sequenzo 0.1.17__cp311-cp311-win_amd64.whl → 0.1.19__cp311-cp311-win_amd64.whl

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  1. sequenzo/__init__.py +64 -8
  2. sequenzo/big_data/clara/clara.py +1 -1
  3. sequenzo/big_data/clara/utils/get_weighted_diss.c +154 -154
  4. sequenzo/big_data/clara/utils/get_weighted_diss.cp311-win_amd64.pyd +0 -0
  5. sequenzo/clustering/KMedoids.py +39 -0
  6. sequenzo/clustering/clustering_c_code.cp311-win_amd64.pyd +0 -0
  7. sequenzo/clustering/hierarchical_clustering.py +304 -8
  8. sequenzo/define_sequence_data.py +44 -3
  9. sequenzo/dissimilarity_measures/c_code.cp311-win_amd64.pyd +0 -0
  10. sequenzo/dissimilarity_measures/get_distance_matrix.py +1 -2
  11. sequenzo/dissimilarity_measures/get_substitution_cost_matrix.py +1 -1
  12. sequenzo/dissimilarity_measures/src/DHDdistance.cpp +13 -37
  13. sequenzo/dissimilarity_measures/src/LCPdistance.cpp +13 -37
  14. sequenzo/dissimilarity_measures/src/OMdistance.cpp +12 -47
  15. sequenzo/dissimilarity_measures/src/OMspellDistance.cpp +103 -67
  16. sequenzo/dissimilarity_measures/src/dp_utils.h +160 -0
  17. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_arithmetic.hpp +41 -16
  18. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_complex.hpp +4 -0
  19. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_details.hpp +7 -0
  20. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_logical.hpp +10 -0
  21. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_math.hpp +127 -43
  22. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_memory.hpp +30 -2
  23. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_swizzle.hpp +174 -0
  24. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_trigo.hpp +14 -5
  25. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx.hpp +111 -54
  26. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx2.hpp +131 -9
  27. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512bw.hpp +11 -113
  28. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512dq.hpp +39 -7
  29. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512f.hpp +336 -30
  30. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512vbmi.hpp +9 -37
  31. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512vbmi2.hpp +58 -0
  32. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_common.hpp +1 -0
  33. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_common_fwd.hpp +35 -2
  34. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_constants.hpp +3 -1
  35. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_emulated.hpp +17 -0
  36. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma3_avx.hpp +13 -0
  37. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma3_sse.hpp +18 -0
  38. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma4.hpp +13 -0
  39. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_isa.hpp +8 -0
  40. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_neon.hpp +363 -34
  41. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_neon64.hpp +7 -0
  42. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_rvv.hpp +13 -0
  43. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_scalar.hpp +41 -4
  44. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sse2.hpp +252 -16
  45. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sse3.hpp +9 -0
  46. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_ssse3.hpp +12 -1
  47. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sve.hpp +7 -0
  48. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_vsx.hpp +892 -0
  49. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_wasm.hpp +78 -1
  50. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_arch.hpp +3 -1
  51. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_config.hpp +13 -2
  52. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_cpuid.hpp +5 -0
  53. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_inline.hpp +5 -1
  54. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_all_registers.hpp +2 -0
  55. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_api.hpp +64 -1
  56. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_batch.hpp +36 -0
  57. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_rvv_register.hpp +40 -31
  58. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_traits.hpp +8 -0
  59. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_vsx_register.hpp +77 -0
  60. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/xsimd.hpp +6 -0
  61. sequenzo/dissimilarity_measures/src/xsimd/test/test_basic_math.cpp +6 -0
  62. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch.cpp +54 -2
  63. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_bool.cpp +8 -0
  64. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_cast.cpp +11 -4
  65. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_complex.cpp +18 -0
  66. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_int.cpp +8 -14
  67. sequenzo/dissimilarity_measures/src/xsimd/test/test_batch_manip.cpp +216 -173
  68. sequenzo/dissimilarity_measures/src/xsimd/test/test_load_store.cpp +6 -0
  69. sequenzo/dissimilarity_measures/src/xsimd/test/test_memory.cpp +1 -1
  70. sequenzo/dissimilarity_measures/src/xsimd/test/test_power.cpp +7 -4
  71. sequenzo/dissimilarity_measures/src/xsimd/test/test_select.cpp +6 -2
  72. sequenzo/dissimilarity_measures/src/xsimd/test/test_shuffle.cpp +32 -18
  73. sequenzo/dissimilarity_measures/src/xsimd/test/test_utils.hpp +21 -24
  74. sequenzo/dissimilarity_measures/src/xsimd/test/test_xsimd_api.cpp +69 -9
  75. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c +154 -154
  76. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cp311-win_amd64.pyd +0 -0
  77. sequenzo/dissimilarity_measures/utils/seqconc.c +154 -154
  78. sequenzo/dissimilarity_measures/utils/seqconc.cp311-win_amd64.pyd +0 -0
  79. sequenzo/dissimilarity_measures/utils/seqdss.c +154 -154
  80. sequenzo/dissimilarity_measures/utils/seqdss.cp311-win_amd64.pyd +0 -0
  81. sequenzo/dissimilarity_measures/utils/seqdur.c +154 -154
  82. sequenzo/dissimilarity_measures/utils/seqdur.cp311-win_amd64.pyd +0 -0
  83. sequenzo/dissimilarity_measures/utils/seqlength.c +154 -154
  84. sequenzo/dissimilarity_measures/utils/seqlength.cp311-win_amd64.pyd +0 -0
  85. sequenzo/multidomain/cat.py +0 -53
  86. sequenzo/multidomain/idcd.py +0 -1
  87. sequenzo/openmp_setup.py +233 -0
  88. sequenzo/sequence_characteristics/__init__.py +4 -0
  89. sequenzo/sequence_characteristics/complexity_index.py +17 -57
  90. sequenzo/sequence_characteristics/overall_cross_sectional_entropy.py +177 -111
  91. sequenzo/sequence_characteristics/plot_characteristics.py +30 -11
  92. sequenzo/sequence_characteristics/simple_characteristics.py +1 -0
  93. sequenzo/sequence_characteristics/state_frequencies_and_entropy_per_sequence.py +9 -3
  94. sequenzo/sequence_characteristics/turbulence.py +47 -67
  95. sequenzo/sequence_characteristics/variance_of_spell_durations.py +19 -9
  96. sequenzo/sequence_characteristics/within_sequence_entropy.py +5 -58
