sequenzo 0.1.18__cp39-cp39-macosx_10_9_universal2.whl → 0.1.20__cp39-cp39-macosx_10_9_universal2.whl

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  1. sequenzo/__init__.py +39 -7
  2. sequenzo/big_data/clara/utils/get_weighted_diss.c +157 -157
  3. sequenzo/big_data/clara/utils/get_weighted_diss.cpython-39-darwin.so +0 -0
  4. sequenzo/clustering/KMedoids.py +39 -0
  5. sequenzo/clustering/hierarchical_clustering.py +108 -6
  6. sequenzo/define_sequence_data.py +10 -1
  7. sequenzo/dissimilarity_measures/get_distance_matrix.py +2 -3
  8. sequenzo/dissimilarity_measures/get_substitution_cost_matrix.py +1 -1
  9. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.c +157 -157
  10. sequenzo/dissimilarity_measures/utils/get_sm_trate_substitution_cost_matrix.cpython-39-darwin.so +0 -0
  11. sequenzo/dissimilarity_measures/utils/seqconc.c +157 -157
  12. sequenzo/dissimilarity_measures/utils/seqconc.cpython-39-darwin.so +0 -0
  13. sequenzo/dissimilarity_measures/utils/seqdss.c +157 -157
  14. sequenzo/dissimilarity_measures/utils/seqdss.cpython-39-darwin.so +0 -0
  15. sequenzo/dissimilarity_measures/utils/seqdur.c +157 -157
  16. sequenzo/dissimilarity_measures/utils/seqdur.cpython-39-darwin.so +0 -0
  17. sequenzo/dissimilarity_measures/utils/seqlength.c +157 -157
  18. sequenzo/dissimilarity_measures/utils/seqlength.cpython-39-darwin.so +0 -0
  19. sequenzo/multidomain/cat.py +0 -53
  20. sequenzo/multidomain/dat.py +11 -3
  21. sequenzo/multidomain/idcd.py +0 -3
  22. sequenzo/multidomain/linked_polyad.py +0 -1
  23. sequenzo/openmp_setup.py +233 -0
  24. sequenzo/visualization/plot_transition_matrix.py +21 -22
  25. {sequenzo-0.1.18.dist-info → sequenzo-0.1.20.dist-info}/METADATA +71 -10
  26. sequenzo-0.1.20.dist-info/RECORD +215 -0
  27. sequenzo/dissimilarity_measures/setup.py +0 -35
  28. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LDLT.h +0 -688
  29. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT.h +0 -558
  30. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +0 -99
  31. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +0 -682
  32. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +0 -346
  33. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +0 -462
  34. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +0 -91
  35. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/EigenSolver.h +0 -622
  36. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +0 -418
  37. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +0 -226
  38. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +0 -374
  39. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +0 -158
  40. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealQZ.h +0 -657
  41. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur.h +0 -558
  42. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +0 -77
  43. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +0 -904
  44. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +0 -87
  45. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +0 -561
  46. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AlignedBox.h +0 -486
  47. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/AngleAxis.h +0 -247
  48. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/EulerAngles.h +0 -114
  49. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Homogeneous.h +0 -501
  50. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Hyperplane.h +0 -282
  51. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/OrthoMethods.h +0 -235
  52. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/ParametrizedLine.h +0 -232
  53. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Quaternion.h +0 -870
  54. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Rotation2D.h +0 -199
  55. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/RotationBase.h +0 -206
  56. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Scaling.h +0 -188
  57. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Transform.h +0 -1563
  58. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Translation.h +0 -202
  59. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/Umeyama.h +0 -166
  60. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Geometry/arch/Geometry_SIMD.h +0 -168
  61. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/BlockHouseholder.h +0 -110
  62. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/Householder.h +0 -176
  63. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Householder/HouseholderSequence.h +0 -545
  64. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +0 -226
  65. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +0 -212
  66. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +0 -229
  67. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +0 -394
  68. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +0 -453
  69. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +0 -444
  70. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +0 -198
  71. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +0 -117
  72. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/Jacobi/Jacobi.h +0 -483
  73. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/KLUSupport/KLUSupport.h +0 -358
  74. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/Determinant.h +0 -117
  75. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/FullPivLU.h +0 -877
  76. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/InverseImpl.h +0 -432
  77. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU.h +0 -624
  78. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +0 -83
  79. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/LU/arch/InverseSize4.h +0 -351
  80. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/MetisSupport/MetisSupport.h +0 -137
  81. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Amd.h +0 -435
  82. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +0 -1863
  83. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/OrderingMethods/Ordering.h +0 -153
  84. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +0 -678
  85. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +0 -545
  86. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR.h +0 -674
  87. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +0 -97
  88. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +0 -635
  89. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/FullPivHouseholderQR.h +0 -713
  90. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR.h +0 -434
  91. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +0 -68
  92. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +0 -335
  93. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/BDCSVD.h +0 -1366
  94. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD.h +0 -812
  95. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +0 -91
  96. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/SVDBase.h +0 -376
  97. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SVD/UpperBidiagonalization.h +0 -414
  98. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +0 -697
  99. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +0 -174
  100. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/AmbiVector.h +0 -378
  101. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/CompressedStorage.h +0 -274
  102. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +0 -352
  103. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +0 -67
  104. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseAssign.h +0 -270
  105. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseBlock.h +0 -571
  106. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseColEtree.h +0 -206
  107. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +0 -370
  108. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +0 -722
  109. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +0 -150
  110. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +0 -342
  111. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +0 -138
  112. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseDot.h +0 -98
  113. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseFuzzy.h +0 -29
  114. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMap.h +0 -305
  115. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrix.h +0 -1518
  116. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +0 -398
  117. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparsePermutation.h +0 -178
  118. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseProduct.h +0 -181
  119. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRedux.h +0 -49
