS_C99_MATH
1466
-
1467
- template <typename Scalar>
1468
- struct polygamma_impl {
1469
- EIGEN_DEVICE_FUNC
1470
- static EIGEN_STRONG_INLINE Scalar run(Scalar n, Scalar x) {
1471
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, Scalar>::value == false),
1472
- THIS_TYPE_IS_NOT_SUPPORTED);
1473
- return Scalar(0);
1474
- }
1475
- };
1476
-
1477
- #else
1478
-
1479
- template <typename Scalar>
1480
- struct polygamma_impl {
1481
- EIGEN_DEVICE_FUNC
1482
- static Scalar run(Scalar n, Scalar x) {
1483
- Scalar zero = 0.0, one = 1.0;
1484
- Scalar nplus = n + one;
1485
- const Scalar nan = NumTraits<Scalar>::quiet_NaN();
1486
-
1487
- // Check that n is a non-negative integer
1488
- if (numext::floor(n) != n || n < zero) {
1489
- return nan;
1490
- }
1491
- // Just return the digamma function for n = 0
1492
- else if (n == zero) {
1493
- return digamma_impl<Scalar>::run(x);
1494
- }
1495
- // Use the same implementation as scipy
1496
- else {
1497
- Scalar factorial = numext::exp(lgamma_impl<Scalar>::run(nplus));
1498
- return numext::pow(-one, nplus) * factorial * zeta_impl<Scalar>::run(nplus, x);
1499
- }
1500
- }
1501
- };
1502
-
1503
- #endif // EIGEN_HAS_C99_MATH
1504
-
1505
- /************************************************************************************************
1506
- * Implementation of betainc (incomplete beta integral), based on Cephes but requires C++11/C99 *
1507
- ************************************************************************************************/
1508
-
1509
- template <typename Scalar>
1510
- struct betainc_retval {
1511
- typedef Scalar type;
1512
- };
1513
-
1514
- #if !EIGEN_HAS_C99_MATH
1515
-
1516
- template <typename Scalar>
1517
- struct betainc_impl {
1518
- EIGEN_DEVICE_FUNC
1519
- static EIGEN_STRONG_INLINE Scalar run(Scalar a, Scalar b, Scalar x) {
1520
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, Scalar>::value == false),
1521
- THIS_TYPE_IS_NOT_SUPPORTED);
1522
- return Scalar(0);
1523
- }
1524
- };
1525
-
1526
- #else
1527
-
1528
- template <typename Scalar>
1529
- struct betainc_impl {
1530
- EIGEN_DEVICE_FUNC
1531
- static EIGEN_STRONG_INLINE Scalar run(Scalar, Scalar, Scalar) {
1532
- /* betaincf.c
1533
- *
1534
- * Incomplete beta integral
1535
- *
1536
- *
1537
- * SYNOPSIS:
1538
- *
1539
- * float a, b, x, y, betaincf();
1540
- *
1541
- * y = betaincf( a, b, x );
1542
- *
1543
- *
1544
- * DESCRIPTION:
1545
- *
1546
- * Returns incomplete beta integral of the arguments, evaluated
1547
- * from zero to x. The function is defined as
1548
- *
1549
- * x
1550
- * - -
1551
- * | (a+b) | | a-1 b-1
1552
- * ----------- | t (1-t) dt.
1553
- * - - | |
1554
- * | (a) | (b) -
1555
- * 0
1556
- *
1557
- * The domain of definition is 0 <= x <= 1. In this
1558
- * implementation a and b are restricted to positive values.
1559
- * The integral from x to 1 may be obtained by the symmetry
1560
- * relation
1561
- *
1562
- * 1 - betainc( a, b, x ) = betainc( b, a, 1-x ).
1563
- *
1564
- * The integral is evaluated by a continued fraction expansion.
1565
- * If a < 1, the function calls itself recursively after a
1566
- * transformation to increase a to a+1.
1567
- *
1568
- * ACCURACY (float):
1569
- *
1570
- * Tested at random points (a,b,x) with a and b in the indicated
1571
- * interval and x between 0 and 1.
1572
- *
1573
- * arithmetic domain # trials peak rms
1574
- * Relative error:
1575
- * IEEE 0,30 10000 3.7e-5 5.1e-6
1576
- * IEEE 0,100 10000 1.7e-4 2.5e-5
1577
- * The useful domain for relative error is limited by underflow
1578
- * of the single precision exponential function.
1579
- * Absolute error:
1580
- * IEEE 0,30 100000 2.2e-5 9.6e-7
1581
- * IEEE 0,100 10000 6.5e-5 3.7e-6
1582
- *
1583
- * Larger errors may occur for extreme ratios of a and b.