  97. sequenzo/visualization/plot_sequence_index.py +58 -35
  98. sequenzo/visualization/plot_state_distribution.py +57 -36
  99. sequenzo/visualization/plot_transition_matrix.py +21 -22
  100. sequenzo/with_event_history_analysis/__init__.py +35 -0
  101. sequenzo/with_event_history_analysis/sequence_analysis_multi_state_model.py +850 -0
  102. sequenzo/with_event_history_analysis/sequence_history_analysis.py +283 -0
  103. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/METADATA +48 -14
  104. sequenzo-0.1.19.dist-info/RECORD +272 -0
  105. sequenzo/dissimilarity_measures/setup.py +0 -35
  106. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LDLT.h +0 -688
  107. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT.h +0 -558
  108. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +0 -99
  109. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +0 -682
  110. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +0 -346
  111. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +0 -462
  112. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +0 -91
  113. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/EigenSolver.h +0 -622
  114. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +0 -418
  115. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +0 -226
  116. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +0 -374
  117. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +0 -158
  118. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealQZ.h +0 -657
  119. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur.h +0 -558
  120. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +0 -77
  121. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +0 -904
  122. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +0 -87
  123. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +0 -561
  124. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AlignedBox.h +0 -486
  125. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AngleAxis.h +0 -247
  126. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/EulerAngles.h +0 -114
  127. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Homogeneous.h +0 -501
  128. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Hyperplane.h +0 -282
  129. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/OrthoMethods.h +0 -235
  130. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/ParametrizedLine.h +0 -232
  131. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Quaternion.h +0 -870
  132. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Rotation2D.h +0 -199
  133. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/RotationBase.h +0 -206
  134. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Scaling.h +0 -188
  135. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Transform.h +0 -1563
  136. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Translation.h +0 -202
  137. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Umeyama.h +0 -166
  138. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/arch/Geometry_SIMD.h +0 -168
  139. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/BlockHouseholder.h +0 -110
  140. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/Householder.h +0 -176
  141. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/HouseholderSequence.h +0 -545
  142. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +0 -226
  143. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +0 -212
  144. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +0 -229
  145. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +0 -394
  146. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +0 -453
  147. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +0 -444
  148. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +0 -198
  149. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +0 -117
  150. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Jacobi/Jacobi.h +0 -483
  151. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/KLUSupport/KLUSupport.h +0 -358
  152. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/Determinant.h +0 -117
  153. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/FullPivLU.h +0 -877
  154. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/InverseImpl.h +0 -432
  155. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU.h +0 -624
  156. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +0 -83
  157. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/arch/InverseSize4.h +0 -351
  158. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/MetisSupport/MetisSupport.h +0 -137
  159. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Amd.h +0 -435
  160. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +0 -1863
  161. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Ordering.h +0 -153
  162. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +0 -678
  163. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +0 -545
  164. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR.h +0 -674
  165. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +0 -97
  166. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +0 -635
  167. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/FullPivHouseholderQR.h +0 -713
  168. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR.h +0 -434
  169. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +0 -68
  170. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +0 -335
  171. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/BDCSVD.h +0 -1366
  172. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h +0 -812
  173. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +0 -91
  174. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/SVDBase.h +0 -376
  175. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/UpperBidiagonalization.h +0 -414
  176. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +0 -697
  177. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +0 -174
  178. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/AmbiVector.h +0 -378
  179. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/CompressedStorage.h +0 -274
  180. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +0 -352
  181. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +0 -67
  182. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseAssign.h +0 -270
  183. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseBlock.h +0 -571
  184. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseColEtree.h +0 -206
  185. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +0 -370
  186. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +0 -722
  187. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +0 -150
  188. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +0 -342
  189. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +0 -138
  190. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDot.h +0 -98
  191. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseFuzzy.h +0 -29
  192. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMap.h +0 -305
