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
  330. data/vendor/eigen/Eigen/src/plugins/CommonCwiseBinaryOps.h +115 -0
  331. data/vendor/eigen/Eigen/src/plugins/CommonCwiseUnaryOps.h +163 -0
  332. data/vendor/eigen/Eigen/src/plugins/MatrixCwiseBinaryOps.h +152 -0
  333. data/vendor/eigen/Eigen/src/plugins/MatrixCwiseUnaryOps.h +85 -0
  334. data/vendor/eigen/README.md +3 -0
  335. data/vendor/eigen/bench/README.txt +55 -0
  336. data/vendor/eigen/bench/btl/COPYING +340 -0
  337. data/vendor/eigen/bench/btl/README +154 -0
  338. data/vendor/eigen/bench/tensors/README +21 -0
  339. data/vendor/eigen/blas/README.txt +6 -0
  340. data/vendor/eigen/demos/mandelbrot/README +10 -0
  341. data/vendor/eigen/demos/mix_eigen_and_c/README +9 -0
  342. data/vendor/eigen/demos/opengl/README +13 -0
  343. data/vendor/eigen/unsupported/Eigen/CXX11/src/Tensor/README.md +1760 -0
  344. data/vendor/eigen/unsupported/README.txt +50 -0
  345. data/vendor/tomotopy/LICENSE +21 -0
  346. data/vendor/tomotopy/README.kr.rst +375 -0
  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
  355. data/vendor/tomotopy/src/TopicModel/DMRModel.cpp +13 -0
  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
  371. data/vendor/tomotopy/src/TopicModel/HPAModel.cpp +21 -0
  372. data/vendor/tomotopy/src/TopicModel/HPAModel.hpp +588 -0
  373. data/vendor/tomotopy/src/TopicModel/LDA.h +144 -0
  374. data/vendor/tomotopy/src/TopicModel/LDACVB0Model.hpp +442 -0
  375. data/vendor/tomotopy/src/TopicModel/LDAModel.cpp +13 -0
  376. data/vendor/tomotopy/src/TopicModel/LDAModel.hpp +1058 -0
  377. data/vendor/tomotopy/src/TopicModel/LLDA.h +45 -0
  378. data/vendor/tomotopy/src/TopicModel/LLDAModel.cpp +13 -0
  379. data/vendor/tomotopy/src/TopicModel/LLDAModel.hpp +203 -0
  380. data/vendor/tomotopy/src/TopicModel/MGLDA.h +63 -0
  381. data/vendor/tomotopy/src/TopicModel/MGLDAModel.cpp +17 -0
  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
  391. data/vendor/tomotopy/src/TopicModel/SLDAModel.hpp +456 -0
  392. data/vendor/tomotopy/src/TopicModel/TopicModel.hpp +692 -0
  393. data/vendor/tomotopy/src/Utils/AliasMethod.hpp +169 -0
  394. data/vendor/tomotopy/src/Utils/Dictionary.h +80 -0
  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 +1,656 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 2009-2014 Gael Guennebaud <gael.guennebaud@inria.fr>
5
+ //
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+ // 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_SPARSE_SELFADJOINTVIEW_H
11
+ #define EIGEN_SPARSE_SELFADJOINTVIEW_H
12
+
13
+ namespace Eigen {
14
+
15
+ /** \ingroup SparseCore_Module
16
+ * \class SparseSelfAdjointView
17
+ *
18
+ * \brief Pseudo expression to manipulate a triangular sparse matrix as a selfadjoint matrix.
19
+ *
20
+ * \param MatrixType the type of the dense matrix storing the coefficients
21
+ * \param Mode can be either \c #Lower or \c #Upper
22
+ *
23
+ * This class is an expression of a sefladjoint matrix from a triangular part of a matrix
24
+ * with given dense storage of the coefficients. It is the return type of MatrixBase::selfadjointView()
25
+ * and most of the time this is the only way that it is used.
