sequenzo 0.1.18__cp310-cp310-win_amd64.whl → 0.1.19__cp310-cp310-win_amd64.whl

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Potentially problematic release.


This version of sequenzo might be problematic. Click here for more details.

Files changed (396) hide show
  1. sequenzo/__init__.py +39 -7
  2. sequenzo/big_data/clara/utils/get_weighted_diss.c +154 -154
  3. sequenzo/big_data/clara/utils/get_weighted_diss.cp310-win_amd64.pyd +0 -0
  4. sequenzo/clustering/KMedoids.py +39 -0
  5. sequenzo/clustering/clustering_c_code.cp310-win_amd64.pyd +0 -0
  6. sequenzo/clustering/hierarchical_clustering.py +107 -5
  7. sequenzo/define_sequence_data.py +10 -1
  8. sequenzo/dissimilarity_measures/c_code.cp310-win_amd64.pyd +0 -0
  9. sequenzo/dissimilarity_measures/get_distance_matrix.py +1 -2
  10. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c +154 -154
  11. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cp310-win_amd64.pyd +0 -0
  12. sequenzo/dissimilarity_measures/utils/seqconc.c +154 -154
  13. sequenzo/dissimilarity_measures/utils/seqconc.cp310-win_amd64.pyd +0 -0
  14. sequenzo/dissimilarity_measures/utils/seqdss.c +154 -154
  15. sequenzo/dissimilarity_measures/utils/seqdss.cp310-win_amd64.pyd +0 -0
  16. sequenzo/dissimilarity_measures/utils/seqdur.c +154 -154
  17. sequenzo/dissimilarity_measures/utils/seqdur.cp310-win_amd64.pyd +0 -0
  18. sequenzo/dissimilarity_measures/utils/seqlength.c +154 -154
  19. sequenzo/dissimilarity_measures/utils/seqlength.cp310-win_amd64.pyd +0 -0
  20. sequenzo/multidomain/cat.py +0 -53
  21. sequenzo/multidomain/idcd.py +0 -1
  22. sequenzo/openmp_setup.py +233 -0
  23. sequenzo/visualization/plot_transition_matrix.py +21 -22
  24. {sequenzo-0.1.18.dist-info → sequenzo-0.1.19.dist-info}/METADATA +43 -10
  25. sequenzo-0.1.19.dist-info/RECORD +272 -0
  26. sequenzo/dissimilarity_measures/setup.py +0 -35
  27. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LDLT.h +0 -688
  28. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT.h +0 -558
  29. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +0 -99
  30. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +0 -682
  31. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +0 -346
  32. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +0 -462
  33. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +0 -91
  34. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/EigenSolver.h +0 -622
  35. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +0 -418
  36. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +0 -226
  37. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +0 -374
  38. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +0 -158
  39. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealQZ.h +0 -657
  40. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur.h +0 -558
  41. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +0 -77
  42. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +0 -904
  43. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +0 -87
  44. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +0 -561
  45. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AlignedBox.h +0 -486
  46. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AngleAxis.h +0 -247
  47. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/EulerAngles.h +0 -114
  48. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Homogeneous.h +0 -501
  49. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Hyperplane.h +0 -282
  50. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/OrthoMethods.h +0 -235
  51. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/ParametrizedLine.h +0 -232
  52. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Quaternion.h +0 -870
  53. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Rotation2D.h +0 -199
  54. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/RotationBase.h +0 -206
  55. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Scaling.h +0 -188
  56. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Transform.h +0 -1563
  57. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Translation.h +0 -202
  58. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Umeyama.h +0 -166
  59. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/arch/Geometry_SIMD.h +0 -168
  60. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/BlockHouseholder.h +0 -110
  61. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/Householder.h +0 -176
  62. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/HouseholderSequence.h +0 -545
  63. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +0 -226
  64. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +0 -212
  65. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +0 -229
  66. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +0 -394
  67. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +0 -453
  68. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +0 -444
  69. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +0 -198
  70. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +0 -117
  71. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Jacobi/Jacobi.h +0 -483
  72. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/KLUSupport/KLUSupport.h +0 -358
  73. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/Determinant.h +0 -117
  74. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/FullPivLU.h +0 -877
  75. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/InverseImpl.h +0 -432
  76. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU.h +0 -624
  77. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +0 -83
  78. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/arch/InverseSize4.h +0 -351
  79. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/MetisSupport/MetisSupport.h +0 -137
  80. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Amd.h +0 -435
  81. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +0 -1863
  82. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Ordering.h +0 -153
  83. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +0 -678
  84. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +0 -545
  85. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR.h +0 -674
  86. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +0 -97
  87. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +0 -635
  88. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/FullPivHouseholderQR.h +0 -713
  89. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR.h +0 -434
  90. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +0 -68
  91. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +0 -335
  92. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/BDCSVD.h +0 -1366
  93. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h +0 -812
  94. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +0 -91
  95. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/SVDBase.h +0 -376
  96. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/UpperBidiagonalization.h +0 -414
  97. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +0 -697
  98. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +0 -174
  99. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/AmbiVector.h +0 -378
  100. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/CompressedStorage.h +0 -274
  101. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +0 -352
  102. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +0 -67
  103. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseAssign.h +0 -270
  104. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseBlock.h +0 -571
  105. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseColEtree.h +0 -206
  106. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +0 -370
  107. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +0 -722
  108. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +0 -150
  109. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +0 -342
  110. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +0 -138
  111. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDot.h +0 -98
  112. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseFuzzy.h +0 -29
  113. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMap.h +0 -305
  114. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrix.h +0 -1518
  115. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +0 -398
  116. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparsePermutation.h +0 -178
  117. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseProduct.h +0 -181
  118. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRedux.h +0 -49
  119. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRef.h +0 -397
  120. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +0 -659
  121. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSolverBase.h +0 -124
  122. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +0 -198
  123. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTranspose.h +0 -92
  124. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTriangularView.h +0 -189
  125. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseUtil.h +0 -186
  126. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseVector.h +0 -478
  127. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseView.h +0 -254
  128. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/TriangularSolver.h +0 -315
  129. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU.h +0 -923
  130. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLUImpl.h +0 -66
  131. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +0 -226
  132. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +0 -110
  133. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +0 -375
  134. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +0 -80
  135. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_bmod.h +0 -181
  136. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_dfs.h +0 -179
  137. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +0 -107
  138. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +0 -280
  139. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +0 -126
  140. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +0 -130
  141. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_bmod.h +0 -223
  142. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_dfs.h +0 -258
  143. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pivotL.h +0 -137
