sequenzo 0.1.17__cp39-cp39-win_amd64.whl → 0.1.19__cp39-cp39-win_amd64.whl

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  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
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  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
@@ -1,554 +0,0 @@
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- // This file is part of Eigen, a lightweight C++ template library
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- // for linear algebra.
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- //
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- // Copyright (C) 2014 Benoit Steiner <benoit.steiner.goog@gmail.com>
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- // Copyright (C) 2013 Christian Seiler <christian@iwakd.de>
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- //
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- // This Source Code Form is subject to the terms of the Mozilla
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- // Public License v. 2.0. If a copy of the MPL was not distributed
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- // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
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-
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- #ifndef EIGEN_CXX11_TENSOR_TENSOR_H
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- #define EIGEN_CXX11_TENSOR_TENSOR_H
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-
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- namespace Eigen {
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-
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- /** \class Tensor
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- * \ingroup CXX11_Tensor_Module
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- *
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- * \brief The tensor class.
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- *
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- * The %Tensor class is the work-horse for all \em dense tensors within Eigen.
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- *
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- * The %Tensor class encompasses only dynamic-size objects so far.
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- *
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- * The first two template parameters are required:
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- * \tparam Scalar_ Numeric type, e.g. float, double, int or `std::complex<float>`.
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- * User defined scalar types are supported as well (see \ref user_defined_scalars "here").
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- * \tparam NumIndices_ Number of indices (i.e. rank of the tensor)
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- *
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- * The remaining template parameters are optional -- in most cases you don't have to worry about them.
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- * \tparam Options_ A combination of either \b #RowMajor or \b #ColMajor, and of either
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- * \b #AutoAlign or \b #DontAlign.
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- * The former controls \ref TopicStorageOrders "storage order", and defaults to column-major. The latter controls alignment, which is required
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- * for vectorization. It defaults to aligning tensors. Note that tensors currently do not support any operations that profit from vectorization.
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- * Support for such operations (i.e. adding two tensors etc.) is planned.
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- *
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- * You can access elements of tensors using normal subscripting:
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- *
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- * \code
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- * Eigen::Tensor<double, 4> t(10, 10, 10, 10);
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- * t(0, 1, 2, 3) = 42.0;
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- * \endcode
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- *
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- * This class can be extended with the help of the plugin mechanism described on the page
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- * \ref TopicCustomizing_Plugins by defining the preprocessor symbol \c EIGEN_TENSOR_PLUGIN.
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- *
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- * <i><b>Some notes:</b></i>
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- *
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- * <dl>
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- * <dt><b>Relation to other parts of Eigen:</b></dt>
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- * <dd>The midterm development goal for this class is to have a similar hierarchy as Eigen uses for matrices, so that
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- * taking blocks or using tensors in expressions is easily possible, including an interface with the vector/matrix code
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- * by providing .asMatrix() and .asVector() (or similar) methods for rank 2 and 1 tensors. However, currently, the %Tensor
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- * class does not provide any of these features and is only available as a stand-alone class that just allows for
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- * coefficient access. Also, when fixed-size tensors are implemented, the number of template arguments is likely to
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- * change dramatically.</dd>
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- * </dl>
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- *
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- * \ref TopicStorageOrders
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- */
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-
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- template<typename Scalar_, int NumIndices_, int Options_, typename IndexType_>
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- class Tensor : public TensorBase<Tensor<Scalar_, NumIndices_, Options_, IndexType_> >
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- {
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- public:
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- typedef Tensor<Scalar_, NumIndices_, Options_, IndexType_> Self;
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- typedef TensorBase<Tensor<Scalar_, NumIndices_, Options_, IndexType_> > Base;
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- typedef typename Eigen::internal::nested<Self>::type Nested;
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- typedef typename internal::traits<Self>::StorageKind StorageKind;
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- typedef typename internal::traits<Self>::Index Index;
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- typedef Scalar_ Scalar;
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- typedef typename NumTraits<Scalar>::Real RealScalar;
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- typedef typename Base::CoeffReturnType CoeffReturnType;
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-
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- enum {
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- IsAligned = bool(EIGEN_MAX_ALIGN_BYTES>0) & !(Options_&DontAlign),
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- Layout = Options_ & RowMajor ? RowMajor : ColMajor,
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- CoordAccess = true,
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- RawAccess = true
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- };
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-
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- static const int Options = Options_;
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- static const int NumIndices = NumIndices_;
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- typedef DSizes<Index, NumIndices_> Dimensions;
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-
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- protected:
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- TensorStorage<Scalar, Dimensions, Options> m_storage;
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-
