umappp 0.1.2

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Files changed (395) hide show
  1. checksums.yaml +7 -0
  2. data/LICENSE.txt +25 -0
  3. data/README.md +110 -0
  4. data/ext/umappp/extconf.rb +25 -0
  5. data/ext/umappp/numo.hpp +867 -0
  6. data/ext/umappp/umappp.cpp +225 -0
  7. data/lib/umappp/version.rb +5 -0
  8. data/lib/umappp.rb +41 -0
  9. data/vendor/Eigen/Cholesky +45 -0
  10. data/vendor/Eigen/CholmodSupport +48 -0
  11. data/vendor/Eigen/Core +384 -0
  12. data/vendor/Eigen/Dense +7 -0
  13. data/vendor/Eigen/Eigen +2 -0
  14. data/vendor/Eigen/Eigenvalues +60 -0
  15. data/vendor/Eigen/Geometry +59 -0
  16. data/vendor/Eigen/Householder +29 -0
  17. data/vendor/Eigen/IterativeLinearSolvers +48 -0
  18. data/vendor/Eigen/Jacobi +32 -0
  19. data/vendor/Eigen/KLUSupport +41 -0
  20. data/vendor/Eigen/LU +47 -0
  21. data/vendor/Eigen/MetisSupport +35 -0
  22. data/vendor/Eigen/OrderingMethods +70 -0
  23. data/vendor/Eigen/PaStiXSupport +49 -0
  24. data/vendor/Eigen/PardisoSupport +35 -0
  25. data/vendor/Eigen/QR +50 -0
  26. data/vendor/Eigen/QtAlignedMalloc +39 -0
  27. data/vendor/Eigen/SPQRSupport +34 -0
  28. data/vendor/Eigen/SVD +50 -0
  29. data/vendor/Eigen/Sparse +34 -0
  30. data/vendor/Eigen/SparseCholesky +37 -0
  31. data/vendor/Eigen/SparseCore +69 -0
  32. data/vendor/Eigen/SparseLU +50 -0
  33. data/vendor/Eigen/SparseQR +36 -0
  34. data/vendor/Eigen/StdDeque +27 -0
  35. data/vendor/Eigen/StdList +26 -0
  36. data/vendor/Eigen/StdVector +27 -0
  37. data/vendor/Eigen/SuperLUSupport +64 -0
  38. data/vendor/Eigen/UmfPackSupport +40 -0
  39. data/vendor/Eigen/src/Cholesky/LDLT.h +688 -0
  40. data/vendor/Eigen/src/Cholesky/LLT.h +558 -0
  41. data/vendor/Eigen/src/Cholesky/LLT_LAPACKE.h +99 -0
  42. data/vendor/Eigen/src/CholmodSupport/CholmodSupport.h +682 -0
  43. data/vendor/Eigen/src/Core/ArithmeticSequence.h +413 -0
  44. data/vendor/Eigen/src/Core/Array.h +417 -0
  45. data/vendor/Eigen/src/Core/ArrayBase.h +226 -0
  46. data/vendor/Eigen/src/Core/ArrayWrapper.h +209 -0
  47. data/vendor/Eigen/src/Core/Assign.h +90 -0
  48. data/vendor/Eigen/src/Core/AssignEvaluator.h +1010 -0
  49. data/vendor/Eigen/src/Core/Assign_MKL.h +178 -0
  50. data/vendor/Eigen/src/Core/BandMatrix.h +353 -0
  51. data/vendor/Eigen/src/Core/Block.h +448 -0
  52. data/vendor/Eigen/src/Core/BooleanRedux.h +162 -0
  53. data/vendor/Eigen/src/Core/CommaInitializer.h +164 -0
  54. data/vendor/Eigen/src/Core/ConditionEstimator.h +175 -0
  55. data/vendor/Eigen/src/Core/CoreEvaluators.h +1741 -0
  56. data/vendor/Eigen/src/Core/CoreIterators.h +132 -0
  57. data/vendor/Eigen/src/Core/CwiseBinaryOp.h +183 -0
  58. data/vendor/Eigen/src/Core/CwiseNullaryOp.h +1001 -0
  59. data/vendor/Eigen/src/Core/CwiseTernaryOp.h +197 -0
  60. data/vendor/Eigen/src/Core/CwiseUnaryOp.h +103 -0
  61. data/vendor/Eigen/src/Core/CwiseUnaryView.h +132 -0
  62. data/vendor/Eigen/src/Core/DenseBase.h +701 -0
  63. data/vendor/Eigen/src/Core/DenseCoeffsBase.h +685 -0
  64. data/vendor/Eigen/src/Core/DenseStorage.h +652 -0
  65. data/vendor/Eigen/src/Core/Diagonal.h +258 -0
  66. data/vendor/Eigen/src/Core/DiagonalMatrix.h +391 -0
  67. data/vendor/Eigen/src/Core/DiagonalProduct.h +28 -0
  68. data/vendor/Eigen/src/Core/Dot.h +318 -0
  69. data/vendor/Eigen/src/Core/EigenBase.h +160 -0
  70. data/vendor/Eigen/src/Core/ForceAlignedAccess.h +150 -0
  71. data/vendor/Eigen/src/Core/Fuzzy.h +155 -0
  72. data/vendor/Eigen/src/Core/GeneralProduct.h +465 -0
  73. data/vendor/Eigen/src/Core/GenericPacketMath.h +1040 -0
  74. data/vendor/Eigen/src/Core/GlobalFunctions.h +194 -0
  75. data/vendor/Eigen/src/Core/IO.h +258 -0
  76. data/vendor/Eigen/src/Core/IndexedView.h +237 -0
  77. data/vendor/Eigen/src/Core/Inverse.h +117 -0
  78. data/vendor/Eigen/src/Core/Map.h +171 -0
  79. data/vendor/Eigen/src/Core/MapBase.h +310 -0
  80. data/vendor/Eigen/src/Core/MathFunctions.h +2057 -0
  81. data/vendor/Eigen/src/Core/MathFunctionsImpl.h +200 -0
  82. data/vendor/Eigen/src/Core/Matrix.h +565 -0
  83. data/vendor/Eigen/src/Core/MatrixBase.h +547 -0
  84. data/vendor/Eigen/src/Core/NestByValue.h +85 -0
  85. data/vendor/Eigen/src/Core/NoAlias.h +109 -0
  86. data/vendor/Eigen/src/Core/NumTraits.h +335 -0
  87. data/vendor/Eigen/src/Core/PartialReduxEvaluator.h +232 -0
  88. data/vendor/Eigen/src/Core/PermutationMatrix.h +605 -0
  89. data/vendor/Eigen/src/Core/PlainObjectBase.h +1128 -0
  90. data/vendor/Eigen/src/Core/Product.h +191 -0
  91. data/vendor/Eigen/src/Core/ProductEvaluators.h +1179 -0
  92. data/vendor/Eigen/src/Core/Random.h +218 -0
  93. data/vendor/Eigen/src/Core/Redux.h +515 -0
  94. data/vendor/Eigen/src/Core/Ref.h +381 -0
  95. data/vendor/Eigen/src/Core/Replicate.h +142 -0
  96. data/vendor/Eigen/src/Core/Reshaped.h +454 -0
  97. data/vendor/Eigen/src/Core/ReturnByValue.h +119 -0
  98. data/vendor/Eigen/src/Core/Reverse.h +217 -0
  99. data/vendor/Eigen/src/Core/Select.h +164 -0
  100. data/vendor/Eigen/src/Core/SelfAdjointView.h +365 -0
  101. data/vendor/Eigen/src/Core/SelfCwiseBinaryOp.h +47 -0
  102. data/vendor/Eigen/src/Core/Solve.h +188 -0
  103. data/vendor/Eigen/src/Core/SolveTriangular.h +235 -0
  104. data/vendor/Eigen/src/Core/SolverBase.h +168 -0
  105. data/vendor/Eigen/src/Core/StableNorm.h +251 -0
  106. data/vendor/Eigen/src/Core/StlIterators.h +463 -0
  107. data/vendor/Eigen/src/Core/Stride.h +116 -0
  108. data/vendor/Eigen/src/Core/Swap.h +68 -0
  109. data/vendor/Eigen/src/Core/Transpose.h +464 -0
  110. data/vendor/Eigen/src/Core/Transpositions.h +386 -0
  111. data/vendor/Eigen/src/Core/TriangularMatrix.h +1001 -0
  112. data/vendor/Eigen/src/Core/VectorBlock.h +96 -0
  113. data/vendor/Eigen/src/Core/VectorwiseOp.h +784 -0
  114. data/vendor/Eigen/src/Core/Visitor.h +381 -0
