sequenzo 0.1.17__cp311-cp311-macosx_10_9_universal2.whl → 0.1.19__cp311-cp311-macosx_10_9_universal2.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 +155 -155
  4. sequenzo/big_data/clara/utils/get_weighted_diss.cpython-311-darwin.so +0 -0
  5. sequenzo/clustering/KMedoids.py +39 -0
  6. sequenzo/clustering/hierarchical_clustering.py +304 -8
  7. sequenzo/define_sequence_data.py +44 -3
  8. sequenzo/dissimilarity_measures/c_code.cpython-311-darwin.so +0 -0
  9. sequenzo/dissimilarity_measures/get_distance_matrix.py +1 -2
  10. sequenzo/dissimilarity_measures/get_substitution_cost_matrix.py +1 -1
  11. sequenzo/dissimilarity_measures/src/DHDdistance.cpp +13 -37
  12. sequenzo/dissimilarity_measures/src/LCPdistance.cpp +13 -37
  13. sequenzo/dissimilarity_measures/src/OMdistance.cpp +12 -47
  14. sequenzo/dissimilarity_measures/src/OMspellDistance.cpp +103 -67
  15. sequenzo/dissimilarity_measures/src/dp_utils.h +160 -0
  16. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_arithmetic.hpp +41 -16
  17. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_complex.hpp +4 -0
  18. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_details.hpp +7 -0
  19. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_logical.hpp +10 -0
  20. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_math.hpp +127 -43
  21. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_memory.hpp +30 -2
  22. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_swizzle.hpp +174 -0
  23. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/common/xsimd_common_trigo.hpp +14 -5
  24. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx.hpp +111 -54
  25. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx2.hpp +131 -9
  26. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512bw.hpp +11 -113
  27. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512dq.hpp +39 -7
  28. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512f.hpp +336 -30
  29. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512vbmi.hpp +9 -37
  30. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_avx512vbmi2.hpp +58 -0
  31. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_common.hpp +1 -0
  32. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_common_fwd.hpp +35 -2
  33. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_constants.hpp +3 -1
  34. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_emulated.hpp +17 -0
  35. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma3_avx.hpp +13 -0
  36. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma3_sse.hpp +18 -0
  37. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_fma4.hpp +13 -0
  38. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_isa.hpp +8 -0
  39. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_neon.hpp +363 -34
  40. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_neon64.hpp +7 -0
  41. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_rvv.hpp +13 -0
  42. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_scalar.hpp +41 -4
  43. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sse2.hpp +252 -16
  44. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sse3.hpp +9 -0
  45. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_ssse3.hpp +12 -1
  46. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_sve.hpp +7 -0
  47. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_vsx.hpp +892 -0
  48. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/arch/xsimd_wasm.hpp +78 -1
  49. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_arch.hpp +3 -1
  50. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_config.hpp +13 -2
  51. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_cpuid.hpp +5 -0
  52. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/config/xsimd_inline.hpp +5 -1
  53. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_all_registers.hpp +2 -0
  54. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_api.hpp +64 -1
  55. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_batch.hpp +36 -0
  56. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_rvv_register.hpp +40 -31
  57. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_traits.hpp +8 -0
  58. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/types/xsimd_vsx_register.hpp +77 -0
  59. sequenzo/dissimilarity_measures/src/xsimd/include/xsimd/xsimd.hpp +6 -0
  60. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c +155 -155
  61. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cpython-311-darwin.so +0 -0
  62. sequenzo/dissimilarity_measures/utils/seqconc.c +155 -155
  63. sequenzo/dissimilarity_measures/utils/seqconc.cpython-311-darwin.so +0 -0
  64. sequenzo/dissimilarity_measures/utils/seqdss.c +155 -155
  65. sequenzo/dissimilarity_measures/utils/seqdss.cpython-311-darwin.so +0 -0
  66. sequenzo/dissimilarity_measures/utils/seqdur.c +155 -155
  67. sequenzo/dissimilarity_measures/utils/seqdur.cpython-311-darwin.so +0 -0
  68. sequenzo/dissimilarity_measures/utils/seqlength.c +155 -155
  69. sequenzo/dissimilarity_measures/utils/seqlength.cpython-311-darwin.so +0 -0
  70. sequenzo/multidomain/cat.py +0 -53
  71. sequenzo/multidomain/idcd.py +0 -1
  72. sequenzo/openmp_setup.py +233 -0
  73. sequenzo/sequence_characteristics/__init__.py +4 -0
  74. sequenzo/sequence_characteristics/complexity_index.py +17 -57
  75. sequenzo/sequence_characteristics/overall_cross_sectional_entropy.py +177 -111
  76. sequenzo/sequence_characteristics/plot_characteristics.py +30 -11
  77. sequenzo/sequence_characteristics/simple_characteristics.py +1 -0
  78. sequenzo/sequence_characteristics/state_frequencies_and_entropy_per_sequence.py +9 -3
  79. sequenzo/sequence_characteristics/turbulence.py +47 -67
  80. sequenzo/sequence_characteristics/variance_of_spell_durations.py +19 -9
  81. sequenzo/sequence_characteristics/within_sequence_entropy.py +5 -58
  82. sequenzo/visualization/plot_sequence_index.py +58 -35
  83. sequenzo/visualization/plot_state_distribution.py +57 -36
  84. sequenzo/visualization/plot_transition_matrix.py +21 -22
  85. sequenzo/with_event_history_analysis/__init__.py +35 -0
  86. sequenzo/with_event_history_analysis/sequence_analysis_multi_state_model.py +850 -0
  87. sequenzo/with_event_history_analysis/sequence_history_analysis.py +283 -0