26
+ *
27
+ * \sa SparseMatrixBase::selfadjointView()
28
+ */
29
+ namespace internal {
30
+
31
+ template<typename MatrixType, unsigned int Mode>
32
+ struct traits<SparseSelfAdjointView<MatrixType,Mode> > : traits<MatrixType> {
33
+ };
34
+
35
+ template<int SrcMode,int DstMode,typename MatrixType,int DestOrder>
36
+ void permute_symm_to_symm(const MatrixType& mat, SparseMatrix<typename MatrixType::Scalar,DestOrder,typename MatrixType::StorageIndex>& _dest, const typename MatrixType::StorageIndex* perm = 0);
37
+
38
+ template<int Mode,typename MatrixType,int DestOrder>
39
+ void permute_symm_to_fullsymm(const MatrixType& mat, SparseMatrix<typename MatrixType::Scalar,DestOrder,typename MatrixType::StorageIndex>& _dest, const typename MatrixType::StorageIndex* perm = 0);
40
+
41
+ }
42
+
43
+ template<typename MatrixType, unsigned int _Mode> class SparseSelfAdjointView
44
+ : public EigenBase<SparseSelfAdjointView<MatrixType,_Mode> >
45
+ {
46
+ public:
47
+
48
+ enum {
49
+ Mode = _Mode,
50
+ TransposeMode = ((Mode & Upper) ? Lower : 0) | ((Mode & Lower) ? Upper : 0),
51
+ RowsAtCompileTime = internal::traits<SparseSelfAdjointView>::RowsAtCompileTime,
52
+ ColsAtCompileTime = internal::traits<SparseSelfAdjointView>::ColsAtCompileTime
53
+ };
54
+
55
+ typedef EigenBase<SparseSelfAdjointView> Base;
56
+ typedef typename MatrixType::Scalar Scalar;
57
+ typedef typename MatrixType::StorageIndex StorageIndex;
58
+ typedef Matrix<StorageIndex,Dynamic,1> VectorI;
59
+ typedef typename internal::ref_selector<MatrixType>::non_const_type MatrixTypeNested;
60
+ typedef typename internal::remove_all<MatrixTypeNested>::type _MatrixTypeNested;
61
+
62
+ explicit inline SparseSelfAdjointView(MatrixType& matrix) : m_matrix(matrix)
63
+ {
64
+ eigen_assert(rows()==cols() && "SelfAdjointView is only for squared matrices");
65
+ }
66
+
67
+ inline Index rows() const { return m_matrix.rows(); }
68
+ inline Index cols() const { return m_matrix.cols(); }
69
+
70
+ /** \internal \returns a reference to the nested matrix */
71
+ const _MatrixTypeNested& matrix() const { return m_matrix; }
72
+ typename internal::remove_reference<MatrixTypeNested>::type& matrix() { return m_matrix; }
73
+
74
+ /** \returns an expression of the matrix product between a sparse self-adjoint matrix \c *this and a sparse matrix \a rhs.
75
+ *
76
+ * Note that there is no algorithmic advantage of performing such a product compared to a general sparse-sparse matrix product.
77
+ * Indeed, the SparseSelfadjointView operand is first copied into a temporary SparseMatrix before computing the product.
78
+ */
79
+ template<typename OtherDerived>
80
+ Product<SparseSelfAdjointView, OtherDerived>
81
+ operator*(const SparseMatrixBase<OtherDerived>& rhs) const
82
+ {
83
+ return Product<SparseSelfAdjointView, OtherDerived>(*this, rhs.derived());
84
+ }
85
+
86
+ /** \returns an expression of the matrix product between a sparse matrix \a lhs and a sparse self-adjoint matrix \a rhs.
87
+ *
88
+ * Note that there is no algorithmic advantage of performing such a product compared to a general sparse-sparse matrix product.
89
+ * Indeed, the SparseSelfadjointView operand is first copied into a temporary SparseMatrix before computing the product.
90
+ */
91
+ template<typename OtherDerived> friend
92
+ Product<OtherDerived, SparseSelfAdjointView>
93
+ operator*(const SparseMatrixBase<OtherDerived>& lhs, const SparseSelfAdjointView& rhs)
94
+ {
95
+ return Product<OtherDerived, SparseSelfAdjointView>(lhs.derived(), rhs);
96
+ }
97
+
98
+ /** Efficient sparse self-adjoint matrix times dense vector/matrix product */
99
+ template<typename OtherDerived>
100
+ Product<SparseSelfAdjointView,OtherDerived>
101
+ operator*(const MatrixBase<OtherDerived>& rhs) const
102
+ {
103
+ return Product<SparseSelfAdjointView,OtherDerived>(*this, rhs.derived());
104
+ }
105
+
106
+ /** Efficient dense vector/matrix times sparse self-adjoint matrix product */
107
+ template<typename OtherDerived> friend
108
+ Product<OtherDerived,SparseSelfAdjointView>
109
+ operator*(const MatrixBase<OtherDerived>& lhs, const SparseSelfAdjointView& rhs)
110
+ {
111
+ return Product<OtherDerived,SparseSelfAdjointView>(lhs.derived(), rhs);
112
+ }
113
+
114
+ /** Perform a symmetric rank K update of the selfadjoint matrix \c *this:
115
+ * \f$ this = this + \alpha ( u u^* ) \f$ where \a u is a vector or matrix.
116
+ *
117
+ * \returns a reference to \c *this
118
+ *
119
+ * To perform \f$ this = this + \alpha ( u^* u ) \f$ you can simply
120
+ * call this function with u.adjoint().