  115. data/vendor/Eigen/src/Core/arch/AVX/Complex.h +372 -0
  116. data/vendor/Eigen/src/Core/arch/AVX/MathFunctions.h +228 -0
  117. data/vendor/Eigen/src/Core/arch/AVX/PacketMath.h +1574 -0
  118. data/vendor/Eigen/src/Core/arch/AVX/TypeCasting.h +115 -0
  119. data/vendor/Eigen/src/Core/arch/AVX512/Complex.h +422 -0
  120. data/vendor/Eigen/src/Core/arch/AVX512/MathFunctions.h +362 -0
  121. data/vendor/Eigen/src/Core/arch/AVX512/PacketMath.h +2303 -0
  122. data/vendor/Eigen/src/Core/arch/AVX512/TypeCasting.h +89 -0
  123. data/vendor/Eigen/src/Core/arch/AltiVec/Complex.h +417 -0
  124. data/vendor/Eigen/src/Core/arch/AltiVec/MathFunctions.h +90 -0
  125. data/vendor/Eigen/src/Core/arch/AltiVec/MatrixProduct.h +2937 -0
  126. data/vendor/Eigen/src/Core/arch/AltiVec/MatrixProductCommon.h +221 -0
  127. data/vendor/Eigen/src/Core/arch/AltiVec/MatrixProductMMA.h +629 -0
  128. data/vendor/Eigen/src/Core/arch/AltiVec/PacketMath.h +2711 -0
  129. data/vendor/Eigen/src/Core/arch/CUDA/Complex.h +258 -0
  130. data/vendor/Eigen/src/Core/arch/Default/BFloat16.h +700 -0
  131. data/vendor/Eigen/src/Core/arch/Default/ConjHelper.h +117 -0
  132. data/vendor/Eigen/src/Core/arch/Default/GenericPacketMathFunctions.h +1649 -0
  133. data/vendor/Eigen/src/Core/arch/Default/GenericPacketMathFunctionsFwd.h +110 -0
  134. data/vendor/Eigen/src/Core/arch/Default/Half.h +942 -0
  135. data/vendor/Eigen/src/Core/arch/Default/Settings.h +49 -0
  136. data/vendor/Eigen/src/Core/arch/Default/TypeCasting.h +120 -0
  137. data/vendor/Eigen/src/Core/arch/GPU/MathFunctions.h +103 -0
  138. data/vendor/Eigen/src/Core/arch/GPU/PacketMath.h +1685 -0
  139. data/vendor/Eigen/src/Core/arch/GPU/TypeCasting.h +80 -0
  140. data/vendor/Eigen/src/Core/arch/HIP/hcc/math_constants.h +23 -0
  141. data/vendor/Eigen/src/Core/arch/MSA/Complex.h +648 -0
  142. data/vendor/Eigen/src/Core/arch/MSA/MathFunctions.h +387 -0
  143. data/vendor/Eigen/src/Core/arch/MSA/PacketMath.h +1233 -0
  144. data/vendor/Eigen/src/Core/arch/NEON/Complex.h +584 -0
  145. data/vendor/Eigen/src/Core/arch/NEON/GeneralBlockPanelKernel.h +183 -0
  146. data/vendor/Eigen/src/Core/arch/NEON/MathFunctions.h +75 -0
  147. data/vendor/Eigen/src/Core/arch/NEON/PacketMath.h +4587 -0
  148. data/vendor/Eigen/src/Core/arch/NEON/TypeCasting.h +1419 -0
  149. data/vendor/Eigen/src/Core/arch/SSE/Complex.h +351 -0
  150. data/vendor/Eigen/src/Core/arch/SSE/MathFunctions.h +199 -0
  151. data/vendor/Eigen/src/Core/arch/SSE/PacketMath.h +1505 -0
  152. data/vendor/Eigen/src/Core/arch/SSE/TypeCasting.h +142 -0
  153. data/vendor/Eigen/src/Core/arch/SVE/MathFunctions.h +44 -0
  154. data/vendor/Eigen/src/Core/arch/SVE/PacketMath.h +752 -0
  155. data/vendor/Eigen/src/Core/arch/SVE/TypeCasting.h +49 -0
  156. data/vendor/Eigen/src/Core/arch/SYCL/InteropHeaders.h +232 -0
  157. data/vendor/Eigen/src/Core/arch/SYCL/MathFunctions.h +301 -0
  158. data/vendor/Eigen/src/Core/arch/SYCL/PacketMath.h +670 -0
  159. data/vendor/Eigen/src/Core/arch/SYCL/SyclMemoryModel.h +694 -0
  160. data/vendor/Eigen/src/Core/arch/SYCL/TypeCasting.h +85 -0
  161. data/vendor/Eigen/src/Core/arch/ZVector/Complex.h +426 -0
  162. data/vendor/Eigen/src/Core/arch/ZVector/MathFunctions.h +233 -0
  163. data/vendor/Eigen/src/Core/arch/ZVector/PacketMath.h +1060 -0
  164. data/vendor/Eigen/src/Core/functors/AssignmentFunctors.h +177 -0
  165. data/vendor/Eigen/src/Core/functors/BinaryFunctors.h +541 -0
  166. data/vendor/Eigen/src/Core/functors/NullaryFunctors.h +189 -0
  167. data/vendor/Eigen/src/Core/functors/StlFunctors.h +166 -0
  168. data/vendor/Eigen/src/Core/functors/TernaryFunctors.h +25 -0
  169. data/vendor/Eigen/src/Core/functors/UnaryFunctors.h +1131 -0
  170. data/vendor/Eigen/src/Core/products/GeneralBlockPanelKernel.h +2645 -0
  171. data/vendor/Eigen/src/Core/products/GeneralMatrixMatrix.h +517 -0
  172. data/vendor/Eigen/src/Core/products/GeneralMatrixMatrixTriangular.h +317 -0
  173. data/vendor/Eigen/src/Core/products/GeneralMatrixMatrixTriangular_BLAS.h +145 -0
  174. data/vendor/Eigen/src/Core/products/GeneralMatrixMatrix_BLAS.h +124 -0
  175. data/vendor/Eigen/src/Core/products/GeneralMatrixVector.h +518 -0
  176. data/vendor/Eigen/src/Core/products/GeneralMatrixVector_BLAS.h +136 -0
  177. data/vendor/Eigen/src/Core/products/Parallelizer.h +180 -0
  178. data/vendor/Eigen/src/Core/products/SelfadjointMatrixMatrix.h +544 -0
  179. data/vendor/Eigen/src/Core/products/SelfadjointMatrixMatrix_BLAS.h +295 -0
  180. data/vendor/Eigen/src/Core/products/SelfadjointMatrixVector.h +262 -0
  181. data/vendor/Eigen/src/Core/products/SelfadjointMatrixVector_BLAS.h +118 -0
  182. data/vendor/Eigen/src/Core/products/SelfadjointProduct.h +133 -0
  183. data/vendor/Eigen/src/Core/products/SelfadjointRank2Update.h +94 -0
  184. data/vendor/Eigen/src/Core/products/TriangularMatrixMatrix.h +472 -0
  185. data/vendor/Eigen/src/Core/products/TriangularMatrixMatrix_BLAS.h +317 -0
  186. data/vendor/Eigen/src/Core/products/TriangularMatrixVector.h +350 -0
  187. data/vendor/Eigen/src/Core/products/TriangularMatrixVector_BLAS.h +255 -0
  188. data/vendor/Eigen/src/Core/products/TriangularSolverMatrix.h +337 -0
  189. data/vendor/Eigen/src/Core/products/TriangularSolverMatrix_BLAS.h +167 -0
  190. data/vendor/Eigen/src/Core/products/TriangularSolverVector.h +148 -0
  191. data/vendor/Eigen/src/Core/util/BlasUtil.h +583 -0
  192. data/vendor/Eigen/src/Core/util/ConfigureVectorization.h +512 -0
  193. data/vendor/Eigen/src/Core/util/Constants.h +563 -0
  194. data/vendor/Eigen/src/Core/util/DisableStupidWarnings.h +106 -0
  195. data/vendor/Eigen/src/Core/util/ForwardDeclarations.h +322 -0
  196. data/vendor/Eigen/src/Core/util/IndexedViewHelper.h +186 -0
