sequenzo 0.1.18__cp312-cp312-win_amd64.whl → 0.1.20__cp312-cp312-win_amd64.whl

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  1. sequenzo/__init__.py +39 -7
  2. sequenzo/big_data/clara/utils/get_weighted_diss.c +154 -154
  3. sequenzo/big_data/clara/utils/get_weighted_diss.cp312-win_amd64.pyd +0 -0
  4. sequenzo/clustering/KMedoids.py +39 -0
  5. sequenzo/clustering/clustering_c_code.cp312-win_amd64.pyd +0 -0
  6. sequenzo/clustering/hierarchical_clustering.py +108 -6
  7. sequenzo/define_sequence_data.py +10 -1
  8. sequenzo/dissimilarity_measures/c_code.cp312-win_amd64.pyd +0 -0
  9. sequenzo/dissimilarity_measures/get_distance_matrix.py +2 -3
  10. sequenzo/dissimilarity_measures/get_substitution_cost_matrix.py +1 -1
  11. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c +154 -154
  12. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cp312-win_amd64.pyd +0 -0
  13. sequenzo/dissimilarity_measures/utils/seqconc.c +154 -154
  14. sequenzo/dissimilarity_measures/utils/seqconc.cp312-win_amd64.pyd +0 -0
  15. sequenzo/dissimilarity_measures/utils/seqdss.c +154 -154
  16. sequenzo/dissimilarity_measures/utils/seqdss.cp312-win_amd64.pyd +0 -0
  17. sequenzo/dissimilarity_measures/utils/seqdur.c +154 -154
  18. sequenzo/dissimilarity_measures/utils/seqdur.cp312-win_amd64.pyd +0 -0
  19. sequenzo/dissimilarity_measures/utils/seqlength.c +154 -154
  20. sequenzo/dissimilarity_measures/utils/seqlength.cp312-win_amd64.pyd +0 -0
  21. sequenzo/multidomain/cat.py +0 -53
  22. sequenzo/multidomain/dat.py +11 -3
  23. sequenzo/multidomain/idcd.py +0 -3
  24. sequenzo/multidomain/linked_polyad.py +0 -1
  25. sequenzo/openmp_setup.py +233 -0
  26. sequenzo/visualization/plot_transition_matrix.py +21 -22
  27. {sequenzo-0.1.18.dist-info → sequenzo-0.1.20.dist-info}/METADATA +71 -10
  28. sequenzo-0.1.20.dist-info/RECORD +272 -0
  29. sequenzo/dissimilarity_measures/setup.py +0 -35
  30. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LDLT.h +0 -688
  31. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT.h +0 -558
  32. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +0 -99
  33. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +0 -682
  34. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +0 -346
  35. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +0 -462
  36. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +0 -91
  37. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/EigenSolver.h +0 -622
  38. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +0 -418
  39. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +0 -226
  40. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +0 -374
  41. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +0 -158
  42. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealQZ.h +0 -657
  43. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur.h +0 -558
  44. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +0 -77
  45. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +0 -904
  46. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +0 -87
  47. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +0 -561
  48. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AlignedBox.h +0 -486
  49. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AngleAxis.h +0 -247
  50. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/EulerAngles.h +0 -114
  51. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Homogeneous.h +0 -501
  52. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Hyperplane.h +0 -282
  53. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/OrthoMethods.h +0 -235
  54. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/ParametrizedLine.h +0 -232
  55. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Quaternion.h +0 -870
  56. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Rotation2D.h +0 -199
  57. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/RotationBase.h +0 -206
  58. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Scaling.h +0 -188
  59. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Transform.h +0 -1563
  60. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Translation.h +0 -202
  61. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Umeyama.h +0 -166
  62. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/arch/Geometry_SIMD.h +0 -168
  63. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/BlockHouseholder.h +0 -110
  64. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/Householder.h +0 -176
  65. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/HouseholderSequence.h +0 -545
  66. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +0 -226
  67. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +0 -212
  68. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +0 -229
  69. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +0 -394
  70. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +0 -453
  71. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +0 -444
  72. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +0 -198
  73. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +0 -117
  74. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Jacobi/Jacobi.h +0 -483
  75. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/KLUSupport/KLUSupport.h +0 -358
  76. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/Determinant.h +0 -117
  77. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/FullPivLU.h +0 -877
  78. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/InverseImpl.h +0 -432
  79. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU.h +0 -624
  80. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +0 -83
  81. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/arch/InverseSize4.h +0 -351
  82. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/MetisSupport/MetisSupport.h +0 -137
  83. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Amd.h +0 -435
  84. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +0 -1863
  85. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Ordering.h +0 -153
  86. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +0 -678
  87. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +0 -545
