sequenzo 0.1.18__cp39-cp39-macosx_10_9_universal2.whl → 0.1.20__cp39-cp39-macosx_10_9_universal2.whl

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  1. sequenzo/__init__.py +39 -7
  2. sequenzo/big_data/clara/utils/get_weighted_diss.c +157 -157
  3. sequenzo/big_data/clara/utils/get_weighted_diss.cpython-39-darwin.so +0 -0
  4. sequenzo/clustering/KMedoids.py +39 -0
  5. sequenzo/clustering/hierarchical_clustering.py +108 -6
  6. sequenzo/define_sequence_data.py +10 -1
  7. sequenzo/dissimilarity_measures/get_distance_matrix.py +2 -3
  8. sequenzo/dissimilarity_measures/get_substitution_cost_matrix.py +1 -1
  9. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c +157 -157
  10. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cpython-39-darwin.so +0 -0
  11. sequenzo/dissimilarity_measures/utils/seqconc.c +157 -157
  12. sequenzo/dissimilarity_measures/utils/seqconc.cpython-39-darwin.so +0 -0
  13. sequenzo/dissimilarity_measures/utils/seqdss.c +157 -157
  14. sequenzo/dissimilarity_measures/utils/seqdss.cpython-39-darwin.so +0 -0
  15. sequenzo/dissimilarity_measures/utils/seqdur.c +157 -157
  16. sequenzo/dissimilarity_measures/utils/seqdur.cpython-39-darwin.so +0 -0
  17. sequenzo/dissimilarity_measures/utils/seqlength.c +157 -157
  18. sequenzo/dissimilarity_measures/utils/seqlength.cpython-39-darwin.so +0 -0
  19. sequenzo/multidomain/cat.py +0 -53
  20. sequenzo/multidomain/dat.py +11 -3
  21. sequenzo/multidomain/idcd.py +0 -3
  22. sequenzo/multidomain/linked_polyad.py +0 -1
  23. sequenzo/openmp_setup.py +233 -0
  24. sequenzo/visualization/plot_transition_matrix.py +21 -22
  25. {sequenzo-0.1.18.dist-info → sequenzo-0.1.20.dist-info}/METADATA +71 -10
  26. sequenzo-0.1.20.dist-info/RECORD +215 -0
  27. sequenzo/dissimilarity_measures/setup.py +0 -35
  28. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LDLT.h +0 -688
  29. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT.h +0 -558
  30. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +0 -99
  31. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +0 -682
  32. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +0 -346
  33. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +0 -462
  34. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +0 -91
  35. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/EigenSolver.h +0 -622
  36. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +0 -418
  37. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +0 -226
  38. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +0 -374
  39. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +0 -158
  40. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealQZ.h +0 -657
  41. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur.h +0 -558
  42. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +0 -77
  43. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +0 -904
  44. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +0 -87
  45. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +0 -561
  46. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AlignedBox.h +0 -486
  47. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AngleAxis.h +0 -247
  48. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/EulerAngles.h +0 -114
  49. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Homogeneous.h +0 -501
  50. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Hyperplane.h +0 -282
  51. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/OrthoMethods.h +0 -235
  52. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/ParametrizedLine.h +0 -232
  53. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Quaternion.h +0 -870
  54. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Rotation2D.h +0 -199
  55. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/RotationBase.h +0 -206
  56. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Scaling.h +0 -188
  57. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Transform.h +0 -1563
  58. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Translation.h +0 -202
  59. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Umeyama.h +0 -166
  60. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/arch/Geometry_SIMD.h +0 -168
  61. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/BlockHouseholder.h +0 -110
  62. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/Householder.h +0 -176
  63. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/HouseholderSequence.h +0 -545
  64. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +0 -226
  65. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +0 -212
  66. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +0 -229
  67. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +0 -394
  68. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +0 -453
  69. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +0 -444
  70. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +0 -198
  71. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +0 -117
  72. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Jacobi/Jacobi.h +0 -483
  73. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/KLUSupport/KLUSupport.h +0 -358
  74. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/Determinant.h +0 -117
  75. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/FullPivLU.h +0 -877
  76. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/InverseImpl.h +0 -432
  77. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU.h +0 -624
  78. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +0 -83
  79. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/arch/InverseSize4.h +0 -351
  80. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/MetisSupport/MetisSupport.h +0 -137
  81. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Amd.h +0 -435
  82. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +0 -1863
  83. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Ordering.h +0 -153
  84. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +0 -678
  85. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +0 -545
  86. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR.h +0 -674
  87. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +0 -97
  88. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +0 -635
  89. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/FullPivHouseholderQR.h +0 -713
  90. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR.h +0 -434
  91. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +0 -68
  92. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +0 -335
  93. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/BDCSVD.h +0 -1366
  94. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h +0 -812
  95. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +0 -91
  96. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/SVDBase.h +0 -376
  97. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/UpperBidiagonalization.h +0 -414
  98. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +0 -697
  99. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +0 -174
  100. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/AmbiVector.h +0 -378
  101. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/CompressedStorage.h +0 -274
  102. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +0 -352