  197. data/vendor/Eigen/src/Core/util/IntegralConstant.h +272 -0
  198. data/vendor/Eigen/src/Core/util/MKL_support.h +137 -0
  199. data/vendor/Eigen/src/Core/util/Macros.h +1464 -0
  200. data/vendor/Eigen/src/Core/util/Memory.h +1163 -0
  201. data/vendor/Eigen/src/Core/util/Meta.h +812 -0
  202. data/vendor/Eigen/src/Core/util/NonMPL2.h +3 -0
  203. data/vendor/Eigen/src/Core/util/ReenableStupidWarnings.h +31 -0
  204. data/vendor/Eigen/src/Core/util/ReshapedHelper.h +51 -0
  205. data/vendor/Eigen/src/Core/util/StaticAssert.h +221 -0
  206. data/vendor/Eigen/src/Core/util/SymbolicIndex.h +293 -0
  207. data/vendor/Eigen/src/Core/util/XprHelper.h +856 -0
  208. data/vendor/Eigen/src/Eigenvalues/ComplexEigenSolver.h +346 -0
  209. data/vendor/Eigen/src/Eigenvalues/ComplexSchur.h +462 -0
  210. data/vendor/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +91 -0
  211. data/vendor/Eigen/src/Eigenvalues/EigenSolver.h +622 -0
  212. data/vendor/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +418 -0
  213. data/vendor/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +226 -0
  214. data/vendor/Eigen/src/Eigenvalues/HessenbergDecomposition.h +374 -0
  215. data/vendor/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +158 -0
  216. data/vendor/Eigen/src/Eigenvalues/RealQZ.h +657 -0
  217. data/vendor/Eigen/src/Eigenvalues/RealSchur.h +558 -0
  218. data/vendor/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +77 -0
  219. data/vendor/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +904 -0
  220. data/vendor/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +87 -0
  221. data/vendor/Eigen/src/Eigenvalues/Tridiagonalization.h +561 -0
  222. data/vendor/Eigen/src/Geometry/AlignedBox.h +486 -0
  223. data/vendor/Eigen/src/Geometry/AngleAxis.h +247 -0
  224. data/vendor/Eigen/src/Geometry/EulerAngles.h +114 -0
  225. data/vendor/Eigen/src/Geometry/Homogeneous.h +501 -0
  226. data/vendor/Eigen/src/Geometry/Hyperplane.h +282 -0
  227. data/vendor/Eigen/src/Geometry/OrthoMethods.h +235 -0
  228. data/vendor/Eigen/src/Geometry/ParametrizedLine.h +232 -0
  229. data/vendor/Eigen/src/Geometry/Quaternion.h +870 -0
  230. data/vendor/Eigen/src/Geometry/Rotation2D.h +199 -0
  231. data/vendor/Eigen/src/Geometry/RotationBase.h +206 -0
  232. data/vendor/Eigen/src/Geometry/Scaling.h +188 -0
  233. data/vendor/Eigen/src/Geometry/Transform.h +1563 -0
  234. data/vendor/Eigen/src/Geometry/Translation.h +202 -0
  235. data/vendor/Eigen/src/Geometry/Umeyama.h +166 -0
  236. data/vendor/Eigen/src/Geometry/arch/Geometry_SIMD.h +168 -0
  237. data/vendor/Eigen/src/Householder/BlockHouseholder.h +110 -0
  238. data/vendor/Eigen/src/Householder/Householder.h +176 -0
  239. data/vendor/Eigen/src/Householder/HouseholderSequence.h +545 -0
  240. data/vendor/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +226 -0
  241. data/vendor/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +212 -0
  242. data/vendor/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +229 -0
  243. data/vendor/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +394 -0
  244. data/vendor/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +453 -0
  245. data/vendor/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +444 -0
  246. data/vendor/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +198 -0
  247. data/vendor/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +117 -0
  248. data/vendor/Eigen/src/Jacobi/Jacobi.h +483 -0
  249. data/vendor/Eigen/src/KLUSupport/KLUSupport.h +358 -0
  250. data/vendor/Eigen/src/LU/Determinant.h +117 -0
  251. data/vendor/Eigen/src/LU/FullPivLU.h +877 -0
  252. data/vendor/Eigen/src/LU/InverseImpl.h +432 -0
  253. data/vendor/Eigen/src/LU/PartialPivLU.h +624 -0
  254. data/vendor/Eigen/src/LU/PartialPivLU_LAPACKE.h +83 -0
  255. data/vendor/Eigen/src/LU/arch/InverseSize4.h +351 -0
  256. data/vendor/Eigen/src/MetisSupport/MetisSupport.h +137 -0
  257. data/vendor/Eigen/src/OrderingMethods/Amd.h +435 -0
  258. data/vendor/Eigen/src/OrderingMethods/Eigen_Colamd.h +1863 -0
  259. data/vendor/Eigen/src/OrderingMethods/Ordering.h +153 -0
  260. data/vendor/Eigen/src/PaStiXSupport/PaStiXSupport.h +678 -0
  261. data/vendor/Eigen/src/PardisoSupport/PardisoSupport.h +545 -0
  262. data/vendor/Eigen/src/QR/ColPivHouseholderQR.h +674 -0
  263. data/vendor/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +97 -0
  264. data/vendor/Eigen/src/QR/CompleteOrthogonalDecomposition.h +635 -0
  265. data/vendor/Eigen/src/QR/FullPivHouseholderQR.h +713 -0
  266. data/vendor/Eigen/src/QR/HouseholderQR.h +434 -0
  267. data/vendor/Eigen/src/QR/HouseholderQR_LAPACKE.h +68 -0
  268. data/vendor/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +335 -0
  269. data/vendor/Eigen/src/SVD/BDCSVD.h +1366 -0
  270. data/vendor/Eigen/src/SVD/JacobiSVD.h +812 -0
  271. data/vendor/Eigen/src/SVD/JacobiSVD_LAPACKE.h +91 -0
  272. data/vendor/Eigen/src/SVD/SVDBase.h +376 -0
  273. data/vendor/Eigen/src/SVD/UpperBidiagonalization.h +414 -0
  274. data/vendor/Eigen/src/SparseCholesky/SimplicialCholesky.h +697 -0
  275. data/vendor/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +174 -0
  276. data/vendor/Eigen/src/SparseCore/AmbiVector.h +378 -0
  277. data/vendor/Eigen/src/SparseCore/CompressedStorage.h +274 -0
  278. data/vendor/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +352 -0
  279. data/vendor/Eigen/src/SparseCore/MappedSparseMatrix.h +67 -0
  280. data/vendor/Eigen/src/SparseCore/SparseAssign.h +270 -0
  281. data/vendor/Eigen/src/SparseCore/SparseBlock.h +571 -0
  282. data/vendor/Eigen/src/SparseCore/SparseColEtree.h +206 -0
  283. data/vendor/Eigen/src/SparseCore/SparseCompressedBase.h +370 -0
  284. data/vendor/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +722 -0
