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 +1,124 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 2014 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_SPARSESOLVERBASE_H
11
+ #define EIGEN_SPARSESOLVERBASE_H
12
+
13
+ namespace Eigen {
14
+
15
+ namespace internal {
16
+
17
+ /** \internal
18
+ * Helper functions to solve with a sparse right-hand-side and result.
19
+ * The rhs is decomposed into small vertical panels which are solved through dense temporaries.
20
+ */
21
+ template<typename Decomposition, typename Rhs, typename Dest>
22
+ typename enable_if<Rhs::ColsAtCompileTime!=1 && Dest::ColsAtCompileTime!=1>::type
23
+ solve_sparse_through_dense_panels(const Decomposition &dec, const Rhs& rhs, Dest &dest)
24
+ {
25
+ EIGEN_STATIC_ASSERT((Dest::Flags&RowMajorBit)==0,THIS_METHOD_IS_ONLY_FOR_COLUMN_MAJOR_MATRICES);
26
+ typedef typename Dest::Scalar DestScalar;
27
+ // we process the sparse rhs per block of NbColsAtOnce columns temporarily stored into a dense matrix.
28
+ static const Index NbColsAtOnce = 4;
29
+ Index rhsCols = rhs.cols();
30
+ Index size = rhs.rows();
31
+ // the temporary matrices do not need more columns than NbColsAtOnce:
32
+ Index tmpCols = (std::min)(rhsCols, NbColsAtOnce);
33
+ Eigen::Matrix<DestScalar,Dynamic,Dynamic> tmp(size,tmpCols);
34
+ Eigen::Matrix<DestScalar,Dynamic,Dynamic> tmpX(size,tmpCols);
35
+ for(Index k=0; k<rhsCols; k+=NbColsAtOnce)
36
+ {
37
+ Index actualCols = std::min<Index>(rhsCols-k, NbColsAtOnce);
38
+ tmp.leftCols(actualCols) = rhs.middleCols(k,actualCols);
39
+ tmpX.leftCols(actualCols) = dec.solve(tmp.leftCols(actualCols));
40
+ dest.middleCols(k,actualCols) = tmpX.leftCols(actualCols).sparseView();
41
+ }
42
+ }
43
+
44
+ // Overload for vector as rhs
45
+ template<typename Decomposition, typename Rhs, typename Dest>
46
+ typename enable_if<Rhs::ColsAtCompileTime==1 || Dest::ColsAtCompileTime==1>::type
47
+ solve_sparse_through_dense_panels(const Decomposition &dec, const Rhs& rhs, Dest &dest)
48
+ {
49
+ typedef typename Dest::Scalar DestScalar;
50
+ Index size = rhs.rows();
51
+ Eigen::Matrix<DestScalar,Dynamic,1> rhs_dense(rhs);
52
+ Eigen::Matrix<DestScalar,Dynamic,1> dest_dense(size);
53
+ dest_dense = dec.solve(rhs_dense);
54
+ dest = dest_dense.sparseView();
55
+ }
56
+
57
+ } // end namespace internal
58
+
59
+ /** \class SparseSolverBase
60
+ * \ingroup SparseCore_Module
61
+ * \brief A base class for sparse solvers
62
+ *
63
+ * \tparam Derived the actual type of the solver.
64
+ *
65
+ */
66
+ template<typename Derived>
67
+ class SparseSolverBase : internal::noncopyable
68
+ {
69
+ public:
70
+
71
+ /** Default constructor */
72
+ SparseSolverBase()
73
+ : m_isInitialized(false)
74
+ {}
75
+
76
+ ~SparseSolverBase()
77
+ {}
78
+
79
+ Derived& derived() { return *static_cast<Derived*>(this); }
80
+ const Derived& derived() const { return *static_cast<const Derived*>(this); }
81
+
82
+ /** \returns an expression of the solution x of \f$ A x = b \f$ using the current decomposition of A.
83
+ *
84
+ * \sa compute()
85
+ */
86
+ template<typename Rhs>
87
+ inline const Solve<Derived, Rhs>
88
+ solve(const MatrixBase<Rhs>& b) const
89
+ {
90
+ eigen_assert(m_isInitialized && "Solver is not initialized.");
91
+ eigen_assert(derived().rows()==b.rows() && "solve(): invalid number of rows of the right hand side matrix b");
92
+ return Solve<Derived, Rhs>(derived(), b.derived());
93
+ }
94
+
95
+ /** \returns an expression of the solution x of \f$ A x = b \f$ using the current decomposition of A.
