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

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  1. sequenzo/__init__.py +39 -7
  2. sequenzo/big_data/clara/utils/get_weighted_diss.c +154 -154
  3. sequenzo/big_data/clara/utils/get_weighted_diss.cp310-win_amd64.pyd +0 -0
  4. sequenzo/clustering/KMedoids.py +39 -0
  5. sequenzo/clustering/clustering_c_code.cp310-win_amd64.pyd +0 -0
  6. sequenzo/clustering/hierarchical_clustering.py +107 -5
  7. sequenzo/define_sequence_data.py +10 -1
  8. sequenzo/dissimilarity_measures/c_code.cp310-win_amd64.pyd +0 -0
  9. sequenzo/dissimilarity_measures/get_distance_matrix.py +1 -2
  10. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c +154 -154
  11. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cp310-win_amd64.pyd +0 -0
  12. sequenzo/dissimilarity_measures/utils/seqconc.c +154 -154
  13. sequenzo/dissimilarity_measures/utils/seqconc.cp310-win_amd64.pyd +0 -0
  14. sequenzo/dissimilarity_measures/utils/seqdss.c +154 -154
  15. sequenzo/dissimilarity_measures/utils/seqdss.cp310-win_amd64.pyd +0 -0
  16. sequenzo/dissimilarity_measures/utils/seqdur.c +154 -154
  17. sequenzo/dissimilarity_measures/utils/seqdur.cp310-win_amd64.pyd +0 -0
  18. sequenzo/dissimilarity_measures/utils/seqlength.c +154 -154
  19. sequenzo/dissimilarity_measures/utils/seqlength.cp310-win_amd64.pyd +0 -0
  20. sequenzo/multidomain/cat.py +0 -53
  21. sequenzo/multidomain/idcd.py +0 -1
  22. sequenzo/openmp_setup.py +233 -0
  23. sequenzo/visualization/plot_transition_matrix.py +21 -22
  24. {sequenzo-0.1.18.dist-info → sequenzo-0.1.19.dist-info}/METADATA +43 -10
  25. sequenzo-0.1.19.dist-info/RECORD +272 -0
  26. sequenzo/dissimilarity_measures/setup.py +0 -35
  27. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LDLT.h +0 -688
  28. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT.h +0 -558
  29. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +0 -99
  30. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +0 -682
  31. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +0 -346
  32. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +0 -462
  33. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +0 -91
  34. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/EigenSolver.h +0 -622
  35. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +0 -418
  36. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +0 -226
  37. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +0 -374
  38. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +0 -158
  39. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealQZ.h +0 -657
  40. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur.h +0 -558
  41. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +0 -77
  42. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +0 -904
  43. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +0 -87
  44. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +0 -561
  45. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AlignedBox.h +0 -486
  46. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AngleAxis.h +0 -247
  47. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/EulerAngles.h +0 -114
  48. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Homogeneous.h +0 -501
  49. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Hyperplane.h +0 -282
  50. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/OrthoMethods.h +0 -235
  51. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/ParametrizedLine.h +0 -232
  52. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Quaternion.h +0 -870
  53. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Rotation2D.h +0 -199
  54. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/RotationBase.h +0 -206
  55. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Scaling.h +0 -188
  56. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Transform.h +0 -1563
  57. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Translation.h +0 -202
  58. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Umeyama.h +0 -166
  59. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/arch/Geometry_SIMD.h +0 -168
  60. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/BlockHouseholder.h +0 -110
  61. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/Householder.h +0 -176
  62. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/HouseholderSequence.h +0 -545
  63. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +0 -226
  64. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +0 -212
  65. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +0 -229
  66. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +0 -394
  67. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +0 -453
  68. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +0 -444
  69. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +0 -198
  70. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +0 -117
  71. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Jacobi/Jacobi.h +0 -483
  72. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/KLUSupport/KLUSupport.h +0 -358
  73. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/Determinant.h +0 -117
  74. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/FullPivLU.h +0 -877
  75. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/InverseImpl.h +0 -432
  76. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU.h +0 -624
  77. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +0 -83
