tomoto 0.1.0

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Files changed (420) hide show
  1. checksums.yaml +7 -0
  2. data/CHANGELOG.md +3 -0
  3. data/LICENSE.txt +22 -0
  4. data/README.md +123 -0
  5. data/ext/tomoto/ext.cpp +245 -0
  6. data/ext/tomoto/extconf.rb +28 -0
  7. data/lib/tomoto.rb +12 -0
  8. data/lib/tomoto/ct.rb +11 -0
  9. data/lib/tomoto/hdp.rb +11 -0
  10. data/lib/tomoto/lda.rb +67 -0
  11. data/lib/tomoto/version.rb +3 -0
  12. data/vendor/EigenRand/EigenRand/Core.h +1139 -0
  13. data/vendor/EigenRand/EigenRand/Dists/Basic.h +111 -0
  14. data/vendor/EigenRand/EigenRand/Dists/Discrete.h +877 -0
  15. data/vendor/EigenRand/EigenRand/Dists/GammaPoisson.h +108 -0
  16. data/vendor/EigenRand/EigenRand/Dists/NormalExp.h +626 -0
  17. data/vendor/EigenRand/EigenRand/EigenRand +19 -0
  18. data/vendor/EigenRand/EigenRand/Macro.h +24 -0
  19. data/vendor/EigenRand/EigenRand/MorePacketMath.h +978 -0
  20. data/vendor/EigenRand/EigenRand/PacketFilter.h +286 -0
  21. data/vendor/EigenRand/EigenRand/PacketRandomEngine.h +624 -0
  22. data/vendor/EigenRand/EigenRand/RandUtils.h +413 -0
  23. data/vendor/EigenRand/EigenRand/doc.h +220 -0
  24. data/vendor/EigenRand/LICENSE +21 -0
  25. data/vendor/EigenRand/README.md +288 -0
  26. data/vendor/eigen/COPYING.BSD +26 -0
  27. data/vendor/eigen/COPYING.GPL +674 -0
  28. data/vendor/eigen/COPYING.LGPL +502 -0
  29. data/vendor/eigen/COPYING.MINPACK +52 -0
  30. data/vendor/eigen/COPYING.MPL2 +373 -0
  31. data/vendor/eigen/COPYING.README +18 -0
  32. data/vendor/eigen/Eigen/CMakeLists.txt +19 -0
  33. data/vendor/eigen/Eigen/Cholesky +46 -0
  34. data/vendor/eigen/Eigen/CholmodSupport +48 -0
  35. data/vendor/eigen/Eigen/Core +537 -0
  36. data/vendor/eigen/Eigen/Dense +7 -0
  37. data/vendor/eigen/Eigen/Eigen +2 -0
  38. data/vendor/eigen/Eigen/Eigenvalues +61 -0
  39. data/vendor/eigen/Eigen/Geometry +62 -0
  40. data/vendor/eigen/Eigen/Householder +30 -0
  41. data/vendor/eigen/Eigen/IterativeLinearSolvers +48 -0
  42. data/vendor/eigen/Eigen/Jacobi +33 -0
  43. data/vendor/eigen/Eigen/LU +50 -0
  44. data/vendor/eigen/Eigen/MetisSupport +35 -0
  45. data/vendor/eigen/Eigen/OrderingMethods +73 -0
  46. data/vendor/eigen/Eigen/PaStiXSupport +48 -0
  47. data/vendor/eigen/Eigen/PardisoSupport +35 -0
  48. data/vendor/eigen/Eigen/QR +51 -0
  49. data/vendor/eigen/Eigen/QtAlignedMalloc +40 -0
  50. data/vendor/eigen/Eigen/SPQRSupport +34 -0
  51. data/vendor/eigen/Eigen/SVD +51 -0
  52. data/vendor/eigen/Eigen/Sparse +36 -0
  53. data/vendor/eigen/Eigen/SparseCholesky +45 -0
  54. data/vendor/eigen/Eigen/SparseCore +69 -0
  55. data/vendor/eigen/Eigen/SparseLU +46 -0
  56. data/vendor/eigen/Eigen/SparseQR +37 -0
  57. data/vendor/eigen/Eigen/StdDeque +27 -0
  58. data/vendor/eigen/Eigen/StdList +26 -0
  59. data/vendor/eigen/Eigen/StdVector +27 -0
  60. data/vendor/eigen/Eigen/SuperLUSupport +64 -0
  61. data/vendor/eigen/Eigen/UmfPackSupport +40 -0
  62. data/vendor/eigen/Eigen/src/Cholesky/LDLT.h +673 -0
  63. data/vendor/eigen/Eigen/src/Cholesky/LLT.h +542 -0
  64. data/vendor/eigen/Eigen/src/Cholesky/LLT_LAPACKE.h +99 -0
  65. data/vendor/eigen/Eigen/src/CholmodSupport/CholmodSupport.h +639 -0
  66. data/vendor/eigen/Eigen/src/Core/Array.h +329 -0
  67. data/vendor/eigen/Eigen/src/Core/ArrayBase.h +226 -0
  68. data/vendor/eigen/Eigen/src/Core/ArrayWrapper.h +209 -0
  69. data/vendor/eigen/Eigen/src/Core/Assign.h +90 -0
  70. data/vendor/eigen/Eigen/src/Core/AssignEvaluator.h +935 -0
  71. data/vendor/eigen/Eigen/src/Core/Assign_MKL.h +178 -0
  72. data/vendor/eigen/Eigen/src/Core/BandMatrix.h +353 -0
  73. data/vendor/eigen/Eigen/src/Core/Block.h +452 -0
  74. data/vendor/eigen/Eigen/src/Core/BooleanRedux.h +164 -0
  75. data/vendor/eigen/Eigen/src/Core/CommaInitializer.h +160 -0
  76. data/vendor/eigen/Eigen/src/Core/ConditionEstimator.h +175 -0
  77. data/vendor/eigen/Eigen/src/Core/CoreEvaluators.h +1688 -0
  78. data/vendor/eigen/Eigen/src/Core/CoreIterators.h +127 -0
  79. data/vendor/eigen/Eigen/src/Core/CwiseBinaryOp.h +184 -0
  80. data/vendor/eigen/Eigen/src/Core/CwiseNullaryOp.h +866 -0
  81. data/vendor/eigen/Eigen/src/Core/CwiseTernaryOp.h +197 -0
  82. data/vendor/eigen/Eigen/src/Core/CwiseUnaryOp.h +103 -0
  83. data/vendor/eigen/Eigen/src/Core/CwiseUnaryView.h +128 -0
  84. data/vendor/eigen/Eigen/src/Core/DenseBase.h +611 -0
  85. data/vendor/eigen/Eigen/src/Core/DenseCoeffsBase.h +681 -0
  86. data/vendor/eigen/Eigen/src/Core/DenseStorage.h +570 -0
  87. data/vendor/eigen/Eigen/src/Core/Diagonal.h +260 -0
  88. data/vendor/eigen/Eigen/src/Core/DiagonalMatrix.h +343 -0
  89. data/vendor/eigen/Eigen/src/Core/DiagonalProduct.h +28 -0
  90. data/vendor/eigen/Eigen/src/Core/Dot.h +318 -0
  91. data/vendor/eigen/Eigen/src/Core/EigenBase.h +159 -0
  92. data/vendor/eigen/Eigen/src/Core/ForceAlignedAccess.h +146 -0
  93. data/vendor/eigen/Eigen/src/Core/Fuzzy.h +155 -0
  94. data/vendor/eigen/Eigen/src/Core/GeneralProduct.h +455 -0
  95. data/vendor/eigen/Eigen/src/Core/GenericPacketMath.h +593 -0
  96. data/vendor/eigen/Eigen/src/Core/GlobalFunctions.h +187 -0
  97. data/vendor/eigen/Eigen/src/Core/IO.h +225 -0
  98. data/vendor/eigen/Eigen/src/Core/Inverse.h +118 -0
  99. data/vendor/eigen/Eigen/src/Core/Map.h +171 -0
  100. data/vendor/eigen/Eigen/src/Core/MapBase.h +303 -0
  101. data/vendor/eigen/Eigen/src/Core/MathFunctions.h +1415 -0
  102. data/vendor/eigen/Eigen/src/Core/MathFunctionsImpl.h +101 -0