  88. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/METADATA +48 -14
  89. sequenzo-0.1.19.dist-info/RECORD +215 -0
  90. sequenzo/dissimilarity_measures/setup.py +0 -35
  91. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LDLT.h +0 -688
  92. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT.h +0 -558
  93. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +0 -99
  94. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +0 -682
  95. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +0 -346
  96. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +0 -462
  97. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +0 -91
  98. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/EigenSolver.h +0 -622
  99. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +0 -418
  100. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +0 -226
  101. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +0 -374
  102. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +0 -158
  103. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealQZ.h +0 -657
  104. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur.h +0 -558
  105. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +0 -77
  106. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +0 -904
  107. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +0 -87
  108. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +0 -561
  109. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AlignedBox.h +0 -486
  110. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AngleAxis.h +0 -247
  111. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/EulerAngles.h +0 -114
  112. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Homogeneous.h +0 -501
  113. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Hyperplane.h +0 -282
  114. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/OrthoMethods.h +0 -235
  115. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/ParametrizedLine.h +0 -232
  116. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Quaternion.h +0 -870
  117. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Rotation2D.h +0 -199
  118. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/RotationBase.h +0 -206
  119. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Scaling.h +0 -188
  120. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Transform.h +0 -1563
  121. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Translation.h +0 -202
  122. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Umeyama.h +0 -166
  123. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/arch/Geometry_SIMD.h +0 -168
  124. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/BlockHouseholder.h +0 -110
  125. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/Householder.h +0 -176
  126. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/HouseholderSequence.h +0 -545
  127. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +0 -226
  128. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +0 -212
  129. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +0 -229
  130. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +0 -394
  131. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +0 -453
  132. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +0 -444
  133. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +0 -198
  134. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +0 -117
  135. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Jacobi/Jacobi.h +0 -483
  136. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/KLUSupport/KLUSupport.h +0 -358
  137. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/Determinant.h +0 -117
  138. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/FullPivLU.h +0 -877
  139. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/InverseImpl.h +0 -432
  140. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU.h +0 -624
  141. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +0 -83
  142. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/arch/InverseSize4.h +0 -351
  143. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/MetisSupport/MetisSupport.h +0 -137
  144. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Amd.h +0 -435
  145. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +0 -1863
  146. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Ordering.h +0 -153
  147. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +0 -678
  148. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +0 -545
  149. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR.h +0 -674
  150. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +0 -97
  151. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +0 -635
  152. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/FullPivHouseholderQR.h +0 -713
  153. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR.h +0 -434
  154. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +0 -68
  155. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +0 -335
  156. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/BDCSVD.h +0 -1366
  157. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h +0 -812
  158. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +0 -91
  159. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/SVDBase.h +0 -376
  160. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/UpperBidiagonalization.h +0 -414
  161. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +0 -697
  162. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +0 -174
  163. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/AmbiVector.h +0 -378
  164. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/CompressedStorage.h +0 -274
  165. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +0 -352
  166. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +0 -67
  167. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseAssign.h +0 -270
  168. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseBlock.h +0 -571
  169. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseColEtree.h +0 -206
  170. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +0 -370
  171. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +0 -722
  172. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +0 -150
  173. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +0 -342
