sequenzo 0.1.18__cp310-cp310-macosx_10_9_universal2.whl → 0.1.20__cp310-cp310-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 +155 -155
  3. sequenzo/big_data/clara/utils/get_weighted_diss.cpython-310-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 +155 -155
  10. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cpython-310-darwin.so +0 -0
  11. sequenzo/dissimilarity_measures/utils/seqconc.c +155 -155
  12. sequenzo/dissimilarity_measures/utils/seqconc.cpython-310-darwin.so +0 -0
  13. sequenzo/dissimilarity_measures/utils/seqdss.c +155 -155
  14. sequenzo/dissimilarity_measures/utils/seqdss.cpython-310-darwin.so +0 -0
  15. sequenzo/dissimilarity_measures/utils/seqdur.c +155 -155
  16. sequenzo/dissimilarity_measures/utils/seqdur.cpython-310-darwin.so +0 -0
  17. sequenzo/dissimilarity_measures/utils/seqlength.c +155 -155
  18. sequenzo/dissimilarity_measures/utils/seqlength.cpython-310-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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@@ -1,355 +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) 2015 Tal Hadad <tal_hd@hotmail.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_EULERANGLESCLASS_H// TODO: Fix previous "EIGEN_EULERANGLES_H" definition?
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- #define EIGEN_EULERANGLESCLASS_H
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-
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- namespace Eigen
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- {
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- /** \class EulerAngles
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- *
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- * \ingroup EulerAngles_Module
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- *
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- * \brief Represents a rotation in a 3 dimensional space as three Euler angles.
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- *
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- * Euler rotation is a set of three rotation of three angles over three fixed axes, defined by the EulerSystem given as a template parameter.
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- *
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- * Here is how intrinsic Euler angles works:
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- * - first, rotate the axes system over the alpha axis in angle alpha
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- * - then, rotate the axes system over the beta axis(which was rotated in the first stage) in angle beta
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- * - then, rotate the axes system over the gamma axis(which was rotated in the two stages above) in angle gamma
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- *
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- * \note This class support only intrinsic Euler angles for simplicity,
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- * see EulerSystem how to easily overcome this for extrinsic systems.
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- *
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- * ### Rotation representation and conversions ###
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- *
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- * It has been proved(see Wikipedia link below) that every rotation can be represented
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- * by Euler angles, but there is no single representation (e.g. unlike rotation matrices).
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- * Therefore, you can convert from Eigen rotation and to them
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- * (including rotation matrices, which is not called "rotations" by Eigen design).
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- *
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- * Euler angles usually used for:
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- * - convenient human representation of rotation, especially in interactive GUI.
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- * - gimbal systems and robotics
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- * - efficient encoding(i.e. 3 floats only) of rotation for network protocols.
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- *
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- * However, Euler angles are slow comparing to quaternion or matrices,
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- * because their unnatural math definition, although it's simple for human.
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- * To overcome this, this class provide easy movement from the math friendly representation
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- * to the human friendly representation, and vise-versa.
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- *
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- * All the user need to do is a safe simple C++ type conversion,
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- * and this class take care for the math.
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- * Additionally, some axes related computation is done in compile time.
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- *
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- * #### Euler angles ranges in conversions ####
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- * Rotations representation as EulerAngles are not single (unlike matrices),
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- * and even have infinite EulerAngles representations.<BR>
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- * For example, add or subtract 2*PI from either angle of EulerAngles
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- * and you'll get the same rotation.
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- * This is the general reason for infinite representation,
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- * but it's not the only general reason for not having a single representation.
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- *
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- * When converting rotation to EulerAngles, this class convert it to specific ranges
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- * When converting some rotation to EulerAngles, the rules for ranges are as follow:
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- * - If the rotation we converting from is an EulerAngles
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- * (even when it represented as RotationBase explicitly), angles ranges are __undefined__.
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- * - otherwise, alpha and gamma angles will be in the range [-PI, PI].<BR>
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- * As for Beta angle:
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- * - If the system is Tait-Bryan, the beta angle will be in the range [-PI/2, PI/2].