121
+ */
122
+ template<typename DerivedU>
123
+ SparseSelfAdjointView& rankUpdate(const SparseMatrixBase<DerivedU>& u, const Scalar& alpha = Scalar(1));
124
+
125
+ /** \returns an expression of P H P^-1 */
126
+ // TODO implement twists in a more evaluator friendly fashion
127
+ SparseSymmetricPermutationProduct<_MatrixTypeNested,Mode> twistedBy(const PermutationMatrix<Dynamic,Dynamic,StorageIndex>& perm) const
128
+ {
129
+ return SparseSymmetricPermutationProduct<_MatrixTypeNested,Mode>(m_matrix, perm);
130
+ }
131
+
132
+ template<typename SrcMatrixType,int SrcMode>
133
+ SparseSelfAdjointView& operator=(const SparseSymmetricPermutationProduct<SrcMatrixType,SrcMode>& permutedMatrix)
134
+ {
135
+ internal::call_assignment_no_alias_no_transpose(*this, permutedMatrix);
136
+ return *this;
137
+ }
138
+
139
+ SparseSelfAdjointView& operator=(const SparseSelfAdjointView& src)
140
+ {
141
+ PermutationMatrix<Dynamic,Dynamic,StorageIndex> pnull;
142
+ return *this = src.twistedBy(pnull);
143
+ }
144
+
145
+ template<typename SrcMatrixType,unsigned int SrcMode>
146
+ SparseSelfAdjointView& operator=(const SparseSelfAdjointView<SrcMatrixType,SrcMode>& src)
147
+ {
148
+ PermutationMatrix<Dynamic,Dynamic,StorageIndex> pnull;
149
+ return *this = src.twistedBy(pnull);
150
+ }
151
+
152
+ void resize(Index rows, Index cols)
153
+ {
154
+ EIGEN_ONLY_USED_FOR_DEBUG(rows);
155
+ EIGEN_ONLY_USED_FOR_DEBUG(cols);
156
+ eigen_assert(rows == this->rows() && cols == this->cols()
157
+ && "SparseSelfadjointView::resize() does not actually allow to resize.");
158
+ }
159
+
160
+ protected:
161
+
162
+ MatrixTypeNested m_matrix;
163
+ //mutable VectorI m_countPerRow;
164
+ //mutable VectorI m_countPerCol;
165
+ private:
166
+ template<typename Dest> void evalTo(Dest &) const;
167
+ };
168
+
169
+ /***************************************************************************
170
+ * Implementation of SparseMatrixBase methods
171
+ ***************************************************************************/
172
+
173
+ template<typename Derived>
174
+ template<unsigned int UpLo>
175
+ typename SparseMatrixBase<Derived>::template ConstSelfAdjointViewReturnType<UpLo>::Type SparseMatrixBase<Derived>::selfadjointView() const
176
+ {
177
+ return SparseSelfAdjointView<const Derived, UpLo>(derived());
178
+ }
179
+
180
+ template<typename Derived>
181
+ template<unsigned int UpLo>
182
+ typename SparseMatrixBase<Derived>::template SelfAdjointViewReturnType<UpLo>::Type SparseMatrixBase<Derived>::selfadjointView()
183
+ {
184
+ return SparseSelfAdjointView<Derived, UpLo>(derived());
185
+ }
186
+
187
+ /***************************************************************************
188
+ * Implementation of SparseSelfAdjointView methods
189
+ ***************************************************************************/
190
+
191
+ template<typename MatrixType, unsigned int Mode>
192
+ template<typename DerivedU>
193
+ SparseSelfAdjointView<MatrixType,Mode>&
194
+ SparseSelfAdjointView<MatrixType,Mode>::rankUpdate(const SparseMatrixBase<DerivedU>& u, const Scalar& alpha)
195
+ {
196
+ SparseMatrix<Scalar,(MatrixType::Flags&RowMajorBit)?RowMajor:ColMajor> tmp = u * u.adjoint();
197
+ if(alpha==Scalar(0))
198
+ m_matrix = tmp.template triangularView<Mode>();
199
+ else
200
+ m_matrix += alpha * tmp.template triangularView<Mode>();
201
+
202
+ return *this;
203
+ }
204
+
205
+ namespace internal {
206
+
207
+ // TODO currently a selfadjoint expression has the form SelfAdjointView<.,.>
208
+ // in the future selfadjoint-ness should be defined by the expression traits
209
