sequenzo 0.1.18__cp311-cp311-macosx_10_9_universal2.whl → 0.1.19__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 +107 -5
  6. sequenzo/define_sequence_data.py +10 -1
  7. sequenzo/dissimilarity_measures/get_distance_matrix.py +1 -2
  8. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c +155 -155
  9. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cpython-311-darwin.so +0 -0
  10. sequenzo/dissimilarity_measures/utils/seqconc.c +155 -155
  11. sequenzo/dissimilarity_measures/utils/seqconc.cpython-311-darwin.so +0 -0
  12. sequenzo/dissimilarity_measures/utils/seqdss.c +155 -155
  13. sequenzo/dissimilarity_measures/utils/seqdss.cpython-311-darwin.so +0 -0
  14. sequenzo/dissimilarity_measures/utils/seqdur.c +155 -155
  15. sequenzo/dissimilarity_measures/utils/seqdur.cpython-311-darwin.so +0 -0
  16. sequenzo/dissimilarity_measures/utils/seqlength.c +155 -155
  17. sequenzo/dissimilarity_measures/utils/seqlength.cpython-311-darwin.so +0 -0
  18. sequenzo/multidomain/cat.py +0 -53
  19. sequenzo/multidomain/idcd.py +0 -1
  20. sequenzo/openmp_setup.py +233 -0
  21. sequenzo/visualization/plot_transition_matrix.py +21 -22
  22. {sequenzo-0.1.18.dist-info → sequenzo-0.1.19.dist-info}/METADATA +43 -10
  23. sequenzo-0.1.19.dist-info/RECORD +215 -0
  24. sequenzo/dissimilarity_measures/setup.py +0 -35
  25. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LDLT.h +0 -688
  26. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT.h +0 -558
  27. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +0 -99
  28. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +0 -682
  29. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +0 -346
  30. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +0 -462
  31. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +0 -91
  32. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/EigenSolver.h +0 -622
  33. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +0 -418
  34. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +0 -226
  35. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +0 -374
  36. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +0 -158
  37. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealQZ.h +0 -657
  38. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur.h +0 -558
  39. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +0 -77
  40. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +0 -904
  41. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +0 -87
  42. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +0 -561
  43. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AlignedBox.h +0 -486
  44. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AngleAxis.h +0 -247
  45. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/EulerAngles.h +0 -114
  46. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Homogeneous.h +0 -501
  47. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Hyperplane.h +0 -282
  48. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/OrthoMethods.h +0 -235
  49. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/ParametrizedLine.h +0 -232
  50. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Quaternion.h +0 -870
  51. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Rotation2D.h +0 -199
  52. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/RotationBase.h +0 -206
  53. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Scaling.h +0 -188
  54. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Transform.h +0 -1563
  55. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Translation.h +0 -202
  56. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Umeyama.h +0 -166
  57. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/arch/Geometry_SIMD.h +0 -168
  58. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/BlockHouseholder.h +0 -110
  59. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/Householder.h +0 -176
  60. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/HouseholderSequence.h +0 -545
  61. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +0 -226
  62. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +0 -212
  63. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +0 -229
  64. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +0 -394
  65. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +0 -453
  66. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +0 -444
  67. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +0 -198
  68. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +0 -117
  69. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Jacobi/Jacobi.h +0 -483
  70. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/KLUSupport/KLUSupport.h +0 -358
  71. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/Determinant.h +0 -117
  72. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/FullPivLU.h +0 -877
  73. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/InverseImpl.h +0 -432
  74. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU.h +0 -624
  75. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +0 -83
  76. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/arch/InverseSize4.h +0 -351
  77. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/MetisSupport/MetisSupport.h +0 -137
  78. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Amd.h +0 -435
  79. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +0 -1863
  80. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Ordering.h +0 -153
  81. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +0 -678
  82. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +0 -545
  83. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR.h +0 -674
  84. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +0 -97
  85. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +0 -635
  86. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/FullPivHouseholderQR.h +0 -713
  87. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR.h +0 -434
  88. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +0 -68
  89. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +0 -335
  90. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/BDCSVD.h +0 -1366
  91. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h +0 -812
  92. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +0 -91
  93. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/SVDBase.h +0 -376
  94. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/UpperBidiagonalization.h +0 -414
  95. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +0 -697
  96. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +0 -174
  97. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/AmbiVector.h +0 -378
  98. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/CompressedStorage.h +0 -274
  99. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +0 -352
  100. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +0 -67