  120. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseRef.h +0 -397
  121. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +0 -659
  122. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSolverBase.h +0 -124
  123. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +0 -198
  124. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTranspose.h +0 -92
  125. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseTriangularView.h +0 -189
  126. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseUtil.h +0 -186
  127. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseVector.h +0 -478
  128. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/SparseView.h +0 -254
  129. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseCore/TriangularSolver.h +0 -315
  130. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU.h +0 -923
  131. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLUImpl.h +0 -66
  132. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +0 -226
  133. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +0 -110
  134. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +0 -375
  135. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +0 -80
  136. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_bmod.h +0 -181
  137. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_column_dfs.h +0 -179
  138. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +0 -107
  139. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +0 -280
  140. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +0 -126
  141. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +0 -130
  142. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_bmod.h +0 -223
  143. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_panel_dfs.h +0 -258
  144. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pivotL.h +0 -137
  145. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_pruneL.h +0 -136
  146. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseLU/SparseLU_relax_snode.h +0 -83
  147. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SparseQR/SparseQR.h +0 -758
  148. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdDeque.h +0 -116
  149. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdList.h +0 -106
  150. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/StdVector.h +0 -131
  151. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/StlSupport/details.h +0 -84
  152. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/SuperLUSupport/SuperLUSupport.h +0 -1025
  153. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/UmfPackSupport/UmfPackSupport.h +0 -642
  154. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Image.h +0 -82
  155. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/Kernel.h +0 -79
  156. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/RealSvd2x2.h +0 -55
  157. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/blas.h +0 -440
  158. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapack.h +0 -152
  159. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke.h +0 -16292
  160. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/misc/lapacke_mangling.h +0 -17
  161. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseBinaryOps.h +0 -358
  162. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ArrayCwiseUnaryOps.h +0 -696
  163. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/BlockMethods.h +0 -1442
  164. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseBinaryOps.h +0 -115
  165. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/CommonCwiseUnaryOps.h +0 -177
  166. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/IndexedViewMethods.h +0 -262
  167. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseBinaryOps.h +0 -152
  168. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/MatrixCwiseUnaryOps.h +0 -95
  169. sequenzo/dissimilarity_measures/src/eigen/Eigen/src/plugins/ReshapedMethods.h +0 -149
  170. sequenzo/dissimilarity_measures/src/eigen/blas/BandTriangularSolver.h +0 -97
  171. sequenzo/dissimilarity_measures/src/eigen/blas/GeneralRank1Update.h +0 -44
  172. sequenzo/dissimilarity_measures/src/eigen/blas/PackedSelfadjointProduct.h +0 -53
  173. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularMatrixVector.h +0 -79
  174. sequenzo/dissimilarity_measures/src/eigen/blas/PackedTriangularSolverVector.h +0 -88
  175. sequenzo/dissimilarity_measures/src/eigen/blas/Rank2Update.h +0 -57
  176. sequenzo/dissimilarity_measures/src/eigen/blas/common.h +0 -175
  177. sequenzo/dissimilarity_measures/src/eigen/blas/f2c/datatypes.h +0 -24
  178. sequenzo/dissimilarity_measures/src/eigen/blas/level1_cplx_impl.h +0 -155
  179. sequenzo/dissimilarity_measures/src/eigen/blas/level1_impl.h +0 -144
  180. sequenzo/dissimilarity_measures/src/eigen/blas/level1_real_impl.h +0 -122
  181. sequenzo/dissimilarity_measures/src/eigen/blas/level2_cplx_impl.h +0 -360
  182. sequenzo/dissimilarity_measures/src/eigen/blas/level2_impl.h +0 -553
  183. sequenzo/dissimilarity_measures/src/eigen/blas/level2_real_impl.h +0 -306
  184. sequenzo/dissimilarity_measures/src/eigen/blas/level3_impl.h +0 -702
  185. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/__init__.py +0 -1
  186. sequenzo/dissimilarity_measures/src/eigen/debug/gdb/printers.py +0 -314
  187. sequenzo/dissimilarity_measures/src/eigen/lapack/lapack_common.h +0 -29
  188. sequenzo/dissimilarity_measures/src/eigen/scripts/relicense.py +0 -69
  189. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/Tensor.h +0 -554
  190. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorArgMax.h +0 -329
  191. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorAssign.h +0 -247
  192. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBase.h +0 -1176
  193. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBlock.h +0 -1559
  194. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorBroadcasting.h +0 -1093
  195. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorChipping.h +0 -518
  196. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConcatenation.h +0 -377
  197. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContraction.h +0 -1023
  198. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionBlocking.h +0 -73
  199. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionCuda.h +0 -6
  200. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionGpu.h +0 -1413
  201. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionMapper.h +0 -575
  202. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionSycl.h +0 -1650
  203. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorContractionThreadPool.h +0 -1679
  204. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConversion.h +0 -456
  205. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolution.h +0 -1132
  206. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorConvolutionSycl.h +0 -544
  207. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCostModel.h +0 -214
  208. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorCustomOp.h +0 -347
  209. sequenzo/dissimilarity_measures/src/eigen/unsupported/Eigen/CXX11/src/Tensor/TensorDevice.h +0 -137
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  359. {sequenzo-0.1.18.dist-info → sequenzo-0.1.20.dist-info}/licenses/LICENSE +0 -0
  360. {sequenzo-0.1.18.dist-info → sequenzo-0.1.20.dist-info}/top_level.txt +0 -0
@@ -1,537 +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) 2013 Christian Seiler <christian@iwakd.de>
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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_CXX11META_H
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- #define EIGEN_CXX11META_H
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-
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- #include <vector>
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- #include "EmulateArray.h"
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-
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- #include "CXX11Workarounds.h"
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-
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- namespace Eigen {
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-
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- namespace internal {
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-
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- /** \internal
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- * \file CXX11/util/CXX11Meta.h
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- * This file contains generic metaprogramming classes which are not specifically related to Eigen.
