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
@@ -1,722 +0,0 @@
1
- // This file is part of Eigen, a lightweight C++ template library
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- // for linear algebra.
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- //
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- // Copyright (C) 2008-2014 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_SPARSE_CWISE_BINARY_OP_H
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- #define EIGEN_SPARSE_CWISE_BINARY_OP_H
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-
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- namespace Eigen {
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-
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- // Here we have to handle 3 cases:
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- // 1 - sparse op dense
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- // 2 - dense op sparse
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- // 3 - sparse op sparse
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- // We also need to implement a 4th iterator for:
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- // 4 - dense op dense
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- // Finally, we also need to distinguish between the product and other operations :
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- // configuration returned mode
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- // 1 - sparse op dense product sparse
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- // generic dense
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- // 2 - dense op sparse product sparse
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- // generic dense
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- // 3 - sparse op sparse product sparse
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- // generic sparse
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- // 4 - dense op dense product dense
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- // generic dense
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- //
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- // TODO to ease compiler job, we could specialize product/quotient with a scalar
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- // and fallback to cwise-unary evaluator using bind1st_op and bind2nd_op.
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-
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- template<typename BinaryOp, typename Lhs, typename Rhs>
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- class CwiseBinaryOpImpl<BinaryOp, Lhs, Rhs, Sparse>
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- : public SparseMatrixBase<CwiseBinaryOp<BinaryOp, Lhs, Rhs> >
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- {
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- public:
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- typedef CwiseBinaryOp<BinaryOp, Lhs, Rhs> Derived;
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- typedef SparseMatrixBase<Derived> Base;
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- EIGEN_SPARSE_PUBLIC_INTERFACE(Derived)
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- CwiseBinaryOpImpl()
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- {
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- EIGEN_STATIC_ASSERT((
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- (!internal::is_same<typename internal::traits<Lhs>::StorageKind,
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- typename internal::traits<Rhs>::StorageKind>::value)
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- || ((internal::evaluator<Lhs>::Flags&RowMajorBit) == (internal::evaluator<Rhs>::Flags&RowMajorBit))),
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- THE_STORAGE_ORDER_OF_BOTH_SIDES_MUST_MATCH);
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- }
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- };
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-
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- namespace internal {