  174. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +0 -138
  175. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDot.h +0 -98
  176. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseFuzzy.h +0 -29
  177. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMap.h +0 -305
  178. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrix.h +0 -1518
  179. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +0 -398
  180. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparsePermutation.h +0 -178
  181. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseProduct.h +0 -181
  182. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRedux.h +0 -49
  183. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRef.h +0 -397
  184. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +0 -659
  185. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSolverBase.h +0 -124
  186. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +0 -198
  187. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTranspose.h +0 -92
  188. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTriangularView.h +0 -189
  189. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseUtil.h +0 -186
  190. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseVector.h +0 -478
  191. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseView.h +0 -254
  192. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/TriangularSolver.h +0 -315
  193. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU.h +0 -923
  194. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLUImpl.h +0 -66
  195. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +0 -226
  196. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +0 -110
  197. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +0 -375
  198. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +0 -80
  199. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_bmod.h +0 -181
  200. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_dfs.h +0 -179
  201. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +0 -107
  202. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +0 -280
  203. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +0 -126
  204. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +0 -130
  205. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_bmod.h +0 -223
  206. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_dfs.h +0 -258
  207. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pivotL.h +0 -137
  208. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pruneL.h +0 -136
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  403. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/HipVectorCompatibility.h +0 -67
  404. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsArrayAPI.h +0 -167
  405. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsBFloat16.h +0 -58
  406. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsFunctors.h +0 -330
  407. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsHalf.h +0 -58
  408. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsImpl.h +0 -2045
  409. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/SpecialFunctionsPacketMath.h +0 -79
  410. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX/BesselFunctions.h +0 -46
  411. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX/SpecialFunctions.h +0 -16
  412. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX512/BesselFunctions.h +0 -46
  413. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/AVX512/SpecialFunctions.h +0 -16
  414. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/GPU/SpecialFunctions.h +0 -369
  415. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/NEON/BesselFunctions.h +0 -54
  416. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/SpecialFunctions/arch/NEON/SpecialFunctions.h +0 -34
  417. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/Spline.h +0 -507
  418. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/SplineFitting.h +0 -431
  419. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/src/Splines/SplineFwd.h +0 -93
  420. sequenzo-0.1.17.dist-info/RECORD +0 -537
  421. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/WHEEL +0 -0
  422. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/licenses/LICENSE +0 -0
  423. {sequenzo-0.1.17.dist-info → sequenzo-0.1.19.dist-info}/top_level.txt +0 -0
@@ -1,199 +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
- //
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_ROTATION2D_H
11
- #define EIGEN_ROTATION2D_H
12
-
13
- namespace Eigen {
14
-
15
- /** \geometry_module \ingroup Geometry_Module
16
- *
17
- * \class Rotation2D
18
- *
19
- * \brief Represents a rotation/orientation in a 2 dimensional space.
20
- *
21
- * \tparam _Scalar the scalar type, i.e., the type of the coefficients
22
- *
23
- * This class is equivalent to a single scalar representing a counter clock wise rotation
24
- * as a single angle in radian. It provides some additional features such as the automatic
25
- * conversion from/to a 2x2 rotation matrix. Moreover this class aims to provide a similar
26
- * interface to Quaternion in order to facilitate the writing of generic algorithms
27
- * dealing with rotations.
28
- *
29
- * \sa class Quaternion, class Transform
30
- */
31
-
32
- namespace internal {
33
-
34
- template<typename _Scalar> struct traits<Rotation2D<_Scalar> >
35
- {
36
- typedef _Scalar Scalar;
37
- };
38
- } // end namespace internal
39
-
40
- template<typename _Scalar>
41
- class Rotation2D : public RotationBase<Rotation2D<_Scalar>,2>
42
- {
43
- typedef RotationBase<Rotation2D<_Scalar>,2> Base;
44
-
45
- public:
46
-
47
- using Base::operator*;
48
-
49
- enum { Dim = 2 };
50
- /** the scalar type of the coefficients */
51
- typedef _Scalar Scalar;
52
- typedef Matrix<Scalar,2,1> Vector2;
53
- typedef Matrix<Scalar,2,2> Matrix2;
54
-
55
- protected:
56
-
57
- Scalar m_angle;
58
-
59
- public:
60
-
61
- /** Construct a 2D counter clock wise rotation from the angle \a a in radian. */
62
- EIGEN_DEVICE_FUNC explicit inline Rotation2D(const Scalar& a) : m_angle(a) {}
63
-
64
- /** Default constructor wihtout initialization. The represented rotation is undefined. */
65
- EIGEN_DEVICE_FUNC Rotation2D() {}
66
-
67
- /** Construct a 2D rotation from a 2x2 rotation matrix \a mat.