  103. data/vendor/eigen/Eigen/src/Core/Matrix.h +459 -0
  104. data/vendor/eigen/Eigen/src/Core/MatrixBase.h +529 -0
  105. data/vendor/eigen/Eigen/src/Core/NestByValue.h +110 -0
  106. data/vendor/eigen/Eigen/src/Core/NoAlias.h +108 -0
  107. data/vendor/eigen/Eigen/src/Core/NumTraits.h +248 -0
  108. data/vendor/eigen/Eigen/src/Core/PermutationMatrix.h +633 -0
  109. data/vendor/eigen/Eigen/src/Core/PlainObjectBase.h +1035 -0
  110. data/vendor/eigen/Eigen/src/Core/Product.h +186 -0
  111. data/vendor/eigen/Eigen/src/Core/ProductEvaluators.h +1112 -0
  112. data/vendor/eigen/Eigen/src/Core/Random.h +182 -0
  113. data/vendor/eigen/Eigen/src/Core/Redux.h +505 -0
  114. data/vendor/eigen/Eigen/src/Core/Ref.h +283 -0
  115. data/vendor/eigen/Eigen/src/Core/Replicate.h +142 -0
  116. data/vendor/eigen/Eigen/src/Core/ReturnByValue.h +117 -0
  117. data/vendor/eigen/Eigen/src/Core/Reverse.h +211 -0
  118. data/vendor/eigen/Eigen/src/Core/Select.h +162 -0
  119. data/vendor/eigen/Eigen/src/Core/SelfAdjointView.h +352 -0
  120. data/vendor/eigen/Eigen/src/Core/SelfCwiseBinaryOp.h +47 -0
  121. data/vendor/eigen/Eigen/src/Core/Solve.h +188 -0
  122. data/vendor/eigen/Eigen/src/Core/SolveTriangular.h +235 -0
  123. data/vendor/eigen/Eigen/src/Core/SolverBase.h +130 -0
  124. data/vendor/eigen/Eigen/src/Core/StableNorm.h +221 -0
  125. data/vendor/eigen/Eigen/src/Core/Stride.h +111 -0
  126. data/vendor/eigen/Eigen/src/Core/Swap.h +67 -0
  127. data/vendor/eigen/Eigen/src/Core/Transpose.h +403 -0
  128. data/vendor/eigen/Eigen/src/Core/Transpositions.h +407 -0
  129. data/vendor/eigen/Eigen/src/Core/TriangularMatrix.h +983 -0
  130. data/vendor/eigen/Eigen/src/Core/VectorBlock.h +96 -0
  131. data/vendor/eigen/Eigen/src/Core/VectorwiseOp.h +695 -0
  132. data/vendor/eigen/Eigen/src/Core/Visitor.h +273 -0
  133. data/vendor/eigen/Eigen/src/Core/arch/AVX/Complex.h +451 -0
  134. data/vendor/eigen/Eigen/src/Core/arch/AVX/MathFunctions.h +439 -0
  135. data/vendor/eigen/Eigen/src/Core/arch/AVX/PacketMath.h +637 -0
  136. data/vendor/eigen/Eigen/src/Core/arch/AVX/TypeCasting.h +51 -0
  137. data/vendor/eigen/Eigen/src/Core/arch/AVX512/MathFunctions.h +391 -0
  138. data/vendor/eigen/Eigen/src/Core/arch/AVX512/PacketMath.h +1316 -0
  139. data/vendor/eigen/Eigen/src/Core/arch/AltiVec/Complex.h +430 -0
  140. data/vendor/eigen/Eigen/src/Core/arch/AltiVec/MathFunctions.h +322 -0
  141. data/vendor/eigen/Eigen/src/Core/arch/AltiVec/PacketMath.h +1061 -0
  142. data/vendor/eigen/Eigen/src/Core/arch/CUDA/Complex.h +103 -0
  143. data/vendor/eigen/Eigen/src/Core/arch/CUDA/Half.h +674 -0
  144. data/vendor/eigen/Eigen/src/Core/arch/CUDA/MathFunctions.h +91 -0
  145. data/vendor/eigen/Eigen/src/Core/arch/CUDA/PacketMath.h +333 -0
  146. data/vendor/eigen/Eigen/src/Core/arch/CUDA/PacketMathHalf.h +1124 -0
  147. data/vendor/eigen/Eigen/src/Core/arch/CUDA/TypeCasting.h +212 -0
  148. data/vendor/eigen/Eigen/src/Core/arch/Default/ConjHelper.h +29 -0
  149. data/vendor/eigen/Eigen/src/Core/arch/Default/Settings.h +49 -0
  150. data/vendor/eigen/Eigen/src/Core/arch/NEON/Complex.h +490 -0
  151. data/vendor/eigen/Eigen/src/Core/arch/NEON/MathFunctions.h +91 -0
  152. data/vendor/eigen/Eigen/src/Core/arch/NEON/PacketMath.h +760 -0
  153. data/vendor/eigen/Eigen/src/Core/arch/SSE/Complex.h +471 -0
  154. data/vendor/eigen/Eigen/src/Core/arch/SSE/MathFunctions.h +562 -0
  155. data/vendor/eigen/Eigen/src/Core/arch/SSE/PacketMath.h +895 -0
  156. data/vendor/eigen/Eigen/src/Core/arch/SSE/TypeCasting.h +77 -0
  157. data/vendor/eigen/Eigen/src/Core/arch/ZVector/Complex.h +397 -0
  158. data/vendor/eigen/Eigen/src/Core/arch/ZVector/MathFunctions.h +137 -0
  159. data/vendor/eigen/Eigen/src/Core/arch/ZVector/PacketMath.h +945 -0
  160. data/vendor/eigen/Eigen/src/Core/functors/AssignmentFunctors.h +168 -0
  161. data/vendor/eigen/Eigen/src/Core/functors/BinaryFunctors.h +475 -0
  162. data/vendor/eigen/Eigen/src/Core/functors/NullaryFunctors.h +188 -0
  163. data/vendor/eigen/Eigen/src/Core/functors/StlFunctors.h +136 -0
  164. data/vendor/eigen/Eigen/src/Core/functors/TernaryFunctors.h +25 -0
  165. data/vendor/eigen/Eigen/src/Core/functors/UnaryFunctors.h +792 -0
  166. data/vendor/eigen/Eigen/src/Core/products/GeneralBlockPanelKernel.h +2156 -0
  167. data/vendor/eigen/Eigen/src/Core/products/GeneralMatrixMatrix.h +492 -0
  168. data/vendor/eigen/Eigen/src/Core/products/GeneralMatrixMatrixTriangular.h +311 -0
  169. data/vendor/eigen/Eigen/src/Core/products/GeneralMatrixMatrixTriangular_BLAS.h +145 -0
  170. data/vendor/eigen/Eigen/src/Core/products/GeneralMatrixMatrix_BLAS.h +122 -0
  171. data/vendor/eigen/Eigen/src/Core/products/GeneralMatrixVector.h +619 -0
  172. data/vendor/eigen/Eigen/src/Core/products/GeneralMatrixVector_BLAS.h +136 -0
  173. data/vendor/eigen/Eigen/src/Core/products/Parallelizer.h +163 -0
  174. data/vendor/eigen/Eigen/src/Core/products/SelfadjointMatrixMatrix.h +521 -0
  175. data/vendor/eigen/Eigen/src/Core/products/SelfadjointMatrixMatrix_BLAS.h +287 -0
  176. data/vendor/eigen/Eigen/src/Core/products/SelfadjointMatrixVector.h +260 -0
  177. data/vendor/eigen/Eigen/src/Core/products/SelfadjointMatrixVector_BLAS.h +118 -0
  178. data/vendor/eigen/Eigen/src/Core/products/SelfadjointProduct.h +133 -0
  179. data/vendor/eigen/Eigen/src/Core/products/SelfadjointRank2Update.h +93 -0
  180. data/vendor/eigen/Eigen/src/Core/products/TriangularMatrixMatrix.h +466 -0
  181. data/vendor/eigen/Eigen/src/Core/products/TriangularMatrixMatrix_BLAS.h +315 -0