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- * - otherwise:
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- * - If the beta axis is positive, the beta angle will be in the range [0, PI]
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- * - If the beta axis is negative, the beta angle will be in the range [-PI, 0]
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- *
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- * \sa EulerAngles(const MatrixBase<Derived>&)
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- * \sa EulerAngles(const RotationBase<Derived, 3>&)
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- *
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- * ### Convenient user typedefs ###
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- *
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- * Convenient typedefs for EulerAngles exist for float and double scalar,
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- * in a form of EulerAngles{A}{B}{C}{scalar},
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- * e.g. \ref EulerAnglesXYZd, \ref EulerAnglesZYZf.
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- *
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- * Only for positive axes{+x,+y,+z} Euler systems are have convenient typedef.
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- * If you need negative axes{-x,-y,-z}, it is recommended to create you own typedef with
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- * a word that represent what you need.
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- *
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- * ### Example ###
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- *
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- * \include EulerAngles.cpp
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- * Output: \verbinclude EulerAngles.out
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- *
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- * ### Additional reading ###
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- *
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- * If you're want to get more idea about how Euler system work in Eigen see EulerSystem.
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- *
93
- * More information about Euler angles: https://en.wikipedia.org/wiki/Euler_angles
94
- *
95
- * \tparam _Scalar the scalar type, i.e. the type of the angles.
96
- *
97
- * \tparam _System the EulerSystem to use, which represents the axes of rotation.
98
- */
99
- template <typename _Scalar, class _System>
100
- class EulerAngles : public RotationBase<EulerAngles<_Scalar, _System>, 3>
101
- {
102
- public:
103
- typedef RotationBase<EulerAngles<_Scalar, _System>, 3> Base;
104
-
105
- /** the scalar type of the angles */
106
- typedef _Scalar Scalar;
107
- typedef typename NumTraits<Scalar>::Real RealScalar;
108
-
109
- /** the EulerSystem to use, which represents the axes of rotation. */
110
- typedef _System System;
111
-
112
- typedef Matrix<Scalar,3,3> Matrix3; /*!< the equivalent rotation matrix type */
113
- typedef Matrix<Scalar,3,1> Vector3; /*!< the equivalent 3 dimension vector type */
114
- typedef Quaternion<Scalar> QuaternionType; /*!< the equivalent quaternion type */
115
- typedef AngleAxis<Scalar> AngleAxisType; /*!< the equivalent angle-axis type */
116
-
117
- /** \returns the axis vector of the first (alpha) rotation */
118
- static Vector3 AlphaAxisVector() {
119
- const Vector3& u = Vector3::Unit(System::AlphaAxisAbs - 1);
120
- return System::IsAlphaOpposite ? -u : u;
121
- }
122
-
123
- /** \returns the axis vector of the second (beta) rotation */
124
- static Vector3 BetaAxisVector() {
125
- const Vector3& u = Vector3::Unit(System::BetaAxisAbs - 1);
126
- return System::IsBetaOpposite ? -u : u;
127
- }
128
-
129
- /** \returns the axis vector of the third (gamma) rotation */
130
- static Vector3 GammaAxisVector() {
131
- const Vector3& u = Vector3::Unit(System::GammaAxisAbs - 1);
132
- return System::IsGammaOpposite ? -u : u;
133
- }
134
-
135
- private:
136
- Vector3 m_angles;
137
-
138
- public:
139
- /** Default constructor without initialization. */
140
- EulerAngles() {}
141
- /** Constructs and initialize an EulerAngles (\p alpha, \p beta, \p gamma). */
142
- EulerAngles(const Scalar& alpha, const Scalar& beta, const Scalar& gamma) :
143
- m_angles(alpha, beta, gamma) {}
144
-
145
- // TODO: Test this constructor
146
- /** Constructs and initialize an EulerAngles from the array data {alpha, beta, gamma} */
147
- explicit EulerAngles(const Scalar* data) : m_angles(data) {}
148
-
149
- /** Constructs and initializes an EulerAngles from either:
150
- * - a 3x3 rotation matrix expression(i.e. pure orthogonal matrix with determinant of +1),
151
- * - a 3D vector expression representing Euler angles.
152
- *
153
- * \note If \p other is a 3x3 rotation matrix, the angles range rules will be as follow:<BR>
154
- * Alpha and gamma angles will be in the range [-PI, PI].<BR>
155
- * As for Beta angle:
156
- * - If the system is Tait-Bryan, the beta angle will be in the range [-PI/2, PI/2].
