sequenzo 0.1.17__cp39-cp39-win_amd64.whl → 0.1.19__cp39-cp39-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 (475) hide show
  1. sequenzo/__init__.py +64 -8
  2. sequenzo/big_data/clara/clara.py +1 -1
  3. sequenzo/big_data/clara/utils/get_weighted_diss.c +156 -156
  4. sequenzo/big_data/clara/utils/get_weighted_diss.cp39-win_amd64.pyd +0 -0
  5. sequenzo/clustering/KMedoids.py +39 -0
  6. sequenzo/clustering/clustering_c_code.cp39-win_amd64.pyd +0 -0
  7. sequenzo/clustering/hierarchical_clustering.py +304 -8
  8. sequenzo/define_sequence_data.py +44 -3
  9. sequenzo/dissimilarity_measures/c_code.cp39-win_amd64.pyd +0 -0
  10. sequenzo/dissimilarity_measures/get_distance_matrix.py +1 -2
  11. sequenzo/dissimilarity_measures/get_substitution_cost_matrix.py +1 -1
  12. sequenzo/dissimilarity_measures/src/DHDdistance.cpp +13 -37
  13. sequenzo/dissimilarity_measures/src/LCPdistance.cpp +13 -37
  14. sequenzo/dissimilarity_measures/src/OMdistance.cpp +12 -47
  15. sequenzo/dissimilarity_measures/src/OMspellDistance.cpp +103 -67
  16. sequenzo/dissimilarity_measures/src/dp_utils.h +160 -0
  17. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_arithmetic.hpp +41 -16
  18. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_complex.hpp +4 -0
  19. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_details.hpp +7 -0
  20. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_logical.hpp +10 -0
  21. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_math.hpp +127 -43
  22. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_memory.hpp +30 -2
  23. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_swizzle.hpp +174 -0
  24. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_trigo.hpp +14 -5
  25. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx.hpp +111 -54
  26. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx2.hpp +131 -9
  27. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512bw.hpp +11 -113
  28. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512dq.hpp +39 -7
  29. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512f.hpp +336 -30
  30. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512vbmi.hpp +9 -37
  31. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512vbmi2.hpp +58 -0
  32. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_common.hpp +1 -0
  33. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_common_fwd.hpp +35 -2
  34. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_constants.hpp +3 -1
  35. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_emulated.hpp +17 -0
  36. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma3_avx.hpp +13 -0
  37. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma3_sse.hpp +18 -0
  38. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma4.hpp +13 -0
  39. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_isa.hpp +8 -0
  40. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_neon.hpp +363 -34
  41. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_neon64.hpp +7 -0
  42. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_rvv.hpp +13 -0
  43. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_scalar.hpp +41 -4
  44. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sse2.hpp +252 -16
  45. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sse3.hpp +9 -0
  46. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_ssse3.hpp +12 -1
  47. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sve.hpp +7 -0
  48. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_vsx.hpp +892 -0
  49. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_wasm.hpp +78 -1
  50. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_arch.hpp +3 -1
  51. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_config.hpp +13 -2
  52. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_cpuid.hpp +5 -0
  53. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_inline.hpp +5 -1
  54. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_all_registers.hpp +2 -0
  55. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_api.hpp +64 -1
  56. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_batch.hpp +36 -0
  57. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_rvv_register.hpp +40 -31
  58. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_traits.hpp +8 -0
  59. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_vsx_register.hpp +77 -0
  60. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/xsimd.hpp +6 -0
  61. sequenzo/dissimilarity_measures/src/xsimd/test/test_basic_math.cpp +6 -0
  62. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch.cpp +54 -2
  63. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_bool.cpp +8 -0
  64. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_cast.cpp +11 -4
  65. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_complex.cpp +18 -0
  66. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_int.cpp +8 -14
  67. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_manip.cpp +216 -173
  68. sequenzo/dissimilarity_measures/src/xsimd/test/test_load_store.cpp +6 -0
  69. sequenzo/dissimilarity_measures/src/xsimd/test/test_memory.cpp +1 -1
  70. sequenzo/dissimilarity_measures/src/xsimd/test/test_power.cpp +7 -4
  71. sequenzo/dissimilarity_measures/src/xsimd/test/test_select.cpp +6 -2
  72. sequenzo/dissimilarity_measures/src/xsimd/test/test_shuffle.cpp +32 -18
  73. sequenzo/dissimilarity_measures/src/xsimd/test/test_utils.hpp +21 -24
  74. sequenzo/dissimilarity_measures/src/xsimd/test/test_xsimd_api.cpp +69 -9
  75. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c +156 -156
  76. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cp39-win_amd64.pyd +0 -0
  77. sequenzo/dissimilarity_measures/utils/seqconc.c +156 -156
  78. sequenzo/dissimilarity_measures/utils/seqconc.cp39-win_amd64.pyd +0 -0
  79. sequenzo/dissimilarity_measures/utils/seqdss.c +156 -156
  80. sequenzo/dissimilarity_measures/utils/seqdss.cp39-win_amd64.pyd +0 -0
  81. sequenzo/dissimilarity_measures/utils/seqdur.c +156 -156
  82. sequenzo/dissimilarity_measures/utils/seqdur.cp39-win_amd64.pyd +0 -0
  83. sequenzo/dissimilarity_measures/utils/seqlength.c +156 -156
  84. sequenzo/dissimilarity_measures/utils/seqlength.cp39-win_amd64.pyd +0 -0
  85. sequenzo/multidomain/cat.py +0 -53
  86. sequenzo/multidomain/idcd.py +0 -1
  87. sequenzo/openmp_setup.py +233 -0
  88. sequenzo/sequence_characteristics/__init__.py +4 -0
  89. sequenzo/sequence_characteristics/complexity_index.py +17 -57
  90. sequenzo/sequence_characteristics/overall_cross_sectional_entropy.py +177 -111
  91. sequenzo/sequence_characteristics/plot_characteristics.py +30 -11
  92. sequenzo/sequence_characteristics/simple_characteristics.py +1 -0
  93. sequenzo/sequence_characteristics/state_frequencies_and_entropy_per_sequence.py +9 -3
  94. sequenzo/sequence_characteristics/turbulence.py +47 -67
  95. sequenzo/sequence_characteristics/variance_of_spell_durations.py +19 -9
  96. sequenzo/sequence_characteristics/within_sequence_entropy.py +5 -58
  97. sequenzo/visualization/plot_sequence_index.py +58 -35
  98. sequenzo/visualization/plot_state_distribution.py +57 -36
  99. sequenzo/visualization/plot_transition_matrix.py +21 -22
  100. sequenzo/with_event_history_analysis/__init__.py +35 -0
  101. sequenzo/with_event_history_analysis/sequence_analysis_multi_state_model.py +850 -0
  102. sequenzo/with_event_history_analysis/sequence_history_analysis.py +283 -0
  103. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/METADATA +48 -14
  104. sequenzo-0.1.19.dist-info/RECORD +272 -0
  105. sequenzo/dissimilarity_measures/setup.py +0 -35
  106. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LDLT.h +0 -688
  107. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT.h +0 -558
  108. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +0 -99
  109. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +0 -682
  110. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +0 -346
  111. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +0 -462
  112. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +0 -91
  113. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/EigenSolver.h +0 -622
  114. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +0 -418
  115. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +0 -226
  116. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +0 -374
  117. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +0 -158
  118. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealQZ.h +0 -657
  119. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur.h +0 -558
  120. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +0 -77
  121. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +0 -904
  122. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +0 -87
  123. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +0 -561
  124. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AlignedBox.h +0 -486
  125. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AngleAxis.h +0 -247
  126. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/EulerAngles.h +0 -114
  127. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Homogeneous.h +0 -501
  128. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Hyperplane.h +0 -282
  129. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/OrthoMethods.h +0 -235
  130. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/ParametrizedLine.h +0 -232
  131. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Quaternion.h +0 -870
  132. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Rotation2D.h +0 -199
  133. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/RotationBase.h +0 -206
  134. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Scaling.h +0 -188
  135. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Transform.h +0 -1563
  136. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Translation.h +0 -202
  137. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Umeyama.h +0 -166
  138. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/arch/Geometry_SIMD.h +0 -168
  139. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/BlockHouseholder.h +0 -110