  103. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +0 -67
  104. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseAssign.h +0 -270
  105. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseBlock.h +0 -571
  106. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseColEtree.h +0 -206
  107. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +0 -370
  108. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +0 -722
  109. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +0 -150
  110. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +0 -342
  111. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +0 -138
  112. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDot.h +0 -98
  113. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseFuzzy.h +0 -29
  114. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMap.h +0 -305
  115. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrix.h +0 -1518
  116. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +0 -398
  117. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparsePermutation.h +0 -178
  118. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseProduct.h +0 -181
  119. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRedux.h +0 -49
  120. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRef.h +0 -397
  121. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +0 -659
  122. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSolverBase.h +0 -124
  123. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +0 -198
  124. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTranspose.h +0 -92
  125. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTriangularView.h +0 -189
  126. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseUtil.h +0 -186
  127. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseVector.h +0 -478
  128. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseView.h +0 -254
  129. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/TriangularSolver.h +0 -315
  130. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU.h +0 -923
  131. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLUImpl.h +0 -66
  132. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +0 -226
  133. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +0 -110
  134. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +0 -375
  135. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +0 -80
  136. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_bmod.h +0 -181
  137. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_dfs.h +0 -179
  138. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +0 -107
  139. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +0 -280
  140. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +0 -126
  141. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +0 -130
  142. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_bmod.h +0 -223
  143. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_dfs.h +0 -258
  144. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pivotL.h +0 -137
  145. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pruneL.h +0 -136
  146. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_relax_snode.h +0 -83
  147. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseQR/SparseQR.h +0 -758
  148. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdDeque.h +0 -116
  149. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdList.h +0 -106
  150. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdVector.h +0 -131
  151. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/details.h +0 -84
  152. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SuperLUSupport/SuperLUSupport.h +0 -1025
  153. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/UmfPackSupport/UmfPackSupport.h +0 -642
  154. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Image.h +0 -82
  155. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Kernel.h +0 -79
  156. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/RealSvd2x2.h +0 -55
  157. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/blas.h +0 -440
  158. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapack.h +0 -152
  159. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke.h +0 -16292
  160. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke_mangling.h +0 -17
  161. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseBinaryOps.h +0 -358
  162. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseUnaryOps.h +0 -696
  163. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/BlockMethods.h +0 -1442
  164. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseBinaryOps.h +0 -115
  165. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseUnaryOps.h +0 -177
  166. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/IndexedViewMethods.h +0 -262
  167. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseBinaryOps.h +0 -152
  168. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseUnaryOps.h +0 -95
  169. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ReshapedMethods.h +0 -149
  170. sequenzo/dissimilarity_measures/src/eigen/blas/BandTriangularSolver.h +0 -97
  171. sequenzo/dissimilarity_measures/src/eigen/blas/GeneralRank1Update.h +0 -44
  172. sequenzo/dissimilarity_measures/src/eigen/blas/PackedSelfadjointProduct.h +0 -53
  173. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularMatrixVector.h +0 -79
  174. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularSolverVector.h +0 -88
  175. sequenzo/dissimilarity_measures/src/eigen/blas/Rank2Update.h +0 -57
  176. sequenzo/dissimilarity_measures/src/eigen/blas/common.h +0 -175
  177. sequenzo/dissimilarity_measures/src/eigen/blas/f2c/datatypes.h +0 -24
  178. sequenzo/dissimilarity_measures/src/eigen/blas/level1_cplx_impl.h +0 -155
  179. sequenzo/dissimilarity_measures/src/eigen/blas/level1_impl.h +0 -144
  180. sequenzo/dissimilarity_measures/src/eigen/blas/level1_real_impl.h +0 -122
  181. sequenzo/dissimilarity_measures/src/eigen/blas/level2_cplx_impl.h +0 -360
  182. sequenzo/dissimilarity_measures/src/eigen/blas/level2_impl.h +0 -553
  183. sequenzo/dissimilarity_measures/src/eigen/blas/level2_real_impl.h +0 -306
  184. sequenzo/dissimilarity_measures/src/eigen/blas/level3_impl.h +0 -702
  185. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/__init__.py +0 -1
  186. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/printers.py +0 -314
  187. sequenzo/dissimilarity_measures/src/eigen/lapack/lapack_common.h +0 -29
  188. sequenzo/dissimilarity_measures/src/eigen/scripts/relicense.py +0 -69
  189. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/Tensor.h +0 -554
  190. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorArgMax.h +0 -329
  191. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorAssign.h +0 -247
  192. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBase.h +0 -1176
  193. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBlock.h +0 -1559
  194. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBroadcasting.h +0 -1093
  195. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorChipping.h +0 -518
  196. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConcatenation.h +0 -377
  197. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContraction.h +0 -1023
  198. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionBlocking.h +0 -73