  88. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR.h +0 -674
  89. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +0 -97
  90. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +0 -635
  91. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/FullPivHouseholderQR.h +0 -713
  92. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR.h +0 -434
  93. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +0 -68
  94. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +0 -335
  95. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/BDCSVD.h +0 -1366
  96. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h +0 -812
  97. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +0 -91
  98. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/SVDBase.h +0 -376
  99. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/UpperBidiagonalization.h +0 -414
  100. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +0 -697
  101. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +0 -174
  102. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/AmbiVector.h +0 -378
  103. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/CompressedStorage.h +0 -274
  104. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +0 -352
  105. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +0 -67
  106. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseAssign.h +0 -270
  107. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseBlock.h +0 -571
  108. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseColEtree.h +0 -206
  109. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +0 -370
  110. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +0 -722
  111. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +0 -150
  112. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +0 -342
  113. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +0 -138
  114. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDot.h +0 -98
  115. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseFuzzy.h +0 -29
  116. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMap.h +0 -305
  117. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrix.h +0 -1518
  118. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +0 -398
  119. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparsePermutation.h +0 -178
  120. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseProduct.h +0 -181
  121. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRedux.h +0 -49
  122. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRef.h +0 -397
  123. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +0 -659
  124. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSolverBase.h +0 -124
  125. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +0 -198
  126. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTranspose.h +0 -92
  127. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTriangularView.h +0 -189
  128. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseUtil.h +0 -186
  129. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseVector.h +0 -478
  130. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseView.h +0 -254
  131. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/TriangularSolver.h +0 -315
  132. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU.h +0 -923
  133. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLUImpl.h +0 -66
  134. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +0 -226
  135. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +0 -110
  136. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +0 -375
  137. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +0 -80
  138. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_bmod.h +0 -181
  139. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_dfs.h +0 -179
  140. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +0 -107
  141. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +0 -280
  142. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +0 -126
  143. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +0 -130
  144. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_bmod.h +0 -223
  145. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_dfs.h +0 -258
  146. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pivotL.h +0 -137
  147. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pruneL.h +0 -136
  148. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_relax_snode.h +0 -83
  149. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseQR/SparseQR.h +0 -758
  150. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdDeque.h +0 -116
  151. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdList.h +0 -106
  152. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdVector.h +0 -131
  153. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/details.h +0 -84
  154. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SuperLUSupport/SuperLUSupport.h +0 -1025
  155. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/UmfPackSupport/UmfPackSupport.h +0 -642
  156. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Image.h +0 -82
  157. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Kernel.h +0 -79
  158. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/RealSvd2x2.h +0 -55
  159. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/blas.h +0 -440
  160. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapack.h +0 -152
  161. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke.h +0 -16292
  162. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke_mangling.h +0 -17
  163. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseBinaryOps.h +0 -358
  164. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseUnaryOps.h +0 -696
  165. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/BlockMethods.h +0 -1442
  166. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseBinaryOps.h +0 -115
  167. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseUnaryOps.h +0 -177
  168. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/IndexedViewMethods.h +0 -262
  169. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseBinaryOps.h +0 -152