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-
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-
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- // Generic "sparse OP sparse"
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- template<typename XprType> struct binary_sparse_evaluator;
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-
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- template<typename BinaryOp, typename Lhs, typename Rhs>
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- struct binary_evaluator<CwiseBinaryOp<BinaryOp, Lhs, Rhs>, IteratorBased, IteratorBased>
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- : evaluator_base<CwiseBinaryOp<BinaryOp, Lhs, Rhs> >
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- {
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- protected:
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- typedef typename evaluator<Lhs>::InnerIterator LhsIterator;
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- typedef typename evaluator<Rhs>::InnerIterator RhsIterator;
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- typedef CwiseBinaryOp<BinaryOp, Lhs, Rhs> XprType;
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- typedef typename traits<XprType>::Scalar Scalar;
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- typedef typename XprType::StorageIndex StorageIndex;
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- public:
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-
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- class InnerIterator
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- {
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- public:
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-
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- EIGEN_STRONG_INLINE InnerIterator(const binary_evaluator& aEval, Index outer)
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- : m_lhsIter(aEval.m_lhsImpl,outer), m_rhsIter(aEval.m_rhsImpl,outer), m_functor(aEval.m_functor)
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- {
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- this->operator++();
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- }
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-
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- EIGEN_STRONG_INLINE InnerIterator& operator++()
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- {
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- if (m_lhsIter && m_rhsIter && (m_lhsIter.index() == m_rhsIter.index()))
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- {
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- m_id = m_lhsIter.index();
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- m_value = m_functor(m_lhsIter.value(), m_rhsIter.value());
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- ++m_lhsIter;
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- ++m_rhsIter;
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- }
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- else if (m_lhsIter && (!m_rhsIter || (m_lhsIter.index() < m_rhsIter.index())))
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- {
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- m_id = m_lhsIter.index();
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- m_value = m_functor(m_lhsIter.value(), Scalar(0));
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- ++m_lhsIter;
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- }
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- else if (m_rhsIter && (!m_lhsIter || (m_lhsIter.index() > m_rhsIter.index())))
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- {
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- m_id = m_rhsIter.index();
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- m_value = m_functor(Scalar(0), m_rhsIter.value());
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- ++m_rhsIter;
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- }
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- else
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- {