+ // such that Transpose<SelfAdjointView<.,.> > is valid. (currently TriangularBase::transpose() is overloaded to make it work)
210
+ template<typename MatrixType, unsigned int Mode>
211
+ struct evaluator_traits<SparseSelfAdjointView<MatrixType,Mode> >
212
+ {
213
+ typedef typename storage_kind_to_evaluator_kind<typename MatrixType::StorageKind>::Kind Kind;
214
+ typedef SparseSelfAdjointShape Shape;
215
+ };
216
+
217
+ struct SparseSelfAdjoint2Sparse {};
218
+
219
+ template<> struct AssignmentKind<SparseShape,SparseSelfAdjointShape> { typedef SparseSelfAdjoint2Sparse Kind; };
220
+ template<> struct AssignmentKind<SparseSelfAdjointShape,SparseShape> { typedef Sparse2Sparse Kind; };
221
+
222
+ template< typename DstXprType, typename SrcXprType, typename Functor>
223
+ struct Assignment<DstXprType, SrcXprType, Functor, SparseSelfAdjoint2Sparse>
224
+ {
225
+ typedef typename DstXprType::StorageIndex StorageIndex;
226
+ typedef internal::assign_op<typename DstXprType::Scalar,typename SrcXprType::Scalar> AssignOpType;
227
+
228
+ template<typename DestScalar,int StorageOrder>
229
+ static void run(SparseMatrix<DestScalar,StorageOrder,StorageIndex> &dst, const SrcXprType &src, const AssignOpType&/*func*/)
230
+ {
231
+ internal::permute_symm_to_fullsymm<SrcXprType::Mode>(src.matrix(), dst);
232
+ }
233
+
234
+ // FIXME: the handling of += and -= in sparse matrices should be cleanup so that next two overloads could be reduced to:
235
+ template<typename DestScalar,int StorageOrder,typename AssignFunc>
236
+ static void run(SparseMatrix<DestScalar,StorageOrder,StorageIndex> &dst, const SrcXprType &src, const AssignFunc& func)
237
+ {
238
+ SparseMatrix<DestScalar,StorageOrder,StorageIndex> tmp(src.rows(),src.cols());
239
+ run(tmp, src, AssignOpType());
240
+ call_assignment_no_alias_no_transpose(dst, tmp, func);
241
+ }
242
+
243
+ template<typename DestScalar,int StorageOrder>
244
+ static void run(SparseMatrix<DestScalar,StorageOrder,StorageIndex> &dst, const SrcXprType &src,
245
+ const internal::add_assign_op<typename DstXprType::Scalar,typename SrcXprType::Scalar>& /* func */)
246
+ {
247
+ SparseMatrix<DestScalar,StorageOrder,StorageIndex> tmp(src.rows(),src.cols());
248
+ run(tmp, src, AssignOpType());
249
+ dst += tmp;
250
+ }
251
+
252
+ template<typename DestScalar,int StorageOrder>
253
+ static void run(SparseMatrix<DestScalar,StorageOrder,StorageIndex> &dst, const SrcXprType &src,
254
+ const internal::sub_assign_op<typename DstXprType::Scalar,typename SrcXprType::Scalar>& /* func */)
255
+ {
256
+ SparseMatrix<DestScalar,StorageOrder,StorageIndex> tmp(src.rows(),src.cols());
257
+ run(tmp, src, AssignOpType());
258
+ dst -= tmp;
259
+ }
260
+
261
+ template<typename DestScalar>
262
+ static void run(DynamicSparseMatrix<DestScalar,ColMajor,StorageIndex>& dst, const SrcXprType &src, const AssignOpType&/*func*/)
263
+ {
264
+ // TODO directly evaluate into dst;
265
+ SparseMatrix<DestScalar,ColMajor,StorageIndex> tmp(dst.rows(),dst.cols());
266
+ internal::permute_symm_to_fullsymm<SrcXprType::Mode>(src.matrix(), tmp);
267
+ dst = tmp;
268
+ }
269
+ };
270
+
271
+ } // end namespace internal
272
+
273
+ /***************************************************************************
274
+ * Implementation of sparse self-adjoint time dense matrix
275
+ ***************************************************************************/
276
+
277
+ namespace internal {
278
+
279
+ template<int Mode, typename SparseLhsType, typename DenseRhsType, typename DenseResType, typename AlphaType>
280
+ inline void sparse_selfadjoint_time_dense_product(const SparseLhsType& lhs, const DenseRhsType& rhs, DenseResType& res, const AlphaType& alpha)