  144. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pruneL.h +0 -136
  145. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_relax_snode.h +0 -83
  146. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseQR/SparseQR.h +0 -758
  147. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdDeque.h +0 -116
  148. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdList.h +0 -106
  149. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdVector.h +0 -131
  150. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/details.h +0 -84
  151. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SuperLUSupport/SuperLUSupport.h +0 -1025
  152. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/UmfPackSupport/UmfPackSupport.h +0 -642
  153. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Image.h +0 -82
  154. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Kernel.h +0 -79
  155. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/RealSvd2x2.h +0 -55
  156. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/blas.h +0 -440
  157. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapack.h +0 -152
  158. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke.h +0 -16292
  159. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke_mangling.h +0 -17
  160. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseBinaryOps.h +0 -358
  161. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseUnaryOps.h +0 -696
  162. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/BlockMethods.h +0 -1442
  163. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseBinaryOps.h +0 -115
  164. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseUnaryOps.h +0 -177
  165. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/IndexedViewMethods.h +0 -262
  166. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseBinaryOps.h +0 -152
  167. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseUnaryOps.h +0 -95
  168. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ReshapedMethods.h +0 -149
  169. sequenzo/dissimilarity_measures/src/eigen/bench/BenchSparseUtil.h +0 -149
  170. sequenzo/dissimilarity_measures/src/eigen/bench/BenchTimer.h +0 -199
  171. sequenzo/dissimilarity_measures/src/eigen/bench/BenchUtil.h +0 -92
  172. sequenzo/dissimilarity_measures/src/eigen/bench/basicbenchmark.h +0 -63
  173. sequenzo/dissimilarity_measures/src/eigen/bench/btl/generic_bench/utils/utilities.h +0 -90
  174. sequenzo/dissimilarity_measures/src/eigen/bench/btl/libs/BLAS/blas.h +0 -675
  175. sequenzo/dissimilarity_measures/src/eigen/bench/btl/libs/BLAS/c_interface_base.h +0 -73
  176. sequenzo/dissimilarity_measures/src/eigen/bench/perf_monitoring/gemm_common.h +0 -67
  177. sequenzo/dissimilarity_measures/src/eigen/bench/perf_monitoring/gemv_common.h +0 -69
  178. sequenzo/dissimilarity_measures/src/eigen/bench/spbench/spbenchsolver.h +0 -573
  179. sequenzo/dissimilarity_measures/src/eigen/bench/spbench/spbenchstyle.h +0 -95
  180. sequenzo/dissimilarity_measures/src/eigen/bench/tensors/benchmark.h +0 -49
  181. sequenzo/dissimilarity_measures/src/eigen/bench/tensors/tensor_benchmarks.h +0 -597
  182. sequenzo/dissimilarity_measures/src/eigen/blas/BandTriangularSolver.h +0 -97
  183. sequenzo/dissimilarity_measures/src/eigen/blas/GeneralRank1Update.h +0 -44
  184. sequenzo/dissimilarity_measures/src/eigen/blas/PackedSelfadjointProduct.h +0 -53
  185. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularMatrixVector.h +0 -79
  186. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularSolverVector.h +0 -88
  187. sequenzo/dissimilarity_measures/src/eigen/blas/Rank2Update.h +0 -57
  188. sequenzo/dissimilarity_measures/src/eigen/blas/common.h +0 -175
  189. sequenzo/dissimilarity_measures/src/eigen/blas/f2c/datatypes.h +0 -24
  190. sequenzo/dissimilarity_measures/src/eigen/blas/level1_cplx_impl.h +0 -155
  191. sequenzo/dissimilarity_measures/src/eigen/blas/level1_impl.h +0 -144
  192. sequenzo/dissimilarity_measures/src/eigen/blas/level1_real_impl.h +0 -122
  193. sequenzo/dissimilarity_measures/src/eigen/blas/level2_cplx_impl.h +0 -360
  194. sequenzo/dissimilarity_measures/src/eigen/blas/level2_impl.h +0 -553
  195. sequenzo/dissimilarity_measures/src/eigen/blas/level2_real_impl.h +0 -306
  196. sequenzo/dissimilarity_measures/src/eigen/blas/level3_impl.h +0 -702
  197. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/__init__.py +0 -1
  198. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/printers.py +0 -314
  199. sequenzo/dissimilarity_measures/src/eigen/demos/mandelbrot/mandelbrot.h +0 -71
  200. sequenzo/dissimilarity_measures/src/eigen/demos/mix_eigen_and_c/binary_library.h +0 -71
  201. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/camera.h +0 -118
  202. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/gpuhelper.h +0 -207
  203. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/icosphere.h +0 -30
  204. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/quaternion_demo.h +0 -114
  205. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/trackball.h +0 -42
  206. sequenzo/dissimilarity_measures/src/eigen/lapack/lapack_common.h +0 -29
  207. sequenzo/dissimilarity_measures/src/eigen/scripts/relicense.py +0 -69
  208. sequenzo/dissimilarity_measures/src/eigen/test/AnnoyingScalar.h +0 -165
  209. sequenzo/dissimilarity_measures/src/eigen/test/MovableScalar.h +0 -35
  210. sequenzo/dissimilarity_measures/src/eigen/test/SafeScalar.h +0 -30
  211. sequenzo/dissimilarity_measures/src/eigen/test/bug1213.h +0 -8
  212. sequenzo/dissimilarity_measures/src/eigen/test/evaluator_common.h +0 -0
  213. sequenzo/dissimilarity_measures/src/eigen/test/gpu_common.h +0 -176
  214. sequenzo/dissimilarity_measures/src/eigen/test/main.h +0 -857
  215. sequenzo/dissimilarity_measures/src/eigen/test/packetmath_test_shared.h +0 -275
  216. sequenzo/dissimilarity_measures/src/eigen/test/product.h +0 -259
  217. sequenzo/dissimilarity_measures/src/eigen/test/random_without_cast_overflow.h +0 -152
  218. sequenzo/dissimilarity_measures/src/eigen/test/solverbase.h +0 -36
  219. sequenzo/dissimilarity_measures/src/eigen/test/sparse.h +0 -204
  220. sequenzo/dissimilarity_measures/src/eigen/test/sparse_solver.h +0 -699
  221. sequenzo/dissimilarity_measures/src/eigen/test/split_test_helper.h +0 -5994
  222. sequenzo/dissimilarity_measures/src/eigen/test/svd_common.h +0 -521
  223. sequenzo/dissimilarity_measures/src/eigen/test/svd_fill.h +0 -118
  224. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/Tensor.h +0 -554
  225. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorArgMax.h +0 -329
  226. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorAssign.h +0 -247
  227. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBase.h +0 -1176
  228. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBlock.h +0 -1559
  229. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBroadcasting.h +0 -1093
  230. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorChipping.h +0 -518
  231. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConcatenation.h +0 -377
  232. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContraction.h +0 -1023
  233. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionBlocking.h +0 -73
  234. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionCuda.h +0 -6
  235. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionGpu.h +0 -1413
  236. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionMapper.h +0 -575
  237. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionSycl.h +0 -1650
  238. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionThreadPool.h +0 -1679
  239. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConversion.h +0 -456
  240. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolution.h +0 -1132
  241. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolutionSycl.h +0 -544
  242. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCostModel.h +0 -214
  243. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCustomOp.h +0 -347
  244. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDevice.h +0 -137
  245. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceCuda.h +0 -6
  246. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceDefault.h +0 -104
  247. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceGpu.h +0 -389
  248. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceSycl.h +0 -1048
  249. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceThreadPool.h +0 -409
  250. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDimensionList.h +0 -236
  251. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDimensions.h +0 -490
  252. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorEvalTo.h +0 -236
  253. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorEvaluator.h +0 -983
  254. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorExecutor.h +0 -703
  255. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorExpr.h +0 -388
  256. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorFFT.h +0 -669
  257. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorFixedSize.h +0 -379
  258. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorForcedEval.h +0 -237
  259. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorForwardDeclarations.h +0 -191
  260. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorFunctors.h +0 -488
  261. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorGenerator.h +0 -302
  262. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorGlobalFunctions.h +0 -33
  263. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorGpuHipCudaDefines.h +0 -99
  264. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorGpuHipCudaUndefines.h +0 -44
  265. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorIO.h +0 -79
  266. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorImagePatch.h +0 -603
  267. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorIndexList.h +0 -738
  268. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorInflation.h +0 -247
  269. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorInitializer.h +0 -82
  270. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorIntDiv.h +0 -263
  271. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorLayoutSwap.h +0 -216
  272. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorMacros.h +0 -98
  273. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorMap.h +0 -327