  170. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseUnaryOps.h +0 -95
  171. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ReshapedMethods.h +0 -149
  172. sequenzo/dissimilarity_measures/src/eigen/bench/BenchSparseUtil.h +0 -149
  173. sequenzo/dissimilarity_measures/src/eigen/bench/BenchTimer.h +0 -199
  174. sequenzo/dissimilarity_measures/src/eigen/bench/BenchUtil.h +0 -92
  175. sequenzo/dissimilarity_measures/src/eigen/bench/basicbenchmark.h +0 -63
  176. sequenzo/dissimilarity_measures/src/eigen/bench/btl/generic_bench/utils/utilities.h +0 -90
  177. sequenzo/dissimilarity_measures/src/eigen/bench/btl/libs/BLAS/blas.h +0 -675
  178. sequenzo/dissimilarity_measures/src/eigen/bench/btl/libs/BLAS/c_interface_base.h +0 -73
  179. sequenzo/dissimilarity_measures/src/eigen/bench/perf_monitoring/gemm_common.h +0 -67
  180. sequenzo/dissimilarity_measures/src/eigen/bench/perf_monitoring/gemv_common.h +0 -69
  181. sequenzo/dissimilarity_measures/src/eigen/bench/spbench/spbenchsolver.h +0 -573
  182. sequenzo/dissimilarity_measures/src/eigen/bench/spbench/spbenchstyle.h +0 -95
  183. sequenzo/dissimilarity_measures/src/eigen/bench/tensors/benchmark.h +0 -49
  184. sequenzo/dissimilarity_measures/src/eigen/bench/tensors/tensor_benchmarks.h +0 -597
  185. sequenzo/dissimilarity_measures/src/eigen/blas/BandTriangularSolver.h +0 -97
  186. sequenzo/dissimilarity_measures/src/eigen/blas/GeneralRank1Update.h +0 -44
  187. sequenzo/dissimilarity_measures/src/eigen/blas/PackedSelfadjointProduct.h +0 -53
  188. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularMatrixVector.h +0 -79
  189. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularSolverVector.h +0 -88
  190. sequenzo/dissimilarity_measures/src/eigen/blas/Rank2Update.h +0 -57
  191. sequenzo/dissimilarity_measures/src/eigen/blas/common.h +0 -175
  192. sequenzo/dissimilarity_measures/src/eigen/blas/f2c/datatypes.h +0 -24
  193. sequenzo/dissimilarity_measures/src/eigen/blas/level1_cplx_impl.h +0 -155
  194. sequenzo/dissimilarity_measures/src/eigen/blas/level1_impl.h +0 -144
  195. sequenzo/dissimilarity_measures/src/eigen/blas/level1_real_impl.h +0 -122
  196. sequenzo/dissimilarity_measures/src/eigen/blas/level2_cplx_impl.h +0 -360
  197. sequenzo/dissimilarity_measures/src/eigen/blas/level2_impl.h +0 -553
  198. sequenzo/dissimilarity_measures/src/eigen/blas/level2_real_impl.h +0 -306
  199. sequenzo/dissimilarity_measures/src/eigen/blas/level3_impl.h +0 -702
  200. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/__init__.py +0 -1
  201. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/printers.py +0 -314
  202. sequenzo/dissimilarity_measures/src/eigen/demos/mandelbrot/mandelbrot.h +0 -71
  203. sequenzo/dissimilarity_measures/src/eigen/demos/mix_eigen_and_c/binary_library.h +0 -71
  204. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/camera.h +0 -118
  205. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/gpuhelper.h +0 -207
  206. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/icosphere.h +0 -30
  207. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/quaternion_demo.h +0 -114
  208. sequenzo/dissimilarity_measures/src/eigen/demos/opengl/trackball.h +0 -42
  209. sequenzo/dissimilarity_measures/src/eigen/lapack/lapack_common.h +0 -29
  210. sequenzo/dissimilarity_measures/src/eigen/scripts/relicense.py +0 -69
  211. sequenzo/dissimilarity_measures/src/eigen/test/AnnoyingScalar.h +0 -165
  212. sequenzo/dissimilarity_measures/src/eigen/test/MovableScalar.h +0 -35
  213. sequenzo/dissimilarity_measures/src/eigen/test/SafeScalar.h +0 -30
  214. sequenzo/dissimilarity_measures/src/eigen/test/bug1213.h +0 -8
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  398. {sequenzo-0.1.18.dist-info → sequenzo-0.1.20.dist-info}/licenses/LICENSE +0 -0
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@@ -1,501 +0,0 @@
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- // This file is part of Eigen, a lightweight C++ template library
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- // for linear algebra.
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- //
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- // Copyright (C) 2009-2010 Gael Guennebaud <gael.guennebaud@inria.fr>
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- //
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- // This Source Code Form is subject to the terms of the Mozilla
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- // Public License v. 2.0. If a copy of the MPL was not distributed
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- // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
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-
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- #ifndef EIGEN_HOMOGENEOUS_H
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- #define EIGEN_HOMOGENEOUS_H
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-
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- namespace Eigen {
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-
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- /** \geometry_module \ingroup Geometry_Module
16
- *
17
- * \class Homogeneous
18
- *
19
- * \brief Expression of one (or a set of) homogeneous vector(s)
20
- *
21
- * \param MatrixType the type of the object in which we are making homogeneous
22
- *
23
- * This class represents an expression of one (or a set of) homogeneous vector(s).
24
- * It is the return type of MatrixBase::homogeneous() and most of the time
25
- * this is the only way it is used.
26
- *
27
- * \sa MatrixBase::homogeneous()
28
- */
29
-
30
- namespace internal {
31
-
32
- template<typename MatrixType,int Direction>
33
- struct traits<Homogeneous<MatrixType,Direction> >
34
- : traits<MatrixType>
35
- {
36
- typedef typename traits<MatrixType>::StorageKind StorageKind;
37
- typedef typename ref_selector<MatrixType>::type MatrixTypeNested;
38
- typedef typename remove_reference<MatrixTypeNested>::type _MatrixTypeNested;
39
- enum {
40
- RowsPlusOne = (MatrixType::RowsAtCompileTime != Dynamic) ?
41
- int(MatrixType::RowsAtCompileTime) + 1 : Dynamic,
42
- ColsPlusOne = (MatrixType::ColsAtCompileTime != Dynamic) ?