  78. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/arch/InverseSize4.h +0 -351
  79. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/MetisSupport/MetisSupport.h +0 -137
  80. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Amd.h +0 -435
  81. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +0 -1863
  82. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Ordering.h +0 -153
  83. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +0 -678
  84. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +0 -545
  85. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR.h +0 -674
  86. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +0 -97
  87. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +0 -635
  88. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/FullPivHouseholderQR.h +0 -713
  89. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR.h +0 -434
  90. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +0 -68
  91. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +0 -335
  92. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/BDCSVD.h +0 -1366
  93. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h +0 -812
  94. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +0 -91
  95. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/SVDBase.h +0 -376
  96. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/UpperBidiagonalization.h +0 -414
  97. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +0 -697
  98. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +0 -174
  99. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/AmbiVector.h +0 -378
  100. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/CompressedStorage.h +0 -274
  101. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +0 -352
  102. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +0 -67
  103. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseAssign.h +0 -270
  104. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseBlock.h +0 -571
  105. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseColEtree.h +0 -206
  106. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +0 -370
  107. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +0 -722
  108. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +0 -150
  109. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +0 -342
  110. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +0 -138
  111. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDot.h +0 -98
  112. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseFuzzy.h +0 -29
  113. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMap.h +0 -305
  114. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrix.h +0 -1518
  115. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +0 -398
  116. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparsePermutation.h +0 -178
  117. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseProduct.h +0 -181
  118. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRedux.h +0 -49
  119. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRef.h +0 -397
  120. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +0 -659
  121. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSolverBase.h +0 -124
  122. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +0 -198
  123. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTranspose.h +0 -92
  124. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTriangularView.h +0 -189
  125. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseUtil.h +0 -186
  126. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseVector.h +0 -478
  127. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseView.h +0 -254
  128. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/TriangularSolver.h +0 -315
  129. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU.h +0 -923
  130. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLUImpl.h +0 -66
  131. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +0 -226
  132. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +0 -110
  133. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +0 -375
  134. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +0 -80
  135. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_bmod.h +0 -181
  136. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_dfs.h +0 -179
  137. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +0 -107
  138. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +0 -280
  139. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +0 -126
  140. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +0 -130
  141. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_bmod.h +0 -223
  142. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_dfs.h +0 -258
  143. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pivotL.h +0 -137
  144. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pruneL.h +0 -136
  145. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_relax_snode.h +0 -83
  146. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseQR/SparseQR.h +0 -758
  147. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdDeque.h +0 -116
  148. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdList.h +0 -106
  149. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdVector.h +0 -131
  150. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/details.h +0 -84
  151. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SuperLUSupport/SuperLUSupport.h +0 -1025
  152. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/UmfPackSupport/UmfPackSupport.h +0 -642