  199. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionCuda.h +0 -6
  200. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionGpu.h +0 -1413
  201. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionMapper.h +0 -575
  202. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionSycl.h +0 -1650
  203. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionThreadPool.h +0 -1679
  204. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConversion.h +0 -456
  205. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolution.h +0 -1132
  206. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolutionSycl.h +0 -544
  207. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCostModel.h +0 -214
  208. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCustomOp.h +0 -347
  209. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDevice.h +0 -137
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  359. {sequenzo-0.1.18.dist-info → sequenzo-0.1.20.dist-info}/licenses/LICENSE +0 -0
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@@ -1,282 +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) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
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- // Copyright (C) 2008 Benoit Jacob <jacob.benoit.1@gmail.com>
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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_HYPERPLANE_H
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- #define EIGEN_HYPERPLANE_H
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-
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- namespace Eigen {
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-
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- /** \geometry_module \ingroup Geometry_Module
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- *
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- * \class Hyperplane
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- *
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- * \brief A hyperplane
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- *
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- * A hyperplane is an affine subspace of dimension n-1 in a space of dimension n.
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- * For example, a hyperplane in a plane is a line; a hyperplane in 3-space is a plane.
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- *
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- * \tparam _Scalar the scalar type, i.e., the type of the coefficients
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- * \tparam _AmbientDim the dimension of the ambient space, can be a compile time value or Dynamic.
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- * Notice that the dimension of the hyperplane is _AmbientDim-1.
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- *
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- * This class represents an hyperplane as the zero set of the implicit equation
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- * \f$ n \cdot x + d = 0 \f$ where \f$ n \f$ is a unit normal vector of the plane (linear part)
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- * and \f$ d \f$ is the distance (offset) to the origin.
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- */
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- template <typename _Scalar, int _AmbientDim, int _Options>
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- class Hyperplane
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- {
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- public:
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- EIGEN_MAKE_ALIGNED_OPERATOR_NEW_IF_VECTORIZABLE_FIXED_SIZE(_Scalar,_AmbientDim==Dynamic ? Dynamic : _AmbientDim+1)
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- enum {
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- AmbientDimAtCompileTime = _AmbientDim,
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- Options = _Options
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- };
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- typedef _Scalar Scalar;
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- typedef typename NumTraits<Scalar>::Real RealScalar;
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- typedef Eigen::Index Index; ///< \deprecated since Eigen 3.3
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- typedef Matrix<Scalar,AmbientDimAtCompileTime,1> VectorType;
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- typedef Matrix<Scalar,Index(AmbientDimAtCompileTime)==Dynamic
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- ? Dynamic
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- : Index(AmbientDimAtCompileTime)+1,1,Options> Coefficients;
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- typedef Block<Coefficients,AmbientDimAtCompileTime,1> NormalReturnType;
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- typedef const Block<const Coefficients,AmbientDimAtCompileTime,1> ConstNormalReturnType;
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-
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- /** Default constructor without initialization */
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- EIGEN_DEVICE_FUNC inline Hyperplane() {}
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-
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- template<int OtherOptions>
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- EIGEN_DEVICE_FUNC Hyperplane(const Hyperplane<Scalar,AmbientDimAtCompileTime,OtherOptions>& other)
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- : m_coeffs(other.coeffs())
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- {}
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-
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- /** Constructs a dynamic-size hyperplane with \a _dim the dimension
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- * of the ambient space */
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- EIGEN_DEVICE_FUNC inline explicit Hyperplane(Index _dim) : m_coeffs(_dim+1) {}
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-
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- /** Construct a plane from its normal \a n and a point \a e onto the plane.
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- * \warning the vector normal is assumed to be normalized.
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- */
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- EIGEN_DEVICE_FUNC inline Hyperplane(const VectorType& n, const VectorType& e)
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- : m_coeffs(n.size()+1)
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- {
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- normal() = n;
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- offset() = -n.dot(e);
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- }
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-
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- /** Constructs a plane from its normal \a n and distance to the origin \a d
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- * such that the algebraic equation of the plane is \f$ n \cdot x + d = 0 \f$.