  140. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/Householder.h +0 -176
  141. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/HouseholderSequence.h +0 -545
  142. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +0 -226
  143. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +0 -212
  144. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +0 -229
  145. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +0 -394
  146. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +0 -453
  147. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +0 -444
  148. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +0 -198
  149. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +0 -117
  150. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Jacobi/Jacobi.h +0 -483
  151. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/KLUSupport/KLUSupport.h +0 -358
  152. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/Determinant.h +0 -117
  153. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/FullPivLU.h +0 -877
  154. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/InverseImpl.h +0 -432
  155. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU.h +0 -624
  156. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +0 -83
  157. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/arch/InverseSize4.h +0 -351
  158. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/MetisSupport/MetisSupport.h +0 -137
  159. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Amd.h +0 -435
  160. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +0 -1863
  161. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Ordering.h +0 -153
  162. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +0 -678
  163. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +0 -545
  164. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR.h +0 -674
  165. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +0 -97
  166. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +0 -635
  167. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/FullPivHouseholderQR.h +0 -713
  168. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR.h +0 -434
  169. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +0 -68
  170. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +0 -335
  171. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/BDCSVD.h +0 -1366
  172. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h +0 -812
  173. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +0 -91
  174. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/SVDBase.h +0 -376
  175. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/UpperBidiagonalization.h +0 -414
  176. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +0 -697
  177. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +0 -174
  178. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/AmbiVector.h +0 -378
  179. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/CompressedStorage.h +0 -274
  180. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +0 -352
  181. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +0 -67
  182. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseAssign.h +0 -270
  183. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseBlock.h +0 -571
  184. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseColEtree.h +0 -206
  185. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +0 -370
  186. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +0 -722
  187. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +0 -150
  188. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +0 -342
  189. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +0 -138
  190. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDot.h +0 -98
  191. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseFuzzy.h +0 -29
  192. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMap.h +0 -305
  193. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrix.h +0 -1518
  194. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +0 -398
  195. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparsePermutation.h +0 -178
  196. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseProduct.h +0 -181
  197. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRedux.h +0 -49
  198. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRef.h +0 -397
  199. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +0 -659
  200. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSolverBase.h +0 -124
  201. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +0 -198
  202. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTranspose.h +0 -92
  203. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTriangularView.h +0 -189
  204. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseUtil.h +0 -186
  205. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseVector.h +0 -478
  206. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseView.h +0 -254
  207. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/TriangularSolver.h +0 -315
  208. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU.h +0 -923
  209. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLUImpl.h +0 -66
  210. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +0 -226
  211. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +0 -110
  212. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +0 -375
  213. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +0 -80
  214. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_bmod.h +0 -181
  215. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_dfs.h +0 -179
  216. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +0 -107
  217. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +0 -280
  218. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +0 -126
  219. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +0 -130
  220. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_bmod.h +0 -223
  221. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_dfs.h +0 -258
  222. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pivotL.h +0 -137
  223. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pruneL.h +0 -136
  224. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_relax_snode.h +0 -83
  225. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseQR/SparseQR.h +0 -758
  226. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdDeque.h +0 -116
  227. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdList.h +0 -106
  228. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdVector.h +0 -131
  229. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/details.h +0 -84
  230. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SuperLUSupport/SuperLUSupport.h +0 -1025
  231. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/UmfPackSupport/UmfPackSupport.h +0 -642
  232. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Image.h +0 -82
  233. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Kernel.h +0 -79
  234. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/RealSvd2x2.h +0 -55
  235. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/blas.h +0 -440
  236. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapack.h +0 -152
  237. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke.h +0 -16292
  238. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke_mangling.h +0 -17
  239. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseBinaryOps.h +0 -358
  240. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseUnaryOps.h +0 -696
  241. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/BlockMethods.h +0 -1442
  242. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseBinaryOps.h +0 -115
  243. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseUnaryOps.h +0 -177
  244. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/IndexedViewMethods.h +0 -262
  245. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseBinaryOps.h +0 -152
  246. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseUnaryOps.h +0 -95
  247. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ReshapedMethods.h +0 -149
  248. sequenzo/dissimilarity_measures/src/eigen/bench/BenchSparseUtil.h +0 -149
  249. sequenzo/dissimilarity_measures/src/eigen/bench/BenchTimer.h +0 -199
  250. sequenzo/dissimilarity_measures/src/eigen/bench/BenchUtil.h +0 -92
  251. sequenzo/dissimilarity_measures/src/eigen/bench/basicbenchmark.h +0 -63
  252. sequenzo/dissimilarity_measures/src/eigen/bench/btl/generic_bench/utils/utilities.h +0 -90
  253. sequenzo/dissimilarity_measures/src/eigen/bench/btl/libs/BLAS/blas.h +0 -675
  254. sequenzo/dissimilarity_measures/src/eigen/bench/btl/libs/BLAS/c_interface_base.h +0 -73
  255. sequenzo/dissimilarity_measures/src/eigen/bench/perf_monitoring/gemm_common.h +0 -67
  256. sequenzo/dissimilarity_measures/src/eigen/bench/perf_monitoring/gemv_common.h +0 -69
  257. sequenzo/dissimilarity_measures/src/eigen/bench/spbench/spbenchsolver.h +0 -573
  258. sequenzo/dissimilarity_measures/src/eigen/bench/spbench/spbenchstyle.h +0 -95
  259. sequenzo/dissimilarity_measures/src/eigen/bench/tensors/benchmark.h +0 -49
  260. sequenzo/dissimilarity_measures/src/eigen/bench/tensors/tensor_benchmarks.h +0 -597
  261. sequenzo/dissimilarity_measures/src/eigen/blas/BandTriangularSolver.h +0 -97
  262. sequenzo/dissimilarity_measures/src/eigen/blas/GeneralRank1Update.h +0 -44
  263. sequenzo/dissimilarity_measures/src/eigen/blas/PackedSelfadjointProduct.h +0 -53
  264. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularMatrixVector.h +0 -79
  265. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularSolverVector.h +0 -88
  266. sequenzo/dissimilarity_measures/src/eigen/blas/Rank2Update.h +0 -57
  267. sequenzo/dissimilarity_measures/src/eigen/blas/common.h +0 -175
  268. sequenzo/dissimilarity_measures/src/eigen/blas/f2c/datatypes.h +0 -24
  269. sequenzo/dissimilarity_measures/src/eigen/blas/level1_cplx_impl.h +0 -155
  270. sequenzo/dissimilarity_measures/src/eigen/blas/level1_impl.h +0 -144
  271. sequenzo/dissimilarity_measures/src/eigen/blas/level1_real_impl.h +0 -122
  272. sequenzo/dissimilarity_measures/src/eigen/blas/level2_cplx_impl.h +0 -360