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- #ifdef EIGEN_HAS_SFINAE
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- template<typename CustomIndices>
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- struct isOfNormalIndex{
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- static const bool is_array = internal::is_base_of<array<Index, NumIndices>, CustomIndices>::value;
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- static const bool is_int = NumTraits<CustomIndices>::IsInteger;
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- static const bool value = is_array | is_int;
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- };
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- #endif
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-
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- public:
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- // Metadata
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Index rank() const { return NumIndices; }
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Index dimension(std::size_t n) const { return m_storage.dimensions()[n]; }
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Dimensions& dimensions() const { return m_storage.dimensions(); }
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Index size() const { return m_storage.size(); }
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar *data() { return m_storage.data(); }
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar *data() const { return m_storage.data(); }
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-
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- // This makes EIGEN_INITIALIZE_COEFFS_IF_THAT_OPTION_IS_ENABLED
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- // work, because that uses base().coeffRef() - and we don't yet
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- // implement a similar class hierarchy
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- inline Self& base() { return *this; }
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- inline const Self& base() const { return *this; }
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-
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- #if EIGEN_HAS_VARIADIC_TEMPLATES
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- template<typename... IndexTypes>
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& coeff(Index firstIndex, Index secondIndex, IndexTypes... otherIndices) const
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- {
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- // The number of indices used to access a tensor coefficient must be equal to the rank of the tensor.
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- EIGEN_STATIC_ASSERT(sizeof...(otherIndices) + 2 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
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- return coeff(array<Index, NumIndices>{{firstIndex, secondIndex, otherIndices...}});
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- }
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- #endif
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-
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- // normal indices
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& coeff(const array<Index, NumIndices>& indices) const
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- {
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- eigen_internal_assert(checkIndexRange(indices));
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- return m_storage.data()[linearizedIndex(indices)];
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- }
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-
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- // custom indices
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- #ifdef EIGEN_HAS_SFINAE
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- template<typename CustomIndices,
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- EIGEN_SFINAE_ENABLE_IF( !(isOfNormalIndex<CustomIndices>::value) )
134
- >
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& coeff(CustomIndices& indices) const
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- {
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- return coeff(internal::customIndices2Array<Index,NumIndices>(indices));
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- }
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- #endif
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-
141
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& coeff() const
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- {
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- EIGEN_STATIC_ASSERT(NumIndices == 0, YOU_MADE_A_PROGRAMMING_MISTAKE);
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- return m_storage.data()[0];
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- }
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-
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& coeff(Index index) const
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- {
149
- eigen_internal_assert(index >= 0 && index < size());
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- return m_storage.data()[index];
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- }
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-
153
- #if EIGEN_HAS_VARIADIC_TEMPLATES
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- template<typename... IndexTypes>
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- inline Scalar& coeffRef(Index firstIndex, Index secondIndex, IndexTypes... otherIndices)
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- {
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- // The number of indices used to access a tensor coefficient must be equal to the rank of the tensor.
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- EIGEN_STATIC_ASSERT(sizeof...(otherIndices) + 2 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
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- return coeffRef(array<Index, NumIndices>{{firstIndex, secondIndex, otherIndices...}});
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- }
161
- #endif
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-
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- // normal indices
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- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& coeffRef(const array<Index, NumIndices>& indices)
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- {
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- eigen_internal_assert(checkIndexRange(indices));
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- return m_storage.data()[linearizedIndex(indices)];
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- }
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-
170
- // custom indices
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- #ifdef EIGEN_HAS_SFINAE
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- template<typename CustomIndices,
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- EIGEN_SFINAE_ENABLE_IF( !(isOfNormalIndex<CustomIndices>::value) )
174
- >
175
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& coeffRef(CustomIndices& indices)
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- {
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- return coeffRef(internal::customIndices2Array<Index,NumIndices>(indices));
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- }
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- #endif
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-
181
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& coeffRef()
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- {
183
- EIGEN_STATIC_ASSERT(NumIndices == 0, YOU_MADE_A_PROGRAMMING_MISTAKE);
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- return m_storage.data()[0];
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- }
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-
187
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& coeffRef(Index index)
188
- {
189
- eigen_internal_assert(index >= 0 && index < size());
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- return m_storage.data()[index];
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- }
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-
193
- #if EIGEN_HAS_VARIADIC_TEMPLATES
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- template<typename... IndexTypes>
195
- inline const Scalar& operator()(Index firstIndex, Index secondIndex, IndexTypes... otherIndices) const
196
- {
197
- // The number of indices used to access a tensor coefficient must be equal to the rank of the tensor.