  182. data/vendor/eigen/Eigen/src/Core/products/TriangularMatrixVector.h +350 -0
  183. data/vendor/eigen/Eigen/src/Core/products/TriangularMatrixVector_BLAS.h +255 -0
  184. data/vendor/eigen/Eigen/src/Core/products/TriangularSolverMatrix.h +335 -0
  185. data/vendor/eigen/Eigen/src/Core/products/TriangularSolverMatrix_BLAS.h +163 -0
  186. data/vendor/eigen/Eigen/src/Core/products/TriangularSolverVector.h +145 -0
  187. data/vendor/eigen/Eigen/src/Core/util/BlasUtil.h +398 -0
  188. data/vendor/eigen/Eigen/src/Core/util/Constants.h +547 -0
  189. data/vendor/eigen/Eigen/src/Core/util/DisableStupidWarnings.h +83 -0
  190. data/vendor/eigen/Eigen/src/Core/util/ForwardDeclarations.h +302 -0
  191. data/vendor/eigen/Eigen/src/Core/util/MKL_support.h +130 -0
  192. data/vendor/eigen/Eigen/src/Core/util/Macros.h +1001 -0
  193. data/vendor/eigen/Eigen/src/Core/util/Memory.h +993 -0
  194. data/vendor/eigen/Eigen/src/Core/util/Meta.h +534 -0
  195. data/vendor/eigen/Eigen/src/Core/util/NonMPL2.h +3 -0
  196. data/vendor/eigen/Eigen/src/Core/util/ReenableStupidWarnings.h +27 -0
  197. data/vendor/eigen/Eigen/src/Core/util/StaticAssert.h +218 -0
  198. data/vendor/eigen/Eigen/src/Core/util/XprHelper.h +821 -0
  199. data/vendor/eigen/Eigen/src/Eigenvalues/ComplexEigenSolver.h +346 -0
  200. data/vendor/eigen/Eigen/src/Eigenvalues/ComplexSchur.h +459 -0
  201. data/vendor/eigen/Eigen/src/Eigenvalues/ComplexSchur_LAPACKE.h +91 -0
  202. data/vendor/eigen/Eigen/src/Eigenvalues/EigenSolver.h +622 -0
  203. data/vendor/eigen/Eigen/src/Eigenvalues/GeneralizedEigenSolver.h +418 -0
  204. data/vendor/eigen/Eigen/src/Eigenvalues/GeneralizedSelfAdjointEigenSolver.h +226 -0
  205. data/vendor/eigen/Eigen/src/Eigenvalues/HessenbergDecomposition.h +374 -0
  206. data/vendor/eigen/Eigen/src/Eigenvalues/MatrixBaseEigenvalues.h +158 -0
  207. data/vendor/eigen/Eigen/src/Eigenvalues/RealQZ.h +654 -0
  208. data/vendor/eigen/Eigen/src/Eigenvalues/RealSchur.h +546 -0
  209. data/vendor/eigen/Eigen/src/Eigenvalues/RealSchur_LAPACKE.h +77 -0
  210. data/vendor/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver.h +870 -0
  211. data/vendor/eigen/Eigen/src/Eigenvalues/SelfAdjointEigenSolver_LAPACKE.h +87 -0
  212. data/vendor/eigen/Eigen/src/Eigenvalues/Tridiagonalization.h +556 -0
  213. data/vendor/eigen/Eigen/src/Geometry/AlignedBox.h +392 -0
  214. data/vendor/eigen/Eigen/src/Geometry/AngleAxis.h +247 -0
  215. data/vendor/eigen/Eigen/src/Geometry/EulerAngles.h +114 -0
  216. data/vendor/eigen/Eigen/src/Geometry/Homogeneous.h +497 -0
  217. data/vendor/eigen/Eigen/src/Geometry/Hyperplane.h +282 -0
  218. data/vendor/eigen/Eigen/src/Geometry/OrthoMethods.h +234 -0
  219. data/vendor/eigen/Eigen/src/Geometry/ParametrizedLine.h +195 -0
  220. data/vendor/eigen/Eigen/src/Geometry/Quaternion.h +814 -0
  221. data/vendor/eigen/Eigen/src/Geometry/Rotation2D.h +199 -0
  222. data/vendor/eigen/Eigen/src/Geometry/RotationBase.h +206 -0
  223. data/vendor/eigen/Eigen/src/Geometry/Scaling.h +170 -0
  224. data/vendor/eigen/Eigen/src/Geometry/Transform.h +1542 -0
  225. data/vendor/eigen/Eigen/src/Geometry/Translation.h +208 -0
  226. data/vendor/eigen/Eigen/src/Geometry/Umeyama.h +166 -0
  227. data/vendor/eigen/Eigen/src/Geometry/arch/Geometry_SSE.h +161 -0
  228. data/vendor/eigen/Eigen/src/Householder/BlockHouseholder.h +103 -0
  229. data/vendor/eigen/Eigen/src/Householder/Householder.h +172 -0
  230. data/vendor/eigen/Eigen/src/Householder/HouseholderSequence.h +470 -0
  231. data/vendor/eigen/Eigen/src/IterativeLinearSolvers/BasicPreconditioners.h +226 -0
  232. data/vendor/eigen/Eigen/src/IterativeLinearSolvers/BiCGSTAB.h +228 -0
  233. data/vendor/eigen/Eigen/src/IterativeLinearSolvers/ConjugateGradient.h +246 -0
  234. data/vendor/eigen/Eigen/src/IterativeLinearSolvers/IncompleteCholesky.h +400 -0
  235. data/vendor/eigen/Eigen/src/IterativeLinearSolvers/IncompleteLUT.h +462 -0
  236. data/vendor/eigen/Eigen/src/IterativeLinearSolvers/IterativeSolverBase.h +394 -0
  237. data/vendor/eigen/Eigen/src/IterativeLinearSolvers/LeastSquareConjugateGradient.h +216 -0
  238. data/vendor/eigen/Eigen/src/IterativeLinearSolvers/SolveWithGuess.h +115 -0
  239. data/vendor/eigen/Eigen/src/Jacobi/Jacobi.h +462 -0
  240. data/vendor/eigen/Eigen/src/LU/Determinant.h +101 -0
  241. data/vendor/eigen/Eigen/src/LU/FullPivLU.h +891 -0
  242. data/vendor/eigen/Eigen/src/LU/InverseImpl.h +415 -0
  243. data/vendor/eigen/Eigen/src/LU/PartialPivLU.h +611 -0
  244. data/vendor/eigen/Eigen/src/LU/PartialPivLU_LAPACKE.h +83 -0
  245. data/vendor/eigen/Eigen/src/LU/arch/Inverse_SSE.h +338 -0
  246. data/vendor/eigen/Eigen/src/MetisSupport/MetisSupport.h +137 -0
  247. data/vendor/eigen/Eigen/src/OrderingMethods/Amd.h +445 -0
  248. data/vendor/eigen/Eigen/src/OrderingMethods/Eigen_Colamd.h +1843 -0
  249. data/vendor/eigen/Eigen/src/OrderingMethods/Ordering.h +157 -0
  250. data/vendor/eigen/Eigen/src/PaStiXSupport/PaStiXSupport.h +678 -0
  251. data/vendor/eigen/Eigen/src/PardisoSupport/PardisoSupport.h +543 -0
  252. data/vendor/eigen/Eigen/src/QR/ColPivHouseholderQR.h +653 -0
  253. data/vendor/eigen/Eigen/src/QR/ColPivHouseholderQR_LAPACKE.h +97 -0
  254. data/vendor/eigen/Eigen/src/QR/CompleteOrthogonalDecomposition.h +562 -0
  255. data/vendor/eigen/Eigen/src/QR/FullPivHouseholderQR.h +676 -0
  256. data/vendor/eigen/Eigen/src/QR/HouseholderQR.h +409 -0
  257. data/vendor/eigen/Eigen/src/QR/HouseholderQR_LAPACKE.h +68 -0