157
- * - otherwise:
158
- * - If the beta axis is positive, the beta angle will be in the range [0, PI]
159
- * - If the beta axis is negative, the beta angle will be in the range [-PI, 0]
160
- */
161
- template<typename Derived>
162
- explicit EulerAngles(const MatrixBase<Derived>& other) { *this = other; }
163
-
164
- /** Constructs and initialize Euler angles from a rotation \p rot.
165
- *
166
- * \note If \p rot is an EulerAngles (even when it represented as RotationBase explicitly),
167
- * angles ranges are __undefined__.
168
- * Otherwise, alpha and gamma angles will be in the range [-PI, PI].<BR>
169
- * As for Beta angle:
170
- * - If the system is Tait-Bryan, the beta angle will be in the range [-PI/2, PI/2].
171
- * - otherwise:
172
- * - If the beta axis is positive, the beta angle will be in the range [0, PI]
173
- * - If the beta axis is negative, the beta angle will be in the range [-PI, 0]
174
- */
175
- template<typename Derived>
176
- EulerAngles(const RotationBase<Derived, 3>& rot) { System::CalcEulerAngles(*this, rot.toRotationMatrix()); }
177
-
178
- /*EulerAngles(const QuaternionType& q)
179
- {
180
- // TODO: Implement it in a faster way for quaternions
181
- // According to http://www.euclideanspace.com/maths/geometry/rotations/conversions/quaternionToEuler/
182
- // we can compute only the needed matrix cells and then convert to euler angles. (see ZYX example below)
183
- // Currently we compute all matrix cells from quaternion.
184
-
185
- // Special case only for ZYX
186
- //Scalar y2 = q.y() * q.y();
187
- //m_angles[0] = std::atan2(2*(q.w()*q.z() + q.x()*q.y()), (1 - 2*(y2 + q.z()*q.z())));
188
- //m_angles[1] = std::asin( 2*(q.w()*q.y() - q.z()*q.x()));
189
- //m_angles[2] = std::atan2(2*(q.w()*q.x() + q.y()*q.z()), (1 - 2*(q.x()*q.x() + y2)));
190
- }*/
191
-
192
- /** \returns The angle values stored in a vector (alpha, beta, gamma). */
193
- const Vector3& angles() const { return m_angles; }
194
- /** \returns A read-write reference to the angle values stored in a vector (alpha, beta, gamma). */
195
- Vector3& angles() { return m_angles; }
196
-
197
- /** \returns The value of the first angle. */
198
- Scalar alpha() const { return m_angles[0]; }
199
- /** \returns A read-write reference to the angle of the first angle. */
200
- Scalar& alpha() { return m_angles[0]; }
201
-
202
- /** \returns The value of the second angle. */
203
- Scalar beta() const { return m_angles[1]; }
204
- /** \returns A read-write reference to the angle of the second angle. */
205
- Scalar& beta() { return m_angles[1]; }
206
-
207
- /** \returns The value of the third angle. */
208
- Scalar gamma() const { return m_angles[2]; }
209
- /** \returns A read-write reference to the angle of the third angle. */
210
- Scalar& gamma() { return m_angles[2]; }
211
-
212
- /** \returns The Euler angles rotation inverse (which is as same as the negative),
213
- * (-alpha, -beta, -gamma).
214
- */
215
- EulerAngles inverse() const
216
- {
217
- EulerAngles res;
218
- res.m_angles = -m_angles;
219
- return res;
220
- }
221
-
222
- /** \returns The Euler angles rotation negative (which is as same as the inverse),
223
- * (-alpha, -beta, -gamma).
224
- */
225
- EulerAngles operator -() const
226
- {
227
- return inverse();
228
- }
229
-
230
- /** Set \c *this from either:
231
- * - a 3x3 rotation matrix expression(i.e. pure orthogonal matrix with determinant of +1),
232
- * - a 3D vector expression representing Euler angles.
233
- *
234
- * See EulerAngles(const MatrixBase<Derived, 3>&) for more information about
235
- * angles ranges output.