  274. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorMeta.h +0 -311
  275. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorMorphing.h +0 -1102
  276. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorPadding.h +0 -708
  277. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorPatch.h +0 -291
  278. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorRandom.h +0 -322
  279. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorReduction.h +0 -998
  280. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorReductionCuda.h +0 -6
  281. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorReductionGpu.h +0 -966
  282. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorReductionSycl.h +0 -582
  283. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorRef.h +0 -454
  284. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorReverse.h +0 -465
  285. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorScan.h +0 -528
  286. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorScanSycl.h +0 -513
  287. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorShuffling.h +0 -471
  288. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorStorage.h +0 -161
  289. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorStriding.h +0 -346
  290. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorTrace.h +0 -303
  291. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorTraits.h +0 -264
  292. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorUInt128.h +0 -249
  293. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorVolumePatch.h +0 -629
  294. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/TensorSymmetry/DynamicSymmetry.h +0 -293
  295. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/TensorSymmetry/StaticSymmetry.h +0 -236
  296. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/TensorSymmetry/Symmetry.h +0 -338
  297. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/TensorSymmetry/util/TemplateGroupTheory.h +0 -669
  298. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/Barrier.h +0 -67
  299. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/EventCount.h +0 -249
  300. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/NonBlockingThreadPool.h +0 -486
  301. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/RunQueue.h +0 -236
  302. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/ThreadCancel.h +0 -23
  303. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/ThreadEnvironment.h +0 -40
  304. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/ThreadLocal.h +0 -301
  305. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/ThreadPoolInterface.h +0 -48
  306. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/ThreadYield.h +0 -20
  307. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/util/CXX11Meta.h +0 -537
  308. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/util/CXX11Workarounds.h +0 -88
  309. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/util/EmulateArray.h +0 -261
  310. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/util/MaxSizeVector.h +0 -158
  311. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/AutoDiff/AutoDiffJacobian.h +0 -108
  312. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/AutoDiff/AutoDiffScalar.h +0 -730
  313. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/AutoDiff/AutoDiffVector.h +0 -220
  314. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/BVH/BVAlgorithms.h +0 -293
  315. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/BVH/KdBVH.h +0 -223
  316. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Eigenvalues/ArpackSelfAdjointEigenSolver.h +0 -790
  317. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/EulerAngles/EulerAngles.h +0 -355
  318. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/EulerAngles/EulerSystem.h +0 -305
  319. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/FFT/ei_fftw_impl.h +0 -261
  320. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/FFT/ei_kissfft_impl.h +0 -449
  321. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/ConstrainedConjGrad.h +0 -187
  322. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/DGMRES.h +0 -511
  323. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/GMRES.h +0 -335
  324. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/IDRS.h +0 -436
  325. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/IncompleteLU.h +0 -90
  326. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/IterationController.h +0 -154
  327. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/MINRES.h +0 -267
  328. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/Scaling.h +0 -193
  329. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/KroneckerProduct/KroneckerTensorProduct.h +0 -305
  330. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LMcovar.h +0 -84
  331. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LMonestep.h +0 -202
  332. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LMpar.h +0 -160
  333. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LMqrsolv.h +0 -188
  334. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LevenbergMarquardt.h +0 -396
  335. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixExponential.h +0 -441
  336. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixFunction.h +0 -569
  337. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixLogarithm.h +0 -373
  338. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixPower.h +0 -705
  339. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixSquareRoot.h +0 -368
  340. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/StemFunction.h +0 -117
  341. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MoreVectorization/MathFunctions.h +0 -95
  342. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/HybridNonLinearSolver.h +0 -601
  343. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/LevenbergMarquardt.h +0 -657
  344. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/chkder.h +0 -66
  345. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/covar.h +0 -70
  346. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/dogleg.h +0 -107
  347. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/fdjac1.h +0 -79
  348. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/lmpar.h +0 -298
  349. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/qrsolv.h +0 -91
  350. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/r1mpyq.h +0 -30
  351. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/r1updt.h +0 -99
  352. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/rwupdt.h +0 -49
  353. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NumericalDiff/NumericalDiff.h +0 -130
  354. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Polynomials/Companion.h +0 -280
  355. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Polynomials/PolynomialSolver.h +0 -428
  356. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Polynomials/PolynomialUtils.h +0 -143
  357. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineInplaceLU.h +0 -352
  358. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineMatrix.h +0 -862
  359. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineMatrixBase.h +0 -212
  360. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineProduct.h +0 -295
  361. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineStorage.h +0 -259
  362. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineUtil.h +0 -89
  363. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/BlockOfDynamicSparseMatrix.h +0 -122
  364. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/BlockSparseMatrix.h +0 -1079
  365. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/DynamicSparseMatrix.h +0 -404
  366. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/MarketIO.h +0 -282
  367. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/MatrixMarketIterator.h +0 -247
  368. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/RandomSetter.h +0 -349
  369. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsArrayAPI.h +0 -286
  370. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsBFloat16.h +0 -68
  371. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsFunctors.h +0 -357
  372. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsHalf.h +0 -66
  373. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsImpl.h +0 -1959
  374. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsPacketMath.h +0 -118
  375. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/HipVectorCompatibility.h +0 -67
  376. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsArrayAPI.h +0 -167
  377. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsBFloat16.h +0 -58
  378. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsFunctors.h +0 -330
  379. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsHalf.h +0 -58
  380. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsImpl.h +0 -2045
  381. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsPacketMath.h +0 -79
  382. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX/BesselFunctions.h +0 -46
  383. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX/SpecialFunctions.h +0 -16
  384. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX512/BesselFunctions.h +0 -46
  385. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX512/SpecialFunctions.h +0 -16
  386. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/GPU/SpecialFunctions.h +0 -369
  387. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/NEON/BesselFunctions.h +0 -54
  388. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/NEON/SpecialFunctions.h +0 -34
  389. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/Spline.h +0 -507
  390. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/SplineFitting.h +0 -431
  391. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/SplineFwd.h +0 -93
  392. sequenzo/dissimilarity_measures/src/eigen/unsupported/test/matrix_functions.h +0 -67
  393. sequenzo-0.1.18.dist-info/RECORD +0 -638
  394. {sequenzo-0.1.18.dist-info → sequenzo-0.1.19.dist-info}/WHEEL +0 -0
  395. {sequenzo-0.1.18.dist-info → sequenzo-0.1.19.dist-info}/licenses/LICENSE +0 -0
  396. {sequenzo-0.1.18.dist-info → sequenzo-0.1.19.dist-info}/top_level.txt +0 -0
@@ -1,669 +0,0 @@
1
- // This file is part of Eigen, a lightweight C++ template library
2
- // for linear algebra.