1584
- *
1585
- * ACCURACY (double):
1586
- * arithmetic domain # trials peak rms
1587
- * IEEE 0,5 10000 6.9e-15 4.5e-16
1588
- * IEEE 0,85 250000 2.2e-13 1.7e-14
1589
- * IEEE 0,1000 30000 5.3e-12 6.3e-13
1590
- * IEEE 0,10000 250000 9.3e-11 7.1e-12
1591
- * IEEE 0,100000 10000 8.7e-10 4.8e-11
1592
- * Outputs smaller than the IEEE gradual underflow threshold
1593
- * were excluded from these statistics.
1594
- *
1595
- * ERROR MESSAGES:
1596
- * message condition value returned
1597
- * incbet domain x<0, x>1 nan
1598
- * incbet underflow nan
1599
- */
1600
-
1601
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, Scalar>::value == false),
1602
- THIS_TYPE_IS_NOT_SUPPORTED);
1603
- return Scalar(0);
1604
- }
1605
- };
1606
-
1607
- /* Continued fraction expansion #1 for incomplete beta integral (small_branch = True)
1608
- * Continued fraction expansion #2 for incomplete beta integral (small_branch = False)
1609
- */
1610
- template <typename Scalar>
1611
- struct incbeta_cfe {
1612
- EIGEN_DEVICE_FUNC
1613
- static EIGEN_STRONG_INLINE Scalar run(Scalar a, Scalar b, Scalar x, bool small_branch) {
1614
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, float>::value ||
1615
- internal::is_same<Scalar, double>::value),
1616
- THIS_TYPE_IS_NOT_SUPPORTED);
1617
- const Scalar big = cephes_helper<Scalar>::big();
1618
- const Scalar machep = cephes_helper<Scalar>::machep();
1619
- const Scalar biginv = cephes_helper<Scalar>::biginv();
1620
-
1621
- const Scalar zero = 0;
1622
- const Scalar one = 1;
1623
- const Scalar two = 2;
1624
-
1625
- Scalar xk, pk, pkm1, pkm2, qk, qkm1, qkm2;
1626
- Scalar k1, k2, k3, k4, k5, k6, k7, k8, k26update;
1627
- Scalar ans;
1628
- int n;
1629
-
1630
- const int num_iters = (internal::is_same<Scalar, float>::value) ? 100 : 300;
1631
- const Scalar thresh =
1632
- (internal::is_same<Scalar, float>::value) ? machep : Scalar(3) * machep;
1633
- Scalar r = (internal::is_same<Scalar, float>::value) ? zero : one;
1634
-
1635
- if (small_branch) {
1636
- k1 = a;
1637
- k2 = a + b;
1638
- k3 = a;
1639
- k4 = a + one;
1640
- k5 = one;
1641
- k6 = b - one;
1642
- k7 = k4;
1643
- k8 = a + two;
1644
- k26update = one;
1645
- } else {
1646
- k1 = a;
1647
- k2 = b - one;
1648
- k3 = a;
1649
- k4 = a + one;
1650
- k5 = one;
1651
- k6 = a + b;
1652
- k7 = a + one;
1653
- k8 = a + two;
1654
- k26update = -one;
1655
- x = x / (one - x);
1656
- }
1657
-
1658
- pkm2 = zero;
1659
- qkm2 = one;
1660
- pkm1 = one;
1661
- qkm1 = one;
1662
- ans = one;
1663
- n = 0;
1664
-
1665
- do {
1666
- xk = -(x * k1 * k2) / (k3 * k4);
1667
- pk = pkm1 + pkm2 * xk;
1668
- qk = qkm1 + qkm2 * xk;
1669
- pkm2 = pkm1;
1670
- pkm1 = pk;
1671
- qkm2 = qkm1;
1672
- qkm1 = qk;
1673
-
1674
- xk = (x * k5 * k6) / (k7 * k8);
1675
- pk = pkm1 + pkm2 * xk;
1676
- qk = qkm1 + qkm2 * xk;
1677
- pkm2 = pkm1;
1678
- pkm1 = pk;
1679
- qkm2 = qkm1;
1680
- qkm1 = qk;
1681
-
1682
- if (qk != zero) {
1683
- r = pk / qk;
1684
- if (numext::abs(ans - r) < numext::abs(r) * thresh) {
1685
- return r;
1686
- }
1687
- ans = r;
1688
- }
1689
-
1690
- k1 += one;
1691
- k2 += k26update;
1692
- k3 += two;
1693
- k4 += two;
1694
- k5 += one;
1695
- k6 -= k26update;
1696
- k7 += two;
1697
- k8 += two;
1698
-
1699