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- * This file expands upon Core/util/Meta.h and adds support for C++11 specific features.
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- */
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-
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- template<typename... tt>
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- struct type_list { constexpr static int count = sizeof...(tt); };
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-
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- template<typename t, typename... tt>
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- struct type_list<t, tt...> { constexpr static int count = sizeof...(tt) + 1; typedef t first_type; };
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-
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- template<typename T, T... nn>
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- struct numeric_list { constexpr static std::size_t count = sizeof...(nn); };
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-
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- template<typename T, T n, T... nn>
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- struct numeric_list<T, n, nn...> { static const std::size_t count = sizeof...(nn) + 1; const static T first_value = n; };
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-
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- #ifndef EIGEN_PARSED_BY_DOXYGEN
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- /* numeric list constructors
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- *
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- * equivalencies:
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- * constructor result
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- * typename gen_numeric_list<int, 5>::type numeric_list<int, 0,1,2,3,4>
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- * typename gen_numeric_list_reversed<int, 5>::type numeric_list<int, 4,3,2,1,0>
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- * typename gen_numeric_list_swapped_pair<int, 5,1,2>::type numeric_list<int, 0,2,1,3,4>
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- * typename gen_numeric_list_repeated<int, 0, 5>::type numeric_list<int, 0,0,0,0,0>
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- */
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-
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- template<typename T, std::size_t n, T start = 0, T... ii> struct gen_numeric_list : gen_numeric_list<T, n-1, start, start + n-1, ii...> {};
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- template<typename T, T start, T... ii> struct gen_numeric_list<T, 0, start, ii...> { typedef numeric_list<T, ii...> type; };
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-
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- template<typename T, std::size_t n, T start = 0, T... ii> struct gen_numeric_list_reversed : gen_numeric_list_reversed<T, n-1, start, ii..., start + n-1> {};
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- template<typename T, T start, T... ii> struct gen_numeric_list_reversed<T, 0, start, ii...> { typedef numeric_list<T, ii...> type; };
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-
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- template<typename T, std::size_t n, T a, T b, T start = 0, T... ii> struct gen_numeric_list_swapped_pair : gen_numeric_list_swapped_pair<T, n-1, a, b, start, (start + n-1) == a ? b : ((start + n-1) == b ? a : (start + n-1)), ii...> {};
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- template<typename T, T a, T b, T start, T... ii> struct gen_numeric_list_swapped_pair<T, 0, a, b, start, ii...> { typedef numeric_list<T, ii...> type; };
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-
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- template<typename T, std::size_t n, T V, T... nn> struct gen_numeric_list_repeated : gen_numeric_list_repeated<T, n-1, V, V, nn...> {};
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- template<typename T, T V, T... nn> struct gen_numeric_list_repeated<T, 0, V, nn...> { typedef numeric_list<T, nn...> type; };
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-
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- /* list manipulation: concatenate */
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-
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- template<class a, class b> struct concat;
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-
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- template<typename... as, typename... bs> struct concat<type_list<as...>, type_list<bs...>> { typedef type_list<as..., bs...> type; };
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- template<typename T, T... as, T... bs> struct concat<numeric_list<T, as...>, numeric_list<T, bs...> > { typedef numeric_list<T, as..., bs...> type; };
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-
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- template<typename... p> struct mconcat;
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- template<typename a> struct mconcat<a> { typedef a type; };
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- template<typename a, typename b> struct mconcat<a, b> : concat<a, b> {};
73
- template<typename a, typename b, typename... cs> struct mconcat<a, b, cs...> : concat<a, typename mconcat<b, cs...>::type> {};
74
-
75
- /* list manipulation: extract slices */
76
-
77
- template<int n, typename x> struct take;
78
- template<int n, typename a, typename... as> struct take<n, type_list<a, as...>> : concat<type_list<a>, typename take<n-1, type_list<as...>>::type> {};