  153. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Image.h +0 -82
  154. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Kernel.h +0 -79
  155. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/RealSvd2x2.h +0 -55
  156. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/blas.h +0 -440
  157. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapack.h +0 -152
  158. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke.h +0 -16292
  159. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke_mangling.h +0 -17
  160. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseBinaryOps.h +0 -358
  161. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseUnaryOps.h +0 -696
  162. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/BlockMethods.h +0 -1442
  163. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseBinaryOps.h +0 -115
  164. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseUnaryOps.h +0 -177
  165. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/IndexedViewMethods.h +0 -262
  166. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseBinaryOps.h +0 -152
  167. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseUnaryOps.h +0 -95
  168. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ReshapedMethods.h +0 -149
  169. sequenzo/dissimilarity_measures/src/eigen/bench/BenchSparseUtil.h +0 -149
  170. sequenzo/dissimilarity_measures/src/eigen/bench/BenchTimer.h +0 -199
  171. sequenzo/dissimilarity_measures/src/eigen/bench/BenchUtil.h +0 -92
  172. sequenzo/dissimilarity_measures/src/eigen/bench/basicbenchmark.h +0 -63
  173. sequenzo/dissimilarity_measures/src/eigen/bench/btl/generic_bench/utils/utilities.h +0 -90
  174. sequenzo/dissimilarity_measures/src/eigen/bench/btl/libs/BLAS/blas.h +0 -675
  175. sequenzo/dissimilarity_measures/src/eigen/bench/btl/libs/BLAS/c_interface_base.h +0 -73
  176. sequenzo/dissimilarity_measures/src/eigen/bench/perf_monitoring/gemm_common.h +0 -67
  177. sequenzo/dissimilarity_measures/src/eigen/bench/perf_monitoring/gemv_common.h +0 -69
  178. sequenzo/dissimilarity_measures/src/eigen/bench/spbench/spbenchsolver.h +0 -573
  179. sequenzo/dissimilarity_measures/src/eigen/bench/spbench/spbenchstyle.h +0 -95
  180. sequenzo/dissimilarity_measures/src/eigen/bench/tensors/benchmark.h +0 -49
  181. sequenzo/dissimilarity_measures/src/eigen/bench/tensors/tensor_benchmarks.h +0 -597
  182. sequenzo/dissimilarity_measures/src/eigen/blas/BandTriangularSolver.h +0 -97
  183. sequenzo/dissimilarity_measures/src/eigen/blas/GeneralRank1Update.h +0 -44
  184. sequenzo/dissimilarity_measures/src/eigen/blas/PackedSelfadjointProduct.h +0 -53
  185. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularMatrixVector.h +0 -79
  186. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularSolverVector.h +0 -88
  187. sequenzo/dissimilarity_measures/src/eigen/blas/Rank2Update.h +0 -57
  188. sequenzo/dissimilarity_measures/src/eigen/blas/common.h +0 -175
  189. sequenzo/dissimilarity_measures/src/eigen/blas/f2c/datatypes.h +0 -24
  190. sequenzo/dissimilarity_measures/src/eigen/blas/level1_cplx_impl.h +0 -155
  191. sequenzo/dissimilarity_measures/src/eigen/blas/level1_impl.h +0 -144
  192. sequenzo/dissimilarity_measures/src/eigen/blas/level1_real_impl.h +0 -122
  193. sequenzo/dissimilarity_measures/src/eigen/blas/level2_cplx_impl.h +0 -360
  194. sequenzo/dissimilarity_measures/src/eigen/blas/level2_impl.h +0 -553
  195. sequenzo/dissimilarity_measures/src/eigen/blas/level2_real_impl.h +0 -306
  196. sequenzo/dissimilarity_measures/src/eigen/blas/level3_impl.h +0 -702
  197. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/__init__.py +0 -1
  198. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/printers.py +0 -314
  199. sequenzo/dissimilarity_measures/src/eigen/demos/mandelbrot/mandelbrot.h +0 -71
  200. sequenzo/dissimilarity_measures/src/eigen/demos/mix_eigen_and_c/binary_library.h +0 -71
  201. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/camera.h +0 -118
  202. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/gpuhelper.h +0 -207
  203. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/icosphere.h +0 -30
  204. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/quaternion_demo.h +0 -114
  205. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/trackball.h +0 -42
  206. sequenzo/dissimilarity_measures/src/eigen/lapack/lapack_common.h +0 -29
  207. sequenzo/dissimilarity_measures/src/eigen/scripts/relicense.py +0 -69
  208. sequenzo/dissimilarity_measures/src/eigen/test/AnnoyingScalar.h +0 -165
  209. sequenzo/dissimilarity_measures/src/eigen/test/MovableScalar.h +0 -35
  210. sequenzo/dissimilarity_measures/src/eigen/test/SafeScalar.h +0 -30
  211. sequenzo/dissimilarity_measures/src/eigen/test/bug1213.h +0 -8
  212. sequenzo/dissimilarity_measures/src/eigen/test/evaluator_common.h +0 -0
  213. sequenzo/dissimilarity_measures/src/eigen/test/gpu_common.h +0 -176
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  395. {sequenzo-0.1.18.dist-info → sequenzo-0.1.19.dist-info}/licenses/LICENSE +0 -0
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@@ -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.
20
- *
21
- * The %Tensor class is the work-horse for all \em dense tensors within Eigen.
22
- *
23
- * The %Tensor class encompasses only dynamic-size objects so far.
24
- *
25
- * The first two template parameters are required:
26
- * \tparam Scalar_ Numeric type, e.g. float, double, int or `std::complex<float>`.