3
- //
4
- // Copyright (C) 2015 Jianwei Cui <thucjw@gmail.com>
5
- //
6
- // This Source Code Form is subject to the terms of the Mozilla
7
- // Public License v. 2.0. If a copy of the MPL was not distributed
8
- // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
9
-
10
- #ifndef EIGEN_CXX11_TENSOR_TENSOR_FFT_H
11
- #define EIGEN_CXX11_TENSOR_TENSOR_FFT_H
12
-
13
- namespace Eigen {
14
-
15
- /** \class TensorFFT
16
- * \ingroup CXX11_Tensor_Module
17
- *
18
- * \brief Tensor FFT class.
19
- *
20
- * TODO:
21
- * Vectorize the Cooley Tukey and the Bluestein algorithm
22
- * Add support for multithreaded evaluation
23
- * Improve the performance on GPU
24
- */
25
-
26
- template <bool NeedUprade> struct MakeComplex {
27
- template <typename T>
28
- EIGEN_DEVICE_FUNC
29
- T operator() (const T& val) const { return val; }
30
- };
31
-
32
- template <> struct MakeComplex<true> {
33
- template <typename T>
34
- EIGEN_DEVICE_FUNC
35
- std::complex<T> operator() (const T& val) const { return std::complex<T>(val, 0); }
36
- };
37
-
38
- template <> struct MakeComplex<false> {
39
- template <typename T>
40
- EIGEN_DEVICE_FUNC
41
- std::complex<T> operator() (const std::complex<T>& val) const { return val; }
42
- };
43
-
44
- template <int ResultType> struct PartOf {
45
- template <typename T> T operator() (const T& val) const { return val; }
46
- };
47
-
48
- template <> struct PartOf<RealPart> {
49
- template <typename T> T operator() (const std::complex<T>& val) const { return val.real(); }
50
- };
51
-
52
- template <> struct PartOf<ImagPart> {
53
- template <typename T> T operator() (const std::complex<T>& val) const { return val.imag(); }
54
- };
55
-
56
- namespace internal {
57
- template <typename FFT, typename XprType, int FFTResultType, int FFTDir>
58
- struct traits<TensorFFTOp<FFT, XprType, FFTResultType, FFTDir> > : public traits<XprType> {
59
- typedef traits<XprType> XprTraits;
60
- typedef typename NumTraits<typename XprTraits::Scalar>::Real RealScalar;
61
- typedef typename std::complex<RealScalar> ComplexScalar;
62
- typedef typename XprTraits::Scalar InputScalar;
63
- typedef typename conditional<FFTResultType == RealPart || FFTResultType == ImagPart, RealScalar, ComplexScalar>::type OutputScalar;
64
- typedef typename XprTraits::StorageKind StorageKind;
65
- typedef typename XprTraits::Index Index;
66
- typedef typename XprType::Nested Nested;
67
- typedef typename remove_reference<Nested>::type _Nested;
68
- static const int NumDimensions = XprTraits::NumDimensions;
69
- static const int Layout = XprTraits::Layout;
70
- typedef typename traits<XprType>::PointerType PointerType;
71
- };
72
-
73
- template <typename FFT, typename XprType, int FFTResultType, int FFTDirection>
74
- struct eval<TensorFFTOp<FFT, XprType, FFTResultType, FFTDirection>, Eigen::Dense> {
75
- typedef const TensorFFTOp<FFT, XprType, FFTResultType, FFTDirection>& type;
76
- };
77
-
78
- template <typename FFT, typename XprType, int FFTResultType, int FFTDirection>
79
- struct nested<TensorFFTOp<FFT, XprType, FFTResultType, FFTDirection>, 1, typename eval<TensorFFTOp<FFT, XprType, FFTResultType, FFTDirection> >::type> {
80
- typedef TensorFFTOp<FFT, XprType, FFTResultType, FFTDirection> type;
81
- };
82
-
83
- } // end namespace internal
84
-
85
- template <typename FFT, typename XprType, int FFTResultType, int FFTDir>
86
- class TensorFFTOp : public TensorBase<TensorFFTOp<FFT, XprType, FFTResultType, FFTDir>, ReadOnlyAccessors> {
87
- public:
88
- typedef typename Eigen::internal::traits<TensorFFTOp>::Scalar Scalar;
89
- typedef typename Eigen::NumTraits<Scalar>::Real RealScalar;
90
- typedef typename std::complex<RealScalar> ComplexScalar;
91
- typedef typename internal::conditional<FFTResultType == RealPart || FFTResultType == ImagPart, RealScalar, ComplexScalar>::type OutputScalar;
92
- typedef OutputScalar CoeffReturnType;
93
- typedef typename Eigen::internal::nested<TensorFFTOp>::type Nested;
94
- typedef typename Eigen::internal::traits<TensorFFTOp>::StorageKind StorageKind;
95
- typedef typename Eigen::internal::traits<TensorFFTOp>::Index Index;
96
-
97
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE TensorFFTOp(const XprType& expr, const FFT& fft)
98
- : m_xpr(expr), m_fft(fft) {}
99
-
100
- EIGEN_DEVICE_FUNC
101
- const FFT& fft() const { return m_fft; }
102
-
103
- EIGEN_DEVICE_FUNC
104
- const typename internal::remove_all<typename XprType::Nested>::type& expression() const {
105
- return m_xpr;
106
- }
107
-
108
- protected:
109
- typename XprType::Nested m_xpr;
110
- const FFT m_fft;
111
- };
112
-
113
- // Eval as rvalue
114
- template <typename FFT, typename ArgType, typename Device, int FFTResultType, int FFTDir>
115
- struct TensorEvaluator<const TensorFFTOp<FFT, ArgType, FFTResultType, FFTDir>, Device> {
116
- typedef TensorFFTOp<FFT, ArgType, FFTResultType, FFTDir> XprType;
117
- typedef typename XprType::Index Index;
118
- static const int NumDims = internal::array_size<typename TensorEvaluator<ArgType, Device>::Dimensions>::value;
119
- typedef DSizes<Index, NumDims> Dimensions;
120
- typedef typename XprType::Scalar Scalar;
121
- typedef typename Eigen::NumTraits<Scalar>::Real RealScalar;
122