96
+ *
97
+ * \sa compute()
98
+ */
99
+ template<typename Rhs>
100
+ inline const Solve<Derived, Rhs>
101
+ solve(const SparseMatrixBase<Rhs>& b) const
102
+ {
103
+ eigen_assert(m_isInitialized && "Solver is not initialized.");
104
+ eigen_assert(derived().rows()==b.rows() && "solve(): invalid number of rows of the right hand side matrix b");
105
+ return Solve<Derived, Rhs>(derived(), b.derived());
106
+ }
107
+
108
+ #ifndef EIGEN_PARSED_BY_DOXYGEN
109
+ /** \internal default implementation of solving with a sparse rhs */
110
+ template<typename Rhs,typename Dest>
111
+ void _solve_impl(const SparseMatrixBase<Rhs> &b, SparseMatrixBase<Dest> &dest) const
112
+ {
113
+ internal::solve_sparse_through_dense_panels(derived(), b.derived(), dest.derived());
114
+ }
115
+ #endif // EIGEN_PARSED_BY_DOXYGEN
116
+
117
+ protected:
118
+
119
+ mutable bool m_isInitialized;
120
+ };
121
+
122
+ } // end namespace Eigen
123
+
124
+ #endif // EIGEN_SPARSESOLVERBASE_H
@@ -0,0 +1,198 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 2008-2014 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_SPARSESPARSEPRODUCTWITHPRUNING_H
11
+ #define EIGEN_SPARSESPARSEPRODUCTWITHPRUNING_H
12
+
13
+ namespace Eigen {
14
+
15
+ namespace internal {
16
+
17
+
18
+ // perform a pseudo in-place sparse * sparse product assuming all matrices are col major
19
+ template<typename Lhs, typename Rhs, typename ResultType>
20
+ static void sparse_sparse_product_with_pruning_impl(const Lhs& lhs, const Rhs& rhs, ResultType& res, const typename ResultType::RealScalar& tolerance)
21
+ {
22
+ // return sparse_sparse_product_with_pruning_impl2(lhs,rhs,res);
23
+
24
+ typedef typename remove_all<Rhs>::type::Scalar RhsScalar;
25
+ typedef typename remove_all<ResultType>::type::Scalar ResScalar;
26
+ typedef typename remove_all<Lhs>::type::StorageIndex StorageIndex;
27
+
28
+ // make sure to call innerSize/outerSize since we fake the storage order.
29
+ Index rows = lhs.innerSize();
30
+ Index cols = rhs.outerSize();
31
+ //Index size = lhs.outerSize();
32
+ eigen_assert(lhs.outerSize() == rhs.innerSize());
33
+
34
+ // allocate a temporary buffer
35
+ AmbiVector<ResScalar,StorageIndex> tempVector(rows);
36
+
37
+ // mimics a resizeByInnerOuter:
38
+ if(ResultType::IsRowMajor)
39
+ res.resize(cols, rows);
40
+ else
41
+ res.resize(rows, cols);
42
+
43
+ evaluator<Lhs> lhsEval(lhs);
44
+ evaluator<Rhs> rhsEval(rhs);
45
+
46
+ // estimate the number of non zero entries
47
+ // given a rhs column containing Y non zeros, we assume that the respective Y columns
48
+ // of the lhs differs in average of one non zeros, thus the number of non zeros for
49
+ // the product of a rhs column with the lhs is X+Y where X is the average number of non zero
50
+ // per column of the lhs.