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- * \warning the vector normal is assumed to be normalized.
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- */
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- EIGEN_DEVICE_FUNC inline Hyperplane(const VectorType& n, const Scalar& d)
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- : m_coeffs(n.size()+1)
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- {
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- normal() = n;
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- offset() = d;
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- }
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-
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- /** Constructs a hyperplane passing through the two points. If the dimension of the ambient space
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- * is greater than 2, then there isn't uniqueness, so an arbitrary choice is made.
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- */
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- EIGEN_DEVICE_FUNC static inline Hyperplane Through(const VectorType& p0, const VectorType& p1)
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- {
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- Hyperplane result(p0.size());
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- result.normal() = (p1 - p0).unitOrthogonal();
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- result.offset() = -p0.dot(result.normal());
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- return result;
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- }
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-
96
- /** Constructs a hyperplane passing through the three points. The dimension of the ambient space
97
- * is required to be exactly 3.
98
- */
99
- EIGEN_DEVICE_FUNC static inline Hyperplane Through(const VectorType& p0, const VectorType& p1, const VectorType& p2)
100
- {
101
- EIGEN_STATIC_ASSERT_VECTOR_SPECIFIC_SIZE(VectorType, 3)
102
- Hyperplane result(p0.size());
103
- VectorType v0(p2 - p0), v1(p1 - p0);
104
- result.normal() = v0.cross(v1);
105
- RealScalar norm = result.normal().norm();
106
- if(norm <= v0.norm() * v1.norm() * NumTraits<RealScalar>::epsilon())
107
- {
108
- Matrix<Scalar,2,3> m; m << v0.transpose(), v1.transpose();
109
- JacobiSVD<Matrix<Scalar,2,3> > svd(m, ComputeFullV);
110
- result.normal() = svd.matrixV().col(2);
111
- }
112
- else
113
- result.normal() /= norm;
114
- result.offset() = -p0.dot(result.normal());
115
- return result;
116
- }
117
-
118
- /** Constructs a hyperplane passing through the parametrized line \a parametrized.
119
- * If the dimension of the ambient space is greater than 2, then there isn't uniqueness,
120
- * so an arbitrary choice is made.
121
- */
122
- // FIXME to be consistent with the rest this could be implemented as a static Through function ??
123
- EIGEN_DEVICE_FUNC explicit Hyperplane(const ParametrizedLine<Scalar, AmbientDimAtCompileTime>& parametrized)
124
- {
125
- normal() = parametrized.direction().unitOrthogonal();
126
- offset() = -parametrized.origin().dot(normal());
127
- }
128
-
129
- EIGEN_DEVICE_FUNC ~Hyperplane() {}
130
-
131
- /** \returns the dimension in which the plane holds */
132
- EIGEN_DEVICE_FUNC inline Index dim() const { return AmbientDimAtCompileTime==Dynamic ? m_coeffs.size()-1 : Index(AmbientDimAtCompileTime); }
133
-
134
- /** normalizes \c *this */
135
- EIGEN_DEVICE_FUNC void normalize(void)
136
- {
137
- m_coeffs /= normal().norm();
138
- }
139
-
140
- /** \returns the signed distance between the plane \c *this and a point \a p.
141
- * \sa absDistance()
142
- */
143
- EIGEN_DEVICE_FUNC inline Scalar signedDistance(const VectorType& p) const { return normal().dot(p) + offset(); }
144
-
145
- /** \returns the absolute distance between the plane \c *this and a point \a p.
146
- * \sa signedDistance()
147
- */
148
- EIGEN_DEVICE_FUNC inline Scalar absDistance(const VectorType& p) const { return numext::abs(signedDistance(p)); }
149
-
150
- /** \returns the projection of a point \a p onto the plane \c *this.
151
- */
152
- EIGEN_DEVICE_FUNC inline VectorType projection(const VectorType& p) const { return p - signedDistance(p) * normal(); }
153
-
154
- /** \returns a constant reference to the unit normal vector of the plane, which corresponds
155
- * to the linear part of the implicit equation.
156
- */
157
- EIGEN_DEVICE_FUNC inline ConstNormalReturnType normal() const { return ConstNormalReturnType(m_coeffs,0,0,dim(),1); }
158
-
159
- /** \returns a non-constant reference to the unit normal vector of the plane, which corresponds
160
- * to the linear part of the implicit equation.
161
- */
162
- EIGEN_DEVICE_FUNC inline NormalReturnType normal() { return NormalReturnType(m_coeffs,0,0,dim(),1); }
163
-
164
- /** \returns the distance to the origin, which is also the "constant term" of the implicit equation
165
- * \warning the vector normal is assumed to be normalized.