  285. data/vendor/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +150 -0
  286. data/vendor/Eigen/src/SparseCore/SparseDenseProduct.h +342 -0
  287. data/vendor/Eigen/src/SparseCore/SparseDiagonalProduct.h +138 -0
  288. data/vendor/Eigen/src/SparseCore/SparseDot.h +98 -0
  289. data/vendor/Eigen/src/SparseCore/SparseFuzzy.h +29 -0
  290. data/vendor/Eigen/src/SparseCore/SparseMap.h +305 -0
  291. data/vendor/Eigen/src/SparseCore/SparseMatrix.h +1518 -0
  292. data/vendor/Eigen/src/SparseCore/SparseMatrixBase.h +398 -0
  293. data/vendor/Eigen/src/SparseCore/SparsePermutation.h +178 -0
  294. data/vendor/Eigen/src/SparseCore/SparseProduct.h +181 -0
  295. data/vendor/Eigen/src/SparseCore/SparseRedux.h +49 -0
  296. data/vendor/Eigen/src/SparseCore/SparseRef.h +397 -0
  297. data/vendor/Eigen/src/SparseCore/SparseSelfAdjointView.h +659 -0
  298. data/vendor/Eigen/src/SparseCore/SparseSolverBase.h +124 -0
  299. data/vendor/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +198 -0
  300. data/vendor/Eigen/src/SparseCore/SparseTranspose.h +92 -0
  301. data/vendor/Eigen/src/SparseCore/SparseTriangularView.h +189 -0
  302. data/vendor/Eigen/src/SparseCore/SparseUtil.h +186 -0
  303. data/vendor/Eigen/src/SparseCore/SparseVector.h +478 -0
  304. data/vendor/Eigen/src/SparseCore/SparseView.h +254 -0
  305. data/vendor/Eigen/src/SparseCore/TriangularSolver.h +315 -0
  306. data/vendor/Eigen/src/SparseLU/SparseLU.h +923 -0
  307. data/vendor/Eigen/src/SparseLU/SparseLUImpl.h +66 -0
  308. data/vendor/Eigen/src/SparseLU/SparseLU_Memory.h +226 -0
  309. data/vendor/Eigen/src/SparseLU/SparseLU_Structs.h +110 -0
  310. data/vendor/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +375 -0
  311. data/vendor/Eigen/src/SparseLU/SparseLU_Utils.h +80 -0
  312. data/vendor/Eigen/src/SparseLU/SparseLU_column_bmod.h +181 -0
  313. data/vendor/Eigen/src/SparseLU/SparseLU_column_dfs.h +179 -0
  314. data/vendor/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +107 -0
  315. data/vendor/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +280 -0
  316. data/vendor/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +126 -0
  317. data/vendor/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +130 -0
  318. data/vendor/Eigen/src/SparseLU/SparseLU_panel_bmod.h +223 -0
  319. data/vendor/Eigen/src/SparseLU/SparseLU_panel_dfs.h +258 -0
  320. data/vendor/Eigen/src/SparseLU/SparseLU_pivotL.h +137 -0
  321. data/vendor/Eigen/src/SparseLU/SparseLU_pruneL.h +136 -0
  322. data/vendor/Eigen/src/SparseLU/SparseLU_relax_snode.h +83 -0
  323. data/vendor/Eigen/src/SparseQR/SparseQR.h +758 -0
  324. data/vendor/Eigen/src/StlSupport/StdDeque.h +116 -0
  325. data/vendor/Eigen/src/StlSupport/StdList.h +106 -0
  326. data/vendor/Eigen/src/StlSupport/StdVector.h +131 -0
  327. data/vendor/Eigen/src/StlSupport/details.h +84 -0
  328. data/vendor/Eigen/src/SuperLUSupport/SuperLUSupport.h +1025 -0
  329. data/vendor/Eigen/src/UmfPackSupport/UmfPackSupport.h +642 -0
  330. data/vendor/Eigen/src/misc/Image.h +82 -0
  331. data/vendor/Eigen/src/misc/Kernel.h +79 -0
  332. data/vendor/Eigen/src/misc/RealSvd2x2.h +55 -0
  333. data/vendor/Eigen/src/misc/blas.h +440 -0
  334. data/vendor/Eigen/src/misc/lapack.h +152 -0
  335. data/vendor/Eigen/src/misc/lapacke.h +16292 -0
  336. data/vendor/Eigen/src/misc/lapacke_mangling.h +17 -0
  337. data/vendor/Eigen/src/plugins/ArrayCwiseBinaryOps.h +358 -0
  338. data/vendor/Eigen/src/plugins/ArrayCwiseUnaryOps.h +696 -0
  339. data/vendor/Eigen/src/plugins/BlockMethods.h +1442 -0
  340. data/vendor/Eigen/src/plugins/CommonCwiseBinaryOps.h +115 -0
  341. data/vendor/Eigen/src/plugins/CommonCwiseUnaryOps.h +177 -0
  342. data/vendor/Eigen/src/plugins/IndexedViewMethods.h +262 -0
  343. data/vendor/Eigen/src/plugins/MatrixCwiseBinaryOps.h +152 -0
  344. data/vendor/Eigen/src/plugins/MatrixCwiseUnaryOps.h +95 -0
  345. data/vendor/Eigen/src/plugins/ReshapedMethods.h +149 -0
  346. data/vendor/aarand/aarand.hpp +114 -0
  347. data/vendor/annoy/annoylib.h +1495 -0
  348. data/vendor/annoy/kissrandom.h +120 -0
  349. data/vendor/annoy/mman.h +242 -0
  350. data/vendor/hnswlib/bruteforce.h +152 -0
  351. data/vendor/hnswlib/hnswalg.h +1192 -0
  352. data/vendor/hnswlib/hnswlib.h +108 -0
  353. data/vendor/hnswlib/space_ip.h +282 -0
  354. data/vendor/hnswlib/space_l2.h +281 -0
  355. data/vendor/hnswlib/visited_list_pool.h +79 -0
  356. data/vendor/irlba/irlba.hpp +575 -0
  357. data/vendor/irlba/lanczos.hpp +212 -0
  358. data/vendor/irlba/parallel.hpp +474 -0
  359. data/vendor/irlba/utils.hpp +224 -0
  360. data/vendor/irlba/wrappers.hpp +228 -0
  361. data/vendor/kmeans/Base.hpp +75 -0
  362. data/vendor/kmeans/Details.hpp +79 -0
  363. data/vendor/kmeans/HartiganWong.hpp +492 -0
  364. data/vendor/kmeans/InitializeKmeansPP.hpp +144 -0
  365. data/vendor/kmeans/InitializeNone.hpp +44 -0
  366. data/vendor/kmeans/InitializePCAPartition.hpp +309 -0
  367. data/vendor/kmeans/InitializeRandom.hpp +91 -0
  368. data/vendor/kmeans/Kmeans.hpp +161 -0
  369. data/vendor/kmeans/Lloyd.hpp +134 -0
  370. data/vendor/kmeans/MiniBatch.hpp +269 -0
  371. data/vendor/kmeans/QuickSearch.hpp +179 -0
  372. data/vendor/kmeans/compute_centroids.hpp +32 -0
  373. data/vendor/kmeans/compute_wcss.hpp +27 -0
  374. data/vendor/kmeans/is_edge_case.hpp +42 -0
  375. data/vendor/kmeans/random.hpp +55 -0
  376. data/vendor/knncolle/Annoy/Annoy.hpp +193 -0
  377. data/vendor/knncolle/BruteForce/BruteForce.hpp +120 -0
  378. data/vendor/knncolle/Hnsw/Hnsw.hpp +225 -0
  379. data/vendor/knncolle/Kmknn/Kmknn.hpp +286 -0
  380. data/vendor/knncolle/VpTree/VpTree.hpp +256 -0
  381. data/vendor/knncolle/knncolle.hpp +34 -0
  382. data/vendor/knncolle/utils/Base.hpp +100 -0
  383. data/vendor/knncolle/utils/NeighborQueue.hpp +94 -0