51
+ // Therefore, we have nnz(lhs*rhs) = nnz(lhs) + nnz(rhs)
52
+ Index estimated_nnz_prod = lhsEval.nonZerosEstimate() + rhsEval.nonZerosEstimate();
53
+
54
+ res.reserve(estimated_nnz_prod);
55
+ double ratioColRes = double(estimated_nnz_prod)/(double(lhs.rows())*double(rhs.cols()));
56
+ for (Index j=0; j<cols; ++j)
57
+ {
58
+ // FIXME:
59
+ //double ratioColRes = (double(rhs.innerVector(j).nonZeros()) + double(lhs.nonZeros())/double(lhs.cols()))/double(lhs.rows());
60
+ // let's do a more accurate determination of the nnz ratio for the current column j of res
61
+ tempVector.init(ratioColRes);
62
+ tempVector.setZero();
63
+ for (typename evaluator<Rhs>::InnerIterator rhsIt(rhsEval, j); rhsIt; ++rhsIt)
64
+ {
65
+ // FIXME should be written like this: tmp += rhsIt.value() * lhs.col(rhsIt.index())
66
+ tempVector.restart();
67
+ RhsScalar x = rhsIt.value();
68
+ for (typename evaluator<Lhs>::InnerIterator lhsIt(lhsEval, rhsIt.index()); lhsIt; ++lhsIt)
69
+ {
70
+ tempVector.coeffRef(lhsIt.index()) += lhsIt.value() * x;
71
+ }
72
+ }
73
+ res.startVec(j);
74
+ for (typename AmbiVector<ResScalar,StorageIndex>::Iterator it(tempVector,tolerance); it; ++it)
75
+ res.insertBackByOuterInner(j,it.index()) = it.value();
76
+ }
77
+ res.finalize();
78
+ }
79
+
80
+ template<typename Lhs, typename Rhs, typename ResultType,
81
+ int LhsStorageOrder = traits<Lhs>::Flags&RowMajorBit,
82
+ int RhsStorageOrder = traits<Rhs>::Flags&RowMajorBit,
83
+ int ResStorageOrder = traits<ResultType>::Flags&RowMajorBit>
84
+ struct sparse_sparse_product_with_pruning_selector;
85
+
86
+ template<typename Lhs, typename Rhs, typename ResultType>
87
+ struct sparse_sparse_product_with_pruning_selector<Lhs,Rhs,ResultType,ColMajor,ColMajor,ColMajor>
88
+ {
89
+ typedef typename ResultType::RealScalar RealScalar;
90
+
91
+ static void run(const Lhs& lhs, const Rhs& rhs, ResultType& res, const RealScalar& tolerance)
92
+ {
93
+ typename remove_all<ResultType>::type _res(res.rows(), res.cols());
94
+ internal::sparse_sparse_product_with_pruning_impl<Lhs,Rhs,ResultType>(lhs, rhs, _res, tolerance);
95
+ res.swap(_res);
96
+ }
97
+ };
98
+
99
+ template<typename Lhs, typename Rhs, typename ResultType>
100
+ struct sparse_sparse_product_with_pruning_selector<Lhs,Rhs,ResultType,ColMajor,ColMajor,RowMajor>
101
+ {
102
+ typedef typename ResultType::RealScalar RealScalar;
103
+ static void run(const Lhs& lhs, const Rhs& rhs, ResultType& res, const RealScalar& tolerance)
104
+ {
105
+ // we need a col-major matrix to hold the result
106
+ typedef SparseMatrix<typename ResultType::Scalar,ColMajor,typename ResultType::StorageIndex> SparseTemporaryType;
107
+ SparseTemporaryType _res(res.rows(), res.cols());
108
+ internal::sparse_sparse_product_with_pruning_impl<Lhs,Rhs,SparseTemporaryType>(lhs, rhs, _res, tolerance);
109
+ res = _res;
110
+ }
111
+ };
112
+
113
+ template<typename Lhs, typename Rhs, typename ResultType>
114
+ struct sparse_sparse_product_with_pruning_selector<Lhs,Rhs,ResultType,RowMajor,RowMajor,RowMajor>
115
+ {
116
+ typedef typename ResultType::RealScalar RealScalar;
117
+ static void run(const Lhs& lhs, const Rhs& rhs, ResultType& res, const RealScalar& tolerance)
118
+ {
119
+ // let's transpose the product to get a column x column product
120
+ typename remove_all<ResultType>::type _res(res.rows(), res.cols());
121
+ internal::sparse_sparse_product_with_pruning_impl<Rhs,Lhs,ResultType>(rhs, lhs, _res, tolerance);
122
+ res.swap(_res);
123
+ }
124
+ };
125
+
126
+ template<typename Lhs, typename Rhs, typename ResultType>
127
+ struct sparse_sparse_product_with_pruning_selector<Lhs,Rhs,ResultType,RowMajor,RowMajor,ColMajor>
128
+ {
129
+ typedef typename ResultType::RealScalar RealScalar;