  258. data/vendor/eigen/Eigen/src/SPQRSupport/SuiteSparseQRSupport.h +313 -0
  259. data/vendor/eigen/Eigen/src/SVD/BDCSVD.h +1246 -0
  260. data/vendor/eigen/Eigen/src/SVD/JacobiSVD.h +804 -0
  261. data/vendor/eigen/Eigen/src/SVD/JacobiSVD_LAPACKE.h +91 -0
  262. data/vendor/eigen/Eigen/src/SVD/SVDBase.h +315 -0
  263. data/vendor/eigen/Eigen/src/SVD/UpperBidiagonalization.h +414 -0
  264. data/vendor/eigen/Eigen/src/SparseCholesky/SimplicialCholesky.h +689 -0
  265. data/vendor/eigen/Eigen/src/SparseCholesky/SimplicialCholesky_impl.h +199 -0
  266. data/vendor/eigen/Eigen/src/SparseCore/AmbiVector.h +377 -0
  267. data/vendor/eigen/Eigen/src/SparseCore/CompressedStorage.h +258 -0
  268. data/vendor/eigen/Eigen/src/SparseCore/ConservativeSparseSparseProduct.h +352 -0
  269. data/vendor/eigen/Eigen/src/SparseCore/MappedSparseMatrix.h +67 -0
  270. data/vendor/eigen/Eigen/src/SparseCore/SparseAssign.h +216 -0
  271. data/vendor/eigen/Eigen/src/SparseCore/SparseBlock.h +603 -0
  272. data/vendor/eigen/Eigen/src/SparseCore/SparseColEtree.h +206 -0
  273. data/vendor/eigen/Eigen/src/SparseCore/SparseCompressedBase.h +341 -0
  274. data/vendor/eigen/Eigen/src/SparseCore/SparseCwiseBinaryOp.h +726 -0
  275. data/vendor/eigen/Eigen/src/SparseCore/SparseCwiseUnaryOp.h +148 -0
  276. data/vendor/eigen/Eigen/src/SparseCore/SparseDenseProduct.h +320 -0
  277. data/vendor/eigen/Eigen/src/SparseCore/SparseDiagonalProduct.h +138 -0
  278. data/vendor/eigen/Eigen/src/SparseCore/SparseDot.h +98 -0
  279. data/vendor/eigen/Eigen/src/SparseCore/SparseFuzzy.h +29 -0
  280. data/vendor/eigen/Eigen/src/SparseCore/SparseMap.h +305 -0
  281. data/vendor/eigen/Eigen/src/SparseCore/SparseMatrix.h +1403 -0
  282. data/vendor/eigen/Eigen/src/SparseCore/SparseMatrixBase.h +405 -0
  283. data/vendor/eigen/Eigen/src/SparseCore/SparsePermutation.h +178 -0
  284. data/vendor/eigen/Eigen/src/SparseCore/SparseProduct.h +169 -0
  285. data/vendor/eigen/Eigen/src/SparseCore/SparseRedux.h +49 -0
  286. data/vendor/eigen/Eigen/src/SparseCore/SparseRef.h +397 -0
  287. data/vendor/eigen/Eigen/src/SparseCore/SparseSelfAdjointView.h +656 -0
  288. data/vendor/eigen/Eigen/src/SparseCore/SparseSolverBase.h +124 -0
  289. data/vendor/eigen/Eigen/src/SparseCore/SparseSparseProductWithPruning.h +198 -0
  290. data/vendor/eigen/Eigen/src/SparseCore/SparseTranspose.h +92 -0
  291. data/vendor/eigen/Eigen/src/SparseCore/SparseTriangularView.h +189 -0
  292. data/vendor/eigen/Eigen/src/SparseCore/SparseUtil.h +178 -0
  293. data/vendor/eigen/Eigen/src/SparseCore/SparseVector.h +478 -0
  294. data/vendor/eigen/Eigen/src/SparseCore/SparseView.h +253 -0
  295. data/vendor/eigen/Eigen/src/SparseCore/TriangularSolver.h +315 -0
  296. data/vendor/eigen/Eigen/src/SparseLU/SparseLU.h +773 -0
  297. data/vendor/eigen/Eigen/src/SparseLU/SparseLUImpl.h +66 -0
  298. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_Memory.h +226 -0
  299. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_Structs.h +110 -0
  300. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_SupernodalMatrix.h +301 -0
  301. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_Utils.h +80 -0
  302. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_column_bmod.h +181 -0
  303. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_column_dfs.h +179 -0
  304. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_copy_to_ucol.h +107 -0
  305. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_gemm_kernel.h +280 -0
  306. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_heap_relax_snode.h +126 -0
  307. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_kernel_bmod.h +130 -0
  308. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_panel_bmod.h +223 -0
  309. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_panel_dfs.h +258 -0
  310. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_pivotL.h +137 -0
  311. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_pruneL.h +136 -0
  312. data/vendor/eigen/Eigen/src/SparseLU/SparseLU_relax_snode.h +83 -0
  313. data/vendor/eigen/Eigen/src/SparseQR/SparseQR.h +745 -0
  314. data/vendor/eigen/Eigen/src/StlSupport/StdDeque.h +126 -0
  315. data/vendor/eigen/Eigen/src/StlSupport/StdList.h +106 -0
  316. data/vendor/eigen/Eigen/src/StlSupport/StdVector.h +131 -0
  317. data/vendor/eigen/Eigen/src/StlSupport/details.h +84 -0
  318. data/vendor/eigen/Eigen/src/SuperLUSupport/SuperLUSupport.h +1027 -0
  319. data/vendor/eigen/Eigen/src/UmfPackSupport/UmfPackSupport.h +506 -0
  320. data/vendor/eigen/Eigen/src/misc/Image.h +82 -0
  321. data/vendor/eigen/Eigen/src/misc/Kernel.h +79 -0
  322. data/vendor/eigen/Eigen/src/misc/RealSvd2x2.h +55 -0
  323. data/vendor/eigen/Eigen/src/misc/blas.h +440 -0
  324. data/vendor/eigen/Eigen/src/misc/lapack.h +152 -0
  325. data/vendor/eigen/Eigen/src/misc/lapacke.h +16291 -0
  326. data/vendor/eigen/Eigen/src/misc/lapacke_mangling.h +17 -0
  327. data/vendor/eigen/Eigen/src/plugins/ArrayCwiseBinaryOps.h +332 -0
  328. data/vendor/eigen/Eigen/src/plugins/ArrayCwiseUnaryOps.h +552 -0
  329. data/vendor/eigen/Eigen/src/plugins/BlockMethods.h +1058 -0
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  332. data/vendor/eigen/Eigen/src/plugins/MatrixCwiseBinaryOps.h +152 -0
  333. data/vendor/eigen/Eigen/src/plugins/MatrixCwiseUnaryOps.h +85 -0
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  347. data/vendor/tomotopy/README.rst +382 -0
  348. data/vendor/tomotopy/src/Labeling/FoRelevance.cpp +362 -0