43
- int(MatrixType::ColsAtCompileTime) + 1 : Dynamic,
44
- RowsAtCompileTime = Direction==Vertical ? RowsPlusOne : MatrixType::RowsAtCompileTime,
45
- ColsAtCompileTime = Direction==Horizontal ? ColsPlusOne : MatrixType::ColsAtCompileTime,
46
- MaxRowsAtCompileTime = RowsAtCompileTime,
47
- MaxColsAtCompileTime = ColsAtCompileTime,
48
- TmpFlags = _MatrixTypeNested::Flags & HereditaryBits,
49
- Flags = ColsAtCompileTime==1 ? (TmpFlags & ~RowMajorBit)
50
- : RowsAtCompileTime==1 ? (TmpFlags | RowMajorBit)
51
- : TmpFlags
52
- };
53
- };
54
-
55
- template<typename MatrixType,typename Lhs> struct homogeneous_left_product_impl;
56
- template<typename MatrixType,typename Rhs> struct homogeneous_right_product_impl;
57
-
58
- } // end namespace internal
59
-
60
- template<typename MatrixType,int _Direction> class Homogeneous
61
- : public MatrixBase<Homogeneous<MatrixType,_Direction> >, internal::no_assignment_operator
62
- {
63
- public:
64
-
65
- typedef MatrixType NestedExpression;
66
- enum { Direction = _Direction };
67
-
68
- typedef MatrixBase<Homogeneous> Base;
69
- EIGEN_DENSE_PUBLIC_INTERFACE(Homogeneous)
70
-
71
- EIGEN_DEVICE_FUNC explicit inline Homogeneous(const MatrixType& matrix)
72
- : m_matrix(matrix)
73
- {}
74
-
75
- EIGEN_DEVICE_FUNC EIGEN_CONSTEXPR
76
- inline Index rows() const EIGEN_NOEXCEPT { return m_matrix.rows() + (int(Direction)==Vertical ? 1 : 0); }
77
- EIGEN_DEVICE_FUNC EIGEN_CONSTEXPR
78
- inline Index cols() const EIGEN_NOEXCEPT { return m_matrix.cols() + (int(Direction)==Horizontal ? 1 : 0); }
79
-
80
- EIGEN_DEVICE_FUNC const NestedExpression& nestedExpression() const { return m_matrix; }
81
-
82
- template<typename Rhs>
83
- EIGEN_DEVICE_FUNC inline const Product<Homogeneous,Rhs>
84
- operator* (const MatrixBase<Rhs>& rhs) const
85
- {
86
- eigen_assert(int(Direction)==Horizontal);
87
- return Product<Homogeneous,Rhs>(*this,rhs.derived());
88
- }
89
-
90
- template<typename Lhs> friend
91
- EIGEN_DEVICE_FUNC inline const Product<Lhs,Homogeneous>
92
- operator* (const MatrixBase<Lhs>& lhs, const Homogeneous& rhs)
93
- {
94
- eigen_assert(int(Direction)==Vertical);
95
- return Product<Lhs,Homogeneous>(lhs.derived(),rhs);
96
- }
97
-
98
- template<typename Scalar, int Dim, int Mode, int Options> friend
99
- EIGEN_DEVICE_FUNC inline const Product<Transform<Scalar,Dim,Mode,Options>, Homogeneous >
100
- operator* (const Transform<Scalar,Dim,Mode,Options>& lhs, const Homogeneous& rhs)
101
- {
102
- eigen_assert(int(Direction)==Vertical);
103
- return Product<Transform<Scalar,Dim,Mode,Options>, Homogeneous>(lhs,rhs);
104
- }
105
-
106
- template<typename Func>
107
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE typename internal::result_of<Func(Scalar,Scalar)>::type
108
- redux(const Func& func) const
109
- {
110
- return func(m_matrix.redux(func), Scalar(1));
111
- }
112
-
113
- protected:
114
- typename MatrixType::Nested m_matrix;
115
- };
116
-
117
- /** \geometry_module \ingroup Geometry_Module
118
- *
119
- * \returns a vector expression that is one longer than the vector argument, with the value 1 symbolically appended as the last coefficient.
120
- *
121
- * This can be used to convert affine coordinates to homogeneous coordinates.
122
- *
123
- * \only_for_vectors
124
- *
125
- * Example: \include MatrixBase_homogeneous.cpp
126
- * Output: \verbinclude MatrixBase_homogeneous.out
127
- *
128
- * \sa VectorwiseOp::homogeneous(), class Homogeneous
129
- */
130
- template<typename Derived>
131
- EIGEN_DEVICE_FUNC inline typename MatrixBase<Derived>::HomogeneousReturnType
132
- MatrixBase<Derived>::homogeneous() const
133
- {
134
- EIGEN_STATIC_ASSERT_VECTOR_ONLY(Derived);
135
- return HomogeneousReturnType(derived());
136
- }
137
-
138
- /** \geometry_module \ingroup Geometry_Module
139
- *
140
- * \returns an expression where the value 1 is symbolically appended as the final coefficient to each column (or row) of the matrix.
141
- *
142
- * This can be used to convert affine coordinates to homogeneous coordinates.
143
- *
144
- * Example: \include VectorwiseOp_homogeneous.cpp
145
- * Output: \verbinclude VectorwiseOp_homogeneous.out
146
- *
147
- * \sa MatrixBase::homogeneous(), class Homogeneous */
148
- template<typename ExpressionType, int Direction>
149
- EIGEN_DEVICE_FUNC inline Homogeneous<ExpressionType,Direction>
150
- VectorwiseOp<ExpressionType,Direction>::homogeneous() const
151
- {
152
- return HomogeneousReturnType(_expression());
153
- }
154
-
155
- /** \geometry_module \ingroup Geometry_Module
156
- *
157
- * \brief homogeneous normalization
158
- *
159
- * \returns a vector expression of the N-1 first coefficients of \c *this divided by that last coefficient.
160
- *
161
- * This can be used to convert homogeneous coordinates to affine coordinates.