130
+ static void run(const Lhs& lhs, const Rhs& rhs, ResultType& res, const RealScalar& tolerance)
131
+ {
132
+ typedef SparseMatrix<typename Lhs::Scalar,ColMajor,typename Lhs::StorageIndex> ColMajorMatrixLhs;
133
+ typedef SparseMatrix<typename Rhs::Scalar,ColMajor,typename Lhs::StorageIndex> ColMajorMatrixRhs;
134
+ ColMajorMatrixLhs colLhs(lhs);
135
+ ColMajorMatrixRhs colRhs(rhs);
136
+ internal::sparse_sparse_product_with_pruning_impl<ColMajorMatrixLhs,ColMajorMatrixRhs,ResultType>(colLhs, colRhs, res, tolerance);
137
+
138
+ // let's transpose the product to get a column x column product
139
+ // typedef SparseMatrix<typename ResultType::Scalar> SparseTemporaryType;
140
+ // SparseTemporaryType _res(res.cols(), res.rows());
141
+ // sparse_sparse_product_with_pruning_impl<Rhs,Lhs,SparseTemporaryType>(rhs, lhs, _res);
142
+ // res = _res.transpose();
143
+ }
144
+ };
145
+
146
+ template<typename Lhs, typename Rhs, typename ResultType>
147
+ struct sparse_sparse_product_with_pruning_selector<Lhs,Rhs,ResultType,ColMajor,RowMajor,RowMajor>
148
+ {
149
+ typedef typename ResultType::RealScalar RealScalar;
150
+ static void run(const Lhs& lhs, const Rhs& rhs, ResultType& res, const RealScalar& tolerance)
151
+ {
152
+ typedef SparseMatrix<typename Lhs::Scalar,RowMajor,typename Lhs::StorageIndex> RowMajorMatrixLhs;
153
+ RowMajorMatrixLhs rowLhs(lhs);
154
+ sparse_sparse_product_with_pruning_selector<RowMajorMatrixLhs,Rhs,ResultType,RowMajor,RowMajor>(rowLhs,rhs,res,tolerance);
155
+ }
156
+ };
157
+
158
+ template<typename Lhs, typename Rhs, typename ResultType>
159
+ struct sparse_sparse_product_with_pruning_selector<Lhs,Rhs,ResultType,RowMajor,ColMajor,RowMajor>
160
+ {
161
+ typedef typename ResultType::RealScalar RealScalar;
162
+ static void run(const Lhs& lhs, const Rhs& rhs, ResultType& res, const RealScalar& tolerance)
163
+ {
164
+ typedef SparseMatrix<typename Rhs::Scalar,RowMajor,typename Lhs::StorageIndex> RowMajorMatrixRhs;
165
+ RowMajorMatrixRhs rowRhs(rhs);
166
+ sparse_sparse_product_with_pruning_selector<Lhs,RowMajorMatrixRhs,ResultType,RowMajor,RowMajor,RowMajor>(lhs,rowRhs,res,tolerance);
167
+ }
168
+ };
169
+
170
+ template<typename Lhs, typename Rhs, typename ResultType>
171
+ struct sparse_sparse_product_with_pruning_selector<Lhs,Rhs,ResultType,ColMajor,RowMajor,ColMajor>
172
+ {
173
+ typedef typename ResultType::RealScalar RealScalar;
174
+ static void run(const Lhs& lhs, const Rhs& rhs, ResultType& res, const RealScalar& tolerance)
175
+ {
176
+ typedef SparseMatrix<typename Rhs::Scalar,ColMajor,typename Lhs::StorageIndex> ColMajorMatrixRhs;
177
+ ColMajorMatrixRhs colRhs(rhs);
178
+ internal::sparse_sparse_product_with_pruning_impl<Lhs,ColMajorMatrixRhs,ResultType>(lhs, colRhs, res, tolerance);
179
+ }
180
+ };
181
+
182
+ template<typename Lhs, typename Rhs, typename ResultType>
183
+ struct sparse_sparse_product_with_pruning_selector<Lhs,Rhs,ResultType,RowMajor,ColMajor,ColMajor>
184
+ {
185
+ typedef typename ResultType::RealScalar RealScalar;
186
+ static void run(const Lhs& lhs, const Rhs& rhs, ResultType& res, const RealScalar& tolerance)
187
+ {
188
+ typedef SparseMatrix<typename Lhs::Scalar,ColMajor,typename Lhs::StorageIndex> ColMajorMatrixLhs;
189
+ ColMajorMatrixLhs colLhs(lhs);
190
+ internal::sparse_sparse_product_with_pruning_impl<ColMajorMatrixLhs,Rhs,ResultType>(colLhs, rhs, res, tolerance);
191
+ }
192
+ };
193
+
194
+ } // end namespace internal
195
+
196
+ } // end namespace Eigen
197
+
198
+ #endif // EIGEN_SPARSESPARSEPRODUCTWITHPRUNING_H
@@ -0,0 +1,92 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 2008-2015 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_SPARSETRANSPOSE_H
11