  273. sequenzo/dissimilarity_measures/src/eigen/blas/level2_impl.h +0 -553
  274. sequenzo/dissimilarity_measures/src/eigen/blas/level2_real_impl.h +0 -306
  275. sequenzo/dissimilarity_measures/src/eigen/blas/level3_impl.h +0 -702
  276. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/__init__.py +0 -1
  277. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/printers.py +0 -314
  278. sequenzo/dissimilarity_measures/src/eigen/demos/mandelbrot/mandelbrot.h +0 -71
  279. sequenzo/dissimilarity_measures/src/eigen/demos/mix_eigen_and_c/binary_library.h +0 -71
  280. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/camera.h +0 -118
  281. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/gpuhelper.h +0 -207
  282. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/icosphere.h +0 -30
  283. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/quaternion_demo.h +0 -114
  284. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/trackball.h +0 -42
  285. sequenzo/dissimilarity_measures/src/eigen/lapack/lapack_common.h +0 -29
  286. sequenzo/dissimilarity_measures/src/eigen/scripts/relicense.py +0 -69
  287. sequenzo/dissimilarity_measures/src/eigen/test/AnnoyingScalar.h +0 -165
  288. sequenzo/dissimilarity_measures/src/eigen/test/MovableScalar.h +0 -35
  289. sequenzo/dissimilarity_measures/src/eigen/test/SafeScalar.h +0 -30
  290. sequenzo/dissimilarity_measures/src/eigen/test/bug1213.h +0 -8
  291. sequenzo/dissimilarity_measures/src/eigen/test/evaluator_common.h +0 -0
  292. sequenzo/dissimilarity_measures/src/eigen/test/gpu_common.h +0 -176
  293. sequenzo/dissimilarity_measures/src/eigen/test/main.h +0 -857
  294. sequenzo/dissimilarity_measures/src/eigen/test/packetmath_test_shared.h +0 -275
  295. sequenzo/dissimilarity_measures/src/eigen/test/product.h +0 -259
  296. sequenzo/dissimilarity_measures/src/eigen/test/random_without_cast_overflow.h +0 -152
  297. sequenzo/dissimilarity_measures/src/eigen/test/solverbase.h +0 -36
  298. sequenzo/dissimilarity_measures/src/eigen/test/sparse.h +0 -204
  299. sequenzo/dissimilarity_measures/src/eigen/test/sparse_solver.h +0 -699
  300. sequenzo/dissimilarity_measures/src/eigen/test/split_test_helper.h +0 -5994
  301. sequenzo/dissimilarity_measures/src/eigen/test/svd_common.h +0 -521
  302. sequenzo/dissimilarity_measures/src/eigen/test/svd_fill.h +0 -118
  303. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/Tensor.h +0 -554
  304. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorArgMax.h +0 -329
  305. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorAssign.h +0 -247
  306. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBase.h +0 -1176
  307. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBlock.h +0 -1559
  308. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBroadcasting.h +0 -1093
  309. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorChipping.h +0 -518
  310. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConcatenation.h +0 -377
  311. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContraction.h +0 -1023
  312. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionBlocking.h +0 -73
  313. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionCuda.h +0 -6
  314. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionGpu.h +0 -1413
  315. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionMapper.h +0 -575
  316. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionSycl.h +0 -1650
  317. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionThreadPool.h +0 -1679
  318. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConversion.h +0 -456
  319. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolution.h +0 -1132
  320. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolutionSycl.h +0 -544
  321. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCostModel.h +0 -214
  322. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCustomOp.h +0 -347
  323. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDevice.h +0 -137
  324. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceCuda.h +0 -6
  325. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceDefault.h +0 -104
  326. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceGpu.h +0 -389
  327. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceSycl.h +0 -1048
  328. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDeviceThreadPool.h +0 -409
  329. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDimensionList.h +0 -236
  330. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDimensions.h +0 -490
  331. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorEvalTo.h +0 -236
  332. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorEvaluator.h +0 -983
  333. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorExecutor.h +0 -703
  334. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorExpr.h +0 -388
  335. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorFFT.h +0 -669
  336. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorFixedSize.h +0 -379
  337. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorForcedEval.h +0 -237
  338. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorForwardDeclarations.h +0 -191
  339. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorFunctors.h +0 -488
  340. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorGenerator.h +0 -302
  341. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorGlobalFunctions.h +0 -33
  342. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorGpuHipCudaDefines.h +0 -99
  343. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorGpuHipCudaUndefines.h +0 -44
  344. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorIO.h +0 -79
  345. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorImagePatch.h +0 -603
  346. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorIndexList.h +0 -738
  347. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorInflation.h +0 -247
  348. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorInitializer.h +0 -82
  349. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorIntDiv.h +0 -263
  350. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorLayoutSwap.h +0 -216
  351. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorMacros.h +0 -98
  352. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorMap.h +0 -327
  353. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorMeta.h +0 -311
  354. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorMorphing.h +0 -1102
  355. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorPadding.h +0 -708
  356. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorPatch.h +0 -291
  357. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorRandom.h +0 -322
  358. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorReduction.h +0 -998
  359. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorReductionCuda.h +0 -6
  360. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorReductionGpu.h +0 -966
  361. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorReductionSycl.h +0 -582
  362. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorRef.h +0 -454
  363. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorReverse.h +0 -465
  364. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorScan.h +0 -528
  365. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorScanSycl.h +0 -513
  366. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorShuffling.h +0 -471
  367. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorStorage.h +0 -161
  368. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorStriding.h +0 -346
  369. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorTrace.h +0 -303
  370. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorTraits.h +0 -264
  371. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorUInt128.h +0 -249
  372. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorVolumePatch.h +0 -629
  373. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/TensorSymmetry/DynamicSymmetry.h +0 -293
  374. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/TensorSymmetry/StaticSymmetry.h +0 -236
  375. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/TensorSymmetry/Symmetry.h +0 -338
  376. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/TensorSymmetry/util/TemplateGroupTheory.h +0 -669
  377. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/Barrier.h +0 -67
  378. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/EventCount.h +0 -249
  379. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/NonBlockingThreadPool.h +0 -486
  380. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/RunQueue.h +0 -236
  381. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/ThreadCancel.h +0 -23
  382. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/ThreadEnvironment.h +0 -40
  383. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/ThreadLocal.h +0 -301
  384. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/ThreadPoolInterface.h +0 -48
  385. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/ThreadPool/ThreadYield.h +0 -20
  386. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/util/CXX11Meta.h +0 -537
  387. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/util/CXX11Workarounds.h +0 -88
  388. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/util/EmulateArray.h +0 -261
  389. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/util/MaxSizeVector.h +0 -158
  390. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/AutoDiff/AutoDiffJacobian.h +0 -108
  391. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/AutoDiff/AutoDiffScalar.h +0 -730
  392. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/AutoDiff/AutoDiffVector.h +0 -220
  393. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/BVH/BVAlgorithms.h +0 -293
  394. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/BVH/KdBVH.h +0 -223
  395. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Eigenvalues/ArpackSelfAdjointEigenSolver.h +0 -790
  396. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/EulerAngles/EulerAngles.h +0 -355
  397. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/EulerAngles/EulerSystem.h +0 -305