- if ((numext::abs(qk) + numext::abs(pk)) > big) {
1700
- pkm2 *= biginv;
1701
- pkm1 *= biginv;
1702
- qkm2 *= biginv;
1703
- qkm1 *= biginv;
1704
- }
1705
- if ((numext::abs(qk) < biginv) || (numext::abs(pk) < biginv)) {
1706
- pkm2 *= big;
1707
- pkm1 *= big;
1708
- qkm2 *= big;
1709
- qkm1 *= big;
1710
- }
1711
- } while (++n < num_iters);
1712
-
1713
- return ans;
1714
- }
1715
- };
1716
-
1717
- /* Helper functions depending on the Scalar type */
1718
- template <typename Scalar>
1719
- struct betainc_helper {};
1720
-
1721
- template <>
1722
- struct betainc_helper<float> {
1723
- /* Core implementation, assumes a large (> 1.0) */
1724
- EIGEN_DEVICE_FUNC static EIGEN_STRONG_INLINE float incbsa(float aa, float bb,
1725
- float xx) {
1726
- float ans, a, b, t, x, onemx;
1727
- bool reversed_a_b = false;
1728
-
1729
- onemx = 1.0f - xx;
1730
-
1731
- /* see if x is greater than the mean */
1732
- if (xx > (aa / (aa + bb))) {
1733
- reversed_a_b = true;
1734
- a = bb;
1735
- b = aa;
1736
- t = xx;
1737
- x = onemx;
1738
- } else {
1739
- a = aa;
1740
- b = bb;
1741
- t = onemx;
1742
- x = xx;
1743
- }
1744
-
1745
- /* Choose expansion for optimal convergence */
1746
- if (b > 10.0f) {
1747
- if (numext::abs(b * x / a) < 0.3f) {
1748
- t = betainc_helper<float>::incbps(a, b, x);
1749
- if (reversed_a_b) t = 1.0f - t;
1750
- return t;
1751
- }
1752
- }
1753
-
1754
- ans = x * (a + b - 2.0f) / (a - 1.0f);
1755
- if (ans < 1.0f) {
1756
- ans = incbeta_cfe<float>::run(a, b, x, true /* small_branch */);
1757
- t = b * numext::log(t);
1758
- } else {
1759
- ans = incbeta_cfe<float>::run(a, b, x, false /* small_branch */);
1760
- t = (b - 1.0f) * numext::log(t);
1761
- }
1762
-
1763
- t += a * numext::log(x) + lgamma_impl<float>::run(a + b) -
1764
- lgamma_impl<float>::run(a) - lgamma_impl<float>::run(b);
1765
- t += numext::log(ans / a);
1766
- t = numext::exp(t);
1767
-
1768
- if (reversed_a_b) t = 1.0f - t;
1769
- return t;
1770
- }
1771
-
1772
- EIGEN_DEVICE_FUNC
1773
- static EIGEN_STRONG_INLINE float incbps(float a, float b, float x) {
1774
- float t, u, y, s;
1775
- const float machep = cephes_helper<float>::machep();
1776
-
1777
- y = a * numext::log(x) + (b - 1.0f) * numext::log1p(-x) - numext::log(a);
1778
- y -= lgamma_impl<float>::run(a) + lgamma_impl<float>::run(b);
1779
- y += lgamma_impl<float>::run(a + b);
1780
-
1781
- t = x / (1.0f - x);
1782
- s = 0.0f;
1783
- u = 1.0f;
1784
- do {
1785
- b -= 1.0f;
1786
- if (b == 0.0f) {
1787
- break;
1788
- }
1789
- a += 1.0f;
1790
- u *= t * b / a;
1791
- s += u;
1792
- } while (numext::abs(u) > machep);
1793
-
1794
- return numext::exp(y) * (1.0f + s);
1795
- }
1796
- };
1797
-
1798
- template <>
1799
- struct betainc_impl<float> {
1800
- EIGEN_DEVICE_FUNC
1801
- static float run(float a, float b, float x) {
1802
- const float nan = NumTraits<float>::quiet_NaN();
1803
- float ans, t;
1804
-
1805
- if (a <= 0.0f) return nan;
1806
- if (b <= 0.0f) return nan;
1807
- if ((x <= 0.0f) || (x >= 1.0f)) {
1808
- if (x == 0.0f) return 0.0f;
1809
- if (x == 1.0f) return 1.0f;
1810
- // mtherr("betaincf", DOMAIN);
1811
- return nan;
1812
- }
1813
-
1814
- /* transformation for small aa */
1815
- if (a <= 1.0f) {
1816
- ans = betainc_helper<float>::incbsa(a + 1.0f, b, x);