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- m_value = Scalar(0); // this is to avoid a compilation warning
105
- m_id = -1;
106
- }
107
- return *this;
108
- }
109
-
110
- EIGEN_STRONG_INLINE Scalar value() const { return m_value; }
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-
112
- EIGEN_STRONG_INLINE StorageIndex index() const { return m_id; }
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- EIGEN_STRONG_INLINE Index outer() const { return m_lhsIter.outer(); }
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- EIGEN_STRONG_INLINE Index row() const { return Lhs::IsRowMajor ? m_lhsIter.row() : index(); }
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- EIGEN_STRONG_INLINE Index col() const { return Lhs::IsRowMajor ? index() : m_lhsIter.col(); }
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-
117
- EIGEN_STRONG_INLINE operator bool() const { return m_id>=0; }
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-
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- protected:
120
- LhsIterator m_lhsIter;
121
- RhsIterator m_rhsIter;
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- const BinaryOp& m_functor;
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- Scalar m_value;
124
- StorageIndex m_id;
125
- };
126
-
127
-
128
- enum {
129
- CoeffReadCost = int(evaluator<Lhs>::CoeffReadCost) + int(evaluator<Rhs>::CoeffReadCost) + int(functor_traits<BinaryOp>::Cost),
130
- Flags = XprType::Flags
131
- };
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-
133
- explicit binary_evaluator(const XprType& xpr)
134
- : m_functor(xpr.functor()),
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- m_lhsImpl(xpr.lhs()),
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- m_rhsImpl(xpr.rhs())
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- {
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- EIGEN_INTERNAL_CHECK_COST_VALUE(functor_traits<BinaryOp>::Cost);
139
- EIGEN_INTERNAL_CHECK_COST_VALUE(CoeffReadCost);
140
- }
141
-
142
- inline Index nonZerosEstimate() const {
143
- return m_lhsImpl.nonZerosEstimate() + m_rhsImpl.nonZerosEstimate();
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- }
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-
146
- protected:
147
- const BinaryOp m_functor;
148
- evaluator<Lhs> m_lhsImpl;
149
- evaluator<Rhs> m_rhsImpl;
150
- };
151
-
152
- // dense op sparse
153
- template<typename BinaryOp, typename Lhs, typename Rhs>
154
- struct binary_evaluator<CwiseBinaryOp<BinaryOp, Lhs, Rhs>, IndexBased, IteratorBased>
155
- : evaluator_base<CwiseBinaryOp<BinaryOp, Lhs, Rhs> >
156
- {
157
- protected:
158
- typedef typename evaluator<Rhs>::InnerIterator RhsIterator;
159
- typedef CwiseBinaryOp<BinaryOp, Lhs, Rhs> XprType;
160
- typedef typename traits<XprType>::Scalar Scalar;
161
- typedef typename XprType::StorageIndex StorageIndex;
162
- public:
163
-
164
- class InnerIterator
165
- {
166
- enum { IsRowMajor = (int(Rhs::Flags)&RowMajorBit)==RowMajorBit };
167
- public:
168
-
169
- EIGEN_STRONG_INLINE InnerIterator(const binary_evaluator& aEval, Index outer)
170
- : m_lhsEval(aEval.m_lhsImpl), m_rhsIter(aEval.m_rhsImpl,outer), m_functor(aEval.m_functor), m_value(0), m_id(-1), m_innerSize(aEval.m_expr.rhs().innerSize())
171
- {
172
- this->operator++();
173
- }
174
-
175
- EIGEN_STRONG_INLINE InnerIterator& operator++()
176
- {
177
- ++m_id;
178
- if(m_id<m_innerSize)
179
- {
180
- Scalar lhsVal = m_lhsEval.coeff(IsRowMajor?m_rhsIter.outer():m_id,
181
- IsRowMajor?m_id:m_rhsIter.outer());
182
- if(m_rhsIter && m_rhsIter.index()==m_id)
183
- {
184
- m_value = m_functor(lhsVal, m_rhsIter.value());
185
- ++m_rhsIter;
186
- }
187
- else
188
- m_value = m_functor(lhsVal, Scalar(0));
189
- }
190
-
191
- return *this;
192
- }
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-
194
- EIGEN_STRONG_INLINE Scalar value() const { eigen_internal_assert(m_id<m_innerSize); return m_value; }
195
-
196
- EIGEN_STRONG_INLINE StorageIndex index() const { return m_id; }
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- EIGEN_STRONG_INLINE Index outer() const { return m_rhsIter.outer(); }