27
- * User defined scalar types are supported as well (see \ref user_defined_scalars "here").
28
- * \tparam NumIndices_ Number of indices (i.e. rank of the tensor)
29
- *
30
- * The remaining template parameters are optional -- in most cases you don't have to worry about them.
31
- * \tparam Options_ A combination of either \b #RowMajor or \b #ColMajor, and of either
32
- * \b #AutoAlign or \b #DontAlign.
33
- * The former controls \ref TopicStorageOrders "storage order", and defaults to column-major. The latter controls alignment, which is required
34
- * for vectorization. It defaults to aligning tensors. Note that tensors currently do not support any operations that profit from vectorization.
35
- * Support for such operations (i.e. adding two tensors etc.) is planned.
36
- *
37
- * You can access elements of tensors using normal subscripting:
38
- *
39
- * \code
40
- * Eigen::Tensor<double, 4> t(10, 10, 10, 10);
41
- * t(0, 1, 2, 3) = 42.0;
42
- * \endcode
43
- *
44
- * This class can be extended with the help of the plugin mechanism described on the page
45
- * \ref TopicCustomizing_Plugins by defining the preprocessor symbol \c EIGEN_TENSOR_PLUGIN.
46
- *
47
- * <i><b>Some notes:</b></i>
48
- *
49
- * <dl>
50
- * <dt><b>Relation to other parts of Eigen:</b></dt>
51
- * <dd>The midterm development goal for this class is to have a similar hierarchy as Eigen uses for matrices, so that
52
- * taking blocks or using tensors in expressions is easily possible, including an interface with the vector/matrix code
53
- * by providing .asMatrix() and .asVector() (or similar) methods for rank 2 and 1 tensors. However, currently, the %Tensor
54
- * class does not provide any of these features and is only available as a stand-alone class that just allows for
55
- * coefficient access. Also, when fixed-size tensors are implemented, the number of template arguments is likely to
56
- * change dramatically.</dd>
57
- * </dl>
58
- *
59
- * \ref TopicStorageOrders
60
- */
61
-
62
- template<typename Scalar_, int NumIndices_, int Options_, typename IndexType_>
63
- class Tensor : public TensorBase<Tensor<Scalar_, NumIndices_, Options_, IndexType_> >
64
- {
65
- public:
66
- typedef Tensor<Scalar_, NumIndices_, Options_, IndexType_> Self;
67
- typedef TensorBase<Tensor<Scalar_, NumIndices_, Options_, IndexType_> > Base;
68
- typedef typename Eigen::internal::nested<Self>::type Nested;
69
- typedef typename internal::traits<Self>::StorageKind StorageKind;
70
- typedef typename internal::traits<Self>::Index Index;
71
- typedef Scalar_ Scalar;
72
- typedef typename NumTraits<Scalar>::Real RealScalar;
73
- typedef typename Base::CoeffReturnType CoeffReturnType;
74
-
75
- enum {
76
- IsAligned = bool(EIGEN_MAX_ALIGN_BYTES>0) & !(Options_&DontAlign),
77
- Layout = Options_ & RowMajor ? RowMajor : ColMajor,
78
- CoordAccess = true,
79
- RawAccess = true
80
- };
81
-
82
- static const int Options = Options_;
83
- static const int NumIndices = NumIndices_;
84
- typedef DSizes<Index, NumIndices_> Dimensions;
85
-
86
- protected:
87
- TensorStorage<Scalar, Dimensions, Options> m_storage;
88
-
89
- #ifdef EIGEN_HAS_SFINAE
90
- template<typename CustomIndices>
91
- struct isOfNormalIndex{
92
- static const bool is_array = internal::is_base_of<array<Index, NumIndices>, CustomIndices>::value;
93
- static const bool is_int = NumTraits<CustomIndices>::IsInteger;
94
- static const bool value = is_array | is_int;
95
- };
96
- #endif
97
-
98
- public:
99
- // Metadata
100
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Index rank() const { return NumIndices; }
101
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Index dimension(std::size_t n) const { return m_storage.dimensions()[n]; }
102
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Dimensions& dimensions() const { return m_storage.dimensions(); }
103
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Index size() const { return m_storage.size(); }
104
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar *data() { return m_storage.data(); }
105
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar *data() const { return m_storage.data(); }
106
-
107
- // This makes EIGEN_INITIALIZE_COEFFS_IF_THAT_OPTION_IS_ENABLED
108
- // work, because that uses base().coeffRef() - and we don't yet
109
- // implement a similar class hierarchy
110
- inline Self& base() { return *this; }
111
- inline const Self& base() const { return *this; }
112
-
113
- #if EIGEN_HAS_VARIADIC_TEMPLATES
114
- template<typename... IndexTypes>
115
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& coeff(Index firstIndex, Index secondIndex, IndexTypes... otherIndices) const
116
- {
117
- // The number of indices used to access a tensor coefficient must be equal to the rank of the tensor.