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- EIGEN_STATIC_ASSERT(sizeof...(otherIndices) + 2 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
199
- return this->operator()(array<Index, NumIndices>{{firstIndex, secondIndex, otherIndices...}});
200
- }
201
- #else
202
- EIGEN_DEVICE_FUNC
203
- EIGEN_STRONG_INLINE const Scalar& operator()(Index i0, Index i1) const
204
- {
205
- return coeff(array<Index, 2>(i0, i1));
206
- }
207
- EIGEN_DEVICE_FUNC
208
- EIGEN_STRONG_INLINE const Scalar& operator()(Index i0, Index i1, Index i2) const
209
- {
210
- return coeff(array<Index, 3>(i0, i1, i2));
211
- }
212
- EIGEN_DEVICE_FUNC
213
- EIGEN_STRONG_INLINE const Scalar& operator()(Index i0, Index i1, Index i2, Index i3) const
214
- {
215
- return coeff(array<Index, 4>(i0, i1, i2, i3));
216
- }
217
- EIGEN_DEVICE_FUNC
218
- EIGEN_STRONG_INLINE const Scalar& operator()(Index i0, Index i1, Index i2, Index i3, Index i4) const
219
- {
220
- return coeff(array<Index, 5>(i0, i1, i2, i3, i4));
221
- }
222
- #endif
223
-
224
- // custom indices
225
- #ifdef EIGEN_HAS_SFINAE
226
- template<typename CustomIndices,
227
- EIGEN_SFINAE_ENABLE_IF( !(isOfNormalIndex<CustomIndices>::value) )
228
- >
229
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& operator()(CustomIndices& indices) const
230
- {
231
- return coeff(internal::customIndices2Array<Index,NumIndices>(indices));
232
- }
233
- #endif
234
-
235
- // normal indices
236
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& operator()(const array<Index, NumIndices>& indices) const
237
- {
238
- return coeff(indices);
239
- }
240
-
241
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& operator()(Index index) const
242
- {
243
- eigen_internal_assert(index >= 0 && index < size());
244
- return coeff(index);
245
- }
246
-
247
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& operator()() const
248
- {
249
- EIGEN_STATIC_ASSERT(NumIndices == 0, YOU_MADE_A_PROGRAMMING_MISTAKE);
250
- return coeff();
251
- }
252
-
253
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& operator[](Index index) const
254
- {
255
- // The bracket operator is only for vectors, use the parenthesis operator instead.
256
- EIGEN_STATIC_ASSERT(NumIndices == 1, YOU_MADE_A_PROGRAMMING_MISTAKE);
257
- return coeff(index);
258
- }
259
-
260
- #if EIGEN_HAS_VARIADIC_TEMPLATES
261
- template<typename... IndexTypes>
262
- inline Scalar& operator()(Index firstIndex, Index secondIndex, IndexTypes... otherIndices)
263
- {
264
- // The number of indices used to access a tensor coefficient must be equal to the rank of the tensor.