162
- *
163
- * It is essentially a shortcut for:
164
- * \code
165
- this->head(this->size()-1)/this->coeff(this->size()-1);
166
- \endcode
167
- *
168
- * Example: \include MatrixBase_hnormalized.cpp
169
- * Output: \verbinclude MatrixBase_hnormalized.out
170
- *
171
- * \sa VectorwiseOp::hnormalized() */
172
- template<typename Derived>
173
- EIGEN_DEVICE_FUNC inline const typename MatrixBase<Derived>::HNormalizedReturnType
174
- MatrixBase<Derived>::hnormalized() const
175
- {
176
- EIGEN_STATIC_ASSERT_VECTOR_ONLY(Derived);
177
- return ConstStartMinusOne(derived(),0,0,
178
- ColsAtCompileTime==1?size()-1:1,
179
- ColsAtCompileTime==1?1:size()-1) / coeff(size()-1);
180
- }
181
-
182
- /** \geometry_module \ingroup Geometry_Module
183
- *
184
- * \brief column or row-wise homogeneous normalization
185
- *
186
- * \returns an expression of the first N-1 coefficients of each column (or row) of \c *this divided by the last coefficient of each column (or row).
187
- *
188
- * This can be used to convert homogeneous coordinates to affine coordinates.
189
- *
190
- * It is conceptually equivalent to calling MatrixBase::hnormalized() to each column (or row) of \c *this.
191
- *
192
- * Example: \include DirectionWise_hnormalized.cpp
193
- * Output: \verbinclude DirectionWise_hnormalized.out
194
- *
195
- * \sa MatrixBase::hnormalized() */
196
- template<typename ExpressionType, int Direction>
197
- EIGEN_DEVICE_FUNC inline const typename VectorwiseOp<ExpressionType,Direction>::HNormalizedReturnType
198
- VectorwiseOp<ExpressionType,Direction>::hnormalized() const
199
- {
200
- return HNormalized_Block(_expression(),0,0,
201
- Direction==Vertical ? _expression().rows()-1 : _expression().rows(),
202
- Direction==Horizontal ? _expression().cols()-1 : _expression().cols()).cwiseQuotient(
203
- Replicate<HNormalized_Factors,
204
- Direction==Vertical ? HNormalized_SizeMinusOne : 1,
205
- Direction==Horizontal ? HNormalized_SizeMinusOne : 1>
206
- (HNormalized_Factors(_expression(),
207
- Direction==Vertical ? _expression().rows()-1:0,
208
- Direction==Horizontal ? _expression().cols()-1:0,
209
- Direction==Vertical ? 1 : _expression().rows(),
210
- Direction==Horizontal ? 1 : _expression().cols()),
211
- Direction==Vertical ? _expression().rows()-1 : 1,
212
- Direction==Horizontal ? _expression().cols()-1 : 1));
213
- }
214
-
215
- namespace internal {
216
-
217
- template<typename MatrixOrTransformType>
218
- struct take_matrix_for_product
219
- {
220
- typedef MatrixOrTransformType type;
221
- EIGEN_DEVICE_FUNC static const type& run(const type &x) { return x; }
222
- };
223
-
224
- template<typename Scalar, int Dim, int Mode,int Options>
225
- struct take_matrix_for_product<Transform<Scalar, Dim, Mode, Options> >
226
- {
227
- typedef Transform<Scalar, Dim, Mode, Options> TransformType;
228
- typedef typename internal::add_const<typename TransformType::ConstAffinePart>::type type;
229
- EIGEN_DEVICE_FUNC static type run (const TransformType& x) { return x.affine(); }
230
- };
231
-
232
- template<typename Scalar, int Dim, int Options>
233
- struct take_matrix_for_product<Transform<Scalar, Dim, Projective, Options> >
234
- {
235
- typedef Transform<Scalar, Dim, Projective, Options> TransformType;
236
- typedef typename TransformType::MatrixType type;
237
- EIGEN_DEVICE_FUNC static const type& run (const TransformType& x) { return x.matrix(); }
238
- };
239
-
240
- template<typename MatrixType,typename Lhs>
241
- struct traits<homogeneous_left_product_impl<Homogeneous<MatrixType,Vertical>,Lhs> >
242
- {
243
- typedef typename take_matrix_for_product<Lhs>::type LhsMatrixType;
244
- typedef typename remove_all<MatrixType>::type MatrixTypeCleaned;
245
- typedef typename remove_all<LhsMatrixType>::type LhsMatrixTypeCleaned;
246
- typedef typename make_proper_matrix_type<
247
- typename traits<MatrixTypeCleaned>::Scalar,
248
- LhsMatrixTypeCleaned::RowsAtCompileTime,
249
- MatrixTypeCleaned::ColsAtCompileTime,
250
- MatrixTypeCleaned::PlainObject::Options,
251
- LhsMatrixTypeCleaned::MaxRowsAtCompileTime,
252
- MatrixTypeCleaned::MaxColsAtCompileTime>::type ReturnType;
253
- };
254
-
255
- template<typename MatrixType,typename Lhs>
256