68
- *
69
- * \sa fromRotationMatrix()
70
- */
71
- template<typename Derived>
72
- EIGEN_DEVICE_FUNC explicit Rotation2D(const MatrixBase<Derived>& m)
73
- {
74
- fromRotationMatrix(m.derived());
75
- }
76
-
77
- /** \returns the rotation angle */
78
- EIGEN_DEVICE_FUNC inline Scalar angle() const { return m_angle; }
79
-
80
- /** \returns a read-write reference to the rotation angle */
81
- EIGEN_DEVICE_FUNC inline Scalar& angle() { return m_angle; }
82
-
83
- /** \returns the rotation angle in [0,2pi] */
84
- EIGEN_DEVICE_FUNC inline Scalar smallestPositiveAngle() const {
85
- Scalar tmp = numext::fmod(m_angle,Scalar(2*EIGEN_PI));
86
- return tmp<Scalar(0) ? tmp + Scalar(2*EIGEN_PI) : tmp;
87
- }
88
-
89
- /** \returns the rotation angle in [-pi,pi] */
90
- EIGEN_DEVICE_FUNC inline Scalar smallestAngle() const {
91
- Scalar tmp = numext::fmod(m_angle,Scalar(2*EIGEN_PI));
92
- if(tmp>Scalar(EIGEN_PI)) tmp -= Scalar(2*EIGEN_PI);
93
- else if(tmp<-Scalar(EIGEN_PI)) tmp += Scalar(2*EIGEN_PI);
94
- return tmp;
95
- }
96
-
97
- /** \returns the inverse rotation */
98
- EIGEN_DEVICE_FUNC inline Rotation2D inverse() const { return Rotation2D(-m_angle); }
99
-
100
- /** Concatenates two rotations */
101
- EIGEN_DEVICE_FUNC inline Rotation2D operator*(const Rotation2D& other) const
102
- { return Rotation2D(m_angle + other.m_angle); }
103
-
104
- /** Concatenates two rotations */
105
- EIGEN_DEVICE_FUNC inline Rotation2D& operator*=(const Rotation2D& other)
106
- { m_angle += other.m_angle; return *this; }
107
-
108
- /** Applies the rotation to a 2D vector */
109
- EIGEN_DEVICE_FUNC Vector2 operator* (const Vector2& vec) const
110
- { return toRotationMatrix() * vec; }
111
-
112
- template<typename Derived>
113
- EIGEN_DEVICE_FUNC Rotation2D& fromRotationMatrix(const MatrixBase<Derived>& m);
114
- EIGEN_DEVICE_FUNC Matrix2 toRotationMatrix() const;
115
-
116
- /** Set \c *this from a 2x2 rotation matrix \a mat.
117
- * In other words, this function extract the rotation angle from the rotation matrix.
118
- *
119
- * This method is an alias for fromRotationMatrix()
120
- *
121
- * \sa fromRotationMatrix()
122
- */
123
- template<typename Derived>
124
- EIGEN_DEVICE_FUNC Rotation2D& operator=(const MatrixBase<Derived>& m)
125
- { return fromRotationMatrix(m.derived()); }
126
-
127
- /** \returns the spherical interpolation between \c *this and \a other using
128
- * parameter \a t. It is in fact equivalent to a linear interpolation.
129
- */
130
- EIGEN_DEVICE_FUNC inline Rotation2D slerp(const Scalar& t, const Rotation2D& other) const
131
- {
132
- Scalar dist = Rotation2D(other.m_angle-m_angle).smallestAngle();
133
- return Rotation2D(m_angle + dist*t);
134
- }
135
-
136
- /** \returns \c *this with scalar type casted to \a NewScalarType
137
- *
138
- * Note that if \a NewScalarType is equal to the current scalar type of \c *this
139
- * then this function smartly returns a const reference to \c *this.
140
- */
141
- template<typename NewScalarType>
142
- EIGEN_DEVICE_FUNC inline typename internal::cast_return_type<Rotation2D,Rotation2D<NewScalarType> >::type cast() const
143
- { return typename internal::cast_return_type<Rotation2D,Rotation2D<NewScalarType> >::type(*this); }
144
-
145
- /** Copy constructor with scalar type conversion */
146
- template<typename OtherScalarType>
147
- EIGEN_DEVICE_FUNC inline explicit Rotation2D(const Rotation2D<OtherScalarType>& other)
148
- {
149
- m_angle = Scalar(other.angle());
150
- }
151
-
152
- EIGEN_DEVICE_FUNC static inline Rotation2D Identity() { return Rotation2D(0); }
153
-
154
- /** \returns \c true if \c *this is approximately equal to \a other, within the precision
155
- * determined by \a prec.
156
- *
157
- * \sa MatrixBase::isApprox() */
158
- EIGEN_DEVICE_FUNC bool isApprox(const Rotation2D& other, const typename NumTraits<Scalar>::Real& prec = NumTraits<Scalar>::dummy_precision()) const
159
- { return internal::isApprox(m_angle,other.m_angle, prec); }
160
-
161
- };
162
-
163
- /** \ingroup Geometry_Module
164
- * single precision 2D rotation type */
165
- typedef Rotation2D<float> Rotation2Df;
166
- /** \ingroup Geometry_Module
167
- * double precision 2D rotation type */
168
- typedef Rotation2D<double> Rotation2Dd;
169
-
170
- /** Set \c *this from a 2x2 rotation matrix \a mat.
171
- * In other words, this function extract the rotation angle
172
- * from the rotation matrix.
173
- */
174
- template<typename Scalar>
175
- template<typename Derived>
176
- EIGEN_DEVICE_FUNC Rotation2D<Scalar>& Rotation2D<Scalar>::fromRotationMatrix(const MatrixBase<Derived>& mat)
177
- {
178
- EIGEN_USING_STD(atan2)
179
- EIGEN_STATIC_ASSERT(Derived::RowsAtCompileTime==2 && Derived::ColsAtCompileTime==2,YOU_MADE_A_PROGRAMMING_MISTAKE)
180
- m_angle = atan2(mat.coeff(1,0), mat.coeff(0,0));
181
- return *this;
182
- }
183
-
184
- /** Constructs and \returns an equivalent 2x2 rotation matrix.