265
- EIGEN_STATIC_ASSERT(sizeof...(otherIndices) + 2 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
266
- return operator()(array<Index, NumIndices>{{firstIndex, secondIndex, otherIndices...}});
267
- }
268
- #else
269
- EIGEN_DEVICE_FUNC
270
- EIGEN_STRONG_INLINE Scalar& operator()(Index i0, Index i1)
271
- {
272
- return coeffRef(array<Index, 2>(i0, i1));
273
- }
274
- EIGEN_DEVICE_FUNC
275
- EIGEN_STRONG_INLINE Scalar& operator()(Index i0, Index i1, Index i2)
276
- {
277
- return coeffRef(array<Index, 3>(i0, i1, i2));
278
- }
279
- EIGEN_DEVICE_FUNC
280
- EIGEN_STRONG_INLINE Scalar& operator()(Index i0, Index i1, Index i2, Index i3)
281
- {
282
- return coeffRef(array<Index, 4>(i0, i1, i2, i3));
283
- }
284
- EIGEN_DEVICE_FUNC
285
- EIGEN_STRONG_INLINE Scalar& operator()(Index i0, Index i1, Index i2, Index i3, Index i4)
286
- {
287
- return coeffRef(array<Index, 5>(i0, i1, i2, i3, i4));
288
- }
289
- #endif
290
-
291
- // normal indices
292
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& operator()(const array<Index, NumIndices>& indices)
293
- {
294
- return coeffRef(indices);
295
- }
296
-
297
- // custom indices
298
- #ifdef EIGEN_HAS_SFINAE
299
- template<typename CustomIndices,
300
- EIGEN_SFINAE_ENABLE_IF( !(isOfNormalIndex<CustomIndices>::value) )
301
- >
302
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& operator()(CustomIndices& indices)
303
- {
304
- return coeffRef(internal::customIndices2Array<Index,NumIndices>(indices));
305
- }
306
- #endif
307
-
308
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& operator()(Index index)
309
- {
310
- eigen_assert(index >= 0 && index < size());
311
- return coeffRef(index);
312
- }
313
-
314
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& operator()()
315
- {
316
- EIGEN_STATIC_ASSERT(NumIndices == 0, YOU_MADE_A_PROGRAMMING_MISTAKE);
317
- return coeffRef();
318
- }
319
-
320
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& operator[](Index index)
321
- {
322
- // The bracket operator is only for vectors, use the parenthesis operator instead
323
- EIGEN_STATIC_ASSERT(NumIndices == 1, YOU_MADE_A_PROGRAMMING_MISTAKE)
324
- return coeffRef(index);
325
- }
326
-
327
- EIGEN_DEVICE_FUNC
328
- EIGEN_STRONG_INLINE Tensor()
329
- : m_storage()
330
- {
331
- }
332
-
333
- EIGEN_DEVICE_FUNC
334
- EIGEN_STRONG_INLINE Tensor(const Self& other)
335
- : m_storage(other.m_storage)
336
- {
337
- }
338
-
339
- #if EIGEN_HAS_VARIADIC_TEMPLATES
340
- template<typename... IndexTypes>
341
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Tensor(Index firstDimension, IndexTypes... otherDimensions)
342
- : m_storage(firstDimension, otherDimensions...)
343
- {
344
- // The number of dimensions used to construct a tensor must be equal to the rank of the tensor.
345
- EIGEN_STATIC_ASSERT(sizeof...(otherDimensions) + 1 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
346
- }
347
- #else
348
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE explicit Tensor(Index dim1)
349
- : m_storage(dim1, array<Index, 1>(dim1))
350
- {
351
- EIGEN_STATIC_ASSERT(1 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
352
- }
353
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Tensor(Index dim1, Index dim2)
354
- : m_storage(dim1*dim2, array<Index, 2>(dim1, dim2))
355
- {
356
- EIGEN_STATIC_ASSERT(2 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
357
- }
358
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Tensor(Index dim1, Index dim2, Index dim3)
359