  349. data/vendor/tomotopy/src/Labeling/FoRelevance.h +88 -0
  350. data/vendor/tomotopy/src/Labeling/Labeler.h +50 -0
  351. data/vendor/tomotopy/src/TopicModel/CT.h +37 -0
  352. data/vendor/tomotopy/src/TopicModel/CTModel.cpp +13 -0
  353. data/vendor/tomotopy/src/TopicModel/CTModel.hpp +293 -0
  354. data/vendor/tomotopy/src/TopicModel/DMR.h +51 -0
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  356. data/vendor/tomotopy/src/TopicModel/DMRModel.hpp +374 -0
  357. data/vendor/tomotopy/src/TopicModel/DT.h +65 -0
  358. data/vendor/tomotopy/src/TopicModel/DTM.h +22 -0
  359. data/vendor/tomotopy/src/TopicModel/DTModel.cpp +15 -0
  360. data/vendor/tomotopy/src/TopicModel/DTModel.hpp +572 -0
  361. data/vendor/tomotopy/src/TopicModel/GDMR.h +37 -0
  362. data/vendor/tomotopy/src/TopicModel/GDMRModel.cpp +14 -0
  363. data/vendor/tomotopy/src/TopicModel/GDMRModel.hpp +485 -0
  364. data/vendor/tomotopy/src/TopicModel/HDP.h +74 -0
  365. data/vendor/tomotopy/src/TopicModel/HDPModel.cpp +13 -0
  366. data/vendor/tomotopy/src/TopicModel/HDPModel.hpp +592 -0
  367. data/vendor/tomotopy/src/TopicModel/HLDA.h +40 -0
  368. data/vendor/tomotopy/src/TopicModel/HLDAModel.cpp +13 -0
  369. data/vendor/tomotopy/src/TopicModel/HLDAModel.hpp +681 -0
  370. data/vendor/tomotopy/src/TopicModel/HPA.h +27 -0
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  377. data/vendor/tomotopy/src/TopicModel/LLDA.h +45 -0
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  382. data/vendor/tomotopy/src/TopicModel/MGLDAModel.hpp +558 -0
  383. data/vendor/tomotopy/src/TopicModel/PA.h +43 -0
  384. data/vendor/tomotopy/src/TopicModel/PAModel.cpp +13 -0
  385. data/vendor/tomotopy/src/TopicModel/PAModel.hpp +467 -0
  386. data/vendor/tomotopy/src/TopicModel/PLDA.h +17 -0
  387. data/vendor/tomotopy/src/TopicModel/PLDAModel.cpp +13 -0
  388. data/vendor/tomotopy/src/TopicModel/PLDAModel.hpp +214 -0
  389. data/vendor/tomotopy/src/TopicModel/SLDA.h +54 -0
  390. data/vendor/tomotopy/src/TopicModel/SLDAModel.cpp +17 -0
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  392. data/vendor/tomotopy/src/TopicModel/TopicModel.hpp +692 -0
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  395. data/vendor/tomotopy/src/Utils/EigenAddonOps.hpp +181 -0
  396. data/vendor/tomotopy/src/Utils/LBFGS.h +202 -0
  397. data/vendor/tomotopy/src/Utils/LBFGS/LineSearchBacktracking.h +120 -0
  398. data/vendor/tomotopy/src/Utils/LBFGS/LineSearchBracketing.h +122 -0
  399. data/vendor/tomotopy/src/Utils/LBFGS/Param.h +213 -0
  400. data/vendor/tomotopy/src/Utils/LUT.hpp +82 -0
  401. data/vendor/tomotopy/src/Utils/MultiNormalDistribution.hpp +69 -0
  402. data/vendor/tomotopy/src/Utils/PolyaGamma.hpp +200 -0
  403. data/vendor/tomotopy/src/Utils/PolyaGammaHybrid.hpp +672 -0
  404. data/vendor/tomotopy/src/Utils/ThreadPool.hpp +150 -0
  405. data/vendor/tomotopy/src/Utils/Trie.hpp +220 -0
  406. data/vendor/tomotopy/src/Utils/TruncMultiNormal.hpp +94 -0
  407. data/vendor/tomotopy/src/Utils/Utils.hpp +337 -0
  408. data/vendor/tomotopy/src/Utils/avx_gamma.h +46 -0
  409. data/vendor/tomotopy/src/Utils/avx_mathfun.h +736 -0
  410. data/vendor/tomotopy/src/Utils/exception.h +28 -0
  411. data/vendor/tomotopy/src/Utils/math.h +281 -0
  412. data/vendor/tomotopy/src/Utils/rtnorm.hpp +2690 -0
  413. data/vendor/tomotopy/src/Utils/sample.hpp +192 -0
  414. data/vendor/tomotopy/src/Utils/serializer.hpp +695 -0
  415. data/vendor/tomotopy/src/Utils/slp.hpp +131 -0
  416. data/vendor/tomotopy/src/Utils/sse_gamma.h +48 -0
  417. data/vendor/tomotopy/src/Utils/sse_mathfun.h +710 -0
  418. data/vendor/tomotopy/src/Utils/text.hpp +49 -0
  419. data/vendor/tomotopy/src/Utils/tvector.hpp +543 -0
  420. metadata +531 -0
@@ -0,0 +1,542 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
5
+ //
6
+ // This Source Code Form is subject to the terms of the Mozilla
7
+ // Public License v. 2.0. If a copy of the MPL was not distributed
8
+ // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
9
+
10
+ #ifndef EIGEN_LLT_H
11
+ #define EIGEN_LLT_H
12
+
13
+ namespace Eigen {
14
+
15
+ namespace internal{
16
+ template<typename MatrixType, int UpLo> struct LLT_Traits;
17
+ }
18
+
19
+ /** \ingroup Cholesky_Module
20
+ *
21
+ * \class LLT
22
+ *
23
+ * \brief Standard Cholesky decomposition (LL^T) of a matrix and associated features
24
+ *
25
+ * \tparam _MatrixType the type of the matrix of which we are computing the LL^T Cholesky decomposition
26
+ * \tparam _UpLo the triangular part that will be used for the decompositon: Lower (default) or Upper.
27
+ * The other triangular part won't be read.
28
+ *
29
+ * This class performs a LL^T Cholesky decomposition of a symmetric, positive definite
30
+ * matrix A such that A = LL^* = U^*U, where L is lower triangular.
31
+ *
32
+ * While the Cholesky decomposition is particularly useful to solve selfadjoint problems like D^*D x = b,
33
+ * for that purpose, we recommend the Cholesky decomposition without square root which is more stable
34
+ * and even faster. Nevertheless, this standard Cholesky decomposition remains useful in many other
35
+ * situations like generalised eigen problems with hermitian matrices.
36
+ *
37
+ * Remember that Cholesky decompositions are not rank-revealing. This LLT decomposition is only stable on positive definite matrices,
38
+ * use LDLT instead for the semidefinite case. Also, do not use a Cholesky decomposition to determine whether a system of equations
39
+ * has a solution.