236
- */
237
- template<class Derived>
238
- EulerAngles& operator=(const MatrixBase<Derived>& other)
239
- {
240
- EIGEN_STATIC_ASSERT((internal::is_same<Scalar, typename Derived::Scalar>::value),
241
- YOU_MIXED_DIFFERENT_NUMERIC_TYPES__YOU_NEED_TO_USE_THE_CAST_METHOD_OF_MATRIXBASE_TO_CAST_NUMERIC_TYPES_EXPLICITLY)
242
-
243
- internal::eulerangles_assign_impl<System, Derived>::run(*this, other.derived());
244
- return *this;
245
- }
246
-
247
- // TODO: Assign and construct from another EulerAngles (with different system)
248
-
249
- /** Set \c *this from a rotation.
250
- *
251
- * See EulerAngles(const RotationBase<Derived, 3>&) for more information about
252
- * angles ranges output.
253
- */
254
- template<typename Derived>
255
- EulerAngles& operator=(const RotationBase<Derived, 3>& rot) {
256
- System::CalcEulerAngles(*this, rot.toRotationMatrix());
257
- return *this;
258
- }
259
-
260
- /** \returns \c true if \c *this is approximately equal to \a other, within the precision
261
- * determined by \a prec.
262
- *
263
- * \sa MatrixBase::isApprox() */
264
- bool isApprox(const EulerAngles& other,
265
- const RealScalar& prec = NumTraits<Scalar>::dummy_precision()) const
266
- { return angles().isApprox(other.angles(), prec); }
267
-
268
- /** \returns an equivalent 3x3 rotation matrix. */
269
- Matrix3 toRotationMatrix() const
270
- {
271
- // TODO: Calc it faster
272
- return static_cast<QuaternionType>(*this).toRotationMatrix();
273
- }
274
-
275
- /** Convert the Euler angles to quaternion. */
276
- operator QuaternionType() const
277
- {
278
- return
279
- AngleAxisType(alpha(), AlphaAxisVector()) *
280
- AngleAxisType(beta(), BetaAxisVector()) *
281
- AngleAxisType(gamma(), GammaAxisVector());
282
- }
283
-
284
- friend std::ostream& operator<<(std::ostream& s, const EulerAngles<Scalar, System>& eulerAngles)
285
- {
286
- s << eulerAngles.angles().transpose();
287
- return s;
288
- }
289
-
290
- /** \returns \c *this with scalar type casted to \a NewScalarType */
291
- template <typename NewScalarType>
292
- EulerAngles<NewScalarType, System> cast() const
293
- {
294
- EulerAngles<NewScalarType, System> e;
295
- e.angles() = angles().template cast<NewScalarType>();
296
- return e;
297
- }
298
- };
299
-
300
- #define EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(AXES, SCALAR_TYPE, SCALAR_POSTFIX) \
301
- /** \ingroup EulerAngles_Module */ \
302
- typedef EulerAngles<SCALAR_TYPE, EulerSystem##AXES> EulerAngles##AXES##SCALAR_POSTFIX;
303
-
304
- #define EIGEN_EULER_ANGLES_TYPEDEFS(SCALAR_TYPE, SCALAR_POSTFIX) \
305
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(XYZ, SCALAR_TYPE, SCALAR_POSTFIX) \
306
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(XYX, SCALAR_TYPE, SCALAR_POSTFIX) \
307
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(XZY, SCALAR_TYPE, SCALAR_POSTFIX) \
308
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(XZX, SCALAR_TYPE, SCALAR_POSTFIX) \
309
- \
310
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(YZX, SCALAR_TYPE, SCALAR_POSTFIX) \
311
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(YZY, SCALAR_TYPE, SCALAR_POSTFIX) \
312
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(YXZ, SCALAR_TYPE, SCALAR_POSTFIX) \
313
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(YXY, SCALAR_TYPE, SCALAR_POSTFIX) \
314
- \
315
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(ZXY, SCALAR_TYPE, SCALAR_POSTFIX) \
316
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(ZXZ, SCALAR_TYPE, SCALAR_POSTFIX) \
317
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(ZYX, SCALAR_TYPE, SCALAR_POSTFIX) \
318
- EIGEN_EULER_ANGLES_SINGLE_TYPEDEF(ZYZ, SCALAR_TYPE, SCALAR_POSTFIX)
319
-
320
- EIGEN_EULER_ANGLES_TYPEDEFS(float, f)
321
- EIGEN_EULER_ANGLES_TYPEDEFS(double, d)
322
-
323
- namespace internal
324
- {
325
- template<typename _Scalar, class _System>
326
- struct traits<EulerAngles<_Scalar, _System> >
327
- {
328
- typedef _Scalar Scalar;
329
- };
330
-
331
- // set from a rotation matrix
332
- template<class System, class Other>
333
- struct eulerangles_assign_impl<System,Other,3,3>
334
- {
335
- typedef typename Other::Scalar Scalar;
336
- static void run(EulerAngles<Scalar, System>& e, const Other& m)
337
- {
338
- System::CalcEulerAngles(e, m);
339
- }
340
- };
341
-
342
- // set from a vector of Euler angles
343
- template<class System, class Other>
344
- struct eulerangles_assign_impl<System,Other,3,1>
345
- {
346
- typedef typename Other::Scalar Scalar;
347
- static void run(EulerAngles<Scalar, System>& e, const Other& vec)
348
- {
349
- e.angles() = vec;
350
- }
351
- };
352
- }
353
- }
354
-
355
- #endif // EIGEN_EULERANGLESCLASS_H
@@ -1,305 +0,0 @@
1
- // This file is part of Eigen, a lightweight C++ template library
2
- // for linear algebra.
