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 +1,169 @@
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_SPARSEPRODUCT_H
11
+ #define EIGEN_SPARSEPRODUCT_H
12
+
13
+ namespace Eigen {
14
+
15
+ /** \returns an expression of the product of two sparse matrices.
16
+ * By default a conservative product preserving the symbolic non zeros is performed.
17
+ * The automatic pruning of the small values can be achieved by calling the pruned() function
18
+ * in which case a totally different product algorithm is employed:
19
+ * \code
20
+ * C = (A*B).pruned(); // supress numerical zeros (exact)
21
+ * C = (A*B).pruned(ref);
22
+ * C = (A*B).pruned(ref,epsilon);
23
+ * \endcode
24
+ * where \c ref is a meaningful non zero reference value.
25
+ * */
26
+ template<typename Derived>
27
+ template<typename OtherDerived>
28
+ inline const Product<Derived,OtherDerived,AliasFreeProduct>
29
+ SparseMatrixBase<Derived>::operator*(const SparseMatrixBase<OtherDerived> &other) const
30
+ {
31
+ return Product<Derived,OtherDerived,AliasFreeProduct>(derived(), other.derived());
32
+ }
33
+
34
+ namespace internal {
35
+
36
+ // sparse * sparse
37
+ template<typename Lhs, typename Rhs, int ProductType>
38
+ struct generic_product_impl<Lhs, Rhs, SparseShape, SparseShape, ProductType>
39
+ {
40
+ template<typename Dest>
41
+ static void evalTo(Dest& dst, const Lhs& lhs, const Rhs& rhs)
42
+ {
43
+ evalTo(dst, lhs, rhs, typename evaluator_traits<Dest>::Shape());
44
+ }
45
+
46
+ // dense += sparse * sparse
47
+ template<typename Dest,typename ActualLhs>
48
+ static void addTo(Dest& dst, const ActualLhs& lhs, const Rhs& rhs, typename enable_if<is_same<typename evaluator_traits<Dest>::Shape,DenseShape>::value,int*>::type* = 0)
49
+ {
50
+ typedef typename nested_eval<ActualLhs,Dynamic>::type LhsNested;
51
+ typedef typename nested_eval<Rhs,Dynamic>::type RhsNested;
52
+ LhsNested lhsNested(lhs);
53
+ RhsNested rhsNested(rhs);
54
+ internal::sparse_sparse_to_dense_product_selector<typename remove_all<LhsNested>::type,
55
+ typename remove_all<RhsNested>::type, Dest>::run(lhsNested,rhsNested,dst);
56
+ }
57
+
58
+ // dense -= sparse * sparse
59
+ template<typename Dest>
60
+ static void subTo(Dest& dst, const Lhs& lhs, const Rhs& rhs, typename enable_if<is_same<typename evaluator_traits<Dest>::Shape,DenseShape>::value,int*>::type* = 0)
61
+ {
62
+ addTo(dst, -lhs, rhs);
63
+ }
64
+
65
+ protected:
66
+
67
+ // sparse = sparse * sparse
68
+ template<typename Dest>
69
+ static void evalTo(Dest& dst, const Lhs& lhs, const Rhs& rhs, SparseShape)
70
+ {
71
+ typedef typename nested_eval<Lhs,Dynamic>::type LhsNested;
72
+ typedef typename nested_eval<Rhs,Dynamic>::type RhsNested;
73
+ LhsNested lhsNested(lhs);
74
+ RhsNested rhsNested(rhs);
75
+ internal::conservative_sparse_sparse_product_selector<typename remove_all<LhsNested>::type,
76
+ typename remove_all<RhsNested>::type, Dest>::run(lhsNested,rhsNested,dst);
77
+ }
78
+
79
+ // dense = sparse * sparse
80
+ template<typename Dest>
81
+ static void evalTo(Dest& dst, const Lhs& lhs, const Rhs& rhs, DenseShape)
82
+ {
83
+ dst.setZero();
84
+ addTo(dst, lhs, rhs);
85
+ }
86
+ };
87
+
88
+ // sparse * sparse-triangular
89
+ template<typename Lhs, typename Rhs, int ProductType>
90
+ struct generic_product_impl<Lhs, Rhs, SparseShape, SparseTriangularShape, ProductType>
91
+ : public generic_product_impl<Lhs, Rhs, SparseShape, SparseShape, ProductType>
92
+ {};
93
+
94
+ // sparse-triangular * sparse
95
+ template<typename Lhs, typename Rhs, int ProductType>
96
+ struct generic_product_impl<Lhs, Rhs, SparseTriangularShape, SparseShape, ProductType>
97
+ : public generic_product_impl<Lhs, Rhs, SparseShape, SparseShape, ProductType>
98
+ {};
99
+
100
+ // dense = sparse-product (can be sparse*sparse, sparse*perm, etc.)