  101. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseAssign.h +0 -270
  102. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseBlock.h +0 -571
  103. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseColEtree.h +0 -206
  104. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +0 -370
  105. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +0 -722
  106. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +0 -150
  107. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +0 -342
  108. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +0 -138
  109. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDot.h +0 -98
  110. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseFuzzy.h +0 -29
  111. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMap.h +0 -305
  112. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrix.h +0 -1518
  113. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +0 -398
  114. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparsePermutation.h +0 -178
  115. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseProduct.h +0 -181
  116. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRedux.h +0 -49
  117. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRef.h +0 -397
  118. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +0 -659
  119. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSolverBase.h +0 -124
  120. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +0 -198
  121. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTranspose.h +0 -92
  122. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTriangularView.h +0 -189
  123. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseUtil.h +0 -186
  124. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseVector.h +0 -478
  125. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseView.h +0 -254
  126. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/TriangularSolver.h +0 -315
  127. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU.h +0 -923
  128. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLUImpl.h +0 -66
  129. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +0 -226
  130. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +0 -110
  131. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +0 -375
  132. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +0 -80
  133. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_bmod.h +0 -181
  134. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_dfs.h +0 -179
  135. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +0 -107
  136. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +0 -280
  137. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +0 -126
  138. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +0 -130
  139. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_bmod.h +0 -223
  140. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_dfs.h +0 -258
  141. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pivotL.h +0 -137
  142. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pruneL.h +0 -136
  143. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_relax_snode.h +0 -83
  144. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseQR/SparseQR.h +0 -758
  145. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdDeque.h +0 -116
  146. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdList.h +0 -106
  147. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdVector.h +0 -131
  148. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/details.h +0 -84
  149. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SuperLUSupport/SuperLUSupport.h +0 -1025
  150. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/UmfPackSupport/UmfPackSupport.h +0 -642
  151. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Image.h +0 -82
  152. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Kernel.h +0 -79
  153. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/RealSvd2x2.h +0 -55
  154. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/blas.h +0 -440
  155. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapack.h +0 -152
  156. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke.h +0 -16292
  157. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke_mangling.h +0 -17
  158. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseBinaryOps.h +0 -358
  159. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseUnaryOps.h +0 -696
  160. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/BlockMethods.h +0 -1442
  161. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseBinaryOps.h +0 -115
  162. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseUnaryOps.h +0 -177
  163. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/IndexedViewMethods.h +0 -262
  164. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseBinaryOps.h +0 -152
  165. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseUnaryOps.h +0 -95
  166. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ReshapedMethods.h +0 -149
  167. sequenzo/dissimilarity_measures/src/eigen/blas/BandTriangularSolver.h +0 -97
  168. sequenzo/dissimilarity_measures/src/eigen/blas/GeneralRank1Update.h +0 -44
  169. sequenzo/dissimilarity_measures/src/eigen/blas/PackedSelfadjointProduct.h +0 -53
  170. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularMatrixVector.h +0 -79
  171. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularSolverVector.h +0 -88
  172. sequenzo/dissimilarity_measures/src/eigen/blas/Rank2Update.h +0 -57
  173. sequenzo/dissimilarity_measures/src/eigen/blas/common.h +0 -175
  174. sequenzo/dissimilarity_measures/src/eigen/blas/f2c/datatypes.h +0 -24
  175. sequenzo/dissimilarity_measures/src/eigen/blas/level1_cplx_impl.h +0 -155
  176. sequenzo/dissimilarity_measures/src/eigen/blas/level1_impl.h +0 -144
  177. sequenzo/dissimilarity_measures/src/eigen/blas/level1_real_impl.h +0 -122
  178. sequenzo/dissimilarity_measures/src/eigen/blas/level2_cplx_impl.h +0 -360
  179. sequenzo/dissimilarity_measures/src/eigen/blas/level2_impl.h +0 -553
  180. sequenzo/dissimilarity_measures/src/eigen/blas/level2_real_impl.h +0 -306
  181. sequenzo/dissimilarity_measures/src/eigen/blas/level3_impl.h +0 -702
  182. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/__init__.py +0 -1
  183. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/printers.py +0 -314
  184. sequenzo/dissimilarity_measures/src/eigen/lapack/lapack_common.h +0 -29
  185. sequenzo/dissimilarity_measures/src/eigen/scripts/relicense.py +0 -69
  186. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/Tensor.h +0 -554
  187. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorArgMax.h +0 -329
  188. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorAssign.h +0 -247
  189. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBase.h +0 -1176
  190. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBlock.h +0 -1559