  398. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/FFT/ei_fftw_impl.h +0 -261
  399. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/FFT/ei_kissfft_impl.h +0 -449
  400. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/ConstrainedConjGrad.h +0 -187
  401. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/DGMRES.h +0 -511
  402. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/GMRES.h +0 -335
  403. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/IDRS.h +0 -436
  404. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/IncompleteLU.h +0 -90
  405. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/IterationController.h +0 -154
  406. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/MINRES.h +0 -267
  407. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/IterativeSolvers/Scaling.h +0 -193
  408. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/KroneckerProduct/KroneckerTensorProduct.h +0 -305
  409. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LMcovar.h +0 -84
  410. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LMonestep.h +0 -202
  411. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LMpar.h +0 -160
  412. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LMqrsolv.h +0 -188
  413. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LevenbergMarquardt.h +0 -396
  414. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixExponential.h +0 -441
  415. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixFunction.h +0 -569
  416. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixLogarithm.h +0 -373
  417. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixPower.h +0 -705
  418. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixSquareRoot.h +0 -368
  419. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/StemFunction.h +0 -117
  420. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MoreVectorization/MathFunctions.h +0 -95
  421. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/HybridNonLinearSolver.h +0 -601
  422. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/LevenbergMarquardt.h +0 -657
  423. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/chkder.h +0 -66
  424. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/covar.h +0 -70
  425. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/dogleg.h +0 -107
  426. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/fdjac1.h +0 -79
  427. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/lmpar.h +0 -298
  428. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/qrsolv.h +0 -91
  429. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/r1mpyq.h +0 -30
  430. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/r1updt.h +0 -99
  431. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/rwupdt.h +0 -49
  432. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NumericalDiff/NumericalDiff.h +0 -130
  433. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Polynomials/Companion.h +0 -280
  434. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Polynomials/PolynomialSolver.h +0 -428
  435. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Polynomials/PolynomialUtils.h +0 -143
  436. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineInplaceLU.h +0 -352
  437. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineMatrix.h +0 -862
  438. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineMatrixBase.h +0 -212
  439. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineProduct.h +0 -295
  440. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineStorage.h +0 -259
  441. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineUtil.h +0 -89
  442. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/BlockOfDynamicSparseMatrix.h +0 -122
  443. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/BlockSparseMatrix.h +0 -1079
  444. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/DynamicSparseMatrix.h +0 -404
  445. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/MarketIO.h +0 -282
  446. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/MatrixMarketIterator.h +0 -247
  447. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/RandomSetter.h +0 -349
  448. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsArrayAPI.h +0 -286
  449. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsBFloat16.h +0 -68
  450. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsFunctors.h +0 -357
  451. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsHalf.h +0 -66
  452. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsImpl.h +0 -1959
  453. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsPacketMath.h +0 -118
  454. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/HipVectorCompatibility.h +0 -67
  455. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsArrayAPI.h +0 -167
  456. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsBFloat16.h +0 -58
  457. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsFunctors.h +0 -330
  458. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsHalf.h +0 -58
  459. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsImpl.h +0 -2045
  460. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsPacketMath.h +0 -79
  461. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX/BesselFunctions.h +0 -46
  462. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX/SpecialFunctions.h +0 -16
  463. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX512/BesselFunctions.h +0 -46
  464. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX512/SpecialFunctions.h +0 -16
  465. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/GPU/SpecialFunctions.h +0 -369
  466. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/NEON/BesselFunctions.h +0 -54
  467. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/NEON/SpecialFunctions.h +0 -34
  468. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/Spline.h +0 -507
  469. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/SplineFitting.h +0 -431
  470. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/SplineFwd.h +0 -93
  471. sequenzo/dissimilarity_measures/src/eigen/unsupported/test/matrix_functions.h +0 -67
  472. sequenzo-0.1.17.dist-info/RECORD +0 -631
  473. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/WHEEL +0 -0
  474. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/licenses/LICENSE +0 -0
  475. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/top_level.txt +0 -0
@@ -1,214 +0,0 @@
1
- // This file is part of Eigen, a lightweight C++ template library
2
- // for linear algebra.
3
- //
4
- // Copyright (C) 2016 Rasmus Munk Larsen <rmlarsen@google.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_COST_MODEL_H
11
- #define EIGEN_CXX11_TENSOR_TENSOR_COST_MODEL_H
12
-
13
- namespace Eigen {
14
-
15
- /** \class TensorEvaluator
16
- * \ingroup CXX11_Tensor_Module
17
- *
18
- * \brief A cost model used to limit the number of threads used for evaluating
19
- * tensor expression.
20
- *
21
- */
22
-
23
- // Class storing the cost of evaluating a tensor expression in terms of the
24
- // estimated number of operand bytes loads, bytes stored, and compute cycles.
25
- class TensorOpCost {
26
- public:
27
- // TODO(rmlarsen): Fix the scalar op costs in Eigen proper. Even a simple
28
- // model based on minimal reciprocal throughput numbers from Intel or
29
- // Agner Fog's tables would be better than what is there now.
30
- template <typename ArgType>
31
- static EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE int MulCost() {
32
- return internal::functor_traits<
33
- internal::scalar_product_op<ArgType, ArgType> >::Cost;
34
- }
35
- template <typename ArgType>
36
- static EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE int AddCost() {
37
- return internal::functor_traits<internal::scalar_sum_op<ArgType> >::Cost;
38
- }
39
- template <typename ArgType>
40
- static EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE int DivCost() {
41
- return internal::functor_traits<
42
- internal::scalar_quotient_op<ArgType, ArgType> >::Cost;
43
- }
44
- template <typename ArgType>
45
- static EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE int ModCost() {
46
- return internal::functor_traits<internal::scalar_mod_op<ArgType> >::Cost;
47
- }
48
- template <typename SrcType, typename TargetType>
49
- static EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE int CastCost() {
50
- return internal::functor_traits<
51
- internal::scalar_cast_op<SrcType, TargetType> >::Cost;
52
- }
53
-
54
- EIGEN_DEVICE_FUNC
55
- TensorOpCost() : bytes_loaded_(0), bytes_stored_(0), compute_cycles_(0) {}
56
- EIGEN_DEVICE_FUNC
57
- TensorOpCost(double bytes_loaded, double bytes_stored, double compute_cycles)
58
- : bytes_loaded_(bytes_loaded),
59
- bytes_stored_(bytes_stored),
60
- compute_cycles_(compute_cycles) {}
61
-
62
- EIGEN_DEVICE_FUNC
63
- TensorOpCost(double bytes_loaded, double bytes_stored, double compute_cycles,
64
- bool vectorized, double packet_size)
65
- : bytes_loaded_(bytes_loaded),
66
- bytes_stored_(bytes_stored),
67
- compute_cycles_(vectorized ? compute_cycles / packet_size
68
- : compute_cycles) {
69
- eigen_assert(bytes_loaded >= 0 && (numext::isfinite)(bytes_loaded));
70
- eigen_assert(bytes_stored >= 0 && (numext::isfinite)(bytes_stored));
71
- eigen_assert(compute_cycles >= 0 && (numext::isfinite)(compute_cycles));
72
- }
73
-
74
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE double bytes_loaded() const {
75
- return bytes_loaded_;
76
- }
77
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE double bytes_stored() const {
78
- return bytes_stored_;
79
- }
80
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE double compute_cycles() const {
81
- return compute_cycles_;
82
- }
83
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE double total_cost(
84
- double load_cost, double store_cost, double compute_cost) const {
85
- return load_cost * bytes_loaded_ + store_cost * bytes_stored_ +
86
- compute_cost * compute_cycles_;
87
- }
88
-
89
- // Drop memory access component. Intended for cases when memory accesses are
90
- // sequential or are completely masked by computations.