79
- template<int n> struct take<n, type_list<>> { typedef type_list<> type; };
80
- template<typename a, typename... as> struct take<0, type_list<a, as...>> { typedef type_list<> type; };
81
- template<> struct take<0, type_list<>> { typedef type_list<> type; };
82
-
83
- template<typename T, int n, T a, T... as> struct take<n, numeric_list<T, a, as...>> : concat<numeric_list<T, a>, typename take<n-1, numeric_list<T, as...>>::type> {};
84
- template<typename T, int n> struct take<n, numeric_list<T>> { typedef numeric_list<T> type; };
85
- template<typename T, T a, T... as> struct take<0, numeric_list<T, a, as...>> { typedef numeric_list<T> type; };
86
- template<typename T> struct take<0, numeric_list<T>> { typedef numeric_list<T> type; };
87
-
88
- template<typename T, int n, T... ii> struct h_skip_helper_numeric;
89
- template<typename T, int n, T i, T... ii> struct h_skip_helper_numeric<T, n, i, ii...> : h_skip_helper_numeric<T, n-1, ii...> {};
90
- template<typename T, T i, T... ii> struct h_skip_helper_numeric<T, 0, i, ii...> { typedef numeric_list<T, i, ii...> type; };
91
- template<typename T, int n> struct h_skip_helper_numeric<T, n> { typedef numeric_list<T> type; };
92
- template<typename T> struct h_skip_helper_numeric<T, 0> { typedef numeric_list<T> type; };
93
-
94
- template<int n, typename... tt> struct h_skip_helper_type;
95
- template<int n, typename t, typename... tt> struct h_skip_helper_type<n, t, tt...> : h_skip_helper_type<n-1, tt...> {};
96
- template<typename t, typename... tt> struct h_skip_helper_type<0, t, tt...> { typedef type_list<t, tt...> type; };
97
- template<int n> struct h_skip_helper_type<n> { typedef type_list<> type; };
98
- template<> struct h_skip_helper_type<0> { typedef type_list<> type; };
99
- #endif //not EIGEN_PARSED_BY_DOXYGEN
100
-
101
- template<int n>
102
- struct h_skip {
103
- template<typename T, T... ii>
104
- constexpr static EIGEN_STRONG_INLINE typename h_skip_helper_numeric<T, n, ii...>::type helper(numeric_list<T, ii...>) { return typename h_skip_helper_numeric<T, n, ii...>::type(); }
105
- template<typename... tt>
106
- constexpr static EIGEN_STRONG_INLINE typename h_skip_helper_type<n, tt...>::type helper(type_list<tt...>) { return typename h_skip_helper_type<n, tt...>::type(); }
107
- };
108
-
109
- template<int n, typename a> struct skip { typedef decltype(h_skip<n>::helper(a())) type; };
110
-
111
- template<int start, int count, typename a> struct slice : take<count, typename skip<start, a>::type> {};
112
-
113
- /* list manipulation: retrieve single element from list */
114
-
115
- template<int n, typename x> struct get;
116
-
117
- template<int n, typename a, typename... as> struct get<n, type_list<a, as...>> : get<n-1, type_list<as...>> {};
118
- template<typename a, typename... as> struct get<0, type_list<a, as...>> { typedef a type; };
119
-
120
- template<typename T, int n, T a, T... as> struct get<n, numeric_list<T, a, as...>> : get<n-1, numeric_list<T, as...>> {};
121
- template<typename T, T a, T... as> struct get<0, numeric_list<T, a, as...>> { constexpr static T value = a; };
122
-
123
- template<std::size_t n, typename T, T a, T... as> constexpr T array_get(const numeric_list<T, a, as...>&) {
124
- return get<(int)n, numeric_list<T, a, as...>>::value;
125
- }
126
-
127
- /* always get type, regardless of dummy; good for parameter pack expansion */
128
-
129
- template<typename T, T dummy, typename t> struct id_numeric { typedef t type; };
130
- template<typename dummy, typename t> struct id_type { typedef t type; };
131
-
132
- /* equality checking, flagged version */
133
-
134
- template<typename a, typename b> struct is_same_gf : is_same<a, b> { constexpr static int global_flags = 0; };
135
-
136
- /* apply_op to list */
137
-
138
- template<
139
- bool from_left, // false
140
- template<typename, typename> class op,
141
- typename additional_param,
142
- typename... values
143
- >
144
- struct h_apply_op_helper { typedef type_list<typename op<values, additional_param>::type...> type; };
145
- template<
146
- template<typename, typename> class op,
147
- typename additional_param,
148
- typename... values
149
- >
150
- struct h_apply_op_helper<true, op, additional_param, values...> { typedef type_list<typename op<additional_param, values>::type...> type; };
151
-
152
- template<
153
- bool from_left,
154
- template<typename, typename> class op,
155
- typename additional_param
156
- >
157
- struct h_apply_op
158
- {
159
- template<typename... values>
160
- constexpr static typename h_apply_op_helper<from_left, op, additional_param, values...>::type helper(type_list<values...>)
161
- { return typename h_apply_op_helper<from_left, op, additional_param, values...>::type(); }
162
- };
163
-
164
- template<
165
- template<typename, typename> class op,
166
- typename additional_param,
167
- typename a
168
- >
169
- struct apply_op_from_left { typedef decltype(h_apply_op<true, op, additional_param>::helper(a())) type; };
170
-
171
- template<
172
- template<typename, typename> class op,
173
- typename additional_param,
174
- typename a
175
- >
176
- struct apply_op_from_right { typedef decltype(h_apply_op<false, op, additional_param>::helper(a())) type; };
177
-
178
- /* see if an element is in a list */
179
-
180
- template<
181
- template<typename, typename> class test,
182
- typename check_against,
183
- typename h_list,
184
- bool last_check_positive = false
185
- >
186
- struct contained_in_list;
187
-
188
- template<
189
- template<typename, typename> class test,
190
- typename check_against,
191
- typename h_list
192
- >
193
- struct contained_in_list<test, check_against, h_list, true>
194
- {
195