  191. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBroadcasting.h +0 -1093
  192. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorChipping.h +0 -518
  193. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConcatenation.h +0 -377
  194. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContraction.h +0 -1023
  195. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionBlocking.h +0 -73
  196. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionCuda.h +0 -6
  197. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionGpu.h +0 -1413
  198. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionMapper.h +0 -575
  199. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionSycl.h +0 -1650
  200. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionThreadPool.h +0 -1679
  201. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConversion.h +0 -456
  202. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolution.h +0 -1132
  203. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolutionSycl.h +0 -544
  204. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCostModel.h +0 -214
  205. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCustomOp.h +0 -347
  206. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDevice.h +0 -137
  207. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceCuda.h +0 -6
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@@ -1,286 +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) 2016 Gael Guennebaud <gael.guennebaud@inria.fr>
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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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-
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- #ifndef EIGEN_BESSELFUNCTIONS_ARRAYAPI_H
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- #define EIGEN_BESSELFUNCTIONS_ARRAYAPI_H
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-
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- namespace Eigen {
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-
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- /** \returns an expression of the coefficient-wise i0(\a x) to the given
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- * arrays.
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- *
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- * It returns the modified Bessel function of the first kind of order zero.
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- *
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- * \param x is the argument
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- *
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- * \note This function supports only float and double scalar types. To support
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- * other scalar types, the user has to provide implementations of i0(T) for
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- * any scalar type T to be supported.
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- *
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- * \sa ArrayBase::bessel_i0()
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- */
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- template <typename Derived>
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- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
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- Eigen::internal::scalar_bessel_i0_op<typename Derived::Scalar>, const Derived>
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- bessel_i0(const Eigen::ArrayBase<Derived>& x) {
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- return Eigen::CwiseUnaryOp<
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- Eigen::internal::scalar_bessel_i0_op<typename Derived::Scalar>,
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- const Derived>(x.derived());
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- }
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-
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- /** \returns an expression of the coefficient-wise i0e(\a x) to the given
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- * arrays.
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- *
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- * It returns the exponentially scaled modified Bessel
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- * function of the first kind of order zero.
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- *
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- * \param x is the argument
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- *
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- * \note This function supports only float and double scalar types. To support
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- * other scalar types, the user has to provide implementations of i0e(T) for
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- * any scalar type T to be supported.
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- *
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- * \sa ArrayBase::bessel_i0e()
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- */
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- template <typename Derived>
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- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
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- Eigen::internal::scalar_bessel_i0e_op<typename Derived::Scalar>, const Derived>
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- bessel_i0e(const Eigen::ArrayBase<Derived>& x) {
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- return Eigen::CwiseUnaryOp<
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- Eigen::internal::scalar_bessel_i0e_op<typename Derived::Scalar>,
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- const Derived>(x.derived());
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- }
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-
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- /** \returns an expression of the coefficient-wise i1(\a x) to the given
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- * arrays.
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- *
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- * It returns the modified Bessel function of the first kind of order one.
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- *
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- * \param x is the argument
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- *
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- * \note This function supports only float and double scalar types. To support
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- * other scalar types, the user has to provide implementations of i1(T) for
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- * any scalar type T to be supported.