166
- */
167
- EIGEN_DEVICE_FUNC inline const Scalar& offset() const { return m_coeffs.coeff(dim()); }
168
-
169
- /** \returns a non-constant reference to the distance to the origin, which is also the constant part
170
- * of the implicit equation */
171
- EIGEN_DEVICE_FUNC inline Scalar& offset() { return m_coeffs(dim()); }
172
-
173
- /** \returns a constant reference to the coefficients c_i of the plane equation:
174
- * \f$ c_0*x_0 + ... + c_{d-1}*x_{d-1} + c_d = 0 \f$
175
- */
176
- EIGEN_DEVICE_FUNC inline const Coefficients& coeffs() const { return m_coeffs; }
177
-
178
- /** \returns a non-constant reference to the coefficients c_i of the plane equation:
179
- * \f$ c_0*x_0 + ... + c_{d-1}*x_{d-1} + c_d = 0 \f$
180
- */
181
- EIGEN_DEVICE_FUNC inline Coefficients& coeffs() { return m_coeffs; }
182
-
183
- /** \returns the intersection of *this with \a other.
184
- *
185
- * \warning The ambient space must be a plane, i.e. have dimension 2, so that \c *this and \a other are lines.
186
- *
187
- * \note If \a other is approximately parallel to *this, this method will return any point on *this.
188
- */
189
- EIGEN_DEVICE_FUNC VectorType intersection(const Hyperplane& other) const
190
- {
191
- EIGEN_STATIC_ASSERT_VECTOR_SPECIFIC_SIZE(VectorType, 2)
192
- Scalar det = coeffs().coeff(0) * other.coeffs().coeff(1) - coeffs().coeff(1) * other.coeffs().coeff(0);
193
- // since the line equations ax+by=c are normalized with a^2+b^2=1, the following tests
194
- // whether the two lines are approximately parallel.
195
- if(internal::isMuchSmallerThan(det, Scalar(1)))
196
- { // special case where the two lines are approximately parallel. Pick any point on the first line.
197
- if(numext::abs(coeffs().coeff(1))>numext::abs(coeffs().coeff(0)))
198
- return VectorType(coeffs().coeff(1), -coeffs().coeff(2)/coeffs().coeff(1)-coeffs().coeff(0));
199
- else
200
- return VectorType(-coeffs().coeff(2)/coeffs().coeff(0)-coeffs().coeff(1), coeffs().coeff(0));
201
- }
202
- else
203
- { // general case
204
- Scalar invdet = Scalar(1) / det;
205
- return VectorType(invdet*(coeffs().coeff(1)*other.coeffs().coeff(2)-other.coeffs().coeff(1)*coeffs().coeff(2)),
206
- invdet*(other.coeffs().coeff(0)*coeffs().coeff(2)-coeffs().coeff(0)*other.coeffs().coeff(2)));
207
- }
208
- }
209
-
210
- /** Applies the transformation matrix \a mat to \c *this and returns a reference to \c *this.
211
- *
212
- * \param mat the Dim x Dim transformation matrix
213
- * \param traits specifies whether the matrix \a mat represents an #Isometry
214
- * or a more generic #Affine transformation. The default is #Affine.
215
- */
216
- template<typename XprType>
217
- EIGEN_DEVICE_FUNC inline Hyperplane& transform(const MatrixBase<XprType>& mat, TransformTraits traits = Affine)
218
- {
219
- if (traits==Affine)
220
- {
221
- normal() = mat.inverse().transpose() * normal();
222
- m_coeffs /= normal().norm();
223
- }
224
- else if (traits==Isometry)
225
- normal() = mat * normal();
226
- else
227
- {
228
- eigen_assert(0 && "invalid traits value in Hyperplane::transform()");
229
- }
230
- return *this;
231
- }
232
-
233
- /** Applies the transformation \a t to \c *this and returns a reference to \c *this.
234
- *
235
- * \param t the transformation of dimension Dim
236
- * \param traits specifies whether the transformation \a t represents an #Isometry
237
- * or a more generic #Affine transformation. The default is #Affine.
238
- * Other kind of transformations are not supported.
239
- */
240
- template<int TrOptions>
241
- EIGEN_DEVICE_FUNC inline Hyperplane& transform(const Transform<Scalar,AmbientDimAtCompileTime,Affine,TrOptions>& t,
242
- TransformTraits traits = Affine)
243
- {
244
- transform(t.linear(), traits);
245
- offset() -= normal().dot(t.translation());
246
- return *this;
247
- }
248
-
249
- /** \returns \c *this with scalar type casted to \a NewScalarType
250
- *
251
- * Note that if \a NewScalarType is equal to the current scalar type of \c *this
252
- * then this function smartly returns a const reference to \c *this.