- struct homogeneous_left_product_impl<Homogeneous<MatrixType,Vertical>,Lhs>
257
- : public ReturnByValue<homogeneous_left_product_impl<Homogeneous<MatrixType,Vertical>,Lhs> >
258
- {
259
- typedef typename traits<homogeneous_left_product_impl>::LhsMatrixType LhsMatrixType;
260
- typedef typename remove_all<LhsMatrixType>::type LhsMatrixTypeCleaned;
261
- typedef typename remove_all<typename LhsMatrixTypeCleaned::Nested>::type LhsMatrixTypeNested;
262
- EIGEN_DEVICE_FUNC homogeneous_left_product_impl(const Lhs& lhs, const MatrixType& rhs)
263
- : m_lhs(take_matrix_for_product<Lhs>::run(lhs)),
264
- m_rhs(rhs)
265
- {}
266
-
267
- EIGEN_DEVICE_FUNC EIGEN_CONSTEXPR
268
- inline Index rows() const EIGEN_NOEXCEPT { return m_lhs.rows(); }
269
- EIGEN_DEVICE_FUNC EIGEN_CONSTEXPR
270
- inline Index cols() const EIGEN_NOEXCEPT { return m_rhs.cols(); }
271
-
272
- template<typename Dest> EIGEN_DEVICE_FUNC void evalTo(Dest& dst) const
273
- {
274
- // FIXME investigate how to allow lazy evaluation of this product when possible
275
- dst = Block<const LhsMatrixTypeNested,
276
- LhsMatrixTypeNested::RowsAtCompileTime,
277
- LhsMatrixTypeNested::ColsAtCompileTime==Dynamic?Dynamic:LhsMatrixTypeNested::ColsAtCompileTime-1>
278
- (m_lhs,0,0,m_lhs.rows(),m_lhs.cols()-1) * m_rhs;
279
- dst += m_lhs.col(m_lhs.cols()-1).rowwise()
280
- .template replicate<MatrixType::ColsAtCompileTime>(m_rhs.cols());
281
- }
282
-
283
- typename LhsMatrixTypeCleaned::Nested m_lhs;
284
- typename MatrixType::Nested m_rhs;
285
- };
286
-
287
- template<typename MatrixType,typename Rhs>
288
- struct traits<homogeneous_right_product_impl<Homogeneous<MatrixType,Horizontal>,Rhs> >
289
- {
290
- typedef typename make_proper_matrix_type<typename traits<MatrixType>::Scalar,
291
- MatrixType::RowsAtCompileTime,
292
- Rhs::ColsAtCompileTime,
293
- MatrixType::PlainObject::Options,
294
- MatrixType::MaxRowsAtCompileTime,
295
- Rhs::MaxColsAtCompileTime>::type ReturnType;
296
- };
297
-
298
- template<typename MatrixType,typename Rhs>
299
- struct homogeneous_right_product_impl<Homogeneous<MatrixType,Horizontal>,Rhs>
300
- : public ReturnByValue<homogeneous_right_product_impl<Homogeneous<MatrixType,Horizontal>,Rhs> >
301
- {
302
- typedef typename remove_all<typename Rhs::Nested>::type RhsNested;
303
- EIGEN_DEVICE_FUNC homogeneous_right_product_impl(const MatrixType& lhs, const Rhs& rhs)
304
- : m_lhs(lhs), m_rhs(rhs)
305
- {}
306
-
307
- EIGEN_DEVICE_FUNC EIGEN_CONSTEXPR inline Index rows() const EIGEN_NOEXCEPT { return m_lhs.rows(); }
308
- EIGEN_DEVICE_FUNC EIGEN_CONSTEXPR inline Index cols() const EIGEN_NOEXCEPT { return m_rhs.cols(); }
309
-
310
- template<typename Dest> EIGEN_DEVICE_FUNC void evalTo(Dest& dst) const
311
- {
312
- // FIXME investigate how to allow lazy evaluation of this product when possible
313
- dst = m_lhs * Block<const RhsNested,
314
- RhsNested::RowsAtCompileTime==Dynamic?Dynamic:RhsNested::RowsAtCompileTime-1,
315
- RhsNested::ColsAtCompileTime>
316
- (m_rhs,0,0,m_rhs.rows()-1,m_rhs.cols());
317
- dst += m_rhs.row(m_rhs.rows()-1).colwise()
318
- .template replicate<MatrixType::RowsAtCompileTime>(m_lhs.rows());
319
- }
320
-
321
- typename MatrixType::Nested m_lhs;
322
- typename Rhs::Nested m_rhs;
323
- };
324
-
325
- template<typename ArgType,int Direction>
326
- struct evaluator_traits<Homogeneous<ArgType,Direction> >
327
- {
328
- typedef typename storage_kind_to_evaluator_kind<typename ArgType::StorageKind>::Kind Kind;
329
- typedef HomogeneousShape Shape;
330
- };
331
-
332
- template<> struct AssignmentKind<DenseShape,HomogeneousShape> { typedef Dense2Dense Kind; };
333
-
334
-
335
- template<typename ArgType,int Direction>
336
- struct unary_evaluator<Homogeneous<ArgType,Direction>, IndexBased>
337
- : evaluator<typename Homogeneous<ArgType,Direction>::PlainObject >
338
- {
339
- typedef Homogeneous<ArgType,Direction> XprType;
340
- typedef typename XprType::PlainObject PlainObject;
341
- typedef evaluator<PlainObject> Base;
342
-
343
- EIGEN_DEVICE_FUNC explicit unary_evaluator(const XprType& op)
344
- : Base(), m_temp(op)
345
- {
346
- ::new (static_cast<Base*>(this)) Base(m_temp);
347
- }
348
-
349
- protected:
350
- PlainObject m_temp;
351
- };
352
-
353
- // dense = homogeneous
354