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- *
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- * \sa ArrayBase::bessel_i1()
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- */
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- template <typename Derived>
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- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
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- Eigen::internal::scalar_bessel_i1_op<typename Derived::Scalar>, const Derived>
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- bessel_i1(const Eigen::ArrayBase<Derived>& x) {
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- return Eigen::CwiseUnaryOp<
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- Eigen::internal::scalar_bessel_i1_op<typename Derived::Scalar>,
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- const Derived>(x.derived());
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- }
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-
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- /** \returns an expression of the coefficient-wise i1e(\a x) to the given
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- * arrays.
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- *
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- * It returns the exponentially scaled modified Bessel
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- * function of the first kind of order one.
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- *
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- * \param x is the argument
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- *
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- * \note This function supports only float and double scalar types. To support
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- * other scalar types, the user has to provide implementations of i1e(T) for
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- * any scalar type T to be supported.
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- *
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- * \sa ArrayBase::bessel_i1e()
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- */
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- template <typename Derived>
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- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
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- Eigen::internal::scalar_bessel_i1e_op<typename Derived::Scalar>, const Derived>
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- bessel_i1e(const Eigen::ArrayBase<Derived>& x) {
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- return Eigen::CwiseUnaryOp<
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- Eigen::internal::scalar_bessel_i1e_op<typename Derived::Scalar>,
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- const Derived>(x.derived());
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- }
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-
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- /** \returns an expression of the coefficient-wise k0(\a x) to the given
107
- * arrays.
108
- *
109
- * It returns the modified Bessel function of the second kind of order zero.
110
- *
111
- * \param x is the argument
112
- *
113
- * \note This function supports only float and double scalar types. To support
114
- * other scalar types, the user has to provide implementations of k0(T) for
115
- * any scalar type T to be supported.
116
- *
117
- * \sa ArrayBase::bessel_k0()
118
- */
119
- template <typename Derived>
120
- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
121
- Eigen::internal::scalar_bessel_k0_op<typename Derived::Scalar>, const Derived>
122
- bessel_k0(const Eigen::ArrayBase<Derived>& x) {
123
- return Eigen::CwiseUnaryOp<
124
- Eigen::internal::scalar_bessel_k0_op<typename Derived::Scalar>,
125
- const Derived>(x.derived());
126
- }
127
-
128
- /** \returns an expression of the coefficient-wise k0e(\a x) to the given
129
- * arrays.
130
- *
131
- * It returns the exponentially scaled modified Bessel
132
- * function of the second kind of order zero.
133
- *
134
- * \param x is the argument
135
- *
136
- * \note This function supports only float and double scalar types. To support
137
- * other scalar types, the user has to provide implementations of k0e(T) for
138
- * any scalar type T to be supported.
139
- *
140
- * \sa ArrayBase::bessel_k0e()
141
- */
142
- template <typename Derived>
143
- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
144
- Eigen::internal::scalar_bessel_k0e_op<typename Derived::Scalar>, const Derived>
145
- bessel_k0e(const Eigen::ArrayBase<Derived>& x) {
146
- return Eigen::CwiseUnaryOp<
147
- Eigen::internal::scalar_bessel_k0e_op<typename Derived::Scalar>,
148
- const Derived>(x.derived());
149
- }
150
-
151
- /** \returns an expression of the coefficient-wise k1(\a x) to the given
152
- * arrays.
153
- *
154
- * It returns the modified Bessel function of the second kind of order one.
155
- *
156
- * \param x is the argument
157
- *
158
- * \note This function supports only float and double scalar types. To support
159
- * other scalar types, the user has to provide implementations of k1(T) for
160
- * any scalar type T to be supported.
161
- *
162
- * \sa ArrayBase::bessel_k1()
163
- */
164
- template <typename Derived>
165
- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
166
- Eigen::internal::scalar_bessel_k1_op<typename Derived::Scalar>, const Derived>
167
- bessel_k1(const Eigen::ArrayBase<Derived>& x) {
168
- return Eigen::CwiseUnaryOp<
169
- Eigen::internal::scalar_bessel_k1_op<typename Derived::Scalar>,
170
- const Derived>(x.derived());
171
- }
172
-
173
- /** \returns an expression of the coefficient-wise k1e(\a x) to the given
174
- * arrays.