91
- EIGEN_DEVICE_FUNC void dropMemoryCost() {
92
- bytes_loaded_ = 0;
93
- bytes_stored_ = 0;
94
- }
95
-
96
- // TODO(rmlarsen): Define min in terms of total cost, not elementwise.
97
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE TensorOpCost cwiseMin(
98
- const TensorOpCost& rhs) const {
99
- double bytes_loaded = numext::mini(bytes_loaded_, rhs.bytes_loaded());
100
- double bytes_stored = numext::mini(bytes_stored_, rhs.bytes_stored());
101
- double compute_cycles = numext::mini(compute_cycles_, rhs.compute_cycles());
102
- return TensorOpCost(bytes_loaded, bytes_stored, compute_cycles);
103
- }
104
-
105
- // TODO(rmlarsen): Define max in terms of total cost, not elementwise.
106
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE TensorOpCost cwiseMax(
107
- const TensorOpCost& rhs) const {
108
- double bytes_loaded = numext::maxi(bytes_loaded_, rhs.bytes_loaded());
109
- double bytes_stored = numext::maxi(bytes_stored_, rhs.bytes_stored());
110
- double compute_cycles = numext::maxi(compute_cycles_, rhs.compute_cycles());
111
- return TensorOpCost(bytes_loaded, bytes_stored, compute_cycles);
112
- }
113
-
114
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE TensorOpCost& operator+=(
115
- const TensorOpCost& rhs) {
116
- bytes_loaded_ += rhs.bytes_loaded();
117
- bytes_stored_ += rhs.bytes_stored();
118
- compute_cycles_ += rhs.compute_cycles();
119
- return *this;
120
- }
121
-
122
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE TensorOpCost& operator*=(double rhs) {
123
- bytes_loaded_ *= rhs;
124
- bytes_stored_ *= rhs;
125
- compute_cycles_ *= rhs;
126
- return *this;
127
- }
128
-
129
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE friend TensorOpCost operator+(
130
- TensorOpCost lhs, const TensorOpCost& rhs) {
131
- lhs += rhs;
132
- return lhs;
133
- }
134
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE friend TensorOpCost operator*(
135
- TensorOpCost lhs, double rhs) {
136
- lhs *= rhs;
137
- return lhs;
138
- }
139
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE friend TensorOpCost operator*(
140
- double lhs, TensorOpCost rhs) {
141
- rhs *= lhs;
142
- return rhs;
143
- }
144
-
145
- friend std::ostream& operator<<(std::ostream& os, const TensorOpCost& tc) {
146
- return os << "[bytes_loaded = " << tc.bytes_loaded()
147
- << ", bytes_stored = " << tc.bytes_stored()
148
- << ", compute_cycles = " << tc.compute_cycles() << "]";
149
- }
150
-
151
- private:
152
- double bytes_loaded_;
153
- double bytes_stored_;
154
- double compute_cycles_;
155
- };
156
-
157
- // TODO(rmlarsen): Implement a policy that chooses an "optimal" number of theads
158
- // in [1:max_threads] instead of just switching multi-threading off for small
159
- // work units.
160
- template <typename Device>
161
- class TensorCostModel {
162
- public:
163
- // Scaling from Eigen compute cost to device cycles.
164
- static const int kDeviceCyclesPerComputeCycle = 1;
165
-
166
- // Costs in device cycles.
167
- static const int kStartupCycles = 100000;
168
- static const int kPerThreadCycles = 100000;
169
- static const int kTaskSize = 40000;
170
-
171
- // Returns the number of threads in [1:max_threads] to use for
172
- // evaluating an expression with the given output size and cost per
173
- // coefficient.
174
- static EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE int numThreads(
175
- double output_size, const TensorOpCost& cost_per_coeff, int max_threads) {
176
- double cost = totalCost(output_size, cost_per_coeff);
177
- double threads = (cost - kStartupCycles) / kPerThreadCycles + 0.9;
178
- // Make sure we don't invoke undefined behavior when we convert to an int.
179
- threads = numext::mini<double>(threads, GenericNumTraits<int>::highest());
180
- return numext::mini(max_threads,
181
- numext::maxi<int>(1, static_cast<int>(threads)));
182
- }
183
-
184
- // taskSize assesses parallel task size.
185
- // Value of 1.0 means ideal parallel task size. Values < 1.0 mean that task
186
- // granularity needs to be increased to mitigate parallelization overheads.
187
- static EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE double taskSize(
188
- double output_size, const TensorOpCost& cost_per_coeff) {
189
- return totalCost(output_size, cost_per_coeff) / kTaskSize;
190
- }
191
-
192
- static EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE double totalCost(
193
- double output_size, const TensorOpCost& cost_per_coeff) {
194
- // Cost of memory fetches from L2 cache. 64 is typical cache line size.
195
- // 11 is L2 cache latency on Haswell.
196
- // We don't know whether data is in L1, L2 or L3. But we are most interested
197
- // in single-threaded computational time around 100us-10ms (smaller time
198
- // is too small for parallelization, larger time is not interesting
199
- // either because we are probably using all available threads already).
200
- // And for the target time range, L2 seems to be what matters. Data set
201
- // fitting into L1 is too small to take noticeable time. Data set fitting
202
- // only into L3 presumably will take more than 10ms to load and process.
203
- const double kLoadCycles = 1.0 / 64 * 11;
204
- const double kStoreCycles = 1.0 / 64 * 11;
205
- // Scaling from Eigen compute cost to device cycles.
206
- return output_size *
207
- cost_per_coeff.total_cost(kLoadCycles, kStoreCycles,
208
- kDeviceCyclesPerComputeCycle);
209
- }
210
- };
211
-
212
- } // namespace Eigen
213
-
214
- #endif // EIGEN_CXX11_TENSOR_TENSOR_COST_MODEL_H
@@ -1,347 +0,0 @@
1
- // This file is part of Eigen, a lightweight C++ template library
2
- // for linear algebra.
3
- //
4
- // Copyright (C) 2014 Benoit Steiner <benoit.steiner.goog@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_CUSTOM_OP_H
11
- #define EIGEN_CXX11_TENSOR_TENSOR_CUSTOM_OP_H
12
-
13
- namespace Eigen {
14
-
15
- /** \class TensorCustomUnaryOp
16
- * \ingroup CXX11_Tensor_Module
17
- *
18
- * \brief Tensor custom class.