  384. data/vendor/knncolle/utils/distances.hpp +98 -0
  385. data/vendor/knncolle/utils/find_nearest_neighbors.hpp +112 -0
  386. data/vendor/powerit/PowerIterations.hpp +157 -0
  387. data/vendor/umappp/NeighborList.hpp +37 -0
  388. data/vendor/umappp/Umap.hpp +662 -0
  389. data/vendor/umappp/combine_neighbor_sets.hpp +95 -0
  390. data/vendor/umappp/find_ab.hpp +157 -0
  391. data/vendor/umappp/neighbor_similarities.hpp +136 -0
  392. data/vendor/umappp/optimize_layout.hpp +285 -0
  393. data/vendor/umappp/spectral_init.hpp +181 -0
  394. data/vendor/umappp/umappp.hpp +13 -0
  395. metadata +465 -0
@@ -0,0 +1,375 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 2012 Désiré Nuentsa-Wakam <desire.nuentsa_wakam@inria.fr>
5
+ // Copyright (C) 2012 Gael Guennebaud <gael.guennebaud@inria.fr>
6
+ //
7
+ // This Source Code Form is subject to the terms of the Mozilla
8
+ // Public License v. 2.0. If a copy of the MPL was not distributed
9
+ // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
10
+
11
+ #ifndef EIGEN_SPARSELU_SUPERNODAL_MATRIX_H
12
+ #define EIGEN_SPARSELU_SUPERNODAL_MATRIX_H
13
+
14
+ namespace Eigen {
15
+ namespace internal {
16
+
17
+ /** \ingroup SparseLU_Module
18
+ * \brief a class to manipulate the L supernodal factor from the SparseLU factorization
19
+ *
20
+ * This class contain the data to easily store
21
+ * and manipulate the supernodes during the factorization and solution phase of Sparse LU.
22
+ * Only the lower triangular matrix has supernodes.
23
+ *
24
+ * NOTE : This class corresponds to the SCformat structure in SuperLU
25
+ *
26
+ */
27
+ /* TODO
28
+ * InnerIterator as for sparsematrix
29
+ * SuperInnerIterator to iterate through all supernodes
30
+ * Function for triangular solve
31
+ */
32
+ template <typename _Scalar, typename _StorageIndex>
33
+ class MappedSuperNodalMatrix
34
+ {
35
+ public:
36
+ typedef _Scalar Scalar;
37
+ typedef _StorageIndex StorageIndex;
38
+ typedef Matrix<StorageIndex,Dynamic,1> IndexVector;
39
+ typedef Matrix<Scalar,Dynamic,1> ScalarVector;
40
+ public:
41
+ MappedSuperNodalMatrix()
42
+ {
43
+
44
+ }
45
+ MappedSuperNodalMatrix(Index m, Index n, ScalarVector& nzval, IndexVector& nzval_colptr, IndexVector& rowind,
46
+ IndexVector& rowind_colptr, IndexVector& col_to_sup, IndexVector& sup_to_col )
47
+ {
48
+ setInfos(m, n, nzval, nzval_colptr, rowind, rowind_colptr, col_to_sup, sup_to_col);
49
+ }
50
+
51
+ ~MappedSuperNodalMatrix()
52
+ {
53
+
54
+ }
55
+ /**
56
+ * Set appropriate pointers for the lower triangular supernodal matrix
57
+ * These infos are available at the end of the numerical factorization
58
+ * FIXME This class will be modified such that it can be use in the course
59
+ * of the factorization.
60
+ */
61
+ void setInfos(Index m, Index n, ScalarVector& nzval, IndexVector& nzval_colptr, IndexVector& rowind,
62
+ IndexVector& rowind_colptr, IndexVector& col_to_sup, IndexVector& sup_to_col )
63
+ {
64
+ m_row = m;
65
+ m_col = n;
66
+ m_nzval = nzval.data();
67
+ m_nzval_colptr = nzval_colptr.data();
68
+ m_rowind = rowind.data();
69
+ m_rowind_colptr = rowind_colptr.data();
70
+ m_nsuper = col_to_sup(n);
71
+ m_col_to_sup = col_to_sup.data();
72
+ m_sup_to_col = sup_to_col.data();
73
+ }
74
+
75
+ /**
76
+ * Number of rows
77
+ */
78
+ Index rows() const { return m_row; }
79
+
80
+ /**
81
+ * Number of columns
82
+ */
83
+ Index cols() const { return m_col; }
84
+
85
+ /**
86
+ * Return the array of nonzero values packed by column
87
+ *
88
+ * The size is nnz
89
+ */
90
+ Scalar* valuePtr() { return m_nzval; }
91
+
92
+ const Scalar* valuePtr() const
93
+ {
94
+ return m_nzval;
95
+ }
96
+ /**
97
+ * Return the pointers to the beginning of each column in \ref valuePtr()
98
+ */
99
+ StorageIndex* colIndexPtr()
100
+ {
101
+ return m_nzval_colptr;
102
+ }
103
+
104
+ const StorageIndex* colIndexPtr() const
105
+ {
106
+ return m_nzval_colptr;
107
+ }
108
+
109
+ /**
110
+ * Return the array of compressed row indices of all supernodes
111
+ */
112
+ StorageIndex* rowIndex() { return m_rowind; }
113
+
114
+ const StorageIndex* rowIndex() const
115
+ {
116
+ return m_rowind;
117
+ }
118
+
119
+ /**
120
+ * Return the location in \em rowvaluePtr() which starts each column
121
+ */
122
+ StorageIndex* rowIndexPtr() { return m_rowind_colptr; }
123
+
124
+ const StorageIndex* rowIndexPtr() const
125
+ {
126
+ return m_rowind_colptr;
127
+ }
128
+
129
+ /**
130
+ * Return the array of column-to-supernode mapping
131
+ */
132
+ StorageIndex* colToSup() { return m_col_to_sup; }
133
+
134
+ const StorageIndex* colToSup() const
135
+ {
136
+ return m_col_to_sup;
137
+ }
138
+ /**
139
+ * Return the array of supernode-to-column mapping
140
+ */
141
+ StorageIndex* supToCol() { return m_sup_to_col; }
142
+
143
+ const StorageIndex* supToCol() const
144
+ {
145
+ return m_sup_to_col;
146
+ }
147
+
148
+ /**
149
+ * Return the number of supernodes
150
+ */
151
+ Index nsuper() const
152
+ {
153
+ return m_nsuper;
154
+ }
155
+
156
+ class InnerIterator;
157
+ template<typename Dest>
158
+ void solveInPlace( MatrixBase<Dest>&X) const;
159
+ template<bool Conjugate, typename Dest>
160
+ void solveTransposedInPlace( MatrixBase<Dest>&X) const;
161
+
162
+
163
+
164
+
165
+
166
+ protected:
167
+ Index m_row; // Number of rows
168
+ Index m_col; // Number of columns
169
+ Index m_nsuper; // Number of supernodes
170
+ Scalar* m_nzval; //array of nonzero values packed by column
171
+ StorageIndex* m_nzval_colptr; //nzval_colptr[j] Stores the location in nzval[] which starts column j
172
+ StorageIndex* m_rowind; // Array of compressed row indices of rectangular supernodes
173
+ StorageIndex* m_rowind_colptr; //rowind_colptr[j] stores the location in rowind[] which starts column j