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- EIGEN_STRONG_INLINE Index row() const { return IsRowMajor ? m_rhsIter.outer() : m_id; }
199
- EIGEN_STRONG_INLINE Index col() const { return IsRowMajor ? m_id : m_rhsIter.outer(); }
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-
201
- EIGEN_STRONG_INLINE operator bool() const { return m_id<m_innerSize; }
202
-
203
- protected:
204
- const evaluator<Lhs> &m_lhsEval;
205
- RhsIterator m_rhsIter;
206
- const BinaryOp& m_functor;
207
- Scalar m_value;
208
- StorageIndex m_id;
209
- StorageIndex m_innerSize;
210
- };
211
-
212
-
213
- enum {
214
- CoeffReadCost = int(evaluator<Lhs>::CoeffReadCost) + int(evaluator<Rhs>::CoeffReadCost) + int(functor_traits<BinaryOp>::Cost),
215
- Flags = XprType::Flags
216
- };
217
-
218
- explicit binary_evaluator(const XprType& xpr)
219
- : m_functor(xpr.functor()),
220
- m_lhsImpl(xpr.lhs()),
221
- m_rhsImpl(xpr.rhs()),
222
- m_expr(xpr)
223
- {
224
- EIGEN_INTERNAL_CHECK_COST_VALUE(functor_traits<BinaryOp>::Cost);
225
- EIGEN_INTERNAL_CHECK_COST_VALUE(CoeffReadCost);
226
- }
227
-
228
- inline Index nonZerosEstimate() const {
229
- return m_expr.size();
230
- }
231
-
232
- protected:
233
- const BinaryOp m_functor;
234
- evaluator<Lhs> m_lhsImpl;
235
- evaluator<Rhs> m_rhsImpl;
236
- const XprType &m_expr;
237
- };
238
-
239
- // sparse op dense
240
- template<typename BinaryOp, typename Lhs, typename Rhs>
241
- struct binary_evaluator<CwiseBinaryOp<BinaryOp, Lhs, Rhs>, IteratorBased, IndexBased>
242
- : evaluator_base<CwiseBinaryOp<BinaryOp, Lhs, Rhs> >
243
- {
244
- protected:
245
- typedef typename evaluator<Lhs>::InnerIterator LhsIterator;
246
- typedef CwiseBinaryOp<BinaryOp, Lhs, Rhs> XprType;
247
- typedef typename traits<XprType>::Scalar Scalar;
248
- typedef typename XprType::StorageIndex StorageIndex;
249
- public:
250
-
251
- class InnerIterator
252
- {
253
- enum { IsRowMajor = (int(Lhs::Flags)&RowMajorBit)==RowMajorBit };
254
- public:
255
-
256
- EIGEN_STRONG_INLINE InnerIterator(const binary_evaluator& aEval, Index outer)
257
- : m_lhsIter(aEval.m_lhsImpl,outer), m_rhsEval(aEval.m_rhsImpl), m_functor(aEval.m_functor), m_value(0), m_id(-1), m_innerSize(aEval.m_expr.lhs().innerSize())
258
- {
259
- this->operator++();
260
- }
261
-
262
- EIGEN_STRONG_INLINE InnerIterator& operator++()
263
- {
264
- ++m_id;
265
- if(m_id<m_innerSize)
266
- {
267
- Scalar rhsVal = m_rhsEval.coeff(IsRowMajor?m_lhsIter.outer():m_id,
268
- IsRowMajor?m_id:m_lhsIter.outer());
269
- if(m_lhsIter && m_lhsIter.index()==m_id)
270
- {
271
- m_value = m_functor(m_lhsIter.value(), rhsVal);
272
- ++m_lhsIter;
273
- }
274
- else
275
- m_value = m_functor(Scalar(0),rhsVal);
276
- }
277
-
278
- return *this;
279
- }
280
-
281
- EIGEN_STRONG_INLINE Scalar value() const { eigen_internal_assert(m_id<m_innerSize); return m_value; }
282
-
283
- EIGEN_STRONG_INLINE StorageIndex index() const { return m_id; }
284
- EIGEN_STRONG_INLINE Index outer() const { return m_lhsIter.outer(); }
285
- EIGEN_STRONG_INLINE Index row() const { return IsRowMajor ? m_lhsIter.outer() : m_id; }
286
- EIGEN_STRONG_INLINE Index col() const { return IsRowMajor ? m_id : m_lhsIter.outer(); }
287
-
288
- EIGEN_STRONG_INLINE operator bool() const { return m_id<m_innerSize; }
289
-
290
- protected:
291
- LhsIterator m_lhsIter;
292
- const evaluator<Rhs> &m_rhsEval;
293
- const BinaryOp& m_functor;
294
- Scalar m_value;
295
- StorageIndex m_id;
296
- StorageIndex m_innerSize;
297
- };
298
-
299
-
300
- enum {
301
- CoeffReadCost = int(evaluator<Lhs>::CoeffReadCost) + int(evaluator<Rhs>::CoeffReadCost) + int(functor_traits<BinaryOp>::Cost),
302
- Flags = XprType::Flags
303
- };
304
-
305
- explicit binary_evaluator(const XprType& xpr)
306
- : m_functor(xpr.functor()),
307
- m_lhsImpl(xpr.lhs()),
308
- m_rhsImpl(xpr.rhs()),
309
- m_expr(xpr)
310
- {
311
- EIGEN_INTERNAL_CHECK_COST_VALUE(functor_traits<BinaryOp>::Cost);
312
- EIGEN_INTERNAL_CHECK_COST_VALUE(CoeffReadCost);
313
- }
314
-
315
- inline Index nonZerosEstimate() const {
316
- return m_expr.size();
317
- }
318
-
319
- protected:
320
- const BinaryOp m_functor;
321