- typedef typename std::complex<RealScalar> ComplexScalar;
123
- typedef typename TensorEvaluator<ArgType, Device>::Dimensions InputDimensions;
124
- typedef internal::traits<XprType> XprTraits;
125
- typedef typename XprTraits::Scalar InputScalar;
126
- typedef typename internal::conditional<FFTResultType == RealPart || FFTResultType == ImagPart, RealScalar, ComplexScalar>::type OutputScalar;
127
- typedef OutputScalar CoeffReturnType;
128
- typedef typename PacketType<OutputScalar, Device>::type PacketReturnType;
129
- static const int PacketSize = internal::unpacket_traits<PacketReturnType>::size;
130
- typedef StorageMemory<CoeffReturnType, Device> Storage;
131
- typedef typename Storage::Type EvaluatorPointerType;
132
-
133
- enum {
134
- IsAligned = false,
135
- PacketAccess = true,
136
- BlockAccess = false,
137
- PreferBlockAccess = false,
138
- Layout = TensorEvaluator<ArgType, Device>::Layout,
139
- CoordAccess = false,
140
- RawAccess = false
141
- };
142
-
143
- //===- Tensor block evaluation strategy (see TensorBlock.h) -------------===//
144
- typedef internal::TensorBlockNotImplemented TensorBlock;
145
- //===--------------------------------------------------------------------===//
146
-
147
- EIGEN_STRONG_INLINE TensorEvaluator(const XprType& op, const Device& device) : m_fft(op.fft()), m_impl(op.expression(), device), m_data(NULL), m_device(device) {
148
- const typename TensorEvaluator<ArgType, Device>::Dimensions& input_dims = m_impl.dimensions();
149
- for (int i = 0; i < NumDims; ++i) {
150
- eigen_assert(input_dims[i] > 0);
151
- m_dimensions[i] = input_dims[i];
152
- }
153
-
154
- if (static_cast<int>(Layout) == static_cast<int>(ColMajor)) {
155
- m_strides[0] = 1;
156
- for (int i = 1; i < NumDims; ++i) {
157
- m_strides[i] = m_strides[i - 1] * m_dimensions[i - 1];
158
- }
159
- } else {
160
- m_strides[NumDims - 1] = 1;
161
- for (int i = NumDims - 2; i >= 0; --i) {
162
- m_strides[i] = m_strides[i + 1] * m_dimensions[i + 1];
163
- }
164
- }
165
- m_size = m_dimensions.TotalSize();
166
- }
167
-
168
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Dimensions& dimensions() const {
169
- return m_dimensions;
170
- }
171
-
172
- EIGEN_STRONG_INLINE bool evalSubExprsIfNeeded(EvaluatorPointerType data) {
173
- m_impl.evalSubExprsIfNeeded(NULL);
174
- if (data) {
175
- evalToBuf(data);
176
- return false;
177
- } else {
178
- m_data = (EvaluatorPointerType)m_device.get((CoeffReturnType*)(m_device.allocate_temp(sizeof(CoeffReturnType) * m_size)));
179
- evalToBuf(m_data);
180
- return true;
181
- }
182
- }
183
-
184
- EIGEN_STRONG_INLINE void cleanup() {
185
- if (m_data) {
186
- m_device.deallocate(m_data);
187
- m_data = NULL;
188
- }
189
- m_impl.cleanup();
190
- }
191
-
192
- EIGEN_DEVICE_FUNC EIGEN_ALWAYS_INLINE CoeffReturnType coeff(Index index) const {
193
- return m_data[index];
194
- }
195
-
196
- template <int LoadMode>
197
- EIGEN_DEVICE_FUNC EIGEN_ALWAYS_INLINE PacketReturnType
198
- packet(Index index) const {
199
- return internal::ploadt<PacketReturnType, LoadMode>(m_data + index);
200
- }
201
-
202
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE TensorOpCost
203
- costPerCoeff(bool vectorized) const {
204
- return TensorOpCost(sizeof(CoeffReturnType), 0, 0, vectorized, PacketSize);
205
- }
206
-
207
- EIGEN_DEVICE_FUNC EvaluatorPointerType data() const { return m_data; }
208
- #ifdef EIGEN_USE_SYCL
209
- // binding placeholder accessors to a command group handler for SYCL
210
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void bind(cl::sycl::handler &cgh) const {
211
- m_data.bind(cgh);
212
- }
213
- #endif
214
-
215
- private:
216
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void evalToBuf(EvaluatorPointerType data) {
217
- const bool write_to_out = internal::is_same<OutputScalar, ComplexScalar>::value;
218
- ComplexScalar* buf = write_to_out ? (ComplexScalar*)data : (ComplexScalar*)m_device.allocate(sizeof(ComplexScalar) * m_size);
219
-
220
- for (Index i = 0; i < m_size; ++i) {
221
- buf[i] = MakeComplex<internal::is_same<InputScalar, RealScalar>::value>()(m_impl.coeff(i));
222
- }
223
-
224
- for (size_t i = 0; i < m_fft.size(); ++i) {
225
- Index dim = m_fft[i];
226
- eigen_assert(dim >= 0 && dim < NumDims);
227
- Index line_len = m_dimensions[dim];
228
- eigen_assert(line_len >= 1);
229
- ComplexScalar* line_buf = (ComplexScalar*)m_device.allocate(sizeof(ComplexScalar) * line_len);
230
- const bool is_power_of_two = isPowerOfTwo(line_len);
231
- const Index good_composite = is_power_of_two ? 0 : findGoodComposite(line_len);
232
- const Index log_len = is_power_of_two ? getLog2(line_len) : getLog2(good_composite);
233
-
234
- ComplexScalar* a = is_power_of_two ? NULL : (ComplexScalar*)m_device.allocate(sizeof(ComplexScalar) * good_composite);
235
- ComplexScalar* b = is_power_of_two ? NULL : (ComplexScalar*)m_device.allocate(sizeof(ComplexScalar) * good_composite);
236
- ComplexScalar* pos_j_base_powered = is_power_of_two ? NULL : (ComplexScalar*)m_device.allocate(sizeof(ComplexScalar) * (line_len + 1));
237
- if (!is_power_of_two) {
238
- // Compute twiddle factors
239
- // t_n = exp(sqrt(-1) * pi * n^2 / line_len)
240
- // for n = 0, 1,..., line_len-1.