118
- EIGEN_STATIC_ASSERT(sizeof...(otherIndices) + 2 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
119
- return coeff(array<Index, NumIndices>{{firstIndex, secondIndex, otherIndices...}});
120
- }
121
- #endif
122
-
123
- // normal indices
124
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& coeff(const array<Index, NumIndices>& indices) const
125
- {
126
- eigen_internal_assert(checkIndexRange(indices));
127
- return m_storage.data()[linearizedIndex(indices)];
128
- }
129
-
130
- // custom indices
131
- #ifdef EIGEN_HAS_SFINAE
132
- template<typename CustomIndices,
133
- EIGEN_SFINAE_ENABLE_IF( !(isOfNormalIndex<CustomIndices>::value) )
134
- >
135
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& coeff(CustomIndices& indices) const
136
- {
137
- return coeff(internal::customIndices2Array<Index,NumIndices>(indices));
138
- }
139
- #endif
140
-
141
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& coeff() const
142
- {
143
- EIGEN_STATIC_ASSERT(NumIndices == 0, YOU_MADE_A_PROGRAMMING_MISTAKE);
144
- return m_storage.data()[0];
145
- }
146
-
147
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE const Scalar& coeff(Index index) const
148
- {
149
- eigen_internal_assert(index >= 0 && index < size());
150
- return m_storage.data()[index];
151
- }
152
-
153
- #if EIGEN_HAS_VARIADIC_TEMPLATES
154
- template<typename... IndexTypes>
155
- inline Scalar& coeffRef(Index firstIndex, Index secondIndex, IndexTypes... otherIndices)
156
- {
157
- // The number of indices used to access a tensor coefficient must be equal to the rank of the tensor.
158
- EIGEN_STATIC_ASSERT(sizeof...(otherIndices) + 2 == NumIndices, YOU_MADE_A_PROGRAMMING_MISTAKE)
159
- return coeffRef(array<Index, NumIndices>{{firstIndex, secondIndex, otherIndices...}});
160
- }
161
- #endif
162
-
163
- // normal indices
164
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& coeffRef(const array<Index, NumIndices>& indices)
165
- {
166
- eigen_internal_assert(checkIndexRange(indices));
167
- return m_storage.data()[linearizedIndex(indices)];
168
- }
169
-
170
- // custom indices
171
- #ifdef EIGEN_HAS_SFINAE
172
- template<typename CustomIndices,
173
- EIGEN_SFINAE_ENABLE_IF( !(isOfNormalIndex<CustomIndices>::value) )
174
- >
175
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& coeffRef(CustomIndices& indices)
176
- {
177
- return coeffRef(internal::customIndices2Array<Index,NumIndices>(indices));
178
- }
179
- #endif
180
-
181
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& coeffRef()
182
- {
183
- EIGEN_STATIC_ASSERT(NumIndices == 0, YOU_MADE_A_PROGRAMMING_MISTAKE);
184
- return m_storage.data()[0];
185
- }
186
-
187
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE Scalar& coeffRef(Index index)
188
- {
189
- eigen_internal_assert(index >= 0 && index < size());
190
- return m_storage.data()[index];
191
- }
192
-
193
- #if EIGEN_HAS_VARIADIC_TEMPLATES
194
- 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.
198
- 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