174
+ StorageIndex* m_col_to_sup; // col_to_sup[j] is the supernode number to which column j belongs
175
+ StorageIndex* m_sup_to_col; //sup_to_col[s] points to the starting column of the s-th supernode
176
+
177
+ private :
178
+ };
179
+
180
+ /**
181
+ * \brief InnerIterator class to iterate over nonzero values of the current column in the supernodal matrix L
182
+ *
183
+ */
184
+ template<typename Scalar, typename StorageIndex>
185
+ class MappedSuperNodalMatrix<Scalar,StorageIndex>::InnerIterator
186
+ {
187
+ public:
188
+ InnerIterator(const MappedSuperNodalMatrix& mat, Index outer)
189
+ : m_matrix(mat),
190
+ m_outer(outer),
191
+ m_supno(mat.colToSup()[outer]),
192
+ m_idval(mat.colIndexPtr()[outer]),
193
+ m_startidval(m_idval),
194
+ m_endidval(mat.colIndexPtr()[outer+1]),
195
+ m_idrow(mat.rowIndexPtr()[mat.supToCol()[mat.colToSup()[outer]]]),
196
+ m_endidrow(mat.rowIndexPtr()[mat.supToCol()[mat.colToSup()[outer]]+1])
197
+ {}
198
+ inline InnerIterator& operator++()
199
+ {
200
+ m_idval++;
201
+ m_idrow++;
202
+ return *this;
203
+ }
204
+ inline Scalar value() const { return m_matrix.valuePtr()[m_idval]; }
205
+
206
+ inline Scalar& valueRef() { return const_cast<Scalar&>(m_matrix.valuePtr()[m_idval]); }
207
+
208
+ inline Index index() const { return m_matrix.rowIndex()[m_idrow]; }
209
+ inline Index row() const { return index(); }
210
+ inline Index col() const { return m_outer; }
211
+
212
+ inline Index supIndex() const { return m_supno; }
213
+
214
+ inline operator bool() const
215
+ {
216
+ return ( (m_idval < m_endidval) && (m_idval >= m_startidval)
217
+ && (m_idrow < m_endidrow) );
218
+ }
219
+
220
+ protected:
221
+ const MappedSuperNodalMatrix& m_matrix; // Supernodal lower triangular matrix
222
+ const Index m_outer; // Current column
223
+ const Index m_supno; // Current SuperNode number
224
+ Index m_idval; // Index to browse the values in the current column
225
+ const Index m_startidval; // Start of the column value
226
+ const Index m_endidval; // End of the column value
227
+ Index m_idrow; // Index to browse the row indices
228
+ Index m_endidrow; // End index of row indices of the current column
229
+ };
230
+
231
+ /**
232
+ * \brief Solve with the supernode triangular matrix
233
+ *
234
+ */
235
+ template<typename Scalar, typename Index_>
236
+ template<typename Dest>
237
+ void MappedSuperNodalMatrix<Scalar,Index_>::solveInPlace( MatrixBase<Dest>&X) const
238
+ {
239
+ /* Explicit type conversion as the Index type of MatrixBase<Dest> may be wider than Index */
240
+ // eigen_assert(X.rows() <= NumTraits<Index>::highest());
241
+ // eigen_assert(X.cols() <= NumTraits<Index>::highest());
242
+ Index n = int(X.rows());
243
+ Index nrhs = Index(X.cols());
244
+ const Scalar * Lval = valuePtr(); // Nonzero values
245
+ Matrix<Scalar,Dynamic,Dest::ColsAtCompileTime, ColMajor> work(n, nrhs); // working vector
246
+ work.setZero();
247
+ for (Index k = 0; k <= nsuper(); k ++)
248
+ {
249
+ Index fsupc = supToCol()[k]; // First column of the current supernode
250
+ Index istart = rowIndexPtr()[fsupc]; // Pointer index to the subscript of the current column
251
+ Index nsupr = rowIndexPtr()[fsupc+1] - istart; // Number of rows in the current supernode
252
+ Index nsupc = supToCol()[k+1] - fsupc; // Number of columns in the current supernode
253
+ Index nrow = nsupr - nsupc; // Number of rows in the non-diagonal part of the supernode
254
+ Index irow; //Current index row
255
+
256
+ if (nsupc == 1 )
257
+ {
258
+ for (Index j = 0; j < nrhs; j++)
259
+ {
260
+ InnerIterator it(*this, fsupc);
261
+ ++it; // Skip the diagonal element
262
+ for (; it; ++it)
263
+ {
264
+ irow = it.row();
265
+ X(irow, j) -= X(fsupc, j) * it.value();
266
+ }
267
+ }
268
+ }
269
+ else
270
+ {
271
+ // The supernode has more than one column
272
+ Index luptr = colIndexPtr()[fsupc];
273
+ Index lda = colIndexPtr()[fsupc+1] - luptr;
274
+
275
+ // Triangular solve
276
+ Map<const Matrix<Scalar,Dynamic,Dynamic, ColMajor>, 0, OuterStride<> > A( &(Lval[luptr]), nsupc, nsupc, OuterStride<>(lda) );
277
+ Map< Matrix<Scalar,Dynamic,Dest::ColsAtCompileTime, ColMajor>, 0, OuterStride<> > U (&(X(fsupc,0)), nsupc, nrhs, OuterStride<>(n) );
278
+ U = A.template triangularView<UnitLower>().solve(U);
279
+
280
+ // Matrix-vector product
281
+ new (&A) Map<const Matrix<Scalar,Dynamic,Dynamic, ColMajor>, 0, OuterStride<> > ( &(Lval[luptr+nsupc]), nrow, nsupc, OuterStride<>(lda) );
282
+ work.topRows(nrow).noalias() = A * U;
283
+
284
+ //Begin Scatter
285
+ for (Index j = 0; j < nrhs; j++)
286
+ {
287
+ Index iptr = istart + nsupc;
288
+ for (Index i = 0; i < nrow; i++)
289
+ {
290
+ irow = rowIndex()[iptr];
291
+ X(irow, j) -= work(i, j); // Scatter operation
292
+ work(i, j) = Scalar(0);
293
+ iptr++;
294
+ }
295
+ }
296
+ }
297
+ }
298
+ }
299
+
300
+ template<typename Scalar, typename Index_>
301
+ template<bool Conjugate, typename Dest>
302
+ void MappedSuperNodalMatrix<Scalar,Index_>::solveTransposedInPlace( MatrixBase<Dest>&X) const
303
+ {
304
+ using numext::conj;
305
+ Index n = int(X.rows());
306
+ Index nrhs = Index(X.cols());
307
+ const Scalar * Lval = valuePtr(); // Nonzero values
308
+ Matrix<Scalar,Dynamic,Dest::ColsAtCompileTime, ColMajor> work(n, nrhs); // working vector
309
+ work.setZero();
310
+ for (Index k = nsuper(); k >= 0; k--)
311
+ {
312
+ Index fsupc = supToCol()[k]; // First column of the current supernode
313
+ Index istart = rowIndexPtr()[fsupc]; // Pointer index to the subscript of the current column
314
+ Index nsupr = rowIndexPtr()[fsupc+1] - istart; // Number of rows in the current supernode
315
+ Index nsupc = supToCol()[k+1] - fsupc; // Number of columns in the current supernode
316
+ Index nrow = nsupr - nsupc; // Number of rows in the non-diagonal part of the supernode