+ #define EIGEN_SPARSETRANSPOSE_H
12
+
13
+ namespace Eigen {
14
+
15
+ namespace internal {
16
+ template<typename MatrixType,int CompressedAccess=int(MatrixType::Flags&CompressedAccessBit)>
17
+ class SparseTransposeImpl
18
+ : public SparseMatrixBase<Transpose<MatrixType> >
19
+ {};
20
+
21
+ template<typename MatrixType>
22
+ class SparseTransposeImpl<MatrixType,CompressedAccessBit>
23
+ : public SparseCompressedBase<Transpose<MatrixType> >
24
+ {
25
+ typedef SparseCompressedBase<Transpose<MatrixType> > Base;
26
+ public:
27
+ using Base::derived;
28
+ typedef typename Base::Scalar Scalar;
29
+ typedef typename Base::StorageIndex StorageIndex;
30
+
31
+ inline Index nonZeros() const { return derived().nestedExpression().nonZeros(); }
32
+
33
+ inline const Scalar* valuePtr() const { return derived().nestedExpression().valuePtr(); }
34
+ inline const StorageIndex* innerIndexPtr() const { return derived().nestedExpression().innerIndexPtr(); }
35
+ inline const StorageIndex* outerIndexPtr() const { return derived().nestedExpression().outerIndexPtr(); }
36
+ inline const StorageIndex* innerNonZeroPtr() const { return derived().nestedExpression().innerNonZeroPtr(); }
37
+
38
+ inline Scalar* valuePtr() { return derived().nestedExpression().valuePtr(); }
39
+ inline StorageIndex* innerIndexPtr() { return derived().nestedExpression().innerIndexPtr(); }
40
+ inline StorageIndex* outerIndexPtr() { return derived().nestedExpression().outerIndexPtr(); }
41
+ inline StorageIndex* innerNonZeroPtr() { return derived().nestedExpression().innerNonZeroPtr(); }
42
+ };
43
+ }
44
+
45
+ template<typename MatrixType> class TransposeImpl<MatrixType,Sparse>
46
+ : public internal::SparseTransposeImpl<MatrixType>
47
+ {
48
+ protected:
49
+ typedef internal::SparseTransposeImpl<MatrixType> Base;
50
+ };
51
+
52
+ namespace internal {
53
+
54
+ template<typename ArgType>
55
+ struct unary_evaluator<Transpose<ArgType>, IteratorBased>
56
+ : public evaluator_base<Transpose<ArgType> >
57
+ {
58
+ typedef typename evaluator<ArgType>::InnerIterator EvalIterator;
59
+ public:
60
+ typedef Transpose<ArgType> XprType;
61
+
62
+ inline Index nonZerosEstimate() const {
63
+ return m_argImpl.nonZerosEstimate();
64
+ }
65
+
66
+ class InnerIterator : public EvalIterator
67
+ {
68
+ public:
69
+ EIGEN_STRONG_INLINE InnerIterator(const unary_evaluator& unaryOp, Index outer)
70
+ : EvalIterator(unaryOp.m_argImpl,outer)
71
+ {}
72
+
73
+ Index row() const { return EvalIterator::col(); }
74
+ Index col() const { return EvalIterator::row(); }
75
+ };
76
+
77
+ enum {
78
+ CoeffReadCost = evaluator<ArgType>::CoeffReadCost,
79
+ Flags = XprType::Flags
80
+ };
81
+
82
+ explicit unary_evaluator(const XprType& op) :m_argImpl(op.nestedExpression()) {}
83
+
84
+ protected:
85
+ evaluator<ArgType> m_argImpl;
86
+ };
87
+
88
+ } // end namespace internal
89
+
90
+ } // end namespace Eigen
91
+
92
+ #endif // EIGEN_SPARSETRANSPOSE_H
@@ -0,0 +1,189 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 2009-2015 Gael Guennebaud <gael.guennebaud@inria.fr>
5
+ // Copyright (C) 2012 Désiré Nuentsa-Wakam <desire.nuentsa_wakam@inria.fr>
6
+ //
7
+ // This Source Code Form is subject to the terms of the Mozilla
8
+ // Public License v. 2.0. If a copy of the MPL was not distributed
9
+ // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
10
+
11
+ #ifndef EIGEN_SPARSE_TRIANGULARVIEW_H
12
+ #define EIGEN_SPARSE_TRIANGULARVIEW_H
13
+
14
+ namespace Eigen {
15
+
16
+ /** \ingroup SparseCore_Module
17
+ *
18
+ * \brief Base class for a triangular part in a \b sparse matrix
19
+ *
20
+ * This class is an abstract base class of class TriangularView, and objects of type TriangularViewImpl cannot be instantiated.