- constexpr static bool value = true;
196
- };
197
-
198
- template<
199
- template<typename, typename> class test,
200
- typename check_against,
201
- typename a,
202
- typename... as
203
- >
204
- struct contained_in_list<test, check_against, type_list<a, as...>, false> : contained_in_list<test, check_against, type_list<as...>, test<check_against, a>::value> {};
205
-
206
- template<
207
- template<typename, typename> class test,
208
- typename check_against
209
- EIGEN_TPL_PP_SPEC_HACK_DEFC(typename, empty)
210
- >
211
- struct contained_in_list<test, check_against, type_list<EIGEN_TPL_PP_SPEC_HACK_USE(empty)>, false> { constexpr static bool value = false; };
212
-
213
- /* see if an element is in a list and check for global flags */
214
-
215
- template<
216
- template<typename, typename> class test,
217
- typename check_against,
218
- typename h_list,
219
- int default_flags = 0,
220
- bool last_check_positive = false,
221
- int last_check_flags = default_flags
222
- >
223
- struct contained_in_list_gf;
224
-
225
- template<
226
- template<typename, typename> class test,
227
- typename check_against,
228
- typename h_list,
229
- int default_flags,
230
- int last_check_flags
231
- >
232
- struct contained_in_list_gf<test, check_against, h_list, default_flags, true, last_check_flags>
233
- {
234
- constexpr static bool value = true;
235
- constexpr static int global_flags = last_check_flags;
236
- };
237
-
238
- template<
239
- template<typename, typename> class test,
240
- typename check_against,
241
- typename a,
242
- typename... as,
243
- int default_flags,
244
- int last_check_flags
245
- >
246
- struct contained_in_list_gf<test, check_against, type_list<a, as...>, default_flags, false, last_check_flags> : contained_in_list_gf<test, check_against, type_list<as...>, default_flags, test<check_against, a>::value, test<check_against, a>::global_flags> {};
247
-
248
- template<
249
- template<typename, typename> class test,
250
- typename check_against
251
- EIGEN_TPL_PP_SPEC_HACK_DEFC(typename, empty),
252
- int default_flags,
253
- int last_check_flags
254
- >
255
- struct contained_in_list_gf<test, check_against, type_list<EIGEN_TPL_PP_SPEC_HACK_USE(empty)>, default_flags, false, last_check_flags> { constexpr static bool value = false; constexpr static int global_flags = default_flags; };
256
-
257
- /* generic reductions */
258
-
259
- template<
260
- typename Reducer,
261
- typename... Ts
262
- > struct reduce;
263
-
264
- template<
265
- typename Reducer
266
- > struct reduce<Reducer>
267
- {
268
- EIGEN_DEVICE_FUNC constexpr static EIGEN_STRONG_INLINE int run() { return Reducer::Identity; }
269
- };
270
-
271
- template<
272
- typename Reducer,
273
- typename A
274
- > struct reduce<Reducer, A>
275
- {
276
- EIGEN_DEVICE_FUNC constexpr static EIGEN_STRONG_INLINE A run(A a) { return a; }
277
- };
278
-
279
- template<
280
- typename Reducer,
281
- typename A,
282
- typename... Ts
283
- > struct reduce<Reducer, A, Ts...>
284
- {
285
- EIGEN_DEVICE_FUNC constexpr static EIGEN_STRONG_INLINE auto run(A a, Ts... ts) -> decltype(Reducer::run(a, reduce<Reducer, Ts...>::run(ts...))) {
286
- return Reducer::run(a, reduce<Reducer, Ts...>::run(ts...));
287
- }
288
- };
289
-
290
- /* generic binary operations */
291
-
292
- struct sum_op {
293
- template<typename A, typename B> EIGEN_DEVICE_FUNC constexpr static EIGEN_STRONG_INLINE auto run(A a, B b) -> decltype(a + b) { return a + b; }
294
- static constexpr int Identity = 0;
295
- };
296
- struct product_op {
297
- template<typename A, typename B> EIGEN_DEVICE_FUNC constexpr static EIGEN_STRONG_INLINE auto run(A a, B b) -> decltype(a * b) { return a * b; }
298
- static constexpr int Identity = 1;
299
- };
300
-
301
- struct logical_and_op { template<typename A, typename B> constexpr static EIGEN_STRONG_INLINE auto run(A a, B b) -> decltype(a && b) { return a && b; } };
302
- struct logical_or_op { template<typename A, typename B> constexpr static EIGEN_STRONG_INLINE auto run(A a, B b) -> decltype(a || b) { return a || b; } };
303
-
304
- struct equal_op { template<typename A, typename B> constexpr static EIGEN_STRONG_INLINE auto run(A a, B b) -> decltype(a == b) { return a == b; } };
305
- struct not_equal_op { template<typename A, typename B> constexpr static EIGEN_STRONG_INLINE auto run(A a, B b) -> decltype(a != b) { return a != b; } };
306
- struct lesser_op { template<typename A, typename B> constexpr static EIGEN_STRONG_INLINE auto run(A a, B b) -> decltype(a < b) { return a < b; } };
307
- struct lesser_equal_op { template<typename A, typename B> constexpr static EIGEN_STRONG_INLINE auto run(A a, B b) -> decltype(a <= b) { return a <= b; } };
308
- struct greater_op { template<typename A, typename B> constexpr static EIGEN_STRONG_INLINE auto run(A a, B b) -> decltype(a > b) { return a > b; } };
309
- struct greater_equal_op { template<typename A, typename B> constexpr static EIGEN_STRONG_INLINE auto run(A a, B b) -> decltype(a >= b) { return a >= b; } };
310
-
311
- /* generic unary operations */
312
-
313
- struct not_op { template<typename A> constexpr static EIGEN_STRONG_INLINE auto run(A a) -> decltype(!a) { return !a; } };
314
- struct negation_op { template<typename A> constexpr static EIGEN_STRONG_INLINE auto run(A a) -> decltype(-a) { return -a; } };
315
- struct greater_equal_zero_op { template<typename A> constexpr static EIGEN_STRONG_INLINE auto run(A a) -> decltype(a >= 0) { return a >= 0; } };
316
-
317
-
318
- /* reductions for lists */
319
-
320
- // using auto -> return value spec makes ICC 13.0 and 13.1 crash here, so we have to hack it
321
- // together in front... (13.0 doesn't work with array_prod/array_reduce/... anyway, but 13.1
322
- // does...