- evaluator<Lhs> m_lhsImpl;
322
- evaluator<Rhs> m_rhsImpl;
323
- const XprType &m_expr;
324
- };
325
-
326
- template<typename T,
327
- typename LhsKind = typename evaluator_traits<typename T::Lhs>::Kind,
328
- typename RhsKind = typename evaluator_traits<typename T::Rhs>::Kind,
329
- typename LhsScalar = typename traits<typename T::Lhs>::Scalar,
330
- typename RhsScalar = typename traits<typename T::Rhs>::Scalar> struct sparse_conjunction_evaluator;
331
-
332
- // "sparse .* sparse"
333
- template<typename T1, typename T2, typename Lhs, typename Rhs>
334
- struct binary_evaluator<CwiseBinaryOp<scalar_product_op<T1,T2>, Lhs, Rhs>, IteratorBased, IteratorBased>
335
- : sparse_conjunction_evaluator<CwiseBinaryOp<scalar_product_op<T1,T2>, Lhs, Rhs> >
336
- {
337
- typedef CwiseBinaryOp<scalar_product_op<T1,T2>, Lhs, Rhs> XprType;
338
- typedef sparse_conjunction_evaluator<XprType> Base;
339
- explicit binary_evaluator(const XprType& xpr) : Base(xpr) {}
340
- };
341
- // "dense .* sparse"
342
- template<typename T1, typename T2, typename Lhs, typename Rhs>
343
- struct binary_evaluator<CwiseBinaryOp<scalar_product_op<T1,T2>, Lhs, Rhs>, IndexBased, IteratorBased>
344
- : sparse_conjunction_evaluator<CwiseBinaryOp<scalar_product_op<T1,T2>, Lhs, Rhs> >
345
- {
346
- typedef CwiseBinaryOp<scalar_product_op<T1,T2>, Lhs, Rhs> XprType;
347
- typedef sparse_conjunction_evaluator<XprType> Base;
348
- explicit binary_evaluator(const XprType& xpr) : Base(xpr) {}
349
- };
350
- // "sparse .* dense"
351
- template<typename T1, typename T2, typename Lhs, typename Rhs>
352
- struct binary_evaluator<CwiseBinaryOp<scalar_product_op<T1,T2>, Lhs, Rhs>, IteratorBased, IndexBased>
353
- : sparse_conjunction_evaluator<CwiseBinaryOp<scalar_product_op<T1,T2>, Lhs, Rhs> >
354
- {
355
- typedef CwiseBinaryOp<scalar_product_op<T1,T2>, Lhs, Rhs> XprType;
356
- typedef sparse_conjunction_evaluator<XprType> Base;
357
- explicit binary_evaluator(const XprType& xpr) : Base(xpr) {}
358
- };
359
-
360
- // "sparse ./ dense"
361
- template<typename T1, typename T2, typename Lhs, typename Rhs>
362
- struct binary_evaluator<CwiseBinaryOp<scalar_quotient_op<T1,T2>, Lhs, Rhs>, IteratorBased, IndexBased>
363
- : sparse_conjunction_evaluator<CwiseBinaryOp<scalar_quotient_op<T1,T2>, Lhs, Rhs> >
364
- {
365
- typedef CwiseBinaryOp<scalar_quotient_op<T1,T2>, Lhs, Rhs> XprType;
366
- typedef sparse_conjunction_evaluator<XprType> Base;
367
- explicit binary_evaluator(const XprType& xpr) : Base(xpr) {}
368
- };
369
-
370
- // "sparse && sparse"
371
- template<typename Lhs, typename Rhs>
372
- struct binary_evaluator<CwiseBinaryOp<scalar_boolean_and_op, Lhs, Rhs>, IteratorBased, IteratorBased>
373
- : sparse_conjunction_evaluator<CwiseBinaryOp<scalar_boolean_and_op, Lhs, Rhs> >
374
- {
375
- typedef CwiseBinaryOp<scalar_boolean_and_op, Lhs, Rhs> XprType;
376
- typedef sparse_conjunction_evaluator<XprType> Base;
377
- explicit binary_evaluator(const XprType& xpr) : Base(xpr) {}
378
- };
379
- // "dense && sparse"
380
- template<typename Lhs, typename Rhs>
381
- struct binary_evaluator<CwiseBinaryOp<scalar_boolean_and_op, Lhs, Rhs>, IndexBased, IteratorBased>
382
- : sparse_conjunction_evaluator<CwiseBinaryOp<scalar_boolean_and_op, Lhs, Rhs> >
383
- {
384
- typedef CwiseBinaryOp<scalar_boolean_and_op, Lhs, Rhs> XprType;
385
- typedef sparse_conjunction_evaluator<XprType> Base;
386
- explicit binary_evaluator(const XprType& xpr) : Base(xpr) {}
387
- };
388
- // "sparse && dense"
389
- template<typename Lhs, typename Rhs>
390
- struct binary_evaluator<CwiseBinaryOp<scalar_boolean_and_op, Lhs, Rhs>, IteratorBased, IndexBased>
391
- : sparse_conjunction_evaluator<CwiseBinaryOp<scalar_boolean_and_op, Lhs, Rhs> >
392
- {
393
- typedef CwiseBinaryOp<scalar_boolean_and_op, Lhs, Rhs> XprType;
394
- typedef sparse_conjunction_evaluator<XprType> Base;
395
- explicit binary_evaluator(const XprType& xpr) : Base(xpr) {}
396
- };
397
-
398
- // "sparse ^ sparse"
399
- template<typename XprType>
400
- struct sparse_conjunction_evaluator<XprType, IteratorBased, IteratorBased>
401
- : evaluator_base<XprType>
402
- {
403
- protected:
404