21
+ * It extends class TriangularView with additional methods which are available for sparse expressions only.
22
+ *
23
+ * \sa class TriangularView, SparseMatrixBase::triangularView()
24
+ */
25
+ template<typename MatrixType, unsigned int Mode> class TriangularViewImpl<MatrixType,Mode,Sparse>
26
+ : public SparseMatrixBase<TriangularView<MatrixType,Mode> >
27
+ {
28
+ enum { SkipFirst = ((Mode&Lower) && !(MatrixType::Flags&RowMajorBit))
29
+ || ((Mode&Upper) && (MatrixType::Flags&RowMajorBit)),
30
+ SkipLast = !SkipFirst,
31
+ SkipDiag = (Mode&ZeroDiag) ? 1 : 0,
32
+ HasUnitDiag = (Mode&UnitDiag) ? 1 : 0
33
+ };
34
+
35
+ typedef TriangularView<MatrixType,Mode> TriangularViewType;
36
+
37
+ protected:
38
+ // dummy solve function to make TriangularView happy.
39
+ void solve() const;
40
+
41
+ typedef SparseMatrixBase<TriangularViewType> Base;
42
+ public:
43
+
44
+ EIGEN_SPARSE_PUBLIC_INTERFACE(TriangularViewType)
45
+
46
+ typedef typename MatrixType::Nested MatrixTypeNested;
47
+ typedef typename internal::remove_reference<MatrixTypeNested>::type MatrixTypeNestedNonRef;
48
+ typedef typename internal::remove_all<MatrixTypeNested>::type MatrixTypeNestedCleaned;
49
+
50
+ template<typename RhsType, typename DstType>
51
+ EIGEN_DEVICE_FUNC
52
+ EIGEN_STRONG_INLINE void _solve_impl(const RhsType &rhs, DstType &dst) const {
53
+ if(!(internal::is_same<RhsType,DstType>::value && internal::extract_data(dst) == internal::extract_data(rhs)))
54
+ dst = rhs;
55
+ this->solveInPlace(dst);
56
+ }
57
+
58
+ /** Applies the inverse of \c *this to the dense vector or matrix \a other, "in-place" */
59
+ template<typename OtherDerived> void solveInPlace(MatrixBase<OtherDerived>& other) const;
60
+
61
+ /** Applies the inverse of \c *this to the sparse vector or matrix \a other, "in-place" */
62
+ template<typename OtherDerived> void solveInPlace(SparseMatrixBase<OtherDerived>& other) const;
63
+
64
+ };
65
+
66
+ namespace internal {
67
+
68
+ template<typename ArgType, unsigned int Mode>
69
+ struct unary_evaluator<TriangularView<ArgType,Mode>, IteratorBased>
70
+ : evaluator_base<TriangularView<ArgType,Mode> >
71
+ {
72
+ typedef TriangularView<ArgType,Mode> XprType;
73
+
74
+ protected:
75
+
76
+ typedef typename XprType::Scalar Scalar;
77
+ typedef typename XprType::StorageIndex StorageIndex;
78
+ typedef typename evaluator<ArgType>::InnerIterator EvalIterator;
79
+
80
+ enum { SkipFirst = ((Mode&Lower) && !(ArgType::Flags&RowMajorBit))
81
+ || ((Mode&Upper) && (ArgType::Flags&RowMajorBit)),
82
+ SkipLast = !SkipFirst,
83
+ SkipDiag = (Mode&ZeroDiag) ? 1 : 0,
84
+ HasUnitDiag = (Mode&UnitDiag) ? 1 : 0
85
+ };
86
+
87
+ public:
88
+
89
+ enum {
90
+ CoeffReadCost = evaluator<ArgType>::CoeffReadCost,
91
+ Flags = XprType::Flags
92
+ };
93
+
94
+ explicit unary_evaluator(const XprType &xpr) : m_argImpl(xpr.nestedExpression()), m_arg(xpr.nestedExpression()) {}