323
- template<typename... Ts>
324
- EIGEN_DEVICE_FUNC constexpr EIGEN_STRONG_INLINE decltype(reduce<product_op, Ts...>::run((*((Ts*)0))...)) arg_prod(Ts... ts)
325
- {
326
- return reduce<product_op, Ts...>::run(ts...);
327
- }
328
-
329
- template<typename... Ts>
330
- constexpr EIGEN_STRONG_INLINE decltype(reduce<sum_op, Ts...>::run((*((Ts*)0))...)) arg_sum(Ts... ts)
331
- {
332
- return reduce<sum_op, Ts...>::run(ts...);
333
- }
334
-
335
- /* reverse arrays */
336
-
337
- template<typename Array, int... n>
338
- constexpr EIGEN_STRONG_INLINE Array h_array_reverse(Array arr, numeric_list<int, n...>)
339
- {
340
- return {{array_get<sizeof...(n) - n - 1>(arr)...}};
341
- }
342
-
343
- template<typename T, std::size_t N>
344
- constexpr EIGEN_STRONG_INLINE array<T, N> array_reverse(array<T, N> arr)
345
- {
346
- return h_array_reverse(arr, typename gen_numeric_list<int, N>::type());
347
- }
348
-
349
-
350
- /* generic array reductions */
351
-
352
- // can't reuse standard reduce() interface above because Intel's Compiler
353
- // *really* doesn't like it, so we just reimplement the stuff
354
- // (start from N - 1 and work down to 0 because specialization for
355
- // n == N - 1 also doesn't work in Intel's compiler, so it goes into
356
- // an infinite loop)
357
- template<typename Reducer, typename T, std::size_t N, std::size_t n = N - 1>
358
- struct h_array_reduce {
359
- EIGEN_DEVICE_FUNC constexpr static EIGEN_STRONG_INLINE auto run(array<T, N> arr, T identity) -> decltype(Reducer::run(h_array_reduce<Reducer, T, N, n - 1>::run(arr, identity), array_get<n>(arr)))
360
- {
361
- return Reducer::run(h_array_reduce<Reducer, T, N, n - 1>::run(arr, identity), array_get<n>(arr));
362
- }
363
- };
364
-
365
- template<typename Reducer, typename T, std::size_t N>
366
- struct h_array_reduce<Reducer, T, N, 0>
367
- {
368
- EIGEN_DEVICE_FUNC constexpr static EIGEN_STRONG_INLINE T run(const array<T, N>& arr, T)
369
- {
370
- return array_get<0>(arr);
371
- }
372
- };
373
-
374
- template<typename Reducer, typename T>
375
- struct h_array_reduce<Reducer, T, 0>
376
- {
377
- EIGEN_DEVICE_FUNC constexpr static EIGEN_STRONG_INLINE T run(const array<T, 0>&, T identity)
378
- {
379
- return identity;
380
- }
381
- };
382
-
383
- template<typename Reducer, typename T, std::size_t N>
384
- EIGEN_DEVICE_FUNC constexpr EIGEN_STRONG_INLINE auto array_reduce(const array<T, N>& arr, T identity) -> decltype(h_array_reduce<Reducer, T, N>::run(arr, identity))
385
- {
386
- return h_array_reduce<Reducer, T, N>::run(arr, identity);
387
- }
388
-
389
- /* standard array reductions */
390
-
391
- template<typename T, std::size_t N>
392
- EIGEN_DEVICE_FUNC constexpr EIGEN_STRONG_INLINE auto array_sum(const array<T, N>& arr) -> decltype(array_reduce<sum_op, T, N>(arr, static_cast<T>(0)))
393
- {
394
- return array_reduce<sum_op, T, N>(arr, static_cast<T>(0));
395
- }
396
-
397
- template<typename T, std::size_t N>
398
- EIGEN_DEVICE_FUNC constexpr EIGEN_STRONG_INLINE auto array_prod(const array<T, N>& arr) -> decltype(array_reduce<product_op, T, N>(arr, static_cast<T>(1)))
399
- {
400
- return array_reduce<product_op, T, N>(arr, static_cast<T>(1));
401
- }
402
-
403
- template<typename t>
404
- EIGEN_DEVICE_FUNC EIGEN_STRONG_INLINE t array_prod(const std::vector<t>& a) {
405
- eigen_assert(a.size() > 0);
406
- t prod = 1;
407
- for (size_t i = 0; i < a.size(); ++i) { prod *= a[i]; }
408
- return prod;
409
- }
410
-
411
- /* zip an array */
412
-
413
- template<typename Op, typename A, typename B, std::size_t N, int... n>
414
- constexpr EIGEN_STRONG_INLINE array<decltype(Op::run(A(), B())),N> h_array_zip(array<A, N> a, array<B, N> b, numeric_list<int, n...>)
415
- {
416
- return array<decltype(Op::run(A(), B())),N>{{ Op::run(array_get<n>(a), array_get<n>(b))... }};
417
- }
418
-
419
- template<typename Op, typename A, typename B, std::size_t N>
420
- constexpr EIGEN_STRONG_INLINE array<decltype(Op::run(A(), B())),N> array_zip(array<A, N> a, array<B, N> b)
421
- {
422
- return h_array_zip<Op>(a, b, typename gen_numeric_list<int, N>::type());
423
- }
424
-
425
- /* zip an array and reduce the result */
426
-
427
- template<typename Reducer, typename Op, typename A, typename B, std::size_t N, int... n>
428
- constexpr EIGEN_STRONG_INLINE auto h_array_zip_and_reduce(array<A, N> a, array<B, N> b, numeric_list<int, n...>) -> decltype(reduce<Reducer, typename id_numeric<int,n,decltype(Op::run(A(), B()))>::type...>::run(Op::run(array_get<n>(a), array_get<n>(b))...))