19
- *
20
- *
21
- */
22
- namespace internal {
23
- template<typename CustomUnaryFunc, typename XprType>
24
- struct traits<TensorCustomUnaryOp<CustomUnaryFunc, XprType> >
25
- {
26
- typedef typename XprType::Scalar Scalar;
27
- typedef typename XprType::StorageKind StorageKind;
28
- typedef typename XprType::Index Index;
29
- typedef typename XprType::Nested Nested;
30
- typedef typename remove_reference<Nested>::type _Nested;
31
- static const int NumDimensions = traits<XprType>::NumDimensions;
32
- static const int Layout = traits<XprType>::Layout;
33
- typedef typename traits<XprType>::PointerType PointerType;
34
- };
35
-
36
- template<typename CustomUnaryFunc, typename XprType>
37
- struct eval<TensorCustomUnaryOp<CustomUnaryFunc, XprType>, Eigen::Dense>
38
- {
39
- typedef const TensorCustomUnaryOp<CustomUnaryFunc, XprType>EIGEN_DEVICE_REF type;
40
- };
41
-
42
- template<typename CustomUnaryFunc, typename XprType>
43
- struct nested<TensorCustomUnaryOp<CustomUnaryFunc, XprType> >
44
- {
45
- typedef TensorCustomUnaryOp<CustomUnaryFunc, XprType> type;
46
- };
47
-
48
- } // end namespace internal
49
-
50
-
51
-
52
- template<typename CustomUnaryFunc, typename XprType>
53
- class TensorCustomUnaryOp : public TensorBase<TensorCustomUnaryOp<CustomUnaryFunc, XprType>, ReadOnlyAccessors>
54
- {
55
- public:
56
- typedef typename internal::traits<TensorCustomUnaryOp>::Scalar Scalar;
57
- typedef typename Eigen::NumTraits<Scalar>::Real RealScalar;
58
- typedef typename XprType::CoeffReturnType CoeffReturnType;
59
- typedef typename internal::nested<TensorCustomUnaryOp>::type Nested;
60
- typedef typename internal::traits<TensorCustomUnaryOp>::StorageKind StorageKind;
61
- typedef typename internal::traits<TensorCustomUnaryOp>::Index Index;
62
-
63
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE TensorCustomUnaryOp(const XprType& expr, const CustomUnaryFunc& func)
64
- : m_expr(expr), m_func(func) {}
65
-
66
- EIGEN_DEVICE_FUNC
67
- const CustomUnaryFunc& func() const { return m_func; }
68
-
69
- EIGEN_DEVICE_FUNC
70
- const typename internal::remove_all<typename XprType::Nested>::type&
71
- expression() const { return m_expr; }
72
-
73
- protected:
74
- typename XprType::Nested m_expr;
75
- const CustomUnaryFunc m_func;
76
- };
77
-
78
-
79
- // Eval as rvalue
80
- template<typename CustomUnaryFunc, typename XprType, typename Device>
81
- struct TensorEvaluator<const TensorCustomUnaryOp<CustomUnaryFunc, XprType>, Device>
82
- {
83
- typedef TensorCustomUnaryOp<CustomUnaryFunc, XprType> ArgType;
84
- typedef typename internal::traits<ArgType>::Index Index;
85
- static const int NumDims = internal::traits<ArgType>::NumDimensions;
86
- typedef DSizes<Index, NumDims> Dimensions;
87
- typedef typename internal::remove_const<typename ArgType::Scalar>::type Scalar;
88
- typedef typename internal::remove_const<typename XprType::CoeffReturnType>::type CoeffReturnType;
89
- typedef typename PacketType<CoeffReturnType, Device>::type PacketReturnType;
90
- static const int PacketSize = PacketType<CoeffReturnType, Device>::size;
91
- typedef typename Eigen::internal::traits<XprType>::PointerType TensorPointerType;
92
- typedef StorageMemory<CoeffReturnType, Device> Storage;
93
- typedef typename Storage::Type EvaluatorPointerType;
94
-
95
- enum {
96
- IsAligned = false,
97
- PacketAccess = (PacketType<CoeffReturnType, Device>::size > 1),
98
- BlockAccess = false,
99
- PreferBlockAccess = false,
100
- Layout = TensorEvaluator<XprType, Device>::Layout,
101
- CoordAccess = false, // to be implemented
102
- RawAccess = false
103
- };
104
-
105
- //===- Tensor block evaluation strategy (see TensorBlock.h) -------------===//
106
- typedef internal::TensorBlockNotImplemented TensorBlock;
107
- //===--------------------------------------------------------------------===//
108
-
109
- EIGEN_STRONG_INLINE TensorEvaluator(const ArgType& op, const Device& device)
110
- : m_op(op), m_device(device), m_result(NULL)
111
- {
112
- m_dimensions = op.func().dimensions(op.expression());
113
- }
114
-
115
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Dimensions& dimensions() const { return m_dimensions; }
116
-
117
- EIGEN_STRONG_INLINE bool evalSubExprsIfNeeded(EvaluatorPointerType data) {
118
- if (data) {
119
- evalTo(data);
120
- return false;
121
- } else {
122
- m_result = static_cast<EvaluatorPointerType>(m_device.get( (CoeffReturnType*)
123
- m_device.allocate_temp(dimensions().TotalSize() * sizeof(Scalar))));
124
- evalTo(m_result);
125
- return true;
126
- }
127
- }
128
-
129
- EIGEN_STRONG_INLINE void cleanup() {
130
- if (m_result) {
131
- m_device.deallocate_temp(m_result);
132
- m_result = NULL;
133
- }
134
- }
135
-
136
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE CoeffReturnType coeff(Index index) const {
137
- return m_result[index];
138
- }
139
-
140
- template<int LoadMode>
141
- EIGEN_DEVICE_FUNC PacketReturnType packet(Index index) const {
142
- return internal::ploadt<PacketReturnType, LoadMode>(m_result + index);
143
- }
144
-
145
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE TensorOpCost costPerCoeff(bool vectorized) const {
146
- // TODO(rmlarsen): Extend CustomOp API to return its cost estimate.
147
- return TensorOpCost(sizeof(CoeffReturnType), 0, 0, vectorized, PacketSize);
148
- }
149
-
150
- EIGEN_DEVICE_FUNC EvaluatorPointerType data() const { return m_result; }
151
-
152
- #ifdef EIGEN_USE_SYCL
153
- // binding placeholder accessors to a command group handler for SYCL
154
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void bind(cl::sycl::handler &cgh) const {
155
- m_result.bind(cgh);
156
- }
157
- #endif
158
-
159
- protected:
160
- void evalTo(EvaluatorPointerType data) {
161
- TensorMap<Tensor<CoeffReturnType, NumDims, Layout, Index> > result(m_device.get(data), m_dimensions);
162
- m_op.func().eval(m_op.expression(), result, m_device);
163
- }
164
-
165
- Dimensions m_dimensions;
166
- const ArgType m_op;
167
- const Device EIGEN_DEVICE_REF m_device;
168
- EvaluatorPointerType m_result;
169
- };
170
-
171
-
172
-
173
- /** \class TensorCustomBinaryOp
174
- * \ingroup CXX11_Tensor_Module
175
- *
176
- * \brief Tensor custom class.