1817
- t = a * numext::log(x) + b * numext::log1p(-x) +
1818
- lgamma_impl<float>::run(a + b) - lgamma_impl<float>::run(a + 1.0f) -
1819
- lgamma_impl<float>::run(b);
1820
- return (ans + numext::exp(t));
1821
- } else {
1822
- return betainc_helper<float>::incbsa(a, b, x);
1823
- }
1824
- }
1825
- };
1826
-
1827
- template <>
1828
- struct betainc_helper<double> {
1829
- EIGEN_DEVICE_FUNC
1830
- static EIGEN_STRONG_INLINE double incbps(double a, double b, double x) {
1831
- const double machep = cephes_helper<double>::machep();
1832
-
1833
- double s, t, u, v, n, t1, z, ai;
1834
-
1835
- ai = 1.0 / a;
1836
- u = (1.0 - b) * x;
1837
- v = u / (a + 1.0);
1838
- t1 = v;
1839
- t = u;
1840
- n = 2.0;
1841
- s = 0.0;
1842
- z = machep * ai;
1843
- while (numext::abs(v) > z) {
1844
- u = (n - b) * x / n;
1845
- t *= u;
1846
- v = t / (a + n);
1847
- s += v;
1848
- n += 1.0;
1849
- }
1850
- s += t1;
1851
- s += ai;
1852
-
1853
- u = a * numext::log(x);
1854
- // TODO: gamma() is not directly implemented in Eigen.
1855
- /*
1856
- if ((a + b) < maxgam && numext::abs(u) < maxlog) {
1857
- t = gamma(a + b) / (gamma(a) * gamma(b));
1858
- s = s * t * pow(x, a);
1859
- }
1860
- */
1861
- t = lgamma_impl<double>::run(a + b) - lgamma_impl<double>::run(a) -
1862
- lgamma_impl<double>::run(b) + u + numext::log(s);
1863
- return s = numext::exp(t);
1864
- }
1865
- };
1866
-
1867
- template <>
1868
- struct betainc_impl<double> {
1869
- EIGEN_DEVICE_FUNC
1870
- static double run(double aa, double bb, double xx) {
1871
- const double nan = NumTraits<double>::quiet_NaN();
1872
- const double machep = cephes_helper<double>::machep();
1873
- // const double maxgam = 171.624376956302725;
1874
-
1875
- double a, b, t, x, xc, w, y;
1876
- bool reversed_a_b = false;
1877
-
1878
- if (aa <= 0.0 || bb <= 0.0) {
1879
- return nan; // goto domerr;
1880
- }
1881
-
1882
- if ((xx <= 0.0) || (xx >= 1.0)) {
1883
- if (xx == 0.0) return (0.0);
1884
- if (xx == 1.0) return (1.0);
1885
- // mtherr("incbet", DOMAIN);
1886
- return nan;
1887
- }
1888
-
1889
- if ((bb * xx) <= 1.0 && xx <= 0.95) {
1890
- return betainc_helper<double>::incbps(aa, bb, xx);
1891
- }
1892
-
1893
- w = 1.0 - xx;
1894
-
1895
- /* Reverse a and b if x is greater than the mean. */
1896
- if (xx > (aa / (aa + bb))) {
1897
- reversed_a_b = true;
1898
- a = bb;
1899
- b = aa;
1900
- xc = xx;
1901
- x = w;
1902
- } else {
1903
- a = aa;
1904
- b = bb;
1905
- xc = w;
1906
- x = xx;
1907
- }
1908
-
1909
- if (reversed_a_b && (b * x) <= 1.0 && x <= 0.95) {
1910
- t = betainc_helper<double>::incbps(a, b, x);
1911
- if (t <= machep) {
1912
- t = 1.0 - machep;
1913
- } else {
1914
- t = 1.0 - t;
1915
- }
1916
- return t;
1917
- }
1918
-
1919
- /* Choose expansion for better convergence. */
1920
- y = x * (a + b - 2.0) - (a - 1.0);
1921
- if (y < 0.0) {
1922
- w = incbeta_cfe<double>::run(a, b, x, true /* small_branch */);
1923
- } else {
1924
- w = incbeta_cfe<double>::run(a, b, x, false /* small_branch */) / xc;
1925
- }
1926
-
1927
- /* Multiply w by the factor
1928
- a b _ _ _
1929
- x (1-x) | (a+b) / ( a | (a) | (b) ) . */
1930
-
1931
- y = a * numext::log(x);
1932
- t = b * numext::log(xc);
1933
- // TODO: gamma is not directly implemented in Eigen.