40
+ *
41
+ * Example: \include LLT_example.cpp
42
+ * Output: \verbinclude LLT_example.out
43
+ *
44
+ * \b Performance: for best performance, it is recommended to use a column-major storage format
45
+ * with the Lower triangular part (the default), or, equivalently, a row-major storage format
46
+ * with the Upper triangular part. Otherwise, you might get a 20% slowdown for the full factorization
47
+ * step, and rank-updates can be up to 3 times slower.
48
+ *
49
+ * This class supports the \link InplaceDecomposition inplace decomposition \endlink mechanism.
50
+ *
51
+ * Note that during the decomposition, only the lower (or upper, as defined by _UpLo) triangular part of A is considered.
52
+ * Therefore, the strict lower part does not have to store correct values.
53
+ *
54
+ * \sa MatrixBase::llt(), SelfAdjointView::llt(), class LDLT
55
+ */
56
+ template<typename _MatrixType, int _UpLo> class LLT
57
+ {
58
+ public:
59
+ typedef _MatrixType MatrixType;
60
+ enum {
61
+ RowsAtCompileTime = MatrixType::RowsAtCompileTime,
62
+ ColsAtCompileTime = MatrixType::ColsAtCompileTime,
63
+ MaxColsAtCompileTime = MatrixType::MaxColsAtCompileTime
64
+ };
65
+ typedef typename MatrixType::Scalar Scalar;
66
+ typedef typename NumTraits<typename MatrixType::Scalar>::Real RealScalar;
67
+ typedef Eigen::Index Index; ///< \deprecated since Eigen 3.3
68
+ typedef typename MatrixType::StorageIndex StorageIndex;
69
+
70
+ enum {
71
+ PacketSize = internal::packet_traits<Scalar>::size,
72
+ AlignmentMask = int(PacketSize)-1,
73
+ UpLo = _UpLo
74
+ };
75
+
76
+ typedef internal::LLT_Traits<MatrixType,UpLo> Traits;
77
+
78
+ /**
79
+ * \brief Default Constructor.
80
+ *
81
+ * The default constructor is useful in cases in which the user intends to
82
+ * perform decompositions via LLT::compute(const MatrixType&).
83
+ */
84
+ LLT() : m_matrix(), m_isInitialized(false) {}
85
+
86
+ /** \brief Default Constructor with memory preallocation
87
+ *
88
+ * Like the default constructor but with preallocation of the internal data
89
+ * according to the specified problem \a size.
90
+ * \sa LLT()
91
+ */
92
+ explicit LLT(Index size) : m_matrix(size, size),
93
+ m_isInitialized(false) {}
94
+
95
+ template<typename InputType>
96
+ explicit LLT(const EigenBase<InputType>& matrix)
97
+ : m_matrix(matrix.rows(), matrix.cols()),
98
+ m_isInitialized(false)
99
+ {
100
+ compute(matrix.derived());
101
+ }
102
+
103
+ /** \brief Constructs a LDLT factorization from a given matrix
104
+ *
105
+ * This overloaded constructor is provided for \link InplaceDecomposition inplace decomposition \endlink when
106
+ * \c MatrixType is a Eigen::Ref.
107
+ *
108
+ * \sa LLT(const EigenBase&)
109
+ */
110
+ template<typename InputType>
111
+ explicit LLT(EigenBase<InputType>& matrix)
112
+ : m_matrix(matrix.derived()),
113
+ m_isInitialized(false)
114
+ {
115
+ compute(matrix.derived());
116
+ }
117
+
118
+ /** \returns a view of the upper triangular matrix U */
119
+ inline typename Traits::MatrixU matrixU() const
120
+ {
121
+ eigen_assert(m_isInitialized && "LLT is not initialized.");
122
+ return Traits::getU(m_matrix);
123
+ }
124
+
125
+ /** \returns a view of the lower triangular matrix L */
126
+ inline typename Traits::MatrixL matrixL() const
127
+ {
128
+ eigen_assert(m_isInitialized && "LLT is not initialized.");
129
+ return Traits::getL(m_matrix);
130
+ }
131
+
132
+ /** \returns the solution x of \f$ A x = b \f$ using the current decomposition of A.
133
+ *
134
+ * Since this LLT class assumes anyway that the matrix A is invertible, the solution
135
+ * theoretically exists and is unique regardless of b.
136
+ *
137
+ * Example: \include LLT_solve.cpp
138
+ * Output: \verbinclude LLT_solve.out
139
+ *
140
+ * \sa solveInPlace(), MatrixBase::llt(), SelfAdjointView::llt()
141
+ */
142
+ template<typename Rhs>
143
+ inline const Solve<LLT, Rhs>
144
+ solve(const MatrixBase<Rhs>& b) const
145
+ {
146
+ eigen_assert(m_isInitialized && "LLT is not initialized.");
147
+ eigen_assert(m_matrix.rows()==b.rows()
148
+ && "LLT::solve(): invalid number of rows of the right hand side matrix b");
149
+ return Solve<LLT, Rhs>(*this, b.derived());
150
+ }
151
+
152
+ template<typename Derived>
153
+ void solveInPlace(const MatrixBase<Derived> &bAndX) const;
154
+
155
+ template<typename InputType>
156
+ LLT& compute(const EigenBase<InputType>& matrix);
157
+
158
+ /** \returns an estimate of the reciprocal condition number of the matrix of
159
+ * which \c *this is the Cholesky decomposition.
160
+ */
161
+ RealScalar rcond() const
162
+ {
163
+ eigen_assert(m_isInitialized && "LLT is not initialized.");
164
+ eigen_assert(m_info == Success && "LLT failed because matrix appears to be negative");
165
+ return internal::rcond_estimate_helper(m_l1_norm, *this);
166
+ }
167
+
168
+ /** \returns the LLT decomposition matrix
169
+ *
170
+ * TODO: document the storage layout
171
+ */
172
+ inline const MatrixType& matrixLLT() const
173
+ {
174
+ eigen_assert(m_isInitialized && "LLT is not initialized.");
175
+ return m_matrix;
176
+ }
177
+
178
+ MatrixType reconstructedMatrix() const;
179
+
180
+
181
+ /** \brief Reports whether previous computation was successful.
182
+ *
183
+ * \returns \c Success if computation was succesful,
184
+ * \c NumericalIssue if the matrix.appears not to be positive definite.
185
+ */
186
+ ComputationInfo info() const
187
+ {
188
+ eigen_assert(m_isInitialized && "LLT is not initialized.");
189
+ return m_info;
190
+ }
191
+
192
+ /** \returns the adjoint of \c *this, that is, a const reference to the decomposition itself as the underlying matrix is self-adjoint.
193
+ *
194
+ * This method is provided for compatibility with other matrix decompositions, thus enabling generic code such as:
195
+ * \code x = decomposition.adjoint().solve(b) \endcode
196
+ */
197
+ const LLT& adjoint() const { return *this; };
198
+
199
+ inline Index rows() const { return m_matrix.rows(); }
200
+ inline Index cols() const { return m_matrix.cols(); }
201
+
202
+ template<typename VectorType>
203
+ LLT rankUpdate(const VectorType& vec, const RealScalar& sigma = 1);
204
+
205
+ #ifndef EIGEN_PARSED_BY_DOXYGEN
206
+ template<typename RhsType, typename DstType>
207
+ EIGEN_DEVICE_FUNC
208
+ void _solve_impl(const RhsType &rhs, DstType &dst) const;
209
+ #endif
210
+
211
+ protected:
212
+
213
+ static void check_template_parameters()
214
+ {
215
+ EIGEN_STATIC_ASSERT_NON_INTEGER(Scalar);
216
+ }
217
+
218
+ /** \internal
219
+ * Used to compute and store L
220
+ * The strict upper part is not used and even not initialized.