3
- //
4
- // Copyright (C) 2015 Tal Hadad <tal_hd@hotmail.com>
5
- //
6
- // This Source Code Form is subject to the terms of the Mozilla
7
- // Public License v. 2.0. If a copy of the MPL was not distributed
8
- // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
9
-
10
- #ifndef EIGEN_EULERSYSTEM_H
11
- #define EIGEN_EULERSYSTEM_H
12
-
13
- namespace Eigen
14
- {
15
- // Forward declarations
16
- template <typename _Scalar, class _System>
17
- class EulerAngles;
18
-
19
- namespace internal
20
- {
21
- // TODO: Add this trait to the Eigen internal API?
22
- template <int Num, bool IsPositive = (Num > 0)>
23
- struct Abs
24
- {
25
- enum { value = Num };
26
- };
27
-
28
- template <int Num>
29
- struct Abs<Num, false>
30
- {
31
- enum { value = -Num };
32
- };
33
-
34
- template <int Axis>
35
- struct IsValidAxis
36
- {
37
- enum { value = Axis != 0 && Abs<Axis>::value <= 3 };
38
- };
39
-
40
- template<typename System,
41
- typename Other,
42
- int OtherRows=Other::RowsAtCompileTime,
43
- int OtherCols=Other::ColsAtCompileTime>
44
- struct eulerangles_assign_impl;
45
- }
46
-
47
- #define EIGEN_EULER_ANGLES_CLASS_STATIC_ASSERT(COND,MSG) typedef char static_assertion_##MSG[(COND)?1:-1]
48
-
49
- /** \brief Representation of a fixed signed rotation axis for EulerSystem.
50
- *
51
- * \ingroup EulerAngles_Module
52
- *
53
- * Values here represent:
54
- * - The axis of the rotation: X, Y or Z.
55
- * - The sign (i.e. direction of the rotation along the axis): positive(+) or negative(-)
56
- *
57
- * Therefore, this could express all the axes {+X,+Y,+Z,-X,-Y,-Z}
58
- *
59
- * For positive axis, use +EULER_{axis}, and for negative axis use -EULER_{axis}.
60
- */
61
- enum EulerAxis
62
- {
63
- EULER_X = 1, /*!< the X axis */
64
- EULER_Y = 2, /*!< the Y axis */
65
- EULER_Z = 3 /*!< the Z axis */
66
- };
67
-
68
- /** \class EulerSystem
69
- *
70
- * \ingroup EulerAngles_Module
71
- *
72
- * \brief Represents a fixed Euler rotation system.
73
- *
74
- * This meta-class goal is to represent the Euler system in compilation time, for EulerAngles.
75
- *
76
- * You can use this class to get two things:
77
- * - Build an Euler system, and then pass it as a template parameter to EulerAngles.
78
- * - Query some compile time data about an Euler system. (e.g. Whether it's Tait-Bryan)
79
- *
80
- * Euler rotation is a set of three rotation on fixed axes. (see \ref EulerAngles)
81
- * This meta-class store constantly those signed axes. (see \ref EulerAxis)
82
- *
83
- * ### Types of Euler systems ###
84
- *
85
- * All and only valid 3 dimension Euler rotation over standard
86
- * signed axes{+X,+Y,+Z,-X,-Y,-Z} are supported:
87
- * - all axes X, Y, Z in each valid order (see below what order is valid)
88
- * - rotation over the axis is supported both over the positive and negative directions.