177
- *
178
- *
179
- */
180
- namespace internal {
181
- template<typename CustomBinaryFunc, typename LhsXprType, typename RhsXprType>
182
- struct traits<TensorCustomBinaryOp<CustomBinaryFunc, LhsXprType, RhsXprType> >
183
- {
184
- typedef typename internal::promote_storage_type<typename LhsXprType::Scalar,
185
- typename RhsXprType::Scalar>::ret Scalar;
186
- typedef typename internal::promote_storage_type<typename LhsXprType::CoeffReturnType,
187
- typename RhsXprType::CoeffReturnType>::ret CoeffReturnType;
188
- typedef typename promote_storage_type<typename traits<LhsXprType>::StorageKind,
189
- typename traits<RhsXprType>::StorageKind>::ret StorageKind;
190
- typedef typename promote_index_type<typename traits<LhsXprType>::Index,
191
- typename traits<RhsXprType>::Index>::type Index;
192
- typedef typename LhsXprType::Nested LhsNested;
193
- typedef typename RhsXprType::Nested RhsNested;
194
- typedef typename remove_reference<LhsNested>::type _LhsNested;
195
- typedef typename remove_reference<RhsNested>::type _RhsNested;
196
- static const int NumDimensions = traits<LhsXprType>::NumDimensions;
197
- static const int Layout = traits<LhsXprType>::Layout;
198
- typedef typename conditional<Pointer_type_promotion<typename LhsXprType::Scalar, Scalar>::val,
199
- typename traits<LhsXprType>::PointerType, typename traits<RhsXprType>::PointerType>::type PointerType;
200
- };
201
-
202
- template<typename CustomBinaryFunc, typename LhsXprType, typename RhsXprType>
203
- struct eval<TensorCustomBinaryOp<CustomBinaryFunc, LhsXprType, RhsXprType>, Eigen::Dense>
204
- {
205
- typedef const TensorCustomBinaryOp<CustomBinaryFunc, LhsXprType, RhsXprType>& type;
206
- };
207
-
208
- template<typename CustomBinaryFunc, typename LhsXprType, typename RhsXprType>
209
- struct nested<TensorCustomBinaryOp<CustomBinaryFunc, LhsXprType, RhsXprType> >
210
- {
211
- typedef TensorCustomBinaryOp<CustomBinaryFunc, LhsXprType, RhsXprType> type;
212
- };
213
-
214
- } // end namespace internal
215
-
216
-
217
-
218
- template<typename CustomBinaryFunc, typename LhsXprType, typename RhsXprType>
219
- class TensorCustomBinaryOp : public TensorBase<TensorCustomBinaryOp<CustomBinaryFunc, LhsXprType, RhsXprType>, ReadOnlyAccessors>
220
- {
221
- public:
222
- typedef typename internal::traits<TensorCustomBinaryOp>::Scalar Scalar;
223
- typedef typename Eigen::NumTraits<Scalar>::Real RealScalar;
224
- typedef typename internal::traits<TensorCustomBinaryOp>::CoeffReturnType CoeffReturnType;
225
- typedef typename internal::nested<TensorCustomBinaryOp>::type Nested;
226
- typedef typename internal::traits<TensorCustomBinaryOp>::StorageKind StorageKind;
227
- typedef typename internal::traits<TensorCustomBinaryOp>::Index Index;
228
-
229
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE TensorCustomBinaryOp(const LhsXprType& lhs, const RhsXprType& rhs, const CustomBinaryFunc& func)
230
-
231
- : m_lhs_xpr(lhs), m_rhs_xpr(rhs), m_func(func) {}
232
-
233
- EIGEN_DEVICE_FUNC
234
- const CustomBinaryFunc& func() const { return m_func; }
235
-
236
- EIGEN_DEVICE_FUNC
237
- const typename internal::remove_all<typename LhsXprType::Nested>::type&
238
- lhsExpression() const { return m_lhs_xpr; }
239
-
240
- EIGEN_DEVICE_FUNC
241
- const typename internal::remove_all<typename RhsXprType::Nested>::type&
242
- rhsExpression() const { return m_rhs_xpr; }
243
-
244
- protected:
245
- typename LhsXprType::Nested m_lhs_xpr;
246
- typename RhsXprType::Nested m_rhs_xpr;
247
- const CustomBinaryFunc m_func;
248
- };
249
-
250
-
251
- // Eval as rvalue
252
- template<typename CustomBinaryFunc, typename LhsXprType, typename RhsXprType, typename Device>
253
- struct TensorEvaluator<const TensorCustomBinaryOp<CustomBinaryFunc, LhsXprType, RhsXprType>, Device>
254
- {
255
- typedef TensorCustomBinaryOp<CustomBinaryFunc, LhsXprType, RhsXprType> XprType;
256
- typedef typename internal::traits<XprType>::Index Index;
257
- static const int NumDims = internal::traits<XprType>::NumDimensions;
258
- typedef DSizes<Index, NumDims> Dimensions;
259
- typedef typename XprType::Scalar Scalar;
260
- typedef typename internal::remove_const<typename XprType::CoeffReturnType>::type CoeffReturnType;
261
- typedef typename PacketType<CoeffReturnType, Device>::type PacketReturnType;
262
- static const int PacketSize = PacketType<CoeffReturnType, Device>::size;
263
-
264
- typedef typename Eigen::internal::traits<XprType>::PointerType TensorPointerType;
265
- typedef StorageMemory<CoeffReturnType, Device> Storage;
266
- typedef typename Storage::Type EvaluatorPointerType;
267
-
268
- enum {
269
- IsAligned = false,
270
- PacketAccess = (PacketType<CoeffReturnType, Device>::size > 1),
271
- BlockAccess = false,
272
- PreferBlockAccess = false,
273
- Layout = TensorEvaluator<LhsXprType, Device>::Layout,
274
- CoordAccess = false, // to be implemented
275
- RawAccess = false
276
- };
277
-
278
- //===- Tensor block evaluation strategy (see TensorBlock.h) -------------===//
279
- typedef internal::TensorBlockNotImplemented TensorBlock;
280
- //===--------------------------------------------------------------------===//
281
-
282
- EIGEN_STRONG_INLINE TensorEvaluator(const XprType& op, const Device& device)
283
- : m_op(op), m_device(device), m_result(NULL)
284
- {
285
- m_dimensions = op.func().dimensions(op.lhsExpression(), op.rhsExpression());
286
- }
287
-
288
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Dimensions& dimensions() const { return m_dimensions; }
289
-
290
- EIGEN_STRONG_INLINE bool evalSubExprsIfNeeded(EvaluatorPointerType data) {
291
- if (data) {
292
- evalTo(data);
293
- return false;
294
- } else {
295
- m_result = static_cast<EvaluatorPointerType>(m_device.get( (CoeffReturnType*)
296
- m_device.allocate_temp(dimensions().TotalSize() * sizeof(CoeffReturnType))));
297
- evalTo(m_result);
298
- return true;
299
- }
300
- }
301
-
302
- EIGEN_STRONG_INLINE void cleanup() {
303
- if (m_result != NULL) {
304
- m_device.deallocate_temp(m_result);
305
- m_result = NULL;
306
- }
307
- }
308
-
309
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE CoeffReturnType coeff(Index index) const {
310
- return m_result[index];
311
- }
312
-
313
- template<int LoadMode>
314
- EIGEN_DEVICE_FUNC PacketReturnType packet(Index index) const {
315
- return internal::ploadt<PacketReturnType, LoadMode>(m_result + index);
316
- }
317
-
318
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE TensorOpCost costPerCoeff(bool vectorized) const {
319
- // TODO(rmlarsen): Extend CustomOp API to return its cost estimate.