429
- {
430
- return reduce<Reducer, typename id_numeric<int,n,decltype(Op::run(A(), B()))>::type...>::run(Op::run(array_get<n>(a), array_get<n>(b))...);
431
- }
432
-
433
- template<typename Reducer, typename Op, typename A, typename B, std::size_t N>
434
- constexpr EIGEN_STRONG_INLINE auto array_zip_and_reduce(array<A, N> a, array<B, N> b) -> decltype(h_array_zip_and_reduce<Reducer, Op, A, B, N>(a, b, typename gen_numeric_list<int, N>::type()))
435
- {
436
- return h_array_zip_and_reduce<Reducer, Op, A, B, N>(a, b, typename gen_numeric_list<int, N>::type());
437
- }
438
-
439
- /* apply stuff to an array */
440
-
441
- template<typename Op, typename A, std::size_t N, int... n>
442
- constexpr EIGEN_STRONG_INLINE array<decltype(Op::run(A())),N> h_array_apply(array<A, N> a, numeric_list<int, n...>)
443
- {
444
- return array<decltype(Op::run(A())),N>{{ Op::run(array_get<n>(a))... }};
445
- }
446
-
447
- template<typename Op, typename A, std::size_t N>
448
- constexpr EIGEN_STRONG_INLINE array<decltype(Op::run(A())),N> array_apply(array<A, N> a)
449
- {
450
- return h_array_apply<Op>(a, typename gen_numeric_list<int, N>::type());
451
- }
452
-
453
- /* apply stuff to an array and reduce */
454
-
455
- template<typename Reducer, typename Op, typename A, std::size_t N, int... n>
456
- constexpr EIGEN_STRONG_INLINE auto h_array_apply_and_reduce(array<A, N> arr, numeric_list<int, n...>) -> decltype(reduce<Reducer, typename id_numeric<int,n,decltype(Op::run(A()))>::type...>::run(Op::run(array_get<n>(arr))...))
457
- {
458
- return reduce<Reducer, typename id_numeric<int,n,decltype(Op::run(A()))>::type...>::run(Op::run(array_get<n>(arr))...);
459
- }
460
-
461
- template<typename Reducer, typename Op, typename A, std::size_t N>
462
- constexpr EIGEN_STRONG_INLINE auto array_apply_and_reduce(array<A, N> a) -> decltype(h_array_apply_and_reduce<Reducer, Op, A, N>(a, typename gen_numeric_list<int, N>::type()))
463
- {
464
- return h_array_apply_and_reduce<Reducer, Op, A, N>(a, typename gen_numeric_list<int, N>::type());
465
- }
466
-
467
- /* repeat a value n times (and make an array out of it
468
- * usage:
469
- * array<int, 16> = repeat<16>(42);
470
- */
471
-
472
- template<int n>
473
- struct h_repeat
474
- {
475
- template<typename t, int... ii>
476
- constexpr static EIGEN_STRONG_INLINE array<t, n> run(t v, numeric_list<int, ii...>)
477
- {
478
- return {{ typename id_numeric<int, ii, t>::type(v)... }};
479
- }
480
- };
481
-
482
- template<int n, typename t>
483
- constexpr array<t, n> repeat(t v) { return h_repeat<n>::run(v, typename gen_numeric_list<int, n>::type()); }
484
-
485
- /* instantiate a class by a C-style array */
486
- template<class InstType, typename ArrType, std::size_t N, bool Reverse, typename... Ps>
487
- struct h_instantiate_by_c_array;
488
-
489
- template<class InstType, typename ArrType, std::size_t N, typename... Ps>
490
- struct h_instantiate_by_c_array<InstType, ArrType, N, false, Ps...>
491
- {
492
- static InstType run(ArrType* arr, Ps... args)
493
- {
494
- return h_instantiate_by_c_array<InstType, ArrType, N - 1, false, Ps..., ArrType>::run(arr + 1, args..., arr[0]);
495
- }
496
- };
497
-
498
- template<class InstType, typename ArrType, std::size_t N, typename... Ps>
499
- struct h_instantiate_by_c_array<InstType, ArrType, N, true, Ps...>
500
- {
501
- static InstType run(ArrType* arr, Ps... args)
502
- {
503
- return h_instantiate_by_c_array<InstType, ArrType, N - 1, false, ArrType, Ps...>::run(arr + 1, arr[0], args...);
504
- }
505
- };
506
-
507
- template<class InstType, typename ArrType, typename... Ps>
508
- struct h_instantiate_by_c_array<InstType, ArrType, 0, false, Ps...>
509
- {
510
- static InstType run(ArrType* arr, Ps... args)
511
- {
512
- (void)arr;
513
- return InstType(args...);
514
- }
515
- };
516
-
517
- template<class InstType, typename ArrType, typename... Ps>
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- struct h_instantiate_by_c_array<InstType, ArrType, 0, true, Ps...>
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- {
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- static InstType run(ArrType* arr, Ps... args)
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- {
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- (void)arr;
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- return InstType(args...);
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- }
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- };
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-
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- template<class InstType, typename ArrType, std::size_t N, bool Reverse = false>
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- InstType instantiate_by_c_array(ArrType* arr)
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- {
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- return h_instantiate_by_c_array<InstType, ArrType, N, Reverse>::run(arr);
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- }
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-
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- } // end namespace internal
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-
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- } // end namespace Eigen
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-
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- #endif // EIGEN_CXX11META_H
@@ -1,88 +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) 2013 Christian Seiler <christian@iwakd.de>
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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_CXX11WORKAROUNDS_H
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- #define EIGEN_CXX11WORKAROUNDS_H
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-
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- /* COMPATIBILITY CHECKS
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- * (so users of compilers that are too old get some realistic error messages)
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- */
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- #if defined(__INTEL_COMPILER) && (__INTEL_COMPILER < 1310)
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- #error Intel Compiler only supports required C++ features since version 13.1.