175
- *
176
- * It returns the exponentially scaled modified Bessel
177
- * function of the second kind of order one.
178
- *
179
- * \param x is the argument
180
- *
181
- * \note This function supports only float and double scalar types. To support
182
- * other scalar types, the user has to provide implementations of k1e(T) for
183
- * any scalar type T to be supported.
184
- *
185
- * \sa ArrayBase::bessel_k1e()
186
- */
187
- template <typename Derived>
188
- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
189
- Eigen::internal::scalar_bessel_k1e_op<typename Derived::Scalar>, const Derived>
190
- bessel_k1e(const Eigen::ArrayBase<Derived>& x) {
191
- return Eigen::CwiseUnaryOp<
192
- Eigen::internal::scalar_bessel_k1e_op<typename Derived::Scalar>,
193
- const Derived>(x.derived());
194
- }
195
-
196
- /** \returns an expression of the coefficient-wise j0(\a x) to the given
197
- * arrays.
198
- *
199
- * It returns the Bessel function of the first kind of order zero.
200
- *
201
- * \param x is the argument
202
- *
203
- * \note This function supports only float and double scalar types. To support
204
- * other scalar types, the user has to provide implementations of j0(T) for
205
- * any scalar type T to be supported.
206
- *
207
- * \sa ArrayBase::bessel_j0()
208
- */
209
- template <typename Derived>
210
- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
211
- Eigen::internal::scalar_bessel_j0_op<typename Derived::Scalar>, const Derived>
212
- bessel_j0(const Eigen::ArrayBase<Derived>& x) {
213
- return Eigen::CwiseUnaryOp<
214
- Eigen::internal::scalar_bessel_j0_op<typename Derived::Scalar>,
215
- const Derived>(x.derived());
216
- }
217
-
218
- /** \returns an expression of the coefficient-wise y0(\a x) to the given
219
- * arrays.
220
- *
221
- * It returns the Bessel function of the second kind of order zero.
222
- *
223
- * \param x is the argument
224
- *
225
- * \note This function supports only float and double scalar types. To support
226
- * other scalar types, the user has to provide implementations of y0(T) for
227
- * any scalar type T to be supported.
228
- *
229
- * \sa ArrayBase::bessel_y0()
230
- */
231
- template <typename Derived>
232
- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
233
- Eigen::internal::scalar_bessel_y0_op<typename Derived::Scalar>, const Derived>
234
- bessel_y0(const Eigen::ArrayBase<Derived>& x) {
235
- return Eigen::CwiseUnaryOp<
236
- Eigen::internal::scalar_bessel_y0_op<typename Derived::Scalar>,
237
- const Derived>(x.derived());
238
- }
239
-
240
- /** \returns an expression of the coefficient-wise j1(\a x) to the given
241
- * arrays.
242
- *
243
- * It returns the modified Bessel function of the first kind of order one.
244
- *
245
- * \param x is the argument
246
- *
247
- * \note This function supports only float and double scalar types. To support
248
- * other scalar types, the user has to provide implementations of j1(T) for
249
- * any scalar type T to be supported.
250
- *
251
- * \sa ArrayBase::bessel_j1()
252
- */
253
- template <typename Derived>
254
- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
255
- Eigen::internal::scalar_bessel_j1_op<typename Derived::Scalar>, const Derived>
256
- bessel_j1(const Eigen::ArrayBase<Derived>& x) {
257
- return Eigen::CwiseUnaryOp<
258
- Eigen::internal::scalar_bessel_j1_op<typename Derived::Scalar>,
259
- const Derived>(x.derived());
260
- }
261
-
262
- /** \returns an expression of the coefficient-wise y1(\a x) to the given
263
- * arrays.
264
- *
265
- * It returns the Bessel function of the second kind of order one.
266
- *
267
- * \param x is the argument
268
- *
269
- * \note This function supports only float and double scalar types. To support
270
- * other scalar types, the user has to provide implementations of y1(T) for
271
- * any scalar type T to be supported.