317
+ Index irow; //Current index row
318
+
319
+ if (nsupc == 1 )
320
+ {
321
+ for (Index j = 0; j < nrhs; j++)
322
+ {
323
+ InnerIterator it(*this, fsupc);
324
+ ++it; // Skip the diagonal element
325
+ for (; it; ++it)
326
+ {
327
+ irow = it.row();
328
+ X(fsupc,j) -= X(irow, j) * (Conjugate?conj(it.value()):it.value());
329
+ }
330
+ }
331
+ }
332
+ else
333
+ {
334
+ // The supernode has more than one column
335
+ Index luptr = colIndexPtr()[fsupc];
336
+ Index lda = colIndexPtr()[fsupc+1] - luptr;
337
+
338
+ //Begin Gather
339
+ for (Index j = 0; j < nrhs; j++)
340
+ {
341
+ Index iptr = istart + nsupc;
342
+ for (Index i = 0; i < nrow; i++)
343
+ {
344
+ irow = rowIndex()[iptr];
345
+ work.topRows(nrow)(i,j)= X(irow,j); // Gather operation
346
+ iptr++;
347
+ }
348
+ }
349
+
350
+ // Matrix-vector product with transposed submatrix
351
+ Map<const Matrix<Scalar,Dynamic,Dynamic, ColMajor>, 0, OuterStride<> > A( &(Lval[luptr+nsupc]), nrow, nsupc, OuterStride<>(lda) );
352
+ Map< Matrix<Scalar,Dynamic,Dest::ColsAtCompileTime, ColMajor>, 0, OuterStride<> > U (&(X(fsupc,0)), nsupc, nrhs, OuterStride<>(n) );
353
+ if(Conjugate)
354
+ U = U - A.adjoint() * work.topRows(nrow);
355
+ else
356
+ U = U - A.transpose() * work.topRows(nrow);
357
+
358
+ // Triangular solve (of transposed diagonal block)
359
+ new (&A) Map<const Matrix<Scalar,Dynamic,Dynamic, ColMajor>, 0, OuterStride<> > ( &(Lval[luptr]), nsupc, nsupc, OuterStride<>(lda) );
360
+ if(Conjugate)
361
+ U = A.adjoint().template triangularView<UnitUpper>().solve(U);
362
+ else
363
+ U = A.transpose().template triangularView<UnitUpper>().solve(U);
364
+
365
+ }
366
+
367
+ }
368
+ }
369
+
370
+
371
+ } // end namespace internal
372
+
373
+ } // end namespace Eigen
374
+
375
+ #endif // EIGEN_SPARSELU_MATRIX_H
@@ -0,0 +1,80 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 2012 Désiré Nuentsa-Wakam <desire.nuentsa_wakam@inria.fr>
5
+ //
6
+ // This Source Code Form is subject to the terms of the Mozilla
7
+ // Public License v. 2.0. If a copy of the MPL was not distributed
8
+ // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
9
+
10
+
11
+ #ifndef EIGEN_SPARSELU_UTILS_H
12
+ #define EIGEN_SPARSELU_UTILS_H
13
+
14
+ namespace Eigen {
15
+ namespace internal {
16
+
17
+ /**
18
+ * \brief Count Nonzero elements in the factors
19
+ */
20
+ template <typename Scalar, typename StorageIndex>
21
+ void SparseLUImpl<Scalar,StorageIndex>::countnz(const Index n, Index& nnzL, Index& nnzU, GlobalLU_t& glu)
22
+ {
23
+ nnzL = 0;
24
+ nnzU = (glu.xusub)(n);
25
+ Index nsuper = (glu.supno)(n);
26
+ Index jlen;
27
+ Index i, j, fsupc;
28
+ if (n <= 0 ) return;
29
+ // For each supernode
30
+ for (i = 0; i <= nsuper; i++)
31
+ {
32
+ fsupc = glu.xsup(i);
33
+ jlen = glu.xlsub(fsupc+1) - glu.xlsub(fsupc);
34
+
35
+ for (j = fsupc; j < glu.xsup(i+1); j++)
36
+ {
37
+ nnzL += jlen;
38
+ nnzU += j - fsupc + 1;
39
+ jlen--;
40
+ }
41
+ }
42
+ }
43
+
44
+ /**
45
+ * \brief Fix up the data storage lsub for L-subscripts.
46
+ *
47
+ * It removes the subscripts sets for structural pruning,
48
+ * and applies permutation to the remaining subscripts
49
+ *
50
+ */
51
+ template <typename Scalar, typename StorageIndex>
52
+ void SparseLUImpl<Scalar,StorageIndex>::fixupL(const Index n, const IndexVector& perm_r, GlobalLU_t& glu)
53
+ {
54
+ Index fsupc, i, j, k, jstart;
55
+
56
+ StorageIndex nextl = 0;
57
+ Index nsuper = (glu.supno)(n);
58
+
59
+ // For each supernode
60
+ for (i = 0; i <= nsuper; i++)
61
+ {
62
+ fsupc = glu.xsup(i);
63
+ jstart = glu.xlsub(fsupc);
64
+ glu.xlsub(fsupc) = nextl;
65
+ for (j = jstart; j < glu.xlsub(fsupc + 1); j++)
66
+ {
67
+ glu.lsub(nextl) = perm_r(glu.lsub(j)); // Now indexed into P*A
68
+ nextl++;
69
+ }
70
+ for (k = fsupc+1; k < glu.xsup(i+1); k++)
71
+ glu.xlsub(k) = nextl; // other columns in supernode i
72
+ }
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+
74
+ glu.xlsub(n) = nextl;
75
+ }
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+
77
+ } // end namespace internal
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+
79
+ } // end namespace Eigen
80
+ #endif // EIGEN_SPARSELU_UTILS_H
@@ -0,0 +1,181 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
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+ //
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+ // Copyright (C) 2012 Désiré Nuentsa-Wakam <desire.nuentsa_wakam@inria.fr>
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+ // Copyright (C) 2012 Gael Guennebaud <gael.guennebaud@inria.fr>
6
+ //
7
+ // This Source Code Form is subject to the terms of the Mozilla
8
+ // Public License v. 2.0. If a copy of the MPL was not distributed
9
+ // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
10
+
11
+ /*
12
+
13
+ * NOTE: This file is the modified version of xcolumn_bmod.c file in SuperLU
14
+
15
+ * -- SuperLU routine (version 3.0) --
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+ * Univ. of California Berkeley, Xerox Palo Alto Research Center,
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+ * and Lawrence Berkeley National Lab.
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+ * October 15, 2003
19
+ *
20
+ * Copyright (c) 1994 by Xerox Corporation. All rights reserved.
21
+ *
22
+ * THIS MATERIAL IS PROVIDED AS IS, WITH ABSOLUTELY NO WARRANTY
23
+ * EXPRESSED OR IMPLIED. ANY USE IS AT YOUR OWN RISK.
24
+ *
25
+ * Permission is hereby granted to use or copy this program for any
26
+ * purpose, provided the above notices are retained on all copies.
27
+ * Permission to modify the code and to distribute modified code is
28
+ * granted, provided the above notices are retained, and a notice that
29
+ * the code was modified is included with the above copyright notice.