281
+ {
282
+ EIGEN_ONLY_USED_FOR_DEBUG(alpha);
283
+
284
+ typedef typename internal::nested_eval<SparseLhsType,DenseRhsType::MaxColsAtCompileTime>::type SparseLhsTypeNested;
285
+ typedef typename internal::remove_all<SparseLhsTypeNested>::type SparseLhsTypeNestedCleaned;
286
+ typedef evaluator<SparseLhsTypeNestedCleaned> LhsEval;
287
+ typedef typename LhsEval::InnerIterator LhsIterator;
288
+ typedef typename SparseLhsType::Scalar LhsScalar;
289
+
290
+ enum {
291
+ LhsIsRowMajor = (LhsEval::Flags&RowMajorBit)==RowMajorBit,
292
+ ProcessFirstHalf =
293
+ ((Mode&(Upper|Lower))==(Upper|Lower))
294
+ || ( (Mode&Upper) && !LhsIsRowMajor)
295
+ || ( (Mode&Lower) && LhsIsRowMajor),
296
+ ProcessSecondHalf = !ProcessFirstHalf
297
+ };
298
+
299
+ SparseLhsTypeNested lhs_nested(lhs);
300
+ LhsEval lhsEval(lhs_nested);
301
+
302
+ // work on one column at once
303
+ for (Index k=0; k<rhs.cols(); ++k)
304
+ {
305
+ for (Index j=0; j<lhs.outerSize(); ++j)
306
+ {
307
+ LhsIterator i(lhsEval,j);
308
+ // handle diagonal coeff
309
+ if (ProcessSecondHalf)
310
+ {
311
+ while (i && i.index()<j) ++i;
312
+ if(i && i.index()==j)
313
+ {
314
+ res.coeffRef(j,k) += alpha * i.value() * rhs.coeff(j,k);
315
+ ++i;
316
+ }
317
+ }
318
+
319
+ // premultiplied rhs for scatters
320
+ typename ScalarBinaryOpTraits<AlphaType, typename DenseRhsType::Scalar>::ReturnType rhs_j(alpha*rhs(j,k));
321
+ // accumulator for partial scalar product
322
+ typename DenseResType::Scalar res_j(0);
323
+ for(; (ProcessFirstHalf ? i && i.index() < j : i) ; ++i)
324
+ {
325
+ LhsScalar lhs_ij = i.value();
326
+ if(!LhsIsRowMajor) lhs_ij = numext::conj(lhs_ij);
327
+ res_j += lhs_ij * rhs.coeff(i.index(),k);
328
+ res(i.index(),k) += numext::conj(lhs_ij) * rhs_j;
329
+ }
330
+ res.coeffRef(j,k) += alpha * res_j;
331
+
332
+ // handle diagonal coeff
333
+ if (ProcessFirstHalf && i && (i.index()==j))
334
+ res.coeffRef(j,k) += alpha * i.value() * rhs.coeff(j,k);
335
+ }
336
+ }
337
+ }
338
+
339
+
340
+ template<typename LhsView, typename Rhs, int ProductType>
341
+ struct generic_product_impl<LhsView, Rhs, SparseSelfAdjointShape, DenseShape, ProductType>
342
+ : generic_product_impl_base<LhsView, Rhs, generic_product_impl<LhsView, Rhs, SparseSelfAdjointShape, DenseShape, ProductType> >
343
+ {
344
+ template<typename Dest>
345
+ static void scaleAndAddTo(Dest& dst, const LhsView& lhsView, const Rhs& rhs, const typename Dest::Scalar& alpha)
346
+ {
347
+ typedef typename LhsView::_MatrixTypeNested Lhs;
348
+ typedef typename nested_eval<Lhs,Dynamic>::type LhsNested;
349
+ typedef typename nested_eval<Rhs,Dynamic>::type RhsNested;
350
+ LhsNested lhsNested(lhsView.matrix());
351
+ RhsNested rhsNested(rhs);
352
+
353
+ internal::sparse_selfadjoint_time_dense_product<LhsView::Mode>(lhsNested, rhsNested, dst, alpha);
354
+ }
355
+ };
356
+
357
+ template<typename Lhs, typename RhsView, int ProductType>
358
+ struct generic_product_impl<Lhs, RhsView, DenseShape, SparseSelfAdjointShape, ProductType>
359
+ : generic_product_impl_base<Lhs, RhsView, generic_product_impl<Lhs, RhsView, DenseShape, SparseSelfAdjointShape, ProductType> >
360
+ {
361
+ template<typename Dest>
362
+ static void scaleAndAddTo(Dest& dst, const Lhs& lhs, const RhsView& rhsView, const typename Dest::Scalar& alpha)
363
+ {
364
+ typedef typename RhsView::_MatrixTypeNested Rhs;
365
+ typedef typename nested_eval<Lhs,Dynamic>::type LhsNested;
366
+ typedef typename nested_eval<Rhs,Dynamic>::type RhsNested;
367
+ LhsNested lhsNested(lhs);
368
+ RhsNested rhsNested(rhsView.matrix());
369
+
370
+ // transpose everything