272
- *
273
- * \sa ArrayBase::bessel_y1()
274
- */
275
- template <typename Derived>
276
- EIGEN_STRONG_INLINE const Eigen::CwiseUnaryOp<
277
- Eigen::internal::scalar_bessel_y1_op<typename Derived::Scalar>, const Derived>
278
- bessel_y1(const Eigen::ArrayBase<Derived>& x) {
279
- return Eigen::CwiseUnaryOp<
280
- Eigen::internal::scalar_bessel_y1_op<typename Derived::Scalar>,
281
- const Derived>(x.derived());
282
- }
283
-
284
- } // end namespace Eigen
285
-
286
- #endif // EIGEN_BESSELFUNCTIONS_ARRAYAPI_H
@@ -1,68 +0,0 @@
1
- // This file is part of Eigen, a lightweight C++ template library
2
- // for linear algebra.
3
- //
4
- // This Source Code Form is subject to the terms of the Mozilla
5
- // Public License v. 2.0. If a copy of the MPL was not distributed
6
- // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
7
-
8
- #ifndef EIGEN_BESSELFUNCTIONS_BFLOAT16_H
9
- #define EIGEN_BESSELFUNCTIONS_BFLOAT16_H
10
-
11
- namespace Eigen {
12
- namespace numext {
13
-
14
- #if EIGEN_HAS_C99_MATH
15
- template <>
16
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_i0(const Eigen::bfloat16& x) {
17
- return Eigen::bfloat16(Eigen::numext::bessel_i0(static_cast<float>(x)));
18
- }
19
- template <>
20
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_i0e(const Eigen::bfloat16& x) {
21
- return Eigen::bfloat16(Eigen::numext::bessel_i0e(static_cast<float>(x)));
22
- }
23
- template <>
24
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_i1(const Eigen::bfloat16& x) {
25
- return Eigen::bfloat16(Eigen::numext::bessel_i1(static_cast<float>(x)));
26
- }
27
- template <>
28
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_i1e(const Eigen::bfloat16& x) {
29
- return Eigen::bfloat16(Eigen::numext::bessel_i1e(static_cast<float>(x)));
30
- }
31
- template <>
32
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_j0(const Eigen::bfloat16& x) {
33
- return Eigen::bfloat16(Eigen::numext::bessel_j0(static_cast<float>(x)));
34
- }
35
- template <>
36
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_j1(const Eigen::bfloat16& x) {
37
- return Eigen::bfloat16(Eigen::numext::bessel_j1(static_cast<float>(x)));
38
- }
39
- template <>
40
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_y0(const Eigen::bfloat16& x) {
41
- return Eigen::bfloat16(Eigen::numext::bessel_y0(static_cast<float>(x)));
42
- }
43
- template <>
44
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_y1(const Eigen::bfloat16& x) {
45
- return Eigen::bfloat16(Eigen::numext::bessel_y1(static_cast<float>(x)));
46
- }
47
- template <>
48
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_k0(const Eigen::bfloat16& x) {
49
- return Eigen::bfloat16(Eigen::numext::bessel_k0(static_cast<float>(x)));
50
- }
51
- template <>
52
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_k0e(const Eigen::bfloat16& x) {
53
- return Eigen::bfloat16(Eigen::numext::bessel_k0e(static_cast<float>(x)));
54
- }
55
- template <>
56
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_k1(const Eigen::bfloat16& x) {
57
- return Eigen::bfloat16(Eigen::numext::bessel_k1(static_cast<float>(x)));
58
- }
59
- template <>
60
- EIGEN_STRONG_INLINE EIGEN_DEVICE_FUNC Eigen::bfloat16 bessel_k1e(const Eigen::bfloat16& x) {
61
- return Eigen::bfloat16(Eigen::numext::bessel_k1e(static_cast<float>(x)));
62
- }
63
- #endif
64
-
65
- } // end namespace numext
66
- } // end namespace Eigen
67
-
68
- #endif // EIGEN_BESSELFUNCTIONS_BFLOAT16_H