30
+ */
31
+ #ifndef SPARSELU_COLUMN_BMOD_H
32
+ #define SPARSELU_COLUMN_BMOD_H
33
+
34
+ namespace Eigen {
35
+
36
+ namespace internal {
37
+ /**
38
+ * \brief Performs numeric block updates (sup-col) in topological order
39
+ *
40
+ * \param jcol current column to update
41
+ * \param nseg Number of segments in the U part
42
+ * \param dense Store the full representation of the column
43
+ * \param tempv working array
44
+ * \param segrep segment representative ...
45
+ * \param repfnz ??? First nonzero column in each row ??? ...
46
+ * \param fpanelc First column in the current panel
47
+ * \param glu Global LU data.
48
+ * \return 0 - successful return
49
+ * > 0 - number of bytes allocated when run out of space
50
+ *
51
+ */
52
+ template <typename Scalar, typename StorageIndex>
53
+ Index SparseLUImpl<Scalar,StorageIndex>::column_bmod(const Index jcol, const Index nseg, BlockScalarVector dense, ScalarVector& tempv,
54
+ BlockIndexVector segrep, BlockIndexVector repfnz, Index fpanelc, GlobalLU_t& glu)
55
+ {
56
+ Index jsupno, k, ksub, krep, ksupno;
57
+ Index lptr, nrow, isub, irow, nextlu, new_next, ufirst;
58
+ Index fsupc, nsupc, nsupr, luptr, kfnz, no_zeros;
59
+ /* krep = representative of current k-th supernode
60
+ * fsupc = first supernodal column
61
+ * nsupc = number of columns in a supernode
62
+ * nsupr = number of rows in a supernode
63
+ * luptr = location of supernodal LU-block in storage
64
+ * kfnz = first nonz in the k-th supernodal segment
65
+ * no_zeros = no lf leading zeros in a supernodal U-segment
66
+ */
67
+
68
+ jsupno = glu.supno(jcol);
69
+ // For each nonzero supernode segment of U[*,j] in topological order
70
+ k = nseg - 1;
71
+ Index d_fsupc; // distance between the first column of the current panel and the
72
+ // first column of the current snode
73
+ Index fst_col; // First column within small LU update
74
+ Index segsize;
75
+ for (ksub = 0; ksub < nseg; ksub++)
76
+ {
77
+ krep = segrep(k); k--;
78
+ ksupno = glu.supno(krep);
79
+ if (jsupno != ksupno )
80
+ {
81
+ // outside the rectangular supernode
82
+ fsupc = glu.xsup(ksupno);
83
+ fst_col = (std::max)(fsupc, fpanelc);
84
+
85
+ // Distance from the current supernode to the current panel;
86
+ // d_fsupc = 0 if fsupc > fpanelc
87
+ d_fsupc = fst_col - fsupc;
88
+
89
+ luptr = glu.xlusup(fst_col) + d_fsupc;
90
+ lptr = glu.xlsub(fsupc) + d_fsupc;
91
+
92
+ kfnz = repfnz(krep);
93
+ kfnz = (std::max)(kfnz, fpanelc);
94
+
95
+ segsize = krep - kfnz + 1;
96
+ nsupc = krep - fst_col + 1;
97
+ nsupr = glu.xlsub(fsupc+1) - glu.xlsub(fsupc);
98
+ nrow = nsupr - d_fsupc - nsupc;
99
+ Index lda = glu.xlusup(fst_col+1) - glu.xlusup(fst_col);
100
+
101
+
102
+ // Perform a triangular solver and block update,
103
+ // then scatter the result of sup-col update to dense
104
+ no_zeros = kfnz - fst_col;
105
+ if(segsize==1)
106
+ LU_kernel_bmod<1>::run(segsize, dense, tempv, glu.lusup, luptr, lda, nrow, glu.lsub, lptr, no_zeros);
107
+ else
108
+ LU_kernel_bmod<Dynamic>::run(segsize, dense, tempv, glu.lusup, luptr, lda, nrow, glu.lsub, lptr, no_zeros);
109
+ } // end if jsupno
110
+ } // end for each segment
111
+
112
+ // Process the supernodal portion of L\U[*,j]
113
+ nextlu = glu.xlusup(jcol);
114
+ fsupc = glu.xsup(jsupno);
115
+
116
+ // copy the SPA dense into L\U[*,j]
117
+ Index mem;
118
+ new_next = nextlu + glu.xlsub(fsupc + 1) - glu.xlsub(fsupc);
119
+ Index offset = internal::first_multiple<Index>(new_next, internal::packet_traits<Scalar>::size) - new_next;
120
+ if(offset)
121
+ new_next += offset;
122
+ while (new_next > glu.nzlumax )
123
+ {
124
+ mem = memXpand<ScalarVector>(glu.lusup, glu.nzlumax, nextlu, LUSUP, glu.num_expansions);
125
+ if (mem) return mem;
126
+ }
127
+
128
+ for (isub = glu.xlsub(fsupc); isub < glu.xlsub(fsupc+1); isub++)
129
+ {
130
+ irow = glu.lsub(isub);
131
+ glu.lusup(nextlu) = dense(irow);
132
+ dense(irow) = Scalar(0.0);
133
+ ++nextlu;
134
+ }
135
+
136
+ if(offset)
137
+ {
138
+ glu.lusup.segment(nextlu,offset).setZero();
139
+ nextlu += offset;
140
+ }
141
+ glu.xlusup(jcol + 1) = StorageIndex(nextlu); // close L\U(*,jcol);
142
+
143
+ /* For more updates within the panel (also within the current supernode),
144
+ * should start from the first column of the panel, or the first column
145
+ * of the supernode, whichever is bigger. There are two cases:
146
+ * 1) fsupc < fpanelc, then fst_col <-- fpanelc
147
+ * 2) fsupc >= fpanelc, then fst_col <-- fsupc
148
+ */
149
+ fst_col = (std::max)(fsupc, fpanelc);
150
+
151
+ if (fst_col < jcol)
152
+ {
153
+ // Distance between the current supernode and the current panel
154
+ // d_fsupc = 0 if fsupc >= fpanelc
155
+ d_fsupc = fst_col - fsupc;
156
+
157
+ lptr = glu.xlsub(fsupc) + d_fsupc;
158
+ luptr = glu.xlusup(fst_col) + d_fsupc;
159
+ nsupr = glu.xlsub(fsupc+1) - glu.xlsub(fsupc); // leading dimension
160
+ nsupc = jcol - fst_col; // excluding jcol
161
+ nrow = nsupr - d_fsupc - nsupc;
162
+
163
+ // points to the beginning of jcol in snode L\U(jsupno)
164
+ ufirst = glu.xlusup(jcol) + d_fsupc;
165
+ Index lda = glu.xlusup(jcol+1) - glu.xlusup(jcol);
166
+ MappedMatrixBlock A( &(glu.lusup.data()[luptr]), nsupc, nsupc, OuterStride<>(lda) );
167
+ VectorBlock<ScalarVector> u(glu.lusup, ufirst, nsupc);
168
+ u = A.template triangularView<UnitLower>().solve(u);
169
+
170
+ new (&A) MappedMatrixBlock ( &(glu.lusup.data()[luptr+nsupc]), nrow, nsupc, OuterStride<>(lda) );
171
+ VectorBlock<ScalarVector> l(glu.lusup, ufirst+nsupc, nrow);
172
+ l.noalias() -= A * u;
173
+
174
+ } // End if fst_col
175
+ return 0;
176
+ }
177
+
178
+ } // end namespace internal
179
+ } // end namespace Eigen
180
+
181
+ #endif // SPARSELU_COLUMN_BMOD_H