- template< typename DstXprType, typename ArgType, typename Scalar>
355
- struct Assignment<DstXprType, Homogeneous<ArgType,Vertical>, internal::assign_op<Scalar,typename ArgType::Scalar>, Dense2Dense>
356
- {
357
- typedef Homogeneous<ArgType,Vertical> SrcXprType;
358
- EIGEN_DEVICE_FUNC static void run(DstXprType &dst, const SrcXprType &src, const internal::assign_op<Scalar,typename ArgType::Scalar> &)
359
- {
360
- Index dstRows = src.rows();
361
- Index dstCols = src.cols();
362
- if((dst.rows()!=dstRows) || (dst.cols()!=dstCols))
363
- dst.resize(dstRows, dstCols);
364
-
365
- dst.template topRows<ArgType::RowsAtCompileTime>(src.nestedExpression().rows()) = src.nestedExpression();
366
- dst.row(dst.rows()-1).setOnes();
367
- }
368
- };
369
-
370
- // dense = homogeneous
371
- template< typename DstXprType, typename ArgType, typename Scalar>
372
- struct Assignment<DstXprType, Homogeneous<ArgType,Horizontal>, internal::assign_op<Scalar,typename ArgType::Scalar>, Dense2Dense>
373
- {
374
- typedef Homogeneous<ArgType,Horizontal> SrcXprType;
375
- EIGEN_DEVICE_FUNC static void run(DstXprType &dst, const SrcXprType &src, const internal::assign_op<Scalar,typename ArgType::Scalar> &)
376
- {
377
- Index dstRows = src.rows();
378
- Index dstCols = src.cols();
379
- if((dst.rows()!=dstRows) || (dst.cols()!=dstCols))
380
- dst.resize(dstRows, dstCols);
381
-
382
- dst.template leftCols<ArgType::ColsAtCompileTime>(src.nestedExpression().cols()) = src.nestedExpression();
383
- dst.col(dst.cols()-1).setOnes();
384
- }
385
- };
386
-
387
- template<typename LhsArg, typename Rhs, int ProductTag>
388
- struct generic_product_impl<Homogeneous<LhsArg,Horizontal>, Rhs, HomogeneousShape, DenseShape, ProductTag>
389
- {
390
- template<typename Dest>
391
- EIGEN_DEVICE_FUNC static void evalTo(Dest& dst, const Homogeneous<LhsArg,Horizontal>& lhs, const Rhs& rhs)
392
- {
393
- homogeneous_right_product_impl<Homogeneous<LhsArg,Horizontal>, Rhs>(lhs.nestedExpression(), rhs).evalTo(dst);
394
- }
395
- };
396
-
397
- template<typename Lhs,typename Rhs>
398
- struct homogeneous_right_product_refactoring_helper
399
- {
400
- enum {
401
- Dim = Lhs::ColsAtCompileTime,
402
- Rows = Lhs::RowsAtCompileTime
403
- };
404
- typedef typename Rhs::template ConstNRowsBlockXpr<Dim>::Type LinearBlockConst;
405
- typedef typename remove_const<LinearBlockConst>::type LinearBlock;
406
- typedef typename Rhs::ConstRowXpr ConstantColumn;
407
- typedef Replicate<const ConstantColumn,Rows,1> ConstantBlock;
408
- typedef Product<Lhs,LinearBlock,LazyProduct> LinearProduct;
409
- typedef CwiseBinaryOp<internal::scalar_sum_op<typename Lhs::Scalar,typename Rhs::Scalar>, const LinearProduct, const ConstantBlock> Xpr;
410
- };
411
-
412
- template<typename Lhs, typename Rhs, int ProductTag>
413
- struct product_evaluator<Product<Lhs, Rhs, LazyProduct>, ProductTag, HomogeneousShape, DenseShape>
414
- : public evaluator<typename homogeneous_right_product_refactoring_helper<typename Lhs::NestedExpression,Rhs>::Xpr>
415
- {
416
- typedef Product<Lhs, Rhs, LazyProduct> XprType;
417
- typedef homogeneous_right_product_refactoring_helper<typename Lhs::NestedExpression,Rhs> helper;
418
- typedef typename helper::ConstantBlock ConstantBlock;
419
- typedef typename helper::Xpr RefactoredXpr;
420
- typedef evaluator<RefactoredXpr> Base;
421
-
422
- EIGEN_DEVICE_FUNC explicit product_evaluator(const XprType& xpr)
423
- : Base( xpr.lhs().nestedExpression() .lazyProduct( xpr.rhs().template topRows<helper::Dim>(xpr.lhs().nestedExpression().cols()) )
424
- + ConstantBlock(xpr.rhs().row(xpr.rhs().rows()-1),xpr.lhs().rows(), 1) )
425
- {}
426
- };
427
-
428
- template<typename Lhs, typename RhsArg, int ProductTag>
429
- struct generic_product_impl<Lhs, Homogeneous<RhsArg,Vertical>, DenseShape, HomogeneousShape, ProductTag>
430
- {
431
- template<typename Dest>
432
- EIGEN_DEVICE_FUNC static void evalTo(Dest& dst, const Lhs& lhs, const Homogeneous<RhsArg,Vertical>& rhs)
433
- {
434
- homogeneous_left_product_impl<Homogeneous<RhsArg,Vertical>, Lhs>(lhs, rhs.nestedExpression()).evalTo(dst);
435
- }
436
- };
437
-
438
- // TODO: the following specialization is to address a regression from 3.2 to 3.3
439
- // In the future, this path should be optimized.