221
+ */
222
+ MatrixType m_matrix;
223
+ RealScalar m_l1_norm;
224
+ bool m_isInitialized;
225
+ ComputationInfo m_info;
226
+ };
227
+
228
+ namespace internal {
229
+
230
+ template<typename Scalar, int UpLo> struct llt_inplace;
231
+
232
+ template<typename MatrixType, typename VectorType>
233
+ static Index llt_rank_update_lower(MatrixType& mat, const VectorType& vec, const typename MatrixType::RealScalar& sigma)
234
+ {
235
+ using std::sqrt;
236
+ typedef typename MatrixType::Scalar Scalar;
237
+ typedef typename MatrixType::RealScalar RealScalar;
238
+ typedef typename MatrixType::ColXpr ColXpr;
239
+ typedef typename internal::remove_all<ColXpr>::type ColXprCleaned;
240
+ typedef typename ColXprCleaned::SegmentReturnType ColXprSegment;
241
+ typedef Matrix<Scalar,Dynamic,1> TempVectorType;
242
+ typedef typename TempVectorType::SegmentReturnType TempVecSegment;
243
+
244
+ Index n = mat.cols();
245
+ eigen_assert(mat.rows()==n && vec.size()==n);
246
+
247
+ TempVectorType temp;
248
+
249
+ if(sigma>0)
250
+ {
251
+ // This version is based on Givens rotations.
252
+ // It is faster than the other one below, but only works for updates,
253
+ // i.e., for sigma > 0
254
+ temp = sqrt(sigma) * vec;
255
+
256
+ for(Index i=0; i<n; ++i)
257
+ {
258
+ JacobiRotation<Scalar> g;
259
+ g.makeGivens(mat(i,i), -temp(i), &mat(i,i));
260
+
261
+ Index rs = n-i-1;
262
+ if(rs>0)
263
+ {
264
+ ColXprSegment x(mat.col(i).tail(rs));
265
+ TempVecSegment y(temp.tail(rs));
266
+ apply_rotation_in_the_plane(x, y, g);
267
+ }
268
+ }
269
+ }
270
+ else
271
+ {
272
+ temp = vec;
273
+ RealScalar beta = 1;
274
+ for(Index j=0; j<n; ++j)
275
+ {
276
+ RealScalar Ljj = numext::real(mat.coeff(j,j));
277
+ RealScalar dj = numext::abs2(Ljj);
278
+ Scalar wj = temp.coeff(j);
279
+ RealScalar swj2 = sigma*numext::abs2(wj);
280
+ RealScalar gamma = dj*beta + swj2;
281
+
282
+ RealScalar x = dj + swj2/beta;
283
+ if (x<=RealScalar(0))
284
+ return j;
285
+ RealScalar nLjj = sqrt(x);
286
+ mat.coeffRef(j,j) = nLjj;
287
+ beta += swj2/dj;
288
+
289
+ // Update the terms of L
290
+ Index rs = n-j-1;
291
+ if(rs)
292
+ {
293
+ temp.tail(rs) -= (wj/Ljj) * mat.col(j).tail(rs);
294
+ if(gamma != 0)
295
+ mat.col(j).tail(rs) = (nLjj/Ljj) * mat.col(j).tail(rs) + (nLjj * sigma*numext::conj(wj)/gamma)*temp.tail(rs);
296
+ }
297
+ }
298
+ }
299
+ return -1;
300
+ }
301
+
302
+ template<typename Scalar> struct llt_inplace<Scalar, Lower>
303
+ {
304
+ typedef typename NumTraits<Scalar>::Real RealScalar;
305
+ template<typename MatrixType>
306
+ static Index unblocked(MatrixType& mat)
307
+ {
308
+ using std::sqrt;
309
+
310
+ eigen_assert(mat.rows()==mat.cols());
311
+ const Index size = mat.rows();
312
+ for(Index k = 0; k < size; ++k)
313
+ {
314
+ Index rs = size-k-1; // remaining size
315
+
316
+ Block<MatrixType,Dynamic,1> A21(mat,k+1,k,rs,1);
317
+ Block<MatrixType,1,Dynamic> A10(mat,k,0,1,k);
318
+ Block<MatrixType,Dynamic,Dynamic> A20(mat,k+1,0,rs,k);
319
+
320
+ RealScalar x = numext::real(mat.coeff(k,k));
321
+ if (k>0) x -= A10.squaredNorm();
322
+ if (x<=RealScalar(0))
323
+ return k;
324
+ mat.coeffRef(k,k) = x = sqrt(x);
325
+ if (k>0 && rs>0) A21.noalias() -= A20 * A10.adjoint();
326
+ if (rs>0) A21 /= x;
327
+ }
328
+ return -1;
329
+ }
330
+
331
+ template<typename MatrixType>
332
+ static Index blocked(MatrixType& m)
333
+ {
334
+ eigen_assert(m.rows()==m.cols());
335
+ Index size = m.rows();
336
+ if(size<32)
337
+ return unblocked(m);
338
+
339
+ Index blockSize = size/8;
340
+ blockSize = (blockSize/16)*16;
341
+ blockSize = (std::min)((std::max)(blockSize,Index(8)), Index(128));
342
+
343
+ for (Index k=0; k<size; k+=blockSize)
344
+ {
345
+ // partition the matrix:
346
+ // A00 | - | -
347
+ // lu = A10 | A11 | -
348
+ // A20 | A21 | A22
349
+ Index bs = (std::min)(blockSize, size-k);
350
+ Index rs = size - k - bs;
351
+ Block<MatrixType,Dynamic,Dynamic> A11(m,k, k, bs,bs);
352
+ Block<MatrixType,Dynamic,Dynamic> A21(m,k+bs,k, rs,bs);
353
+ Block<MatrixType,Dynamic,Dynamic> A22(m,k+bs,k+bs,rs,rs);
354
+
355
+ Index ret;
356
+ if((ret=unblocked(A11))>=0) return k+ret;
357
+ if(rs>0) A11.adjoint().template triangularView<Upper>().template solveInPlace<OnTheRight>(A21);
358
+ if(rs>0) A22.template selfadjointView<Lower>().rankUpdate(A21,typename NumTraits<RealScalar>::Literal(-1)); // bottleneck
359
+ }
360
+ return -1;
361
+ }
362
+
363
+ template<typename MatrixType, typename VectorType>
364
+ static Index rankUpdate(MatrixType& mat, const VectorType& vec, const RealScalar& sigma)
365
+ {
366
+ return Eigen::internal::llt_rank_update_lower(mat, vec, sigma);
367
+ }
368
+ };
369
+
370
+ template<typename Scalar> struct llt_inplace<Scalar, Upper>
371
+ {
372
+ typedef typename NumTraits<Scalar>::Real RealScalar;
373
+
374
+ template<typename MatrixType>
375
+ static EIGEN_STRONG_INLINE Index unblocked(MatrixType& mat)
376
+ {
377
+ Transpose<MatrixType> matt(mat);
378
+ return llt_inplace<Scalar, Lower>::unblocked(matt);
379
+ }
380
+ template<typename MatrixType>
381
+ static EIGEN_STRONG_INLINE Index blocked(MatrixType& mat)
382
+ {
383
+ Transpose<MatrixType> matt(mat);
384
+ return llt_inplace<Scalar, Lower>::blocked(matt);
385
+ }
386
+ template<typename MatrixType, typename VectorType>
387
+ static Index rankUpdate(MatrixType& mat, const VectorType& vec, const RealScalar& sigma)
388
+ {
389
+ Transpose<MatrixType> matt(mat);
390
+ return llt_inplace<Scalar, Lower>::rankUpdate(matt, vec.conjugate(), sigma);
391
+ }
392
+ };
393
+
394
+ template<typename MatrixType> struct LLT_Traits<MatrixType,Lower>
395
+ {
396
+ typedef const TriangularView<const MatrixType, Lower> MatrixL;
397