89
- * - both Tait-Bryan and proper/classic Euler angles (i.e. the opposite).
90
- *
91
- * Since EulerSystem support both positive and negative directions,
92
- * you may call this rotation distinction in other names:
93
- * - _right handed_ or _left handed_
94
- * - _counterclockwise_ or _clockwise_
95
- *
96
- * Notice all axed combination are valid, and would trigger a static assertion.
97
- * Same unsigned axes can't be neighbors, e.g. {X,X,Y} is invalid.
98
- * This yield two and only two classes:
99
- * - _Tait-Bryan_ - all unsigned axes are distinct, e.g. {X,Y,Z}
100
- * - _proper/classic Euler angles_ - The first and the third unsigned axes is equal,
101
- * and the second is different, e.g. {X,Y,X}
102
- *
103
- * ### Intrinsic vs extrinsic Euler systems ###
104
- *
105
- * Only intrinsic Euler systems are supported for simplicity.
106
- * If you want to use extrinsic Euler systems,
107
- * just use the equal intrinsic opposite order for axes and angles.
108
- * I.e axes (A,B,C) becomes (C,B,A), and angles (a,b,c) becomes (c,b,a).
109
- *
110
- * ### Convenient user typedefs ###
111
- *
112
- * Convenient typedefs for EulerSystem exist (only for positive axes Euler systems),
113
- * in a form of EulerSystem{A}{B}{C}, e.g. \ref EulerSystemXYZ.
114
- *
115
- * ### Additional reading ###
116
- *
117
- * More information about Euler angles: https://en.wikipedia.org/wiki/Euler_angles
118
- *
119
- * \tparam _AlphaAxis the first fixed EulerAxis
120
- *
121
- * \tparam _BetaAxis the second fixed EulerAxis
122
- *
123
- * \tparam _GammaAxis the third fixed EulerAxis
124
- */
125
- template <int _AlphaAxis, int _BetaAxis, int _GammaAxis>
126
- class EulerSystem
127
- {
128
- public:
129
- // It's defined this way and not as enum, because I think
130
- // that enum is not guerantee to support negative numbers
131
-
132
- /** The first rotation axis */
133
- static const int AlphaAxis = _AlphaAxis;
134
-
135
- /** The second rotation axis */
136
- static const int BetaAxis = _BetaAxis;
137
-
138
- /** The third rotation axis */
139
- static const int GammaAxis = _GammaAxis;
140
-
141
- enum
142
- {
143
- AlphaAxisAbs = internal::Abs<AlphaAxis>::value, /*!< the first rotation axis unsigned */
144
- BetaAxisAbs = internal::Abs<BetaAxis>::value, /*!< the second rotation axis unsigned */
145
- GammaAxisAbs = internal::Abs<GammaAxis>::value, /*!< the third rotation axis unsigned */
146
-
147
- IsAlphaOpposite = (AlphaAxis < 0) ? 1 : 0, /*!< whether alpha axis is negative */
148
- IsBetaOpposite = (BetaAxis < 0) ? 1 : 0, /*!< whether beta axis is negative */
149
- IsGammaOpposite = (GammaAxis < 0) ? 1 : 0, /*!< whether gamma axis is negative */
150
-
151
- // Parity is even if alpha axis X is followed by beta axis Y, or Y is followed
152
- // by Z, or Z is followed by X; otherwise it is odd.