241
- // For n > 2 we use the recurrence t_n = t_{n-1}^2 / t_{n-2} * t_1^2
242
-
243
- // The recurrence is correct in exact arithmetic, but causes
244
- // numerical issues for large transforms, especially in
245
- // single-precision floating point.
246
- //
247
- // pos_j_base_powered[0] = ComplexScalar(1, 0);
248
- // if (line_len > 1) {
249
- // const ComplexScalar pos_j_base = ComplexScalar(
250
- // numext::cos(M_PI / line_len), numext::sin(M_PI / line_len));
251
- // pos_j_base_powered[1] = pos_j_base;
252
- // if (line_len > 2) {
253
- // const ComplexScalar pos_j_base_sq = pos_j_base * pos_j_base;
254
- // for (int i = 2; i < line_len + 1; ++i) {
255
- // pos_j_base_powered[i] = pos_j_base_powered[i - 1] *
256
- // pos_j_base_powered[i - 1] /
257
- // pos_j_base_powered[i - 2] *
258
- // pos_j_base_sq;
259
- // }
260
- // }
261
- // }
262
- // TODO(rmlarsen): Find a way to use Eigen's vectorized sin
263
- // and cosine functions here.
264
- for (int j = 0; j < line_len + 1; ++j) {
265
- double arg = ((EIGEN_PI * j) * j) / line_len;
266
- std::complex<double> tmp(numext::cos(arg), numext::sin(arg));
267
- pos_j_base_powered[j] = static_cast<ComplexScalar>(tmp);
268
- }
269
- }
270
-
271
- for (Index partial_index = 0; partial_index < m_size / line_len; ++partial_index) {
272
- const Index base_offset = getBaseOffsetFromIndex(partial_index, dim);
273
-
274
- // get data into line_buf
275
- const Index stride = m_strides[dim];
276
- if (stride == 1) {
277
- m_device.memcpy(line_buf, &buf[base_offset], line_len*sizeof(ComplexScalar));
278
- } else {
279
- Index offset = base_offset;
280
- for (int j = 0; j < line_len; ++j, offset += stride) {
281
- line_buf[j] = buf[offset];
282
- }
283
- }
284
-
285
- // process the line
286
- if (is_power_of_two) {
287
- processDataLineCooleyTukey(line_buf, line_len, log_len);
288
- }
289
- else {
290
- processDataLineBluestein(line_buf, line_len, good_composite, log_len, a, b, pos_j_base_powered);
291
- }
292
-
293
- // write back
294
- if (FFTDir == FFT_FORWARD && stride == 1) {
295
- m_device.memcpy(&buf[base_offset], line_buf, line_len*sizeof(ComplexScalar));
296
- } else {
297
- Index offset = base_offset;
298
- const ComplexScalar div_factor = ComplexScalar(1.0 / line_len, 0);
299
- for (int j = 0; j < line_len; ++j, offset += stride) {
300
- buf[offset] = (FFTDir == FFT_FORWARD) ? line_buf[j] : line_buf[j] * div_factor;
301
- }
302
- }
303
- }
304
- m_device.deallocate(line_buf);
305
- if (!is_power_of_two) {
306
- m_device.deallocate(a);
307
- m_device.deallocate(b);
308
- m_device.deallocate(pos_j_base_powered);
309
- }
310
- }
311
-
312
- if(!write_to_out) {
313
- for (Index i = 0; i < m_size; ++i) {
314
- data[i] = PartOf<FFTResultType>()(buf[i]);
315
- }
316
- m_device.deallocate(buf);
317
- }
318
- }
319
-
320
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE static bool isPowerOfTwo(Index x) {
321
- eigen_assert(x > 0);
322
- return !(x & (x - 1));
323
- }
324
-
325
- // The composite number for padding, used in Bluestein's FFT algorithm
326
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE static Index findGoodComposite(Index n) {
327
- Index i = 2;
328
- while (i < 2 * n - 1) i *= 2;
329
- return i;
330
- }
331
-
332
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE static Index getLog2(Index m) {
333
- Index log2m = 0;
334
- while (m >>= 1) log2m++;
335
- return log2m;
336
- }
337
-
338
- // Call Cooley Tukey algorithm directly, data length must be power of 2
339
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void processDataLineCooleyTukey(ComplexScalar* line_buf, Index line_len, Index log_len) {
340
- eigen_assert(isPowerOfTwo(line_len));
341
- scramble_FFT(line_buf, line_len);
342
- compute_1D_Butterfly<FFTDir>(line_buf, line_len, log_len);
343
- }
344
-
345
- // Call Bluestein's FFT algorithm, m is a good composite number greater than (2 * n - 1), used as the padding length
346
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void processDataLineBluestein(ComplexScalar* line_buf, Index line_len, Index good_composite, Index log_len, ComplexScalar* a, ComplexScalar* b, const ComplexScalar* pos_j_base_powered) {
347
- Index n = line_len;
348
- Index m = good_composite;
349
- ComplexScalar* data = line_buf;
350
-
351
- for (Index i = 0; i < n; ++i) {
352
- if(FFTDir == FFT_FORWARD) {
353
- a[i] = data[i] * numext::conj(pos_j_base_powered[i]);
354
- }
355
- else {
356
- a[i] = data[i] * pos_j_base_powered[i];
357
- }
358
- }
359
- for (Index i = n; i < m; ++i) {
360
- a[i] = ComplexScalar(0, 0);
361
- }
362
-
363
- for (Index i = 0; i < n; ++i) {
364
- if(FFTDir == FFT_FORWARD) {
365
- b[i] = pos_j_base_powered[i];
366
- }
367
- else {
368
- b[i] = numext::conj(pos_j_base_powered[i]);
369
- }
370
- }
371
- for (Index i = n; i < m - n; ++i) {
372
- b[i] = ComplexScalar(0, 0);
373
- }
374
- for (Index i = m - n; i < m; ++i) {
375
- if(FFTDir == FFT_FORWARD) {
376
- b[i] = pos_j_base_powered[m-i];
377
- }
378
- else {
379
- b[i] = numext::conj(pos_j_base_powered[m-i]);
380
- }
381
- }
382
-
383
- scramble_FFT(a, m);