  193. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrix.h +0 -1518
  194. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +0 -398
  195. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparsePermutation.h +0 -178
  196. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseProduct.h +0 -181
  197. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRedux.h +0 -49
  198. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRef.h +0 -397
  199. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +0 -659
  200. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSolverBase.h +0 -124
  201. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +0 -198
  202. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTranspose.h +0 -92
  203. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTriangularView.h +0 -189
  204. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseUtil.h +0 -186
  205. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseVector.h +0 -478
  206. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseView.h +0 -254
  207. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/TriangularSolver.h +0 -315
  208. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU.h +0 -923
  209. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLUImpl.h +0 -66
  210. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +0 -226
  211. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +0 -110
  212. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +0 -375
  213. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +0 -80
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  413. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/LevenbergMarquardt/LevenbergMarquardt.h +0 -396
  414. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixExponential.h +0 -441
  415. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixFunction.h +0 -569
  416. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixLogarithm.h +0 -373
  417. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixPower.h +0 -705
  418. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/MatrixSquareRoot.h +0 -368
  419. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MatrixFunctions/StemFunction.h +0 -117
  420. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/MoreVectorization/MathFunctions.h +0 -95
  421. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/HybridNonLinearSolver.h +0 -601
  422. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/LevenbergMarquardt.h +0 -657
  423. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/chkder.h +0 -66
  424. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/covar.h +0 -70
  425. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/dogleg.h +0 -107
  426. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/fdjac1.h +0 -79
  427. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/lmpar.h +0 -298
  428. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/qrsolv.h +0 -91
  429. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/r1mpyq.h +0 -30
  430. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/r1updt.h +0 -99
  431. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NonLinearOptimization/rwupdt.h +0 -49
  432. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/NumericalDiff/NumericalDiff.h +0 -130
  433. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Polynomials/Companion.h +0 -280
  434. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Polynomials/PolynomialSolver.h +0 -428
  435. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Polynomials/PolynomialUtils.h +0 -143
  436. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineInplaceLU.h +0 -352
  437. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineMatrix.h +0 -862
  438. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineMatrixBase.h +0 -212
  439. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineProduct.h +0 -295
  440. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineStorage.h +0 -259
  441. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Skyline/SkylineUtil.h +0 -89
  442. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/BlockOfDynamicSparseMatrix.h +0 -122
  443. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/BlockSparseMatrix.h +0 -1079
  444. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/DynamicSparseMatrix.h +0 -404
  445. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/MarketIO.h +0 -282
  446. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/MatrixMarketIterator.h +0 -247
  447. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SparseExtra/RandomSetter.h +0 -349
  448. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsArrayAPI.h +0 -286
  449. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsBFloat16.h +0 -68
  450. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsFunctors.h +0 -357
  451. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsHalf.h +0 -66
  452. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsImpl.h +0 -1959
  453. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/BesselFunctionsPacketMath.h +0 -118
  454. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/HipVectorCompatibility.h +0 -67
  455. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsArrayAPI.h +0 -167
  456. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsBFloat16.h +0 -58
  457. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsFunctors.h +0 -330
  458. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsHalf.h +0 -58
  459. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsImpl.h +0 -2045
  460. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsPacketMath.h +0 -79
  461. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX/BesselFunctions.h +0 -46
  462. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX/SpecialFunctions.h +0 -16
  463. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX512/BesselFunctions.h +0 -46
  464. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX512/SpecialFunctions.h +0 -16
  465. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/GPU/SpecialFunctions.h +0 -369
  466. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/NEON/BesselFunctions.h +0 -54
  467. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/NEON/SpecialFunctions.h +0 -34
  468. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/Spline.h +0 -507
  469. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/SplineFitting.h +0 -431
  470. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/SplineFwd.h +0 -93
  471. sequenzo/dissimilarity_measures/src/eigen/unsupported/test/matrix_functions.h +0 -67
  472. sequenzo-0.1.17.dist-info/RECORD +0 -631
  473. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/WHEEL +0 -0
  474. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/licenses/LICENSE +0 -0
  475. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/top_level.txt +0 -0
@@ -1,282 +0,0 @@
1
- // This file is part of Eigen, a lightweight C++ template library
2
- // for linear algebra.