153
- IsOdd = ((AlphaAxisAbs)%3 == (BetaAxisAbs - 1)%3) ? 0 : 1, /*!< whether the Euler system is odd */
154
- IsEven = IsOdd ? 0 : 1, /*!< whether the Euler system is even */
155
-
156
- IsTaitBryan = ((unsigned)AlphaAxisAbs != (unsigned)GammaAxisAbs) ? 1 : 0 /*!< whether the Euler system is Tait-Bryan */
157
- };
158
-
159
- private:
160
-
161
- EIGEN_EULER_ANGLES_CLASS_STATIC_ASSERT(internal::IsValidAxis<AlphaAxis>::value,
162
- ALPHA_AXIS_IS_INVALID);
163
-
164
- EIGEN_EULER_ANGLES_CLASS_STATIC_ASSERT(internal::IsValidAxis<BetaAxis>::value,
165
- BETA_AXIS_IS_INVALID);
166
-
167
- EIGEN_EULER_ANGLES_CLASS_STATIC_ASSERT(internal::IsValidAxis<GammaAxis>::value,
168
- GAMMA_AXIS_IS_INVALID);
169
-
170
- EIGEN_EULER_ANGLES_CLASS_STATIC_ASSERT((unsigned)AlphaAxisAbs != (unsigned)BetaAxisAbs,
171
- ALPHA_AXIS_CANT_BE_EQUAL_TO_BETA_AXIS);
172
-
173
- EIGEN_EULER_ANGLES_CLASS_STATIC_ASSERT((unsigned)BetaAxisAbs != (unsigned)GammaAxisAbs,
174
- BETA_AXIS_CANT_BE_EQUAL_TO_GAMMA_AXIS);
175
-
176
- static const int
177
- // I, J, K are the pivot indexes permutation for the rotation matrix, that match this Euler system.
178
- // They are used in this class converters.
179
- // They are always different from each other, and their possible values are: 0, 1, or 2.
180
- I_ = AlphaAxisAbs - 1,
181
- J_ = (AlphaAxisAbs - 1 + 1 + IsOdd)%3,
182
- K_ = (AlphaAxisAbs - 1 + 2 - IsOdd)%3
183
- ;
184
-
185
- // TODO: Get @mat parameter in form that avoids double evaluation.
186
- template <typename Derived>
187
- static void CalcEulerAngles_imp(Matrix<typename MatrixBase<Derived>::Scalar, 3, 1>& res, const MatrixBase<Derived>& mat, internal::true_type /*isTaitBryan*/)
188
- {
189
- using std::atan2;
190
- using std::sqrt;
191
-
192
- typedef typename Derived::Scalar Scalar;
193
-
194
- const Scalar plusMinus = IsEven? 1 : -1;
195
- const Scalar minusPlus = IsOdd? 1 : -1;
196
-
197
- const Scalar Rsum = sqrt((mat(I_,I_) * mat(I_,I_) + mat(I_,J_) * mat(I_,J_) + mat(J_,K_) * mat(J_,K_) + mat(K_,K_) * mat(K_,K_))/2);
198
- res[1] = atan2(plusMinus * mat(I_,K_), Rsum);
199
-
200
- // There is a singularity when cos(beta) == 0
201
- if(Rsum > 4 * NumTraits<Scalar>::epsilon()) {// cos(beta) != 0
202
- res[0] = atan2(minusPlus * mat(J_, K_), mat(K_, K_));
203
- res[2] = atan2(minusPlus * mat(I_, J_), mat(I_, I_));
204
- }
205
- else if(plusMinus * mat(I_, K_) > 0) {// cos(beta) == 0 and sin(beta) == 1
206
- Scalar spos = mat(J_, I_) + plusMinus * mat(K_, J_); // 2*sin(alpha + plusMinus * gamma
207
- Scalar cpos = mat(J_, J_) + minusPlus * mat(K_, I_); // 2*cos(alpha + plusMinus * gamma)
208
- Scalar alphaPlusMinusGamma = atan2(spos, cpos);
209
- res[0] = alphaPlusMinusGamma;
210
- res[2] = 0;
211
- }
212
- else {// cos(beta) == 0 and sin(beta) == -1
213
- Scalar sneg = plusMinus * (mat(K_, J_) + minusPlus * mat(J_, I_)); // 2*sin(alpha + minusPlus*gamma)
214
- Scalar cneg = mat(J_, J_) + plusMinus * mat(K_, I_); // 2*cos(alpha + minusPlus*gamma)
215
- Scalar alphaMinusPlusBeta = atan2(sneg, cneg);
216
- res[0] = alphaMinusPlusBeta;
217
- res[2] = 0;
218
- }
219
- }
220
-
221
- template <typename Derived>
222
- static void CalcEulerAngles_imp(Matrix<typename MatrixBase<Derived>::Scalar,3,1>& res,
223
- const MatrixBase<Derived>& mat, internal::false_type /*isTaitBryan*/)
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- {
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- using std::atan2;
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- using std::sqrt;
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-
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- typedef typename Derived::Scalar Scalar;
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-
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- const Scalar plusMinus = IsEven? 1 : -1;
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- const Scalar minusPlus = IsOdd? 1 : -1;
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-