185
- */
186
- template<typename Scalar>
187
- typename Rotation2D<Scalar>::Matrix2
188
- EIGEN_DEVICE_FUNC Rotation2D<Scalar>::toRotationMatrix(void) const
189
- {
190
- EIGEN_USING_STD(sin)
191
- EIGEN_USING_STD(cos)
192
- Scalar sinA = sin(m_angle);
193
- Scalar cosA = cos(m_angle);
194
- return (Matrix2() << cosA, -sinA, sinA, cosA).finished();
195
- }
196
-
197
- } // end namespace Eigen
198
-
199
- #endif // EIGEN_ROTATION2D_H
@@ -1,206 +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
- //
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_ROTATIONBASE_H
11
- #define EIGEN_ROTATIONBASE_H
12
-
13
- namespace Eigen {
14
-
15
- // forward declaration
16
- namespace internal {
17
- template<typename RotationDerived, typename MatrixType, bool IsVector=MatrixType::IsVectorAtCompileTime>
18
- struct rotation_base_generic_product_selector;
19
- }
20
-
21
- /** \class RotationBase
22
- *
23
- * \brief Common base class for compact rotation representations
24
- *
25
- * \tparam Derived is the derived type, i.e., a rotation type
26
- * \tparam _Dim the dimension of the space
27
- */
28
- template<typename Derived, int _Dim>
29
- class RotationBase
30
- {
31
- public:
32
- enum { Dim = _Dim };
33
- /** the scalar type of the coefficients */
34
- typedef typename internal::traits<Derived>::Scalar Scalar;
35
-
36
- /** corresponding linear transformation matrix type */
37
- typedef Matrix<Scalar,Dim,Dim> RotationMatrixType;
38
- typedef Matrix<Scalar,Dim,1> VectorType;
39
-
40
- public:
41
- EIGEN_DEVICE_FUNC inline const Derived& derived() const { return *static_cast<const Derived*>(this); }
42
- EIGEN_DEVICE_FUNC inline Derived& derived() { return *static_cast<Derived*>(this); }
43
-
44
- /** \returns an equivalent rotation matrix */
45
- EIGEN_DEVICE_FUNC inline RotationMatrixType toRotationMatrix() const { return derived().toRotationMatrix(); }
46
-
47
- /** \returns an equivalent rotation matrix
48
- * This function is added to be conform with the Transform class' naming scheme.
49
- */
50
- EIGEN_DEVICE_FUNC inline RotationMatrixType matrix() const { return derived().toRotationMatrix(); }
51
-
52
- /** \returns the inverse rotation */
53
- EIGEN_DEVICE_FUNC inline Derived inverse() const { return derived().inverse(); }
54
-
55
- /** \returns the concatenation of the rotation \c *this with a translation \a t */
56
- EIGEN_DEVICE_FUNC inline Transform<Scalar,Dim,Isometry> operator*(const Translation<Scalar,Dim>& t) const
57
- { return Transform<Scalar,Dim,Isometry>(*this) * t; }
58
-
59
- /** \returns the concatenation of the rotation \c *this with a uniform scaling \a s */
60
- EIGEN_DEVICE_FUNC inline RotationMatrixType operator*(const UniformScaling<Scalar>& s) const
61
- { return toRotationMatrix() * s.factor(); }
62
-
63
- /** \returns the concatenation of the rotation \c *this with a generic expression \a e
64
- * \a e can be:
65
- * - a DimxDim linear transformation matrix
66
- * - a DimxDim diagonal matrix (axis aligned scaling)
67
- * - a vector of size Dim
68
- */
69
- template<typename OtherDerived>
70
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE typename internal::rotation_base_generic_product_selector<Derived,OtherDerived,OtherDerived::IsVectorAtCompileTime>::ReturnType
71
- operator*(const EigenBase<OtherDerived>& e) const
72
- { return internal::rotation_base_generic_product_selector<Derived,OtherDerived>::run(derived(), e.derived()); }
73
-
74
- /** \returns the concatenation of a linear transformation \a l with the rotation \a r */
75
- template<typename OtherDerived> friend
76
- EIGEN_DEVICE_FUNC inline RotationMatrixType operator*(const EigenBase<OtherDerived>& l, const Derived& r)
77
- { return l.derived() * r.toRotationMatrix(); }
78
-
79
- /** \returns the concatenation of a scaling \a l with the rotation \a r */
80
- EIGEN_DEVICE_FUNC friend inline Transform<Scalar,Dim,Affine> operator*(const DiagonalMatrix<Scalar,Dim>& l, const Derived& r)