384
- compute_1D_Butterfly<FFT_FORWARD>(a, m, log_len);
385
-
386
- scramble_FFT(b, m);
387
- compute_1D_Butterfly<FFT_FORWARD>(b, m, log_len);
388
-
389
- for (Index i = 0; i < m; ++i) {
390
- a[i] *= b[i];
391
- }
392
-
393
- scramble_FFT(a, m);
394
- compute_1D_Butterfly<FFT_REVERSE>(a, m, log_len);
395
-
396
- //Do the scaling after ifft
397
- for (Index i = 0; i < m; ++i) {
398
- a[i] /= m;
399
- }
400
-
401
- for (Index i = 0; i < n; ++i) {
402
- if(FFTDir == FFT_FORWARD) {
403
- data[i] = a[i] * numext::conj(pos_j_base_powered[i]);
404
- }
405
- else {
406
- data[i] = a[i] * pos_j_base_powered[i];
407
- }
408
- }
409
- }
410
-
411
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE static void scramble_FFT(ComplexScalar* data, Index n) {
412
- eigen_assert(isPowerOfTwo(n));
413
- Index j = 1;
414
- for (Index i = 1; i < n; ++i){
415
- if (j > i) {
416
- std::swap(data[j-1], data[i-1]);
417
- }
418
- Index m = n >> 1;
419
- while (m >= 2 && j > m) {
420
- j -= m;
421
- m >>= 1;
422
- }
423
- j += m;
424
- }
425
- }
426
-
427
- template <int Dir>
428
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void butterfly_2(ComplexScalar* data) {
429
- ComplexScalar tmp = data[1];
430
- data[1] = data[0] - data[1];
431
- data[0] += tmp;
432
- }
433
-
434
- template <int Dir>
435
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void butterfly_4(ComplexScalar* data) {
436
- ComplexScalar tmp[4];
437
- tmp[0] = data[0] + data[1];
438
- tmp[1] = data[0] - data[1];
439
- tmp[2] = data[2] + data[3];
440
- if (Dir == FFT_FORWARD) {
441
- tmp[3] = ComplexScalar(0.0, -1.0) * (data[2] - data[3]);
442
- } else {
443
- tmp[3] = ComplexScalar(0.0, 1.0) * (data[2] - data[3]);
444
- }
445
- data[0] = tmp[0] + tmp[2];
446
- data[1] = tmp[1] + tmp[3];
447
- data[2] = tmp[0] - tmp[2];
448
- data[3] = tmp[1] - tmp[3];
449
- }
450
-
451
- template <int Dir>
452
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void butterfly_8(ComplexScalar* data) {
453
- ComplexScalar tmp_1[8];
454
- ComplexScalar tmp_2[8];
455
-
456
- tmp_1[0] = data[0] + data[1];
457
- tmp_1[1] = data[0] - data[1];
458
- tmp_1[2] = data[2] + data[3];
459
- if (Dir == FFT_FORWARD) {
460
- tmp_1[3] = (data[2] - data[3]) * ComplexScalar(0, -1);
461
- } else {
462
- tmp_1[3] = (data[2] - data[3]) * ComplexScalar(0, 1);
463
- }
464
- tmp_1[4] = data[4] + data[5];
465
- tmp_1[5] = data[4] - data[5];
466
- tmp_1[6] = data[6] + data[7];
467
- if (Dir == FFT_FORWARD) {
468
- tmp_1[7] = (data[6] - data[7]) * ComplexScalar(0, -1);
469
- } else {
470
- tmp_1[7] = (data[6] - data[7]) * ComplexScalar(0, 1);
471
- }
472
- tmp_2[0] = tmp_1[0] + tmp_1[2];
473
- tmp_2[1] = tmp_1[1] + tmp_1[3];
474
- tmp_2[2] = tmp_1[0] - tmp_1[2];
475
- tmp_2[3] = tmp_1[1] - tmp_1[3];
476
- tmp_2[4] = tmp_1[4] + tmp_1[6];
477
- // SQRT2DIV2 = sqrt(2)/2
478
- #define SQRT2DIV2 0.7071067811865476
479
- if (Dir == FFT_FORWARD) {
480
- tmp_2[5] = (tmp_1[5] + tmp_1[7]) * ComplexScalar(SQRT2DIV2, -SQRT2DIV2);
481
- tmp_2[6] = (tmp_1[4] - tmp_1[6]) * ComplexScalar(0, -1);
482
- tmp_2[7] = (tmp_1[5] - tmp_1[7]) * ComplexScalar(-SQRT2DIV2, -SQRT2DIV2);
483
- } else {
484
- tmp_2[5] = (tmp_1[5] + tmp_1[7]) * ComplexScalar(SQRT2DIV2, SQRT2DIV2);
485
- tmp_2[6] = (tmp_1[4] - tmp_1[6]) * ComplexScalar(0, 1);
486
- tmp_2[7] = (tmp_1[5] - tmp_1[7]) * ComplexScalar(-SQRT2DIV2, SQRT2DIV2);
487
- }
488
- data[0] = tmp_2[0] + tmp_2[4];
489
- data[1] = tmp_2[1] + tmp_2[5];
490
- data[2] = tmp_2[2] + tmp_2[6];
491
- data[3] = tmp_2[3] + tmp_2[7];
492
- data[4] = tmp_2[0] - tmp_2[4];
493
- data[5] = tmp_2[1] - tmp_2[5];
494
- data[6] = tmp_2[2] - tmp_2[6];
495
- data[7] = tmp_2[3] - tmp_2[7];
496
- }
497
-
498
- template <int Dir>
499
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void butterfly_1D_merge(
500
- ComplexScalar* data, Index n, Index n_power_of_2) {
501
- // Original code:
502
- // RealScalar wtemp = std::sin(M_PI/n);
503
- // RealScalar wpi = -std::sin(2 * M_PI/n);
504
- const RealScalar wtemp = m_sin_PI_div_n_LUT[n_power_of_2];
505
- const RealScalar wpi = (Dir == FFT_FORWARD)
506
- ? m_minus_sin_2_PI_div_n_LUT[n_power_of_2]
507
- : -m_minus_sin_2_PI_div_n_LUT[n_power_of_2];
508
-
509
- const ComplexScalar wp(wtemp, wpi);
510
- const ComplexScalar wp_one = wp + ComplexScalar(1, 0);
511
- const ComplexScalar wp_one_2 = wp_one * wp_one;
512
- const ComplexScalar wp_one_3 = wp_one_2 * wp_one;
513
- const ComplexScalar wp_one_4 = wp_one_3 * wp_one;
514
- const Index n2 = n / 2;
515
- ComplexScalar w(1.0, 0.0);
516
- for (Index i = 0; i < n2; i += 4) {
517
- ComplexScalar temp0(data[i + n2] * w);
518
- ComplexScalar temp1(data[i + 1 + n2] * w * wp_one);
519
- ComplexScalar temp2(data[i + 2 + n2] * w * wp_one_2);
520
- ComplexScalar temp3(data[i + 3 + n2] * w * wp_one_3);
521
- w = w * wp_one_4;
522
-
523
- data[i + n2] = data[i] - temp0;
524
- data[i] += temp0;
525
-
526
- data[i + 1 + n2] = data[i + 1] - temp1;
527
- data[i + 1] += temp1;
528
-
529
- data[i + 2 + n2] = data[i + 2] - temp2;
530
- data[i + 2] += temp2;
531
-
532
- data[i + 3 + n2] = data[i + 3] - temp3;
533