253
- */
254
- template<typename NewScalarType>
255
- EIGEN_DEVICE_FUNC inline typename internal::cast_return_type<Hyperplane,
256
- Hyperplane<NewScalarType,AmbientDimAtCompileTime,Options> >::type cast() const
257
- {
258
- return typename internal::cast_return_type<Hyperplane,
259
- Hyperplane<NewScalarType,AmbientDimAtCompileTime,Options> >::type(*this);
260
- }
261
-
262
- /** Copy constructor with scalar type conversion */
263
- template<typename OtherScalarType,int OtherOptions>
264
- EIGEN_DEVICE_FUNC inline explicit Hyperplane(const Hyperplane<OtherScalarType,AmbientDimAtCompileTime,OtherOptions>& other)
265
- { m_coeffs = other.coeffs().template cast<Scalar>(); }
266
-
267
- /** \returns \c true if \c *this is approximately equal to \a other, within the precision
268
- * determined by \a prec.
269
- *
270
- * \sa MatrixBase::isApprox() */
271
- template<int OtherOptions>
272
- EIGEN_DEVICE_FUNC bool isApprox(const Hyperplane<Scalar,AmbientDimAtCompileTime,OtherOptions>& other, const typename NumTraits<Scalar>::Real& prec = NumTraits<Scalar>::dummy_precision()) const
273
- { return m_coeffs.isApprox(other.m_coeffs, prec); }
274
-
275
- protected:
276
-
277
- Coefficients m_coeffs;
278
- };
279
-
280
- } // end namespace Eigen
281
-
282
- #endif // EIGEN_HYPERPLANE_H
@@ -1,235 +0,0 @@
1
- // This file is part of Eigen, a lightweight C++ template library
2
- // for linear algebra.
3
- //
4
- // Copyright (C) 2008-2009 Gael Guennebaud <gael.guennebaud@inria.fr>
5
- // Copyright (C) 2006-2008 Benoit Jacob <jacob.benoit.1@gmail.com>
6
- //
7
- // This Source Code Form is subject to the terms of the Mozilla
8
- // Public License v. 2.0. If a copy of the MPL was not distributed
9
- // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
10
-
11
- #ifndef EIGEN_ORTHOMETHODS_H
12
- #define EIGEN_ORTHOMETHODS_H
13
-
14
- namespace Eigen {
15
-
16
- /** \geometry_module \ingroup Geometry_Module
17
- *
18
- * \returns the cross product of \c *this and \a other
19
- *
20
- * Here is a very good explanation of cross-product: http://xkcd.com/199/
21
- *
22
- * With complex numbers, the cross product is implemented as
23
- * \f$ (\mathbf{a}+i\mathbf{b}) \times (\mathbf{c}+i\mathbf{d}) = (\mathbf{a} \times \mathbf{c} - \mathbf{b} \times \mathbf{d}) - i(\mathbf{a} \times \mathbf{d} - \mathbf{b} \times \mathbf{c})\f$
24
- *
25
- * \sa MatrixBase::cross3()
26
- */
27
- template<typename Derived>
28
- template<typename OtherDerived>
29
- #ifndef EIGEN_PARSED_BY_DOXYGEN
30
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE
31
- typename MatrixBase<Derived>::template cross_product_return_type<OtherDerived>::type
32
- #else
33
- typename MatrixBase<Derived>::PlainObject
34
- #endif
35
- MatrixBase<Derived>::cross(const MatrixBase<OtherDerived>& other) const
36
- {
37
- EIGEN_STATIC_ASSERT_VECTOR_SPECIFIC_SIZE(Derived,3)
38
- EIGEN_STATIC_ASSERT_VECTOR_SPECIFIC_SIZE(OtherDerived,3)
39
-
40
- // Note that there is no need for an expression here since the compiler
41
- // optimize such a small temporary very well (even within a complex expression)
42
- typename internal::nested_eval<Derived,2>::type lhs(derived());
43
- typename internal::nested_eval<OtherDerived,2>::type rhs(other.derived());
44
- return typename cross_product_return_type<OtherDerived>::type(
45
- numext::conj(lhs.coeff(1) * rhs.coeff(2) - lhs.coeff(2) * rhs.coeff(1)),
46
- numext::conj(lhs.coeff(2) * rhs.coeff(0) - lhs.coeff(0) * rhs.coeff(2)),
47
- numext::conj(lhs.coeff(0) * rhs.coeff(1) - lhs.coeff(1) * rhs.coeff(0))
48
- );
49
- }
50
-
51
- namespace internal {
52
-
53
- template< int Arch,typename VectorLhs,typename VectorRhs,
54
- typename Scalar = typename VectorLhs::Scalar,
55
- bool Vectorizable = bool((VectorLhs::Flags&VectorRhs::Flags)&PacketAccessBit)>
56
- struct cross3_impl {
57
- EIGEN_DEVICE_FUNC static inline typename internal::plain_matrix_type<VectorLhs>::type
58
- run(const VectorLhs& lhs, const VectorRhs& rhs)
59
- {
60
- return typename internal::plain_matrix_type<VectorLhs>::type(
61
- numext::conj(lhs.coeff(1) * rhs.coeff(2) - lhs.coeff(2) * rhs.coeff(1)),
62
- numext::conj(lhs.coeff(2) * rhs.coeff(0) - lhs.coeff(0) * rhs.coeff(2)),
63
- numext::conj(lhs.coeff(0) * rhs.coeff(1) - lhs.coeff(1) * rhs.coeff(0)),
64
- 0
65
- );
66
- }
67
- };
68
-
69
- }
70
-
71
- /** \geometry_module \ingroup Geometry_Module
72
- *
73
- * \returns the cross product of \c *this and \a other using only the x, y, and z coefficients
74
- *
75
- * The size of \c *this and \a other must be four. This function is especially useful
76
- * when using 4D vectors instead of 3D ones to get advantage of SSE/AltiVec vectorization.