81
- {
82
- Transform<Scalar,Dim,Affine> res(r);
83
- res.linear().applyOnTheLeft(l);
84
- return res;
85
- }
86
-
87
- /** \returns the concatenation of the rotation \c *this with a transformation \a t */
88
- template<int Mode, int Options>
89
- EIGEN_DEVICE_FUNC inline Transform<Scalar,Dim,Mode> operator*(const Transform<Scalar,Dim,Mode,Options>& t) const
90
- { return toRotationMatrix() * t; }
91
-
92
- template<typename OtherVectorType>
93
- EIGEN_DEVICE_FUNC inline VectorType _transformVector(const OtherVectorType& v) const
94
- { return toRotationMatrix() * v; }
95
- };
96
-
97
- namespace internal {
98
-
99
- // implementation of the generic product rotation * matrix
100
- template<typename RotationDerived, typename MatrixType>
101
- struct rotation_base_generic_product_selector<RotationDerived,MatrixType,false>
102
- {
103
- enum { Dim = RotationDerived::Dim };
104
- typedef Matrix<typename RotationDerived::Scalar,Dim,Dim> ReturnType;
105
- EIGEN_DEVICE_FUNC static inline ReturnType run(const RotationDerived& r, const MatrixType& m)
106
- { return r.toRotationMatrix() * m; }
107
- };
108
-
109
- template<typename RotationDerived, typename Scalar, int Dim, int MaxDim>
110
- struct rotation_base_generic_product_selector< RotationDerived, DiagonalMatrix<Scalar,Dim,MaxDim>, false >
111
- {
112
- typedef Transform<Scalar,Dim,Affine> ReturnType;
113
- EIGEN_DEVICE_FUNC static inline ReturnType run(const RotationDerived& r, const DiagonalMatrix<Scalar,Dim,MaxDim>& m)
114
- {
115
- ReturnType res(r);
116
- res.linear() *= m;
117
- return res;
118
- }
119
- };
120
-
121
- template<typename RotationDerived,typename OtherVectorType>
122
- struct rotation_base_generic_product_selector<RotationDerived,OtherVectorType,true>
123
- {
124
- enum { Dim = RotationDerived::Dim };
125
- typedef Matrix<typename RotationDerived::Scalar,Dim,1> ReturnType;
126
- EIGEN_DEVICE_FUNC static EIGEN_STRONG_INLINE ReturnType run(const RotationDerived& r, const OtherVectorType& v)
127
- {
128
- return r._transformVector(v);
129
- }
130
- };
131
-
132
- } // end namespace internal
133
-
134
- /** \geometry_module
135
- *
136
- * \brief Constructs a Dim x Dim rotation matrix from the rotation \a r
137
- */
138
- template<typename _Scalar, int _Rows, int _Cols, int _Storage, int _MaxRows, int _MaxCols>
139
- template<typename OtherDerived>
140
- EIGEN_DEVICE_FUNC Matrix<_Scalar, _Rows, _Cols, _Storage, _MaxRows, _MaxCols>
141
- ::Matrix(const RotationBase<OtherDerived,ColsAtCompileTime>& r)
142
- {
143
- EIGEN_STATIC_ASSERT_MATRIX_SPECIFIC_SIZE(Matrix,int(OtherDerived::Dim),int(OtherDerived::Dim))
144
- *this = r.toRotationMatrix();
145
- }
146
-
147
- /** \geometry_module
148
- *
149
- * \brief Set a Dim x Dim rotation matrix from the rotation \a r
150
- */
151
- template<typename _Scalar, int _Rows, int _Cols, int _Storage, int _MaxRows, int _MaxCols>
152
- template<typename OtherDerived>
153
- EIGEN_DEVICE_FUNC Matrix<_Scalar, _Rows, _Cols, _Storage, _MaxRows, _MaxCols>&
154
- Matrix<_Scalar, _Rows, _Cols, _Storage, _MaxRows, _MaxCols>
155
- ::operator=(const RotationBase<OtherDerived,ColsAtCompileTime>& r)
156
- {
157
- EIGEN_STATIC_ASSERT_MATRIX_SPECIFIC_SIZE(Matrix,int(OtherDerived::Dim),int(OtherDerived::Dim))
158
- return *this = r.toRotationMatrix();
159
- }
160
-
161
- namespace internal {
162
-
163
- /** \internal
164
- *
165
- * Helper function to return an arbitrary rotation object to a rotation matrix.
166
- *
167
- * \tparam Scalar the numeric type of the matrix coefficients
168
- * \tparam Dim the dimension of the current space
169
- *
170
- * It returns a Dim x Dim fixed size matrix.
171
- *
172
- * Default specializations are provided for:
173
- * - any scalar type (2D),
174
- * - any matrix expression,
175
- * - any type based on RotationBase (e.g., Quaternion, AngleAxis, Rotation2D)
176
- *
177
- * Currently toRotationMatrix is only used by Transform.