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- // note that most stuff in principle works with 13.0 but when combining
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- // some features, at some point 13.0 will just fail with an internal assertion
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- #elif defined(__GNUC__) && !defined(__clang__) && !defined(__INTEL_COMPILER) && (__GNUC__ < 4 || (__GNUC__ == 4 && __GNUC_MINOR__ < 6))
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- // G++ < 4.6 by default will continue processing the source files - even if we use #error to make
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- // it error out. For this reason, we use the pragma to make sure G++ aborts at the first error
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- // it sees. Unfortunately, that is still not our #error directive, but at least the output is
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- // short enough the user has a chance to see that the compiler version is not sufficient for
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- // the funky template mojo we use.
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- #pragma GCC diagnostic error "-Wfatal-errors"
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- #error GNU C++ Compiler (g++) only supports required C++ features since version 4.6.
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- #endif
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-
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- /* Check that the compiler at least claims to support C++11. It might not be sufficient
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- * because the compiler may not implement it correctly, but at least we'll know.
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- * On the other hand, visual studio still doesn't claim to support C++11 although it's
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- * compliant enugh for our purpose.
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- */
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- #if (EIGEN_COMP_CXXVER < 11)
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- #if defined(__GNUC__) && !defined(__clang__) && !defined(__INTEL_COMPILER)
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- #pragma GCC diagnostic error "-Wfatal-errors"
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- #endif
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- #error This library needs at least a C++11 compliant compiler. If you use g++/clang, please enable the -std=c++11 compiler flag. (-std=c++0x on older versions.)
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- #endif
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-
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- namespace Eigen {
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-
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- namespace internal {
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-
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- /* std::get is only constexpr in C++14, not yet in C++11
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- */
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-
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-
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- template<std::size_t I_, class T> constexpr inline T& array_get(std::vector<T>& a) { return a[I_]; }
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- template<std::size_t I_, class T> constexpr inline T&& array_get(std::vector<T>&& a) { return a[I_]; }
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- template<std::size_t I_, class T> constexpr inline T const& array_get(std::vector<T> const& a) { return a[I_]; }
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-
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- /* Suppose you have a template of the form
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- * template<typename T> struct X;
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- * And you want to specialize it in such a way:
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- * template<typename S1, typename... SN> struct X<Foo<S1, SN...>> { ::: };
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- * template<> struct X<Foo<>> { ::: };
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- * This will work in Intel's compiler 13.0, but only to some extent in g++ 4.6, since
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- * g++ can only match templates called with parameter packs if the number of template
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- * arguments is not a fixed size (so inside the first specialization, referencing
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- * X<Foo<Sn...>> will fail in g++). On the other hand, g++ will accept the following:
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- * template<typename S...> struct X<Foo<S...>> { ::: }:
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- * as an additional (!) specialization, which will then only match the empty case.
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- * But Intel's compiler 13.0 won't accept that, it will only accept the empty syntax,
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- * so we have to create a workaround for this.
67
- */
68
- #if defined(__GNUC__) && !defined(__INTEL_COMPILER)
69
- #define EIGEN_TPL_PP_SPEC_HACK_DEF(mt, n) mt... n
70
- #define EIGEN_TPL_PP_SPEC_HACK_DEFC(mt, n) , EIGEN_TPL_PP_SPEC_HACK_DEF(mt, n)
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- #define EIGEN_TPL_PP_SPEC_HACK_USE(n) n...
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- #define EIGEN_TPL_PP_SPEC_HACK_USEC(n) , n...
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- #else
74
- #define EIGEN_TPL_PP_SPEC_HACK_DEF(mt, n)
75
- #define EIGEN_TPL_PP_SPEC_HACK_DEFC(mt, n)
76
- #define EIGEN_TPL_PP_SPEC_HACK_USE(n)
77
- #define EIGEN_TPL_PP_SPEC_HACK_USEC(n)
78
- #endif
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-
80
- } // end namespace internal
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-
82
- } // end namespace Eigen
83
-
84
- #endif // EIGEN_CXX11WORKAROUNDS_H
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-
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- /*
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- * kate: space-indent on; indent-width 2; mixedindent off; indent-mode cstyle;
88
- */