- typedef typename XprType::Functor BinaryOp;
405
- typedef typename XprType::Lhs LhsArg;
406
- typedef typename XprType::Rhs RhsArg;
407
- typedef typename evaluator<LhsArg>::InnerIterator LhsIterator;
408
- typedef typename evaluator<RhsArg>::InnerIterator RhsIterator;
409
- typedef typename XprType::StorageIndex StorageIndex;
410
- typedef typename traits<XprType>::Scalar Scalar;
411
- public:
412
-
413
- class InnerIterator
414
- {
415
- public:
416
-
417
- EIGEN_STRONG_INLINE InnerIterator(const sparse_conjunction_evaluator& aEval, Index outer)
418
- : m_lhsIter(aEval.m_lhsImpl,outer), m_rhsIter(aEval.m_rhsImpl,outer), m_functor(aEval.m_functor)
419
- {
420
- while (m_lhsIter && m_rhsIter && (m_lhsIter.index() != m_rhsIter.index()))
421
- {
422
- if (m_lhsIter.index() < m_rhsIter.index())
423
- ++m_lhsIter;
424
- else
425
- ++m_rhsIter;
426
- }
427
- }
428
-
429
- EIGEN_STRONG_INLINE InnerIterator& operator++()
430
- {
431
- ++m_lhsIter;
432
- ++m_rhsIter;
433
- while (m_lhsIter && m_rhsIter && (m_lhsIter.index() != m_rhsIter.index()))
434
- {
435
- if (m_lhsIter.index() < m_rhsIter.index())
436
- ++m_lhsIter;
437
- else
438
- ++m_rhsIter;
439
- }
440
- return *this;
441
- }
442
-
443
- EIGEN_STRONG_INLINE Scalar value() const { return m_functor(m_lhsIter.value(), m_rhsIter.value()); }
444
-
445
- EIGEN_STRONG_INLINE StorageIndex index() const { return m_lhsIter.index(); }
446
- EIGEN_STRONG_INLINE Index outer() const { return m_lhsIter.outer(); }
447
- EIGEN_STRONG_INLINE Index row() const { return m_lhsIter.row(); }
448
- EIGEN_STRONG_INLINE Index col() const { return m_lhsIter.col(); }
449
-
450
- EIGEN_STRONG_INLINE operator bool() const { return (m_lhsIter && m_rhsIter); }
451
-
452
- protected:
453
- LhsIterator m_lhsIter;
454
- RhsIterator m_rhsIter;
455
- const BinaryOp& m_functor;
456
- };
457
-
458
-
459
- enum {
460
- CoeffReadCost = int(evaluator<LhsArg>::CoeffReadCost) + int(evaluator<RhsArg>::CoeffReadCost) + int(functor_traits<BinaryOp>::Cost),
461
- Flags = XprType::Flags
462
- };
463
-
464
- explicit sparse_conjunction_evaluator(const XprType& xpr)
465
- : m_functor(xpr.functor()),
466
- m_lhsImpl(xpr.lhs()),
467
- m_rhsImpl(xpr.rhs())
468
- {
469
- EIGEN_INTERNAL_CHECK_COST_VALUE(functor_traits<BinaryOp>::Cost);
470
- EIGEN_INTERNAL_CHECK_COST_VALUE(CoeffReadCost);
471
- }
472
-
473
- inline Index nonZerosEstimate() const {
474
- return (std::min)(m_lhsImpl.nonZerosEstimate(), m_rhsImpl.nonZerosEstimate());
475
- }
476
-
477
- protected:
478
- const BinaryOp m_functor;
479
- evaluator<LhsArg> m_lhsImpl;
480
- evaluator<RhsArg> m_rhsImpl;
481
- };
482
-
483
- // "dense ^ sparse"
484
- template<typename XprType>
485
- struct sparse_conjunction_evaluator<XprType, IndexBased, IteratorBased>
486
- : evaluator_base<XprType>
487
- {
488
- protected:
489
- typedef typename XprType::Functor BinaryOp;
490
- typedef typename XprType::Lhs LhsArg;
491
- typedef typename XprType::Rhs RhsArg;
492
- typedef evaluator<LhsArg> LhsEvaluator;
493
- typedef typename evaluator<RhsArg>::InnerIterator RhsIterator;
494
- typedef typename XprType::StorageIndex StorageIndex;
495
- typedef typename traits<XprType>::Scalar Scalar;
496
- public:
497
-
498
- class InnerIterator
499
- {
500
- enum { IsRowMajor = (int(RhsArg::Flags)&RowMajorBit)==RowMajorBit };
501
-
502
- public:
503
-
504
- EIGEN_STRONG_INLINE InnerIterator(const sparse_conjunction_evaluator& aEval, Index outer)
505
- : m_lhsEval(aEval.m_lhsImpl), m_rhsIter(aEval.m_rhsImpl,outer), m_functor(aEval.m_functor), m_outer(outer)
506
- {}
507
-
508
- EIGEN_STRONG_INLINE InnerIterator& operator++()
509
- {
510
- ++m_rhsIter;
511
- return *this;
512
- }
513
-
514
- EIGEN_STRONG_INLINE Scalar value() const
515
- { return m_functor(m_lhsEval.coeff(IsRowMajor?m_outer:m_rhsIter.index(),IsRowMajor?m_rhsIter.index():m_outer), m_rhsIter.value()); }
516
-
517
- EIGEN_STRONG_INLINE StorageIndex index() const { return m_rhsIter.index(); }
518
- EIGEN_STRONG_INLINE Index outer() const { return m_rhsIter.outer(); }
519
- EIGEN_STRONG_INLINE Index row() const { return m_rhsIter.row(); }
520
- EIGEN_STRONG_INLINE Index col() const { return m_rhsIter.col(); }