178
- *
179
- * \sa class Transform, class Rotation2D, class Quaternion, class AngleAxis
180
- */
181
- template<typename Scalar, int Dim>
182
- EIGEN_DEVICE_FUNC static inline Matrix<Scalar,2,2> toRotationMatrix(const Scalar& s)
183
- {
184
- EIGEN_STATIC_ASSERT(Dim==2,YOU_MADE_A_PROGRAMMING_MISTAKE)
185
- return Rotation2D<Scalar>(s).toRotationMatrix();
186
- }
187
-
188
- template<typename Scalar, int Dim, typename OtherDerived>
189
- EIGEN_DEVICE_FUNC static inline Matrix<Scalar,Dim,Dim> toRotationMatrix(const RotationBase<OtherDerived,Dim>& r)
190
- {
191
- return r.toRotationMatrix();
192
- }
193
-
194
- template<typename Scalar, int Dim, typename OtherDerived>
195
- EIGEN_DEVICE_FUNC static inline const MatrixBase<OtherDerived>& toRotationMatrix(const MatrixBase<OtherDerived>& mat)
196
- {
197
- EIGEN_STATIC_ASSERT(OtherDerived::RowsAtCompileTime==Dim && OtherDerived::ColsAtCompileTime==Dim,
198
- YOU_MADE_A_PROGRAMMING_MISTAKE)
199
- return mat;
200
- }
201
-
202
- } // end namespace internal
203
-
204
- } // end namespace Eigen
205
-
206
- #endif // EIGEN_ROTATIONBASE_H
@@ -1,188 +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
- //
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_SCALING_H
11
- #define EIGEN_SCALING_H
12
-
13
- namespace Eigen {
14
-
15
- /** \geometry_module \ingroup Geometry_Module
16
- *
17
- * \class UniformScaling
18
- *
19
- * \brief Represents a generic uniform scaling transformation
20
- *
21
- * \tparam _Scalar the scalar type, i.e., the type of the coefficients.
22
- *
23
- * This class represent a uniform scaling transformation. It is the return
24
- * type of Scaling(Scalar), and most of the time this is the only way it
25
- * is used. In particular, this class is not aimed to be used to store a scaling transformation,
26
- * but rather to make easier the constructions and updates of Transform objects.
27
- *
28
- * To represent an axis aligned scaling, use the DiagonalMatrix class.
29
- *
30
- * \sa Scaling(), class DiagonalMatrix, MatrixBase::asDiagonal(), class Translation, class Transform
31
- */
32
-
33
- namespace internal
34
- {
35
- // This helper helps nvcc+MSVC to properly parse this file.
36
- // See bug 1412.
37
- template <typename Scalar, int Dim, int Mode>
38
- struct uniformscaling_times_affine_returntype
39
- {
40
- enum
41
- {
42
- NewMode = int(Mode) == int(Isometry) ? Affine : Mode
43
- };
44
- typedef Transform <Scalar, Dim, NewMode> type;
45
- };
46
- }
47
-
48
- template<typename _Scalar>
49
- class UniformScaling
50
- {
51
- public:
52
- /** the scalar type of the coefficients */
53
- typedef _Scalar Scalar;
54
-
55
- protected:
56
-
57
- Scalar m_factor;
58
-
59
- public:
60
-
61
- /** Default constructor without initialization. */
62
- UniformScaling() {}
63
- /** Constructs and initialize a uniform scaling transformation */
64
- explicit inline UniformScaling(const Scalar& s) : m_factor(s) {}
65
-
66
- inline const Scalar& factor() const { return m_factor; }
67
- inline Scalar& factor() { return m_factor; }
68
-
69
- /** Concatenates two uniform scaling */
70
- inline UniformScaling operator* (const UniformScaling& other) const
71
- { return UniformScaling(m_factor * other.factor()); }
72
-
73
- /** Concatenates a uniform scaling and a translation */
74
- template<int Dim>
75
- inline Transform<Scalar,Dim,Affine> operator* (const Translation<Scalar,Dim>& t) const;
76
-
77
- /** Concatenates a uniform scaling and an affine transformation */
78
- template<int Dim, int Mode, int Options>
79
- inline typename
80
- internal::uniformscaling_times_affine_returntype<Scalar,Dim,Mode>::type
81
- operator* (const Transform<Scalar, Dim, Mode, Options>& t) const
82
- {
83
- typename internal::uniformscaling_times_affine_returntype<Scalar,Dim,Mode>::type res = t;
84
- res.prescale(factor());
85
- return res;
86
- }
87
-
88
- /** Concatenates a uniform scaling and a linear transformation matrix */
89
- // TODO returns an expression
90
- template<typename Derived>
91
- inline typename Eigen::internal::plain_matrix_type<Derived>::type operator* (const MatrixBase<Derived>& other) const
92
- { return other * m_factor; }
93
-
94
- template<typename Derived,int Dim>
95
- inline Matrix<Scalar,Dim,Dim> operator*(const RotationBase<Derived,Dim>& r) const
96
- { return r.toRotationMatrix() * m_factor; }
97
-
98
- /** \returns the inverse scaling */
99
- inline UniformScaling inverse() const
100
- { return UniformScaling(Scalar(1)/m_factor); }
101
-
102
- /** \returns \c *this with scalar type casted to \a NewScalarType
103
- *
104
- * Note that if \a NewScalarType is equal to the current scalar type of \c *this
105
- * then this function smartly returns a const reference to \c *this.