77
- *
78
- * \sa MatrixBase::cross()
79
- */
80
- template<typename Derived>
81
- template<typename OtherDerived>
82
- EIGEN_DEVICE_FUNC inline typename MatrixBase<Derived>::PlainObject
83
- MatrixBase<Derived>::cross3(const MatrixBase<OtherDerived>& other) const
84
- {
85
- EIGEN_STATIC_ASSERT_VECTOR_SPECIFIC_SIZE(Derived,4)
86
- EIGEN_STATIC_ASSERT_VECTOR_SPECIFIC_SIZE(OtherDerived,4)
87
-
88
- typedef typename internal::nested_eval<Derived,2>::type DerivedNested;
89
- typedef typename internal::nested_eval<OtherDerived,2>::type OtherDerivedNested;
90
- DerivedNested lhs(derived());
91
- OtherDerivedNested rhs(other.derived());
92
-
93
- return internal::cross3_impl<Architecture::Target,
94
- typename internal::remove_all<DerivedNested>::type,
95
- typename internal::remove_all<OtherDerivedNested>::type>::run(lhs,rhs);
96
- }
97
-
98
- /** \geometry_module \ingroup Geometry_Module
99
- *
100
- * \returns a matrix expression of the cross product of each column or row
101
- * of the referenced expression with the \a other vector.
102
- *
103
- * The referenced matrix must have one dimension equal to 3.
104
- * The result matrix has the same dimensions than the referenced one.
105
- *
106
- * \sa MatrixBase::cross() */
107
- template<typename ExpressionType, int Direction>
108
- template<typename OtherDerived>
109
- EIGEN_DEVICE_FUNC
110
- const typename VectorwiseOp<ExpressionType,Direction>::CrossReturnType
111
- VectorwiseOp<ExpressionType,Direction>::cross(const MatrixBase<OtherDerived>& other) const
112
- {
113
- EIGEN_STATIC_ASSERT_VECTOR_SPECIFIC_SIZE(OtherDerived,3)
114
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, typename OtherDerived::Scalar>::value),
115
- YOU_MIXED_DIFFERENT_NUMERIC_TYPES__YOU_NEED_TO_USE_THE_CAST_METHOD_OF_MATRIXBASE_TO_CAST_NUMERIC_TYPES_EXPLICITLY)
116
-
117
- typename internal::nested_eval<ExpressionType,2>::type mat(_expression());
118
- typename internal::nested_eval<OtherDerived,2>::type vec(other.derived());
119
-
120
- CrossReturnType res(_expression().rows(),_expression().cols());
121
- if(Direction==Vertical)
122
- {
123
- eigen_assert(CrossReturnType::RowsAtCompileTime==3 && "the matrix must have exactly 3 rows");
124
- res.row(0) = (mat.row(1) * vec.coeff(2) - mat.row(2) * vec.coeff(1)).conjugate();
125
- res.row(1) = (mat.row(2) * vec.coeff(0) - mat.row(0) * vec.coeff(2)).conjugate();
126
- res.row(2) = (mat.row(0) * vec.coeff(1) - mat.row(1) * vec.coeff(0)).conjugate();
127
- }
128
- else
129
- {
130
- eigen_assert(CrossReturnType::ColsAtCompileTime==3 && "the matrix must have exactly 3 columns");
131
- res.col(0) = (mat.col(1) * vec.coeff(2) - mat.col(2) * vec.coeff(1)).conjugate();
132
- res.col(1) = (mat.col(2) * vec.coeff(0) - mat.col(0) * vec.coeff(2)).conjugate();
133
- res.col(2) = (mat.col(0) * vec.coeff(1) - mat.col(1) * vec.coeff(0)).conjugate();
134
- }
135
- return res;
136
- }
137
-
138
- namespace internal {
139
-
140
- template<typename Derived, int Size = Derived::SizeAtCompileTime>
141
- struct unitOrthogonal_selector
142
- {
143
- typedef typename plain_matrix_type<Derived>::type VectorType;
144
- typedef typename traits<Derived>::Scalar Scalar;
145