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- const Scalar Rsum = sqrt((mat(I_, J_) * mat(I_, J_) + mat(I_, K_) * mat(I_, K_) + mat(J_, I_) * mat(J_, I_) + mat(K_, I_) * mat(K_, I_)) / 2);
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-
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- res[1] = atan2(Rsum, mat(I_, I_));
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-
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- // There is a singularity when sin(beta) == 0
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- if(Rsum > 4 * NumTraits<Scalar>::epsilon()) {// sin(beta) != 0
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- res[0] = atan2(mat(J_, I_), minusPlus * mat(K_, I_));
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- res[2] = atan2(mat(I_, J_), plusMinus * mat(I_, K_));
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- }
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- else if(mat(I_, I_) > 0) {// sin(beta) == 0 and cos(beta) == 1
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- Scalar spos = plusMinus * mat(K_, J_) + minusPlus * mat(J_, K_); // 2*sin(alpha + gamma)
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- Scalar cpos = mat(J_, J_) + mat(K_, K_); // 2*cos(alpha + gamma)
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- res[0] = atan2(spos, cpos);
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- res[2] = 0;
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- }
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- else {// sin(beta) == 0 and cos(beta) == -1
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- Scalar sneg = plusMinus * mat(K_, J_) + plusMinus * mat(J_, K_); // 2*sin(alpha - gamma)
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- Scalar cneg = mat(J_, J_) - mat(K_, K_); // 2*cos(alpha - gamma)
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- res[0] = atan2(sneg, cneg);
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- res[2] = 0;
253
- }
254
- }
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-
256
- template<typename Scalar>
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- static void CalcEulerAngles(
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- EulerAngles<Scalar, EulerSystem>& res,
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- const typename EulerAngles<Scalar, EulerSystem>::Matrix3& mat)
260
- {
261
- CalcEulerAngles_imp(
262
- res.angles(), mat,
263
- typename internal::conditional<IsTaitBryan, internal::true_type, internal::false_type>::type());
264
-
265
- if (IsAlphaOpposite)
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- res.alpha() = -res.alpha();
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-
268
- if (IsBetaOpposite)
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- res.beta() = -res.beta();
270
-
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- if (IsGammaOpposite)
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- res.gamma() = -res.gamma();
273
- }
274
-
275
- template <typename _Scalar, class _System>
276
- friend class Eigen::EulerAngles;
277
-
278
- template<typename System,
279
- typename Other,
280
- int OtherRows,
281
- int OtherCols>
282
- friend struct internal::eulerangles_assign_impl;
283
- };
284
-
285
- #define EIGEN_EULER_SYSTEM_TYPEDEF(A, B, C) \
286
- /** \ingroup EulerAngles_Module */ \
287
- typedef EulerSystem<EULER_##A, EULER_##B, EULER_##C> EulerSystem##A##B##C;
288
-
289
- EIGEN_EULER_SYSTEM_TYPEDEF(X,Y,Z)
290
- EIGEN_EULER_SYSTEM_TYPEDEF(X,Y,X)
291
- EIGEN_EULER_SYSTEM_TYPEDEF(X,Z,Y)
292
- EIGEN_EULER_SYSTEM_TYPEDEF(X,Z,X)
293
-
294
- EIGEN_EULER_SYSTEM_TYPEDEF(Y,Z,X)
295
- EIGEN_EULER_SYSTEM_TYPEDEF(Y,Z,Y)
296
- EIGEN_EULER_SYSTEM_TYPEDEF(Y,X,Z)
297
- EIGEN_EULER_SYSTEM_TYPEDEF(Y,X,Y)
298
-
299
- EIGEN_EULER_SYSTEM_TYPEDEF(Z,X,Y)
300
- EIGEN_EULER_SYSTEM_TYPEDEF(Z,X,Z)
301
- EIGEN_EULER_SYSTEM_TYPEDEF(Z,Y,X)
302
- EIGEN_EULER_SYSTEM_TYPEDEF(Z,Y,Z)
303
- }
304
-
305
- #endif // EIGEN_EULERSYSTEM_H