3
- //
4
- // Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
5
- // Copyright (C) 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_HYPERPLANE_H
12
- #define EIGEN_HYPERPLANE_H
13
-
14
- namespace Eigen {
15
-
16
- /** \geometry_module \ingroup Geometry_Module
17
- *
18
- * \class Hyperplane
19
- *
20
- * \brief A hyperplane
21
- *
22
- * A hyperplane is an affine subspace of dimension n-1 in a space of dimension n.
23
- * For example, a hyperplane in a plane is a line; a hyperplane in 3-space is a plane.
24
- *
25
- * \tparam _Scalar the scalar type, i.e., the type of the coefficients
26
- * \tparam _AmbientDim the dimension of the ambient space, can be a compile time value or Dynamic.
27
- * Notice that the dimension of the hyperplane is _AmbientDim-1.
28
- *
29
- * This class represents an hyperplane as the zero set of the implicit equation
30
- * \f$ n \cdot x + d = 0 \f$ where \f$ n \f$ is a unit normal vector of the plane (linear part)
31
- * and \f$ d \f$ is the distance (offset) to the origin.
32
- */
33
- template <typename _Scalar, int _AmbientDim, int _Options>
34
- class Hyperplane
35
- {
36
- public:
37
- EIGEN_MAKE_ALIGNED_OPERATOR_NEW_IF_VECTORIZABLE_FIXED_SIZE(_Scalar,_AmbientDim==Dynamic ? Dynamic : _AmbientDim+1)
38
- enum {
39
- AmbientDimAtCompileTime = _AmbientDim,
40
- Options = _Options
41
- };
42
- typedef _Scalar Scalar;
43
- typedef typename NumTraits<Scalar>::Real RealScalar;
44
- typedef Eigen::Index Index; ///< \deprecated since Eigen 3.3
45
- typedef Matrix<Scalar,AmbientDimAtCompileTime,1> VectorType;
46
- typedef Matrix<Scalar,Index(AmbientDimAtCompileTime)==Dynamic
47
- ? Dynamic
48
- : Index(AmbientDimAtCompileTime)+1,1,Options> Coefficients;
49
- typedef Block<Coefficients,AmbientDimAtCompileTime,1> NormalReturnType;
50
- typedef const Block<const Coefficients,AmbientDimAtCompileTime,1> ConstNormalReturnType;
51
-
52
- /** Default constructor without initialization */
53
- EIGEN_DEVICE_FUNC inline Hyperplane() {}
54
-
55
- template<int OtherOptions>
56
- EIGEN_DEVICE_FUNC Hyperplane(const Hyperplane<Scalar,AmbientDimAtCompileTime,OtherOptions>& other)
57
- : m_coeffs(other.coeffs())
58
- {}
59
-
60
- /** Constructs a dynamic-size hyperplane with \a _dim the dimension
61
- * of the ambient space */
62
- EIGEN_DEVICE_FUNC inline explicit Hyperplane(Index _dim) : m_coeffs(_dim+1) {}
63
-
64
- /** Construct a plane from its normal \a n and a point \a e onto the plane.
65
- * \warning the vector normal is assumed to be normalized.
66
- */
67
- EIGEN_DEVICE_FUNC inline Hyperplane(const VectorType& n, const VectorType& e)
68
- : m_coeffs(n.size()+1)
69
- {
70
- normal() = n;
71
- offset() = -n.dot(e);
72
- }
73
-
74
- /** Constructs a plane from its normal \a n and distance to the origin \a d
75
- * such that the algebraic equation of the plane is \f$ n \cdot x + d = 0 \f$.
76
- * \warning the vector normal is assumed to be normalized.
77
- */
78
- EIGEN_DEVICE_FUNC inline Hyperplane(const VectorType& n, const Scalar& d)
79
- : m_coeffs(n.size()+1)
80
- {
81
- normal() = n;
82
- offset() = d;
83
- }
84
-
85
- /** Constructs a hyperplane passing through the two points. If the dimension of the ambient space
86
- * is greater than 2, then there isn't uniqueness, so an arbitrary choice is made.
87
- */
88
- EIGEN_DEVICE_FUNC static inline Hyperplane Through(const VectorType& p0, const VectorType& p1)
89
- {
90
- Hyperplane result(p0.size());
91
- result.normal() = (p1 - p0).unitOrthogonal();
92
- result.offset() = -p0.dot(result.normal());
93
- return result;
94
- }
95
-
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