521
-
522
- EIGEN_STRONG_INLINE operator bool() const { return m_rhsIter; }
523
-
524
- protected:
525
- const LhsEvaluator &m_lhsEval;
526
- RhsIterator m_rhsIter;
527
- const BinaryOp& m_functor;
528
- const Index m_outer;
529
- };
530
-
531
-
532
- enum {
533
- CoeffReadCost = int(evaluator<LhsArg>::CoeffReadCost) + int(evaluator<RhsArg>::CoeffReadCost) + int(functor_traits<BinaryOp>::Cost),
534
- Flags = XprType::Flags
535
- };
536
-
537
- explicit sparse_conjunction_evaluator(const XprType& xpr)
538
- : m_functor(xpr.functor()),
539
- m_lhsImpl(xpr.lhs()),
540
- m_rhsImpl(xpr.rhs())
541
- {
542
- EIGEN_INTERNAL_CHECK_COST_VALUE(functor_traits<BinaryOp>::Cost);
543
- EIGEN_INTERNAL_CHECK_COST_VALUE(CoeffReadCost);
544
- }
545
-
546
- inline Index nonZerosEstimate() const {
547
- return m_rhsImpl.nonZerosEstimate();
548
- }
549
-
550
- protected:
551
- const BinaryOp m_functor;
552
- evaluator<LhsArg> m_lhsImpl;
553
- evaluator<RhsArg> m_rhsImpl;
554
- };
555
-
556
- // "sparse ^ dense"
557
- template<typename XprType>
558
- struct sparse_conjunction_evaluator<XprType, IteratorBased, IndexBased>
559
- : evaluator_base<XprType>
560
- {
561
- protected:
562
- typedef typename XprType::Functor BinaryOp;
563
- typedef typename XprType::Lhs LhsArg;
564
- typedef typename XprType::Rhs RhsArg;
565
- typedef typename evaluator<LhsArg>::InnerIterator LhsIterator;
566
- typedef evaluator<RhsArg> RhsEvaluator;
567
- typedef typename XprType::StorageIndex StorageIndex;
568
- typedef typename traits<XprType>::Scalar Scalar;
569
- public:
570
-
571
- class InnerIterator
572
- {
573
- enum { IsRowMajor = (int(LhsArg::Flags)&RowMajorBit)==RowMajorBit };
574
-
575
- public:
576
-
577
- EIGEN_STRONG_INLINE InnerIterator(const sparse_conjunction_evaluator& aEval, Index outer)
578
- : m_lhsIter(aEval.m_lhsImpl,outer), m_rhsEval(aEval.m_rhsImpl), m_functor(aEval.m_functor), m_outer(outer)
579
- {}
580
-
581
- EIGEN_STRONG_INLINE InnerIterator& operator++()
582
- {
583
- ++m_lhsIter;
584
- return *this;
585
- }
586
-
587
- EIGEN_STRONG_INLINE Scalar value() const
588
- { return m_functor(m_lhsIter.value(),
589
- m_rhsEval.coeff(IsRowMajor?m_outer:m_lhsIter.index(),IsRowMajor?m_lhsIter.index():m_outer)); }
590
-
591
- EIGEN_STRONG_INLINE StorageIndex index() const { return m_lhsIter.index(); }
592
- EIGEN_STRONG_INLINE Index outer() const { return m_lhsIter.outer(); }
593
- EIGEN_STRONG_INLINE Index row() const { return m_lhsIter.row(); }
594
- EIGEN_STRONG_INLINE Index col() const { return m_lhsIter.col(); }
595
-
596
- EIGEN_STRONG_INLINE operator bool() const { return m_lhsIter; }
597
-
598
- protected:
599
- LhsIterator m_lhsIter;
600
- const evaluator<RhsArg> &m_rhsEval;
601
- const BinaryOp& m_functor;
602
- const Index m_outer;
603
- };
604
-
605
-
606
- enum {
607
- CoeffReadCost = int(evaluator<LhsArg>::CoeffReadCost) + int(evaluator<RhsArg>::CoeffReadCost) + int(functor_traits<BinaryOp>::Cost),
608
- Flags = XprType::Flags
609
- };
610
-
611
- explicit sparse_conjunction_evaluator(const XprType& xpr)
612
- : m_functor(xpr.functor()),
613
- m_lhsImpl(xpr.lhs()),
614
- m_rhsImpl(xpr.rhs())
615
- {
616
- EIGEN_INTERNAL_CHECK_COST_VALUE(functor_traits<BinaryOp>::Cost);
617
- EIGEN_INTERNAL_CHECK_COST_VALUE(CoeffReadCost);
618
- }
619
-
620
- inline Index nonZerosEstimate() const {
621
- return m_lhsImpl.nonZerosEstimate();
622
- }
623
-
624
- protected:
625
- const BinaryOp m_functor;
626
- evaluator<LhsArg> m_lhsImpl;
627
- evaluator<RhsArg> m_rhsImpl;
628
- };
629
-
630
- }
631
-
632
- /***************************************************************************
633
- * Implementation of SparseMatrixBase and SparseCwise functions/operators
634
- ***************************************************************************/
635
-
636
- template<typename Derived>
637
- template<typename OtherDerived>
638
- Derived& SparseMatrixBase<Derived>::operator+=(const EigenBase<OtherDerived> &other)
639
- {
640
- call_assignment(derived(), other.derived(), internal::add_assign_op<Scalar,typename OtherDerived::Scalar>());
641
- return derived();
642
- }
643
-
644
- template<typename Derived>
645