440
- template<typename Lhs, typename RhsArg, int ProductTag>
441
- struct generic_product_impl<Lhs, Homogeneous<RhsArg,Vertical>, TriangularShape, HomogeneousShape, ProductTag>
442
- {
443
- template<typename Dest>
444
- static void evalTo(Dest& dst, const Lhs& lhs, const Homogeneous<RhsArg,Vertical>& rhs)
445
- {
446
- dst.noalias() = lhs * rhs.eval();
447
- }
448
- };
449
-
450
- template<typename Lhs,typename Rhs>
451
- struct homogeneous_left_product_refactoring_helper
452
- {
453
- enum {
454
- Dim = Rhs::RowsAtCompileTime,
455
- Cols = Rhs::ColsAtCompileTime
456
- };
457
- typedef typename Lhs::template ConstNColsBlockXpr<Dim>::Type LinearBlockConst;
458
- typedef typename remove_const<LinearBlockConst>::type LinearBlock;
459
- typedef typename Lhs::ConstColXpr ConstantColumn;
460
- typedef Replicate<const ConstantColumn,1,Cols> ConstantBlock;
461
- typedef Product<LinearBlock,Rhs,LazyProduct> LinearProduct;
462
- typedef CwiseBinaryOp<internal::scalar_sum_op<typename Lhs::Scalar,typename Rhs::Scalar>, const LinearProduct, const ConstantBlock> Xpr;
463
- };
464
-
465
- template<typename Lhs, typename Rhs, int ProductTag>
466
- struct product_evaluator<Product<Lhs, Rhs, LazyProduct>, ProductTag, DenseShape, HomogeneousShape>
467
- : public evaluator<typename homogeneous_left_product_refactoring_helper<Lhs,typename Rhs::NestedExpression>::Xpr>
468
- {
469
- typedef Product<Lhs, Rhs, LazyProduct> XprType;
470
- typedef homogeneous_left_product_refactoring_helper<Lhs,typename Rhs::NestedExpression> helper;
471
- typedef typename helper::ConstantBlock ConstantBlock;
472
- typedef typename helper::Xpr RefactoredXpr;
473
- typedef evaluator<RefactoredXpr> Base;
474
-
475
- EIGEN_DEVICE_FUNC explicit product_evaluator(const XprType& xpr)
476
- : Base( xpr.lhs().template leftCols<helper::Dim>(xpr.rhs().nestedExpression().rows()) .lazyProduct( xpr.rhs().nestedExpression() )
477
- + ConstantBlock(xpr.lhs().col(xpr.lhs().cols()-1),1,xpr.rhs().cols()) )
478
- {}
479
- };
480
-
481
- template<typename Scalar, int Dim, int Mode,int Options, typename RhsArg, int ProductTag>
482
- struct generic_product_impl<Transform<Scalar,Dim,Mode,Options>, Homogeneous<RhsArg,Vertical>, DenseShape, HomogeneousShape, ProductTag>
483
- {
484
- typedef Transform<Scalar,Dim,Mode,Options> TransformType;
485
- template<typename Dest>
486
- EIGEN_DEVICE_FUNC static void evalTo(Dest& dst, const TransformType& lhs, const Homogeneous<RhsArg,Vertical>& rhs)
487
- {
488
- homogeneous_left_product_impl<Homogeneous<RhsArg,Vertical>, TransformType>(lhs, rhs.nestedExpression()).evalTo(dst);
489
- }
490
- };
491
-
492
- template<typename ExpressionType, int Side, bool Transposed>
493
- struct permutation_matrix_product<ExpressionType, Side, Transposed, HomogeneousShape>
494
- : public permutation_matrix_product<ExpressionType, Side, Transposed, DenseShape>
495
- {};
496
-
497
- } // end namespace internal
498
-
499
- } // end namespace Eigen
500
-
501
- #endif // EIGEN_HOMOGENEOUS_H