- typedef typename NumTraits<Scalar>::Real RealScalar;
146
- typedef Matrix<Scalar,2,1> Vector2;
147
- EIGEN_DEVICE_FUNC
148
- static inline VectorType run(const Derived& src)
149
- {
150
- VectorType perp = VectorType::Zero(src.size());
151
- Index maxi = 0;
152
- Index sndi = 0;
153
- src.cwiseAbs().maxCoeff(&maxi);
154
- if (maxi==0)
155
- sndi = 1;
156
- RealScalar invnm = RealScalar(1)/(Vector2() << src.coeff(sndi),src.coeff(maxi)).finished().norm();
157
- perp.coeffRef(maxi) = -numext::conj(src.coeff(sndi)) * invnm;
158
- perp.coeffRef(sndi) = numext::conj(src.coeff(maxi)) * invnm;
159
-
160
- return perp;
161
- }
162
- };
163
-
164
- template<typename Derived>
165
- struct unitOrthogonal_selector<Derived,3>
166
- {
167
- typedef typename plain_matrix_type<Derived>::type VectorType;
168
- typedef typename traits<Derived>::Scalar Scalar;
169
- typedef typename NumTraits<Scalar>::Real RealScalar;
170
- EIGEN_DEVICE_FUNC
171
- static inline VectorType run(const Derived& src)
172
- {
173
- VectorType perp;
174
- /* Let us compute the crossed product of *this with a vector
175
- * that is not too close to being colinear to *this.
176
- */
177
-
178
- /* unless the x and y coords are both close to zero, we can
179
- * simply take ( -y, x, 0 ) and normalize it.
180
- */
181
- if((!isMuchSmallerThan(src.x(), src.z()))
182
- || (!isMuchSmallerThan(src.y(), src.z())))
183
- {
184
- RealScalar invnm = RealScalar(1)/src.template head<2>().norm();
185
- perp.coeffRef(0) = -numext::conj(src.y())*invnm;
186
- perp.coeffRef(1) = numext::conj(src.x())*invnm;
187
- perp.coeffRef(2) = 0;
188
- }
189
- /* if both x and y are close to zero, then the vector is close
190
- * to the z-axis, so it's far from colinear to the x-axis for instance.
191
- * So we take the crossed product with (1,0,0) and normalize it.
192
- */
193
- else
194
- {
195
- RealScalar invnm = RealScalar(1)/src.template tail<2>().norm();
196
- perp.coeffRef(0) = 0;
197
- perp.coeffRef(1) = -numext::conj(src.z())*invnm;
198
- perp.coeffRef(2) = numext::conj(src.y())*invnm;
199
- }
200
-
201
- return perp;
202
- }
203
- };
204
-
205
- template<typename Derived>
206
- struct unitOrthogonal_selector<Derived,2>
207
- {
208
- typedef typename plain_matrix_type<Derived>::type VectorType;
209
- EIGEN_DEVICE_FUNC
210
- static inline VectorType run(const Derived& src)
211
- { return VectorType(-numext::conj(src.y()), numext::conj(src.x())).normalized(); }
212
- };
213
-
214
- } // end namespace internal
215
-
216
- /** \geometry_module \ingroup Geometry_Module
217
- *
218
- * \returns a unit vector which is orthogonal to \c *this
219
- *
220
- * The size of \c *this must be at least 2. If the size is exactly 2,
221
- * then the returned vector is a counter clock wise rotation of \c *this, i.e., (-y,x).normalized().
222
- *
223
- * \sa cross()
224
- */
225
- template<typename Derived>
226
- EIGEN_DEVICE_FUNC typename MatrixBase<Derived>::PlainObject
227
- MatrixBase<Derived>::unitOrthogonal() const
228
- {
229
- EIGEN_STATIC_ASSERT_VECTOR_ONLY(Derived)
230
- return internal::unitOrthogonal_selector<Derived>::run(derived());
231
- }
232
-
233
- } // end namespace Eigen
234
-
235
- #endif // EIGEN_ORTHOMETHODS_H