- : m_storage(dim1*dim2*dim3, array<Index, 3>(dim1, dim2, dim3))
360
- {
361
- EIGEN_STATIC_ASSERT(3 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
362
- }
363
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Tensor(Index dim1, Index dim2, Index dim3, Index dim4)
364
- : m_storage(dim1*dim2*dim3*dim4, array<Index, 4>(dim1, dim2, dim3, dim4))
365
- {
366
- EIGEN_STATIC_ASSERT(4 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
367
- }
368
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Tensor(Index dim1, Index dim2, Index dim3, Index dim4, Index dim5)
369
- : m_storage(dim1*dim2*dim3*dim4*dim5, array<Index, 5>(dim1, dim2, dim3, dim4, dim5))
370
- {
371
- EIGEN_STATIC_ASSERT(5 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
372
- }
373
- #endif
374
-
375
- /** Normal Dimension */
376
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE explicit Tensor(const array<Index, NumIndices>& dimensions)
377
- : m_storage(internal::array_prod(dimensions), dimensions)
378
- {
379
- EIGEN_INITIALIZE_COEFFS_IF_THAT_OPTION_IS_ENABLED
380
- }
381
-
382
- template<typename OtherDerived>
383
- EIGEN_DEVICE_FUNC
384
- EIGEN_STRONG_INLINE Tensor(const TensorBase<OtherDerived, ReadOnlyAccessors>& other)
385
- {
386
- typedef TensorAssignOp<Tensor, const OtherDerived> Assign;
387
- Assign assign(*this, other.derived());
388
- resize(TensorEvaluator<const Assign, DefaultDevice>(assign, DefaultDevice()).dimensions());
389
- internal::TensorExecutor<const Assign, DefaultDevice>::run(assign, DefaultDevice());
390
- }
391
-
392
- template<typename OtherDerived>
393
- EIGEN_DEVICE_FUNC
394
- EIGEN_STRONG_INLINE Tensor(const TensorBase<OtherDerived, WriteAccessors>& other)
395
- {
396
- typedef TensorAssignOp<Tensor, const OtherDerived> Assign;
397
- Assign assign(*this, other.derived());
398
- resize(TensorEvaluator<const Assign, DefaultDevice>(assign, DefaultDevice()).dimensions());
399
- internal::TensorExecutor<const Assign, DefaultDevice>::run(assign, DefaultDevice());
400
- }
401
-
402
- #if EIGEN_HAS_RVALUE_REFERENCES
403
- EIGEN_DEVICE_FUNC
404
- EIGEN_STRONG_INLINE Tensor(Self&& other)
405
- : m_storage(std::move(other.m_storage))
406
- {
407
- }
408
- EIGEN_DEVICE_FUNC
409
- EIGEN_STRONG_INLINE Tensor& operator=(Self&& other)
410
- {
411
- m_storage = std::move(other.m_storage);
412
- return *this;
413
- }
414
- #endif
415
-
416
- EIGEN_DEVICE_FUNC
417
- EIGEN_STRONG_INLINE Tensor& operator=(const Tensor& other)
418
- {
419
- typedef TensorAssignOp<Tensor, const Tensor> Assign;
420
- Assign assign(*this, other);
421
- resize(TensorEvaluator<const Assign, DefaultDevice>(assign, DefaultDevice()).dimensions());
422
- internal::TensorExecutor<const Assign, DefaultDevice>::run(assign, DefaultDevice());
423
- return *this;
424
- }
425
- template<typename OtherDerived>
426
- EIGEN_DEVICE_FUNC
427
- EIGEN_STRONG_INLINE Tensor& operator=(const OtherDerived& other)
428
- {
429
- typedef TensorAssignOp<Tensor, const OtherDerived> Assign;
430
- Assign assign(*this, other);
431
- resize(TensorEvaluator<const Assign, DefaultDevice>(assign, DefaultDevice()).dimensions());
432
- internal::TensorExecutor<const Assign, DefaultDevice>::run(assign, DefaultDevice());
433
- return *this;
434
- }
435
-
436
- #if EIGEN_HAS_VARIADIC_TEMPLATES
437
- template<typename... IndexTypes> EIGEN_DEVICE_FUNC
438
- void resize(Index firstDimension, IndexTypes... otherDimensions)
439
- {
440
- // The number of dimensions used to resize a tensor must be equal to the rank of the tensor.