1934
- /*
1935
- if ((a + b) < maxgam && numext::abs(y) < maxlog && numext::abs(t) < maxlog)
1936
- {
1937
- t = pow(xc, b);
1938
- t *= pow(x, a);
1939
- t /= a;
1940
- t *= w;
1941
- t *= gamma(a + b) / (gamma(a) * gamma(b));
1942
- } else {
1943
- */
1944
- /* Resort to logarithms. */
1945
- y += t + lgamma_impl<double>::run(a + b) - lgamma_impl<double>::run(a) -
1946
- lgamma_impl<double>::run(b);
1947
- y += numext::log(w / a);
1948
- t = numext::exp(y);
1949
-
1950
- /* } */
1951
- // done:
1952
-
1953
- if (reversed_a_b) {
1954
- if (t <= machep) {
1955
- t = 1.0 - machep;
1956
- } else {
1957
- t = 1.0 - t;
1958
- }
1959
- }
1960
- return t;
1961
- }
1962
- };
1963
-
1964
- #endif // EIGEN_HAS_C99_MATH
1965
-
1966
- } // end namespace internal
1967
-
1968
- namespace numext {
1969
-
1970
- template <typename Scalar>
1971
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(lgamma, Scalar)
1972
- lgamma(const Scalar& x) {
1973
- return EIGEN_MATHFUNC_IMPL(lgamma, Scalar)::run(x);
1974
- }
1975
-
1976
- template <typename Scalar>
1977
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(digamma, Scalar)
1978
- digamma(const Scalar& x) {
1979
- return EIGEN_MATHFUNC_IMPL(digamma, Scalar)::run(x);
1980
- }
1981
-
1982
- template <typename Scalar>
1983
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(zeta, Scalar)
1984
- zeta(const Scalar& x, const Scalar& q) {
1985
- return EIGEN_MATHFUNC_IMPL(zeta, Scalar)::run(x, q);
1986
- }
1987
-
1988
- template <typename Scalar>
1989
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(polygamma, Scalar)
1990
- polygamma(const Scalar& n, const Scalar& x) {
1991
- return EIGEN_MATHFUNC_IMPL(polygamma, Scalar)::run(n, x);
1992
- }
1993
-
1994
- template <typename Scalar>
1995
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(erf, Scalar)
1996
- erf(const Scalar& x) {
1997
- return EIGEN_MATHFUNC_IMPL(erf, Scalar)::run(x);
1998
- }
1999
-
2000
- template <typename Scalar>
2001
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(erfc, Scalar)
2002
- erfc(const Scalar& x) {
2003
- return EIGEN_MATHFUNC_IMPL(erfc, Scalar)::run(x);
2004
- }
2005
-
2006
- template <typename Scalar>
2007
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(ndtri, Scalar)
2008
- ndtri(const Scalar& x) {
2009
- return EIGEN_MATHFUNC_IMPL(ndtri, Scalar)::run(x);
2010
- }
2011
-
2012
- template <typename Scalar>
2013
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(igamma, Scalar)
2014
- igamma(const Scalar& a, const Scalar& x) {
2015
- return EIGEN_MATHFUNC_IMPL(igamma, Scalar)::run(a, x);
2016
- }
2017
-
2018
- template <typename Scalar>
2019
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(igamma_der_a, Scalar)
2020
- igamma_der_a(const Scalar& a, const Scalar& x) {
2021
- return EIGEN_MATHFUNC_IMPL(igamma_der_a, Scalar)::run(a, x);
2022
- }
2023
-
2024
- template <typename Scalar>
2025
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(gamma_sample_der_alpha, Scalar)
2026
- gamma_sample_der_alpha(const Scalar& a, const Scalar& x) {
2027
- return EIGEN_MATHFUNC_IMPL(gamma_sample_der_alpha, Scalar)::run(a, x);
2028
- }
2029
-
2030
- template <typename Scalar>
2031
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(igammac, Scalar)
2032
- igammac(const Scalar& a, const Scalar& x) {
2033
- return EIGEN_MATHFUNC_IMPL(igammac, Scalar)::run(a, x);
2034
- }
2035
-
2036
- template <typename Scalar>
2037
- EIGEN_DEVICE_FUNC inline EIGEN_MATHFUNC_RETVAL(betainc, Scalar)
2038
- betainc(const Scalar& a, const Scalar& b, const Scalar& x) {
2039
- return EIGEN_MATHFUNC_IMPL(betainc, Scalar)::run(a, b, x);
2040
- }
2041
-
2042
- } // end namespace numext
2043
- } // end namespace Eigen
2044
-
2045
- #endif // EIGEN_SPECIAL_FUNCTIONS_H