371
+ Transpose<Dest> dstT(dst);
372
+ internal::sparse_selfadjoint_time_dense_product<RhsView::TransposeMode>(rhsNested.transpose(), lhsNested.transpose(), dstT, alpha);
373
+ }
374
+ };
375
+
376
+ // NOTE: these two overloads are needed to evaluate the sparse selfadjoint view into a full sparse matrix
377
+ // TODO: maybe the copy could be handled by generic_product_impl so that these overloads would not be needed anymore
378
+
379
+ template<typename LhsView, typename Rhs, int ProductTag>
380
+ struct product_evaluator<Product<LhsView, Rhs, DefaultProduct>, ProductTag, SparseSelfAdjointShape, SparseShape>
381
+ : public evaluator<typename Product<typename Rhs::PlainObject, Rhs, DefaultProduct>::PlainObject>
382
+ {
383
+ typedef Product<LhsView, Rhs, DefaultProduct> XprType;
384
+ typedef typename XprType::PlainObject PlainObject;
385
+ typedef evaluator<PlainObject> Base;
386
+
387
+ product_evaluator(const XprType& xpr)
388
+ : m_lhs(xpr.lhs()), m_result(xpr.rows(), xpr.cols())
389
+ {
390
+ ::new (static_cast<Base*>(this)) Base(m_result);
391
+ generic_product_impl<typename Rhs::PlainObject, Rhs, SparseShape, SparseShape, ProductTag>::evalTo(m_result, m_lhs, xpr.rhs());
392
+ }
393
+
394
+ protected:
395
+ typename Rhs::PlainObject m_lhs;
396
+ PlainObject m_result;
397
+ };
398
+
399
+ template<typename Lhs, typename RhsView, int ProductTag>
400
+ struct product_evaluator<Product<Lhs, RhsView, DefaultProduct>, ProductTag, SparseShape, SparseSelfAdjointShape>
401
+ : public evaluator<typename Product<Lhs, typename Lhs::PlainObject, DefaultProduct>::PlainObject>
402
+ {
403
+ typedef Product<Lhs, RhsView, DefaultProduct> XprType;
404
+ typedef typename XprType::PlainObject PlainObject;
405
+ typedef evaluator<PlainObject> Base;
406
+
407
+ product_evaluator(const XprType& xpr)
408
+ : m_rhs(xpr.rhs()), m_result(xpr.rows(), xpr.cols())
409
+ {
410
+ ::new (static_cast<Base*>(this)) Base(m_result);
411
+ generic_product_impl<Lhs, typename Lhs::PlainObject, SparseShape, SparseShape, ProductTag>::evalTo(m_result, xpr.lhs(), m_rhs);
412
+ }
413
+
414
+ protected:
415
+ typename Lhs::PlainObject m_rhs;
416
+ PlainObject m_result;
417
+ };
418
+
419
+ } // namespace internal
420
+
421
+ /***************************************************************************
422
+ * Implementation of symmetric copies and permutations
423
+ ***************************************************************************/
424
+ namespace internal {
425
+
426
+ template<int Mode,typename MatrixType,int DestOrder>
427
+ void permute_symm_to_fullsymm(const MatrixType& mat, SparseMatrix<typename MatrixType::Scalar,DestOrder,typename MatrixType::StorageIndex>& _dest, const typename MatrixType::StorageIndex* perm)
428
+ {
429
+ typedef typename MatrixType::StorageIndex StorageIndex;
430
+ typedef typename MatrixType::Scalar Scalar;
431
+ typedef SparseMatrix<Scalar,DestOrder,StorageIndex> Dest;
432
+ typedef Matrix<StorageIndex,Dynamic,1> VectorI;
433
+ typedef evaluator<MatrixType> MatEval;
434
+ typedef typename evaluator<MatrixType>::InnerIterator MatIterator;
435
+
436
+ MatEval matEval(mat);
437
+ Dest& dest(_dest.derived());
438
+ enum {
439
+ StorageOrderMatch = int(Dest::IsRowMajor) == int(MatrixType::IsRowMajor)
440
+ };
441
+
442
+ Index size = mat.rows();
443
+ VectorI count;
444
+ count.resize(size);
445
+ count.setZero();
446
+ dest.resize(size,size);
447
+ for(Index j = 0; j<size; ++j)
448
+ {
449
+ Index jp = perm ? perm[j] : j;
450
+ for(MatIterator it(matEval,j); it; ++it)
451
+ {
452
+ Index i = it.index();
453
+ Index r = it.row();
454
+ Index c = it.col();
455