441
- EIGEN_STATIC_ASSERT(sizeof...(otherDimensions) + 1 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
442
- resize(array<Index, NumIndices>{{firstDimension, otherDimensions...}});
443
- }
444
- #endif
445
-
446
- /** Normal Dimension */
447
- EIGEN_DEVICE_FUNC void resize(const array<Index, NumIndices>& dimensions)
448
- {
449
- int i;
450
- Index size = Index(1);
451
- for (i = 0; i < NumIndices; i++) {
452
- internal::check_rows_cols_for_overflow<Dynamic>::run(size, dimensions[i]);
453
- size *= dimensions[i];
454
- }
455
- #ifdef EIGEN_INITIALIZE_COEFFS
456
- bool size_changed = size != this->size();
457
- m_storage.resize(size, dimensions);
458
- if(size_changed) EIGEN_INITIALIZE_COEFFS_IF_THAT_OPTION_IS_ENABLED
459
- #else
460
- m_storage.resize(size, dimensions);
461
- #endif
462
- }
463
-
464
- // Why this overload, DSizes is derived from array ??? //
465
- EIGEN_DEVICE_FUNC void resize(const DSizes<Index, NumIndices>& dimensions) {
466
- array<Index, NumIndices> dims;
467
- for (int i = 0; i < NumIndices; ++i) {
468
- dims[i] = dimensions[i];
469
- }
470
- resize(dims);
471
- }
472
-
473
- EIGEN_DEVICE_FUNC
474
- void resize()
475
- {
476
- EIGEN_STATIC_ASSERT(NumIndices == 0, YOU_MADE_A_PROGRAMMING_MISTAKE);
477
- // Nothing to do: rank 0 tensors have fixed size
478
- }
479
-
480
- #ifdef EIGEN_HAS_INDEX_LIST
481
- template <typename FirstType, typename... OtherTypes>
482
- EIGEN_DEVICE_FUNC
483
- void resize(const Eigen::IndexList<FirstType, OtherTypes...>& dimensions) {
484
- array<Index, NumIndices> dims;
485
- for (int i = 0; i < NumIndices; ++i) {
486
- dims[i] = static_cast<Index>(dimensions[i]);
487
- }
488
- resize(dims);
489
- }
490
- #endif
491
-
492
- /** Custom Dimension */
493
- #ifdef EIGEN_HAS_SFINAE
494
- template<typename CustomDimension,
495
- EIGEN_SFINAE_ENABLE_IF( !(isOfNormalIndex<CustomDimension>::value) )
496
- >
497
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE void resize(CustomDimension& dimensions)
498
- {
499
- resize(internal::customIndices2Array<Index,NumIndices>(dimensions));
500
- }
501
- #endif
502
-
503
- #ifndef EIGEN_EMULATE_CXX11_META_H
504
- template <typename std::ptrdiff_t... Indices>
505
- EIGEN_DEVICE_FUNC
506
- void resize(const Sizes<Indices...>& dimensions) {
507
- array<Index, NumIndices> dims;
508
- for (int i = 0; i < NumIndices; ++i) {
509
- dims[i] = static_cast<Index>(dimensions[i]);
510
- }
511
- resize(dims);
512
- }
513
- #else
514
- template <std::size_t V1, std::size_t V2, std::size_t V3, std::size_t V4, std::size_t V5>
515
- EIGEN_DEVICE_FUNC
516
- void resize(const Sizes<V1, V2, V3, V4, V5>& dimensions) {
517
- array<Index, NumIndices> dims;
518
- for (int i = 0; i < NumIndices; ++i) {
519
- dims[i] = static_cast<Index>(dimensions[i]);
520
- }
521
- resize(dims);
522
- }
523
- #endif
524
-
525
- protected:
526
-
527
- bool checkIndexRange(const array<Index, NumIndices>& indices) const
528
- {
529
- using internal::array_apply_and_reduce;
530
- using internal::array_zip_and_reduce;
531
- using internal::greater_equal_zero_op;
532
- using internal::logical_and_op;
533
- using internal::lesser_op;
534
-
535
- return
536
- // check whether the indices are all >= 0
537
- array_apply_and_reduce<logical_and_op, greater_equal_zero_op>(indices) &&
538
- // check whether the indices fit in the dimensions
539
- array_zip_and_reduce<logical_and_op, lesser_op>(indices, m_storage.dimensions());
540
- }
541
-
542
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Index linearizedIndex(const array<Index, NumIndices>& indices) const
543
- {
544
- if (Options&RowMajor) {
545
- return m_storage.dimensions().IndexOfRowMajor(indices);
546
- } else {
547
- return m_storage.dimensions().IndexOfColMajor(indices);
548
- }
549
- }
550
- };
551
-
552
- } // end namespace Eigen
553
-
554
- #endif // EIGEN_CXX11_TENSOR_TENSOR_H