106
- */
107
- template<typename NewScalarType>
108
- inline UniformScaling<NewScalarType> cast() const
109
- { return UniformScaling<NewScalarType>(NewScalarType(m_factor)); }
110
-
111
- /** Copy constructor with scalar type conversion */
112
- template<typename OtherScalarType>
113
- inline explicit UniformScaling(const UniformScaling<OtherScalarType>& other)
114
- { m_factor = Scalar(other.factor()); }
115
-
116
- /** \returns \c true if \c *this is approximately equal to \a other, within the precision
117
- * determined by \a prec.
118
- *
119
- * \sa MatrixBase::isApprox() */
120
- bool isApprox(const UniformScaling& other, const typename NumTraits<Scalar>::Real& prec = NumTraits<Scalar>::dummy_precision()) const
121
- { return internal::isApprox(m_factor, other.factor(), prec); }
122
-
123
- };
124
-
125
- /** \addtogroup Geometry_Module */
126
- //@{
127
-
128
- /** Concatenates a linear transformation matrix and a uniform scaling
129
- * \relates UniformScaling
130
- */
131
- // NOTE this operator is defined in MatrixBase and not as a friend function
132
- // of UniformScaling to fix an internal crash of Intel's ICC
133
- template<typename Derived,typename Scalar>
134
- EIGEN_EXPR_BINARYOP_SCALAR_RETURN_TYPE(Derived,Scalar,product)
135
- operator*(const MatrixBase<Derived>& matrix, const UniformScaling<Scalar>& s)
136
- { return matrix.derived() * s.factor(); }
137
-
138
- /** Constructs a uniform scaling from scale factor \a s */
139
- inline UniformScaling<float> Scaling(float s) { return UniformScaling<float>(s); }
140
- /** Constructs a uniform scaling from scale factor \a s */
141
- inline UniformScaling<double> Scaling(double s) { return UniformScaling<double>(s); }
142
- /** Constructs a uniform scaling from scale factor \a s */
143
- template<typename RealScalar>
144
- inline UniformScaling<std::complex<RealScalar> > Scaling(const std::complex<RealScalar>& s)
145
- { return UniformScaling<std::complex<RealScalar> >(s); }
146
-
147
- /** Constructs a 2D axis aligned scaling */
148
- template<typename Scalar>
149
- inline DiagonalMatrix<Scalar,2> Scaling(const Scalar& sx, const Scalar& sy)
150
- { return DiagonalMatrix<Scalar,2>(sx, sy); }
151
- /** Constructs a 3D axis aligned scaling */
152
- template<typename Scalar>
153
- inline DiagonalMatrix<Scalar,3> Scaling(const Scalar& sx, const Scalar& sy, const Scalar& sz)
154
- { return DiagonalMatrix<Scalar,3>(sx, sy, sz); }
155
-
156
- /** Constructs an axis aligned scaling expression from vector expression \a coeffs
157
- * This is an alias for coeffs.asDiagonal()
158
- */
159
- template<typename Derived>
160
- inline const DiagonalWrapper<const Derived> Scaling(const MatrixBase<Derived>& coeffs)
161
- { return coeffs.asDiagonal(); }
162
-
163
- /** \deprecated */
164
- typedef DiagonalMatrix<float, 2> AlignedScaling2f;
165
- /** \deprecated */
166
- typedef DiagonalMatrix<double,2> AlignedScaling2d;
167
- /** \deprecated */
168
- typedef DiagonalMatrix<float, 3> AlignedScaling3f;
169
- /** \deprecated */
170
- typedef DiagonalMatrix<double,3> AlignedScaling3d;
171
- //@}
172
-
173
- template<typename Scalar>
174
- template<int Dim>
175
- inline Transform<Scalar,Dim,Affine>
176
- UniformScaling<Scalar>::operator* (const Translation<Scalar,Dim>& t) const
177
- {
178
- Transform<Scalar,Dim,Affine> res;
179
- res.matrix().setZero();
180
- res.linear().diagonal().fill(factor());
181
- res.translation() = factor() * t.vector();
182
- res(Dim,Dim) = Scalar(1);
183
- return res;
184
- }
185
-
186
- } // end namespace Eigen
187
-
188
- #endif // EIGEN_SCALING_H