+ Index ip = perm ? perm[i] : i;
456
+ if(Mode==(Upper|Lower))
457
+ count[StorageOrderMatch ? jp : ip]++;
458
+ else if(r==c)
459
+ count[ip]++;
460
+ else if(( Mode==Lower && r>c) || ( Mode==Upper && r<c))
461
+ {
462
+ count[ip]++;
463
+ count[jp]++;
464
+ }
465
+ }
466
+ }
467
+ Index nnz = count.sum();
468
+
469
+ // reserve space
470
+ dest.resizeNonZeros(nnz);
471
+ dest.outerIndexPtr()[0] = 0;
472
+ for(Index j=0; j<size; ++j)
473
+ dest.outerIndexPtr()[j+1] = dest.outerIndexPtr()[j] + count[j];
474
+ for(Index j=0; j<size; ++j)
475
+ count[j] = dest.outerIndexPtr()[j];
476
+
477
+ // copy data
478
+ for(StorageIndex j = 0; j<size; ++j)
479
+ {
480
+ for(MatIterator it(matEval,j); it; ++it)
481
+ {
482
+ StorageIndex i = internal::convert_index<StorageIndex>(it.index());
483
+ Index r = it.row();
484
+ Index c = it.col();
485
+
486
+ StorageIndex jp = perm ? perm[j] : j;
487
+ StorageIndex ip = perm ? perm[i] : i;
488
+
489
+ if(Mode==(Upper|Lower))
490
+ {
491
+ Index k = count[StorageOrderMatch ? jp : ip]++;
492
+ dest.innerIndexPtr()[k] = StorageOrderMatch ? ip : jp;
493
+ dest.valuePtr()[k] = it.value();
494
+ }
495
+ else if(r==c)
496
+ {
497
+ Index k = count[ip]++;
498
+ dest.innerIndexPtr()[k] = ip;
499
+ dest.valuePtr()[k] = it.value();
500
+ }
501
+ else if(( (Mode&Lower)==Lower && r>c) || ( (Mode&Upper)==Upper && r<c))
502
+ {
503
+ if(!StorageOrderMatch)
504
+ std::swap(ip,jp);
505
+ Index k = count[jp]++;
506
+ dest.innerIndexPtr()[k] = ip;
507
+ dest.valuePtr()[k] = it.value();
508
+ k = count[ip]++;
509
+ dest.innerIndexPtr()[k] = jp;
510
+ dest.valuePtr()[k] = numext::conj(it.value());
511
+ }
512
+ }
513
+ }
514
+ }
515
+
516
+ template<int _SrcMode,int _DstMode,typename MatrixType,int DstOrder>
517
+ void permute_symm_to_symm(const MatrixType& mat, SparseMatrix<typename MatrixType::Scalar,DstOrder,typename MatrixType::StorageIndex>& _dest, const typename MatrixType::StorageIndex* perm)
518
+ {
519
+ typedef typename MatrixType::StorageIndex StorageIndex;
520
+ typedef typename MatrixType::Scalar Scalar;
521
+ SparseMatrix<Scalar,DstOrder,StorageIndex>& dest(_dest.derived());
522
+ typedef Matrix<StorageIndex,Dynamic,1> VectorI;
523
+ typedef evaluator<MatrixType> MatEval;
524
+ typedef typename evaluator<MatrixType>::InnerIterator MatIterator;
525
+
526
+ enum {
527
+ SrcOrder = MatrixType::IsRowMajor ? RowMajor : ColMajor,
528
+ StorageOrderMatch = int(SrcOrder) == int(DstOrder),
529
+ DstMode = DstOrder==RowMajor ? (_DstMode==Upper ? Lower : Upper) : _DstMode,
530
+ SrcMode = SrcOrder==RowMajor ? (_SrcMode==Upper ? Lower : Upper) : _SrcMode
531
+ };
532
+
533
+ MatEval matEval(mat);
534
+
535
+ Index size = mat.rows();
536
+ VectorI count(size);
537
+ count.setZero();
538
+ dest.resize(size,size);
539
+ for(StorageIndex j = 0; j<size; ++j)
540
+ {
541
+ StorageIndex jp = perm ? perm[j] : j;
542
+ for(MatIterator it(matEval,j); it; ++it)
543
+ {
544
+ StorageIndex i = it.index();
545
+ if((int(SrcMode)==int(Lower) && i<j) || (int(SrcMode)==int(Upper) && i>j))
546
+ continue;
547
+
548
+ StorageIndex ip = perm ? perm[i] : i;
549
+ count[int(DstMode)==int(Lower) ? (std::min)(ip,jp) : (std::max)(ip,jp)]++;
550
+ }
551
+ }
552
+ dest.outerIndexPtr()[0] = 0;
553
+ for(Index j=0; j<size; ++j)
554
+ dest.outerIndexPtr()[j+1] = dest.outerIndexPtr()[j] + count[j];
555
+ dest.resizeNonZeros(dest.outerIndexPtr()[size]);
556
+ for(Index j=0; j<size; ++j)
557
+ count[j] = dest.outerIndexPtr()[j];
558
+
559
+ for(StorageIndex j = 0; j<size; ++j)
560
+ {
561
+
562
+ for(MatIterator it(matEval,j); it; ++it)
563
+ {
564
+ StorageIndex i = it.index();
565