320
- return TensorOpCost(sizeof(CoeffReturnType), 0, 0, vectorized, PacketSize);
321
- }
322
-
323
- EIGEN_DEVICE_FUNC EvaluatorPointerType data() const { return m_result; }
324
-
325
- #ifdef EIGEN_USE_SYCL
326
- // binding placeholder accessors to a command group handler for SYCL
327
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void bind(cl::sycl::handler &cgh) const {
328
- m_result.bind(cgh);
329
- }
330
- #endif
331
-
332
- protected:
333
- void evalTo(EvaluatorPointerType data) {
334
- TensorMap<Tensor<CoeffReturnType, NumDims, Layout> > result(m_device.get(data), m_dimensions);
335
- m_op.func().eval(m_op.lhsExpression(), m_op.rhsExpression(), result, m_device);
336
- }
337
-
338
- Dimensions m_dimensions;
339
- const XprType m_op;
340
- const Device EIGEN_DEVICE_REF m_device;
341
- EvaluatorPointerType m_result;
342
- };
343
-
344
-
345
- } // end namespace Eigen
346
-
347
- #endif // EIGEN_CXX11_TENSOR_TENSOR_CUSTOM_OP_H
@@ -1,137 +0,0 @@
1
- // This file is part of Eigen, a lightweight C++ template library
2
- // for linear algebra.
3
- //
4
- // Copyright (C) 2014 Benoit Steiner <benoit.steiner.goog@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_DEVICE_H
11
- #define EIGEN_CXX11_TENSOR_TENSOR_DEVICE_H
12
-
13
- namespace Eigen {
14
-
15
- /** \class TensorDevice
16
- * \ingroup CXX11_Tensor_Module
17
- *
18
- * \brief Pseudo expression providing an operator = that will evaluate its argument
19
- * on the specified computing 'device' (GPU, thread pool, ...)
20
- *
21
- * Example:
22
- * C.device(EIGEN_GPU) = A + B;
23
- *
24
- * Todo: operator *= and /=.
25
- */
26
-
27
- template <typename ExpressionType, typename DeviceType> class TensorDevice {
28
- public:
29
- TensorDevice(const DeviceType& device, ExpressionType& expression) : m_device(device), m_expression(expression) {}
30
-
31
- EIGEN_DEFAULT_COPY_CONSTRUCTOR(TensorDevice)
32
-
33
- template<typename OtherDerived>
34
- EIGEN_STRONG_INLINE TensorDevice& operator=(const OtherDerived& other) {
35
- typedef TensorAssignOp<ExpressionType, const OtherDerived> Assign;
36
- Assign assign(m_expression, other);
37
- internal::TensorExecutor<const Assign, DeviceType>::run(assign, m_device);
38
- return *this;
39
- }
40
-
41
- template<typename OtherDerived>
42
- EIGEN_STRONG_INLINE TensorDevice& operator+=(const OtherDerived& other) {
43
- typedef typename OtherDerived::Scalar Scalar;
44
- typedef TensorCwiseBinaryOp<internal::scalar_sum_op<Scalar>, const ExpressionType, const OtherDerived> Sum;
45
- Sum sum(m_expression, other);
46
- typedef TensorAssignOp<ExpressionType, const Sum> Assign;
47
- Assign assign(m_expression, sum);
48
- internal::TensorExecutor<const Assign, DeviceType>::run(assign, m_device);
49
- return *this;
50
- }
51
-
52
- template<typename OtherDerived>
53
- EIGEN_STRONG_INLINE TensorDevice& operator-=(const OtherDerived& other) {
54
- typedef typename OtherDerived::Scalar Scalar;
55
- typedef TensorCwiseBinaryOp<internal::scalar_difference_op<Scalar>, const ExpressionType, const OtherDerived> Difference;
56
- Difference difference(m_expression, other);
57
- typedef TensorAssignOp<ExpressionType, const Difference> Assign;
58
- Assign assign(m_expression, difference);
59
- internal::TensorExecutor<const Assign, DeviceType>::run(assign, m_device);
60
- return *this;
61
- }
62
-
63
- protected:
64
- const DeviceType& m_device;
65
- ExpressionType& m_expression;
66
- };
67
-
68
- /** \class TensorAsyncDevice
69
- * \ingroup CXX11_Tensor_Module
70
- *
71
- * \brief Pseudo expression providing an operator = that will evaluate its
72
- * argument asynchronously on the specified device. Currently only
73
- * ThreadPoolDevice implements proper asynchronous execution, while the default
74
- * and GPU devices just run the expression synchronously and call m_done() on
75
- * completion..
76
- *
77
- * Example:
78
- * auto done = []() { ... expression evaluation done ... };
79
- * C.device(thread_pool_device, std::move(done)) = A + B;
80
- */
81
-
82
- template <typename ExpressionType, typename DeviceType, typename DoneCallback>
83
- class TensorAsyncDevice {
84
- public:
85
- TensorAsyncDevice(const DeviceType& device, ExpressionType& expression,
86
- DoneCallback done)
87
- : m_device(device), m_expression(expression), m_done(std::move(done)) {}
88
-
89
- template <typename OtherDerived>
90
- EIGEN_STRONG_INLINE TensorAsyncDevice& operator=(const OtherDerived& other) {
91
- typedef TensorAssignOp<ExpressionType, const OtherDerived> Assign;
92
- typedef internal::TensorExecutor<const Assign, DeviceType> Executor;
93
-
94
- Assign assign(m_expression, other);
95
- Executor::run(assign, m_device);
96
- m_done();
97
-
98
- return *this;
99
- }
100
-
101
- protected:
102
- const DeviceType& m_device;
103
- ExpressionType& m_expression;
104
- DoneCallback m_done;
105
- };
106
-
107
-
108
- #ifdef EIGEN_USE_THREADS
109
- template <typename ExpressionType, typename DoneCallback>
110
- class TensorAsyncDevice<ExpressionType, ThreadPoolDevice, DoneCallback> {
111
- public:
112
- TensorAsyncDevice(const ThreadPoolDevice& device, ExpressionType& expression,
113
- DoneCallback done)
114
- : m_device(device), m_expression(expression), m_done(std::move(done)) {}
115
-
116
- template <typename OtherDerived>
117
- EIGEN_STRONG_INLINE TensorAsyncDevice& operator=(const OtherDerived& other) {
118
- typedef TensorAssignOp<ExpressionType, const OtherDerived> Assign;
119
- typedef internal::TensorAsyncExecutor<const Assign, ThreadPoolDevice, DoneCallback> Executor;
120
-
121
- // WARNING: After assignment 'm_done' callback will be in undefined state.
122
- Assign assign(m_expression, other);
123
- Executor::runAsync(assign, m_device, std::move(m_done));
124
-
125
- return *this;
126
- }
127
-
128
- protected:
129
- const ThreadPoolDevice& m_device;
130
- ExpressionType& m_expression;
131
- DoneCallback m_done;
132
- };
133
- #endif
134
-
135
- } // end namespace Eigen
136
-
137
- #endif // EIGEN_CXX11_TENSOR_TENSOR_DEVICE_H