+ typedef const TriangularView<const typename MatrixType::AdjointReturnType, Upper> MatrixU;
398
+ static inline MatrixL getL(const MatrixType& m) { return MatrixL(m); }
399
+ static inline MatrixU getU(const MatrixType& m) { return MatrixU(m.adjoint()); }
400
+ static bool inplace_decomposition(MatrixType& m)
401
+ { return llt_inplace<typename MatrixType::Scalar, Lower>::blocked(m)==-1; }
402
+ };
403
+
404
+ template<typename MatrixType> struct LLT_Traits<MatrixType,Upper>
405
+ {
406
+ typedef const TriangularView<const typename MatrixType::AdjointReturnType, Lower> MatrixL;
407
+ typedef const TriangularView<const MatrixType, Upper> MatrixU;
408
+ static inline MatrixL getL(const MatrixType& m) { return MatrixL(m.adjoint()); }
409
+ static inline MatrixU getU(const MatrixType& m) { return MatrixU(m); }
410
+ static bool inplace_decomposition(MatrixType& m)
411
+ { return llt_inplace<typename MatrixType::Scalar, Upper>::blocked(m)==-1; }
412
+ };
413
+
414
+ } // end namespace internal
415
+
416
+ /** Computes / recomputes the Cholesky decomposition A = LL^* = U^*U of \a matrix
417
+ *
418
+ * \returns a reference to *this
419
+ *
420
+ * Example: \include TutorialLinAlgComputeTwice.cpp
421
+ * Output: \verbinclude TutorialLinAlgComputeTwice.out
422
+ */
423
+ template<typename MatrixType, int _UpLo>
424
+ template<typename InputType>
425
+ LLT<MatrixType,_UpLo>& LLT<MatrixType,_UpLo>::compute(const EigenBase<InputType>& a)
426
+ {
427
+ check_template_parameters();
428
+
429
+ eigen_assert(a.rows()==a.cols());
430
+ const Index size = a.rows();
431
+ m_matrix.resize(size, size);
432
+ if (!internal::is_same_dense(m_matrix, a.derived()))
433
+ m_matrix = a.derived();
434
+
435
+ // Compute matrix L1 norm = max abs column sum.
436
+ m_l1_norm = RealScalar(0);
437
+ // TODO move this code to SelfAdjointView
438
+ for (Index col = 0; col < size; ++col) {
439
+ RealScalar abs_col_sum;
440
+ if (_UpLo == Lower)
441
+ abs_col_sum = m_matrix.col(col).tail(size - col).template lpNorm<1>() + m_matrix.row(col).head(col).template lpNorm<1>();
442
+ else
443
+ abs_col_sum = m_matrix.col(col).head(col).template lpNorm<1>() + m_matrix.row(col).tail(size - col).template lpNorm<1>();
444
+ if (abs_col_sum > m_l1_norm)
445
+ m_l1_norm = abs_col_sum;
446
+ }
447
+
448
+ m_isInitialized = true;
449
+ bool ok = Traits::inplace_decomposition(m_matrix);
450
+ m_info = ok ? Success : NumericalIssue;
451
+
452
+ return *this;
453
+ }
454
+
455
+ /** Performs a rank one update (or dowdate) of the current decomposition.
456
+ * If A = LL^* before the rank one update,
457
+ * then after it we have LL^* = A + sigma * v v^* where \a v must be a vector
458
+ * of same dimension.
459
+ */
460
+ template<typename _MatrixType, int _UpLo>
461
+ template<typename VectorType>
462
+ LLT<_MatrixType,_UpLo> LLT<_MatrixType,_UpLo>::rankUpdate(const VectorType& v, const RealScalar& sigma)
463
+ {
464
+ EIGEN_STATIC_ASSERT_VECTOR_ONLY(VectorType);
465
+ eigen_assert(v.size()==m_matrix.cols());
466
+ eigen_assert(m_isInitialized);
467
+ if(internal::llt_inplace<typename MatrixType::Scalar, UpLo>::rankUpdate(m_matrix,v,sigma)>=0)
468
+ m_info = NumericalIssue;
469
+ else
470
+ m_info = Success;
471
+
472
+ return *this;
473
+ }
474
+
475
+ #ifndef EIGEN_PARSED_BY_DOXYGEN
476
+ template<typename _MatrixType,int _UpLo>
477
+ template<typename RhsType, typename DstType>
478
+ void LLT<_MatrixType,_UpLo>::_solve_impl(const RhsType &rhs, DstType &dst) const
479
+ {
480
+ dst = rhs;
481
+ solveInPlace(dst);
482
+ }
483
+ #endif
484
+
485
+ /** \internal use x = llt_object.solve(x);
486
+ *
487
+ * This is the \em in-place version of solve().
488
+ *
489
+ * \param bAndX represents both the right-hand side matrix b and result x.
490
+ *
491
+ * This version avoids a copy when the right hand side matrix b is not needed anymore.
492
+ *
493
+ * \warning The parameter is only marked 'const' to make the C++ compiler accept a temporary expression here.
494
+ * This function will const_cast it, so constness isn't honored here.
495
+ *
496
+ * \sa LLT::solve(), MatrixBase::llt()
497
+ */
498
+ template<typename MatrixType, int _UpLo>
499
+ template<typename Derived>
500
+ void LLT<MatrixType,_UpLo>::solveInPlace(const MatrixBase<Derived> &bAndX) const
501
+ {
502
+ eigen_assert(m_isInitialized && "LLT is not initialized.");
503
+ eigen_assert(m_matrix.rows()==bAndX.rows());
504
+ matrixL().solveInPlace(bAndX);
505
+ matrixU().solveInPlace(bAndX);
506
+ }
507
+
508
+ /** \returns the matrix represented by the decomposition,
509
+ * i.e., it returns the product: L L^*.
510
+ * This function is provided for debug purpose. */
511
+ template<typename MatrixType, int _UpLo>
512
+ MatrixType LLT<MatrixType,_UpLo>::reconstructedMatrix() const
513
+ {
514
+ eigen_assert(m_isInitialized && "LLT is not initialized.");
515
+ return matrixL() * matrixL().adjoint().toDenseMatrix();
516
+ }
517
+
518
+ /** \cholesky_module
519
+ * \returns the LLT decomposition of \c *this
520
+ * \sa SelfAdjointView::llt()
521
+ */
522
+ template<typename Derived>
523
+ inline const LLT<typename MatrixBase<Derived>::PlainObject>
524
+ MatrixBase<Derived>::llt() const
525
+ {
526
+ return LLT<PlainObject>(derived());
527
+ }
528
+
529
+ /** \cholesky_module
530
+ * \returns the LLT decomposition of \c *this
531
+ * \sa SelfAdjointView::llt()
532
+ */
533
+ template<typename MatrixType, unsigned int UpLo>
534
+ inline const LLT<typename SelfAdjointView<MatrixType, UpLo>::PlainObject, UpLo>
535
+ SelfAdjointView<MatrixType, UpLo>::llt() const
536
+ {
537
+ return LLT<PlainObject,UpLo>(m_matrix);
538
+ }
539
+
540
+ } // end namespace Eigen
541
+
542
+ #endif // EIGEN_LLT_H