- template<typename OtherDerived>
646
- Derived& SparseMatrixBase<Derived>::operator-=(const EigenBase<OtherDerived> &other)
647
- {
648
- call_assignment(derived(), other.derived(), internal::assign_op<Scalar,typename OtherDerived::Scalar>());
649
- return derived();
650
- }
651
-
652
- template<typename Derived>
653
- template<typename OtherDerived>
654
- EIGEN_STRONG_INLINE Derived &
655
- SparseMatrixBase<Derived>::operator-=(const SparseMatrixBase<OtherDerived> &other)
656
- {
657
- return derived() = derived() - other.derived();
658
- }
659
-
660
- template<typename Derived>
661
- template<typename OtherDerived>
662
- EIGEN_STRONG_INLINE Derived &
663
- SparseMatrixBase<Derived>::operator+=(const SparseMatrixBase<OtherDerived>& other)
664
- {
665
- return derived() = derived() + other.derived();
666
- }
667
-
668
- template<typename Derived>
669
- template<typename OtherDerived>
670
- Derived& SparseMatrixBase<Derived>::operator+=(const DiagonalBase<OtherDerived>& other)
671
- {
672
- call_assignment_no_alias(derived(), other.derived(), internal::add_assign_op<Scalar,typename OtherDerived::Scalar>());
673
- return derived();
674
- }
675
-
676
- template<typename Derived>
677
- template<typename OtherDerived>
678
- Derived& SparseMatrixBase<Derived>::operator-=(const DiagonalBase<OtherDerived>& other)
679
- {
680
- call_assignment_no_alias(derived(), other.derived(), internal::sub_assign_op<Scalar,typename OtherDerived::Scalar>());
681
- return derived();
682
- }
683
-
684
- template<typename Derived>
685
- template<typename OtherDerived>
686
- EIGEN_STRONG_INLINE const typename SparseMatrixBase<Derived>::template CwiseProductDenseReturnType<OtherDerived>::Type
687
- SparseMatrixBase<Derived>::cwiseProduct(const MatrixBase<OtherDerived> &other) const
688
- {
689
- return typename CwiseProductDenseReturnType<OtherDerived>::Type(derived(), other.derived());
690
- }
691
-
692
- template<typename DenseDerived, typename SparseDerived>
693
- EIGEN_STRONG_INLINE const CwiseBinaryOp<internal::scalar_sum_op<typename DenseDerived::Scalar,typename SparseDerived::Scalar>, const DenseDerived, const SparseDerived>
694
- operator+(const MatrixBase<DenseDerived> &a, const SparseMatrixBase<SparseDerived> &b)
695
- {
696
- return CwiseBinaryOp<internal::scalar_sum_op<typename DenseDerived::Scalar,typename SparseDerived::Scalar>, const DenseDerived, const SparseDerived>(a.derived(), b.derived());
697
- }
698
-
699
- template<typename SparseDerived, typename DenseDerived>
700
- EIGEN_STRONG_INLINE const CwiseBinaryOp<internal::scalar_sum_op<typename SparseDerived::Scalar,typename DenseDerived::Scalar>, const SparseDerived, const DenseDerived>
701
- operator+(const SparseMatrixBase<SparseDerived> &a, const MatrixBase<DenseDerived> &b)
702
- {
703
- return CwiseBinaryOp<internal::scalar_sum_op<typename SparseDerived::Scalar,typename DenseDerived::Scalar>, const SparseDerived, const DenseDerived>(a.derived(), b.derived());
704
- }
705
-
706
- template<typename DenseDerived, typename SparseDerived>
707
- EIGEN_STRONG_INLINE const CwiseBinaryOp<internal::scalar_difference_op<typename DenseDerived::Scalar,typename SparseDerived::Scalar>, const DenseDerived, const SparseDerived>
708
- operator-(const MatrixBase<DenseDerived> &a, const SparseMatrixBase<SparseDerived> &b)
709
- {
710
- return CwiseBinaryOp<internal::scalar_difference_op<typename DenseDerived::Scalar,typename SparseDerived::Scalar>, const DenseDerived, const SparseDerived>(a.derived(), b.derived());
711
- }
712
-
713
- template<typename SparseDerived, typename DenseDerived>
714
- EIGEN_STRONG_INLINE const CwiseBinaryOp<internal::scalar_difference_op<typename SparseDerived::Scalar,typename DenseDerived::Scalar>, const SparseDerived, const DenseDerived>
715
- operator-(const SparseMatrixBase<SparseDerived> &a, const MatrixBase<DenseDerived> &b)
716
- {
717
- return CwiseBinaryOp<internal::scalar_difference_op<typename SparseDerived::Scalar,typename DenseDerived::Scalar>, const SparseDerived, const DenseDerived>(a.derived(), b.derived());
718
- }
719
-
720
- } // end namespace Eigen
721
-
722
- #endif // EIGEN_SPARSE_CWISE_BINARY_OP_H