+ if((int(SrcMode)==int(Lower) && i<j) || (int(SrcMode)==int(Upper) && i>j))
566
+ continue;
567
+
568
+ StorageIndex jp = perm ? perm[j] : j;
569
+ StorageIndex ip = perm? perm[i] : i;
570
+
571
+ Index k = count[int(DstMode)==int(Lower) ? (std::min)(ip,jp) : (std::max)(ip,jp)]++;
572
+ dest.innerIndexPtr()[k] = int(DstMode)==int(Lower) ? (std::max)(ip,jp) : (std::min)(ip,jp);
573
+
574
+ if(!StorageOrderMatch) std::swap(ip,jp);
575
+ if( ((int(DstMode)==int(Lower) && ip<jp) || (int(DstMode)==int(Upper) && ip>jp)))
576
+ dest.valuePtr()[k] = numext::conj(it.value());
577
+ else
578
+ dest.valuePtr()[k] = it.value();
579
+ }
580
+ }
581
+ }
582
+
583
+ }
584
+
585
+ // TODO implement twists in a more evaluator friendly fashion
586
+
587
+ namespace internal {
588
+
589
+ template<typename MatrixType, int Mode>
590
+ struct traits<SparseSymmetricPermutationProduct<MatrixType,Mode> > : traits<MatrixType> {
591
+ };
592
+
593
+ }
594
+
595
+ template<typename MatrixType,int Mode>
596
+ class SparseSymmetricPermutationProduct
597
+ : public EigenBase<SparseSymmetricPermutationProduct<MatrixType,Mode> >
598
+ {
599
+ public:
600
+ typedef typename MatrixType::Scalar Scalar;
601
+ typedef typename MatrixType::StorageIndex StorageIndex;
602
+ enum {
603
+ RowsAtCompileTime = internal::traits<SparseSymmetricPermutationProduct>::RowsAtCompileTime,
604
+ ColsAtCompileTime = internal::traits<SparseSymmetricPermutationProduct>::ColsAtCompileTime
605
+ };
606
+ protected:
607
+ typedef PermutationMatrix<Dynamic,Dynamic,StorageIndex> Perm;
608
+ public:
609
+ typedef Matrix<StorageIndex,Dynamic,1> VectorI;
610
+ typedef typename MatrixType::Nested MatrixTypeNested;
611
+ typedef typename internal::remove_all<MatrixTypeNested>::type NestedExpression;
612
+
613
+ SparseSymmetricPermutationProduct(const MatrixType& mat, const Perm& perm)
614
+ : m_matrix(mat), m_perm(perm)
615
+ {}
616
+
617
+ inline Index rows() const { return m_matrix.rows(); }
618
+ inline Index cols() const { return m_matrix.cols(); }
619
+
620
+ const NestedExpression& matrix() const { return m_matrix; }
621
+ const Perm& perm() const { return m_perm; }
622
+
623
+ protected:
624
+ MatrixTypeNested m_matrix;
625
+ const Perm& m_perm;
626
+
627
+ };
628
+
629
+ namespace internal {
630
+
631
+ template<typename DstXprType, typename MatrixType, int Mode, typename Scalar>
632
+ struct Assignment<DstXprType, SparseSymmetricPermutationProduct<MatrixType,Mode>, internal::assign_op<Scalar,typename MatrixType::Scalar>, Sparse2Sparse>
633
+ {
634
+ typedef SparseSymmetricPermutationProduct<MatrixType,Mode> SrcXprType;
635
+ typedef typename DstXprType::StorageIndex DstIndex;
636
+ template<int Options>
637
+ static void run(SparseMatrix<Scalar,Options,DstIndex> &dst, const SrcXprType &src, const internal::assign_op<Scalar,typename MatrixType::Scalar> &)
638
+ {
639
+ // internal::permute_symm_to_fullsymm<Mode>(m_matrix,_dest,m_perm.indices().data());
640
+ SparseMatrix<Scalar,(Options&RowMajor)==RowMajor ? ColMajor : RowMajor, DstIndex> tmp;
641
+ internal::permute_symm_to_fullsymm<Mode>(src.matrix(),tmp,src.perm().indices().data());
642
+ dst = tmp;
643
+ }
644
+
645
+ template<typename DestType,unsigned int DestMode>
646
+ static void run(SparseSelfAdjointView<DestType,DestMode>& dst, const SrcXprType &src, const internal::assign_op<Scalar,typename MatrixType::Scalar> &)
647
+ {
648
+ internal::permute_symm_to_symm<Mode,DestMode>(src.matrix(),dst.matrix(),src.perm().indices().data());
649
+ }
650
+ };
651
+
652
+ } // end namespace internal
653
+
654
+ } // end namespace Eigen
655
+
656
+ #endif // EIGEN_SPARSE_SELFADJOINTVIEW_H