- data[i + 3] += temp3;
534
- }
535
- }
536
-
537
- template <int Dir>
538
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void compute_1D_Butterfly(
539
- ComplexScalar* data, Index n, Index n_power_of_2) {
540
- eigen_assert(isPowerOfTwo(n));
541
- if (n > 8) {
542
- compute_1D_Butterfly<Dir>(data, n / 2, n_power_of_2 - 1);
543
- compute_1D_Butterfly<Dir>(data + n / 2, n / 2, n_power_of_2 - 1);
544
- butterfly_1D_merge<Dir>(data, n, n_power_of_2);
545
- } else if (n == 8) {
546
- butterfly_8<Dir>(data);
547
- } else if (n == 4) {
548
- butterfly_4<Dir>(data);
549
- } else if (n == 2) {
550
- butterfly_2<Dir>(data);
551
- }
552
- }
553
-
554
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Index getBaseOffsetFromIndex(Index index, Index omitted_dim) const {
555
- Index result = 0;
556
-
557
- if (static_cast<int>(Layout) == static_cast<int>(ColMajor)) {
558
- for (int i = NumDims - 1; i > omitted_dim; --i) {
559
- const Index partial_m_stride = m_strides[i] / m_dimensions[omitted_dim];
560
- const Index idx = index / partial_m_stride;
561
- index -= idx * partial_m_stride;
562
- result += idx * m_strides[i];
563
- }
564
- result += index;
565
- }
566
- else {
567
- for (Index i = 0; i < omitted_dim; ++i) {
568
- const Index partial_m_stride = m_strides[i] / m_dimensions[omitted_dim];
569
- const Index idx = index / partial_m_stride;
570
- index -= idx * partial_m_stride;
571
- result += idx * m_strides[i];
572
- }
573
- result += index;
574
- }
575
- // Value of index_coords[omitted_dim] is not determined to this step
576
- return result;
577
- }
578
-
579
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Index getIndexFromOffset(Index base, Index omitted_dim, Index offset) const {
580
- Index result = base + offset * m_strides[omitted_dim] ;
581
- return result;
582
- }
583
-
584
- protected:
585
- Index m_size;
586
- const FFT EIGEN_DEVICE_REF m_fft;
587
- Dimensions m_dimensions;
588
- array<Index, NumDims> m_strides;
589
- TensorEvaluator<ArgType, Device> m_impl;
590
- EvaluatorPointerType m_data;
591
- const Device EIGEN_DEVICE_REF m_device;
592
-
593
- // This will support a maximum FFT size of 2^32 for each dimension
594
- // m_sin_PI_div_n_LUT[i] = (-2) * std::sin(M_PI / std::pow(2,i)) ^ 2;
595
- const RealScalar m_sin_PI_div_n_LUT[32] = {
596
- RealScalar(0.0),
597
- RealScalar(-2),
598
- RealScalar(-0.999999999999999),
599
- RealScalar(-0.292893218813453),
600
- RealScalar(-0.0761204674887130),
601
- RealScalar(-0.0192147195967696),
602
- RealScalar(-0.00481527332780311),
603
- RealScalar(-0.00120454379482761),
604
- RealScalar(-3.01181303795779e-04),
605
- RealScalar(-7.52981608554592e-05),
606
- RealScalar(-1.88247173988574e-05),
607
- RealScalar(-4.70619042382852e-06),
608
- RealScalar(-1.17654829809007e-06),
609
- RealScalar(-2.94137117780840e-07),
610
- RealScalar(-7.35342821488550e-08),
611
- RealScalar(-1.83835707061916e-08),
612
- RealScalar(-4.59589268710903e-09),
613
- RealScalar(-1.14897317243732e-09),
614
- RealScalar(-2.87243293150586e-10),
615
- RealScalar( -7.18108232902250e-11),
616
- RealScalar(-1.79527058227174e-11),
617
- RealScalar(-4.48817645568941e-12),
618
- RealScalar(-1.12204411392298e-12),
619
- RealScalar(-2.80511028480785e-13),
620
- RealScalar(-7.01277571201985e-14),
621
- RealScalar(-1.75319392800498e-14),
622
- RealScalar(-4.38298482001247e-15),
623
- RealScalar(-1.09574620500312e-15),
624
- RealScalar(-2.73936551250781e-16),
625
- RealScalar(-6.84841378126949e-17),
626
- RealScalar(-1.71210344531737e-17),
627
- RealScalar(-4.28025861329343e-18)
628
- };
629
-
630
- // m_minus_sin_2_PI_div_n_LUT[i] = -std::sin(2 * M_PI / std::pow(2,i));
631
- const RealScalar m_minus_sin_2_PI_div_n_LUT[32] = {
632
- RealScalar(0.0),
633
- RealScalar(0.0),
634
- RealScalar(-1.00000000000000e+00),
635
- RealScalar(-7.07106781186547e-01),
636
- RealScalar(-3.82683432365090e-01),
637
- RealScalar(-1.95090322016128e-01),
638
- RealScalar(-9.80171403295606e-02),
639
- RealScalar(-4.90676743274180e-02),
640
- RealScalar(-2.45412285229123e-02),
641
- RealScalar(-1.22715382857199e-02),
642
- RealScalar(-6.13588464915448e-03),
643
- RealScalar(-3.06795676296598e-03),
644
- RealScalar(-1.53398018628477e-03),
645
- RealScalar(-7.66990318742704e-04),
646
- RealScalar(-3.83495187571396e-04),
647
- RealScalar(-1.91747597310703e-04),
648
- RealScalar(-9.58737990959773e-05),
649
- RealScalar(-4.79368996030669e-05),
650
- RealScalar(-2.39684498084182e-05),
651
- RealScalar(-1.19842249050697e-05),
652
- RealScalar(-5.99211245264243e-06),
653
- RealScalar(-2.99605622633466e-06),
654
- RealScalar(-1.49802811316901e-06),
655
- RealScalar(-7.49014056584716e-07),
656
- RealScalar(-3.74507028292384e-07),
657
- RealScalar(-1.87253514146195e-07),
658
- RealScalar(-9.36267570730981e-08),
659
- RealScalar(-4.68133785365491e-08),
660
- RealScalar(-2.34066892682746e-08),
661
- RealScalar(-1.17033446341373e-08),
662
- RealScalar(-5.85167231706864e-09),
663
- RealScalar(-2.92583615853432e-09)
664
- };
665
- };
666
-
667
- } // end namespace Eigen
668
-
669
- #endif // EIGEN_CXX11_TENSOR_TENSOR_FFT_H