95
+
96
+ inline Index nonZerosEstimate() const {
97
+ return m_argImpl.nonZerosEstimate();
98
+ }
99
+
100
+ class InnerIterator : public EvalIterator
101
+ {
102
+ typedef EvalIterator Base;
103
+ public:
104
+
105
+ EIGEN_STRONG_INLINE InnerIterator(const unary_evaluator& xprEval, Index outer)
106
+ : Base(xprEval.m_argImpl,outer), m_returnOne(false), m_containsDiag(Base::outer()<xprEval.m_arg.innerSize())
107
+ {
108
+ if(SkipFirst)
109
+ {
110
+ while((*this) && ((HasUnitDiag||SkipDiag) ? this->index()<=outer : this->index()<outer))
111
+ Base::operator++();
112
+ if(HasUnitDiag)
113
+ m_returnOne = m_containsDiag;
114
+ }
115
+ else if(HasUnitDiag && ((!Base::operator bool()) || Base::index()>=Base::outer()))
116
+ {
117
+ if((!SkipFirst) && Base::operator bool())
118
+ Base::operator++();
119
+ m_returnOne = m_containsDiag;
120
+ }
121
+ }
122
+
123
+ EIGEN_STRONG_INLINE InnerIterator& operator++()
124
+ {
125
+ if(HasUnitDiag && m_returnOne)
126
+ m_returnOne = false;
127
+ else
128
+ {
129
+ Base::operator++();
130
+ if(HasUnitDiag && (!SkipFirst) && ((!Base::operator bool()) || Base::index()>=Base::outer()))
131
+ {
132
+ if((!SkipFirst) && Base::operator bool())
133
+ Base::operator++();
134
+ m_returnOne = m_containsDiag;
135
+ }
136
+ }
137
+ return *this;
138
+ }
139
+
140
+ EIGEN_STRONG_INLINE operator bool() const
141
+ {
142
+ if(HasUnitDiag && m_returnOne)
143
+ return true;
144
+ if(SkipFirst) return Base::operator bool();
145
+ else
146
+ {
147
+ if (SkipDiag) return (Base::operator bool() && this->index() < this->outer());
148
+ else return (Base::operator bool() && this->index() <= this->outer());
149
+ }
150
+ }
151
+
152
+ // inline Index row() const { return (ArgType::Flags&RowMajorBit ? Base::outer() : this->index()); }
153
+ // inline Index col() const { return (ArgType::Flags&RowMajorBit ? this->index() : Base::outer()); }
154
+ inline StorageIndex index() const
155
+ {
156
+ if(HasUnitDiag && m_returnOne) return internal::convert_index<StorageIndex>(Base::outer());
157
+ else return Base::index();
158
+ }
159
+ inline Scalar value() const
160
+ {
161
+ if(HasUnitDiag && m_returnOne) return Scalar(1);
162
+ else return Base::value();
163
+ }
164
+
165
+ protected:
166
+ bool m_returnOne;
167
+ bool m_containsDiag;
168
+ private:
169
+ Scalar& valueRef();
170
+ };
171
+
172
+ protected:
173
+ evaluator<ArgType> m_argImpl;
174
+ const ArgType& m_arg;
175
+ };
176
+
177
+ } // end namespace internal
178
+
179
+ template<typename Derived>
180
+ template<int Mode>
181
+ inline const TriangularView<const Derived, Mode>
182
+ SparseMatrixBase<Derived>::triangularView() const
183
+ {
184
+ return TriangularView<const Derived, Mode>(derived());
185
+ }
186
+
187
+ } // end namespace Eigen
188
+
189
+ #endif // EIGEN_SPARSE_TRIANGULARVIEW_H