101
+ template< typename DstXprType, typename Lhs, typename Rhs>
102
+ struct Assignment<DstXprType, Product<Lhs,Rhs,AliasFreeProduct>, internal::assign_op<typename DstXprType::Scalar,typename Product<Lhs,Rhs,AliasFreeProduct>::Scalar>, Sparse2Dense>
103
+ {
104
+ typedef Product<Lhs,Rhs,AliasFreeProduct> SrcXprType;
105
+ static void run(DstXprType &dst, const SrcXprType &src, const internal::assign_op<typename DstXprType::Scalar,typename SrcXprType::Scalar> &)
106
+ {
107
+ Index dstRows = src.rows();
108
+ Index dstCols = src.cols();
109
+ if((dst.rows()!=dstRows) || (dst.cols()!=dstCols))
110
+ dst.resize(dstRows, dstCols);
111
+
112
+ generic_product_impl<Lhs, Rhs>::evalTo(dst,src.lhs(),src.rhs());
113
+ }
114
+ };
115
+
116
+ // dense += sparse-product (can be sparse*sparse, sparse*perm, etc.)
117
+ template< typename DstXprType, typename Lhs, typename Rhs>
118
+ struct Assignment<DstXprType, Product<Lhs,Rhs,AliasFreeProduct>, internal::add_assign_op<typename DstXprType::Scalar,typename Product<Lhs,Rhs,AliasFreeProduct>::Scalar>, Sparse2Dense>
119
+ {
120
+ typedef Product<Lhs,Rhs,AliasFreeProduct> SrcXprType;
121
+ static void run(DstXprType &dst, const SrcXprType &src, const internal::add_assign_op<typename DstXprType::Scalar,typename SrcXprType::Scalar> &)
122
+ {
123
+ generic_product_impl<Lhs, Rhs>::addTo(dst,src.lhs(),src.rhs());
124
+ }
125
+ };
126
+
127
+ // dense -= sparse-product (can be sparse*sparse, sparse*perm, etc.)
128
+ template< typename DstXprType, typename Lhs, typename Rhs>
129
+ struct Assignment<DstXprType, Product<Lhs,Rhs,AliasFreeProduct>, internal::sub_assign_op<typename DstXprType::Scalar,typename Product<Lhs,Rhs,AliasFreeProduct>::Scalar>, Sparse2Dense>
130
+ {
131
+ typedef Product<Lhs,Rhs,AliasFreeProduct> SrcXprType;
132
+ static void run(DstXprType &dst, const SrcXprType &src, const internal::sub_assign_op<typename DstXprType::Scalar,typename SrcXprType::Scalar> &)
133
+ {
134
+ generic_product_impl<Lhs, Rhs>::subTo(dst,src.lhs(),src.rhs());
135
+ }
136
+ };
137
+
138
+ template<typename Lhs, typename Rhs, int Options>
139
+ struct unary_evaluator<SparseView<Product<Lhs, Rhs, Options> >, IteratorBased>
140
+ : public evaluator<typename Product<Lhs, Rhs, DefaultProduct>::PlainObject>
141
+ {
142
+ typedef SparseView<Product<Lhs, Rhs, Options> > XprType;
143
+ typedef typename XprType::PlainObject PlainObject;
144
+ typedef evaluator<PlainObject> Base;
145
+
146
+ explicit unary_evaluator(const XprType& xpr)
147
+ : m_result(xpr.rows(), xpr.cols())
148
+ {
149
+ using std::abs;
150
+ ::new (static_cast<Base*>(this)) Base(m_result);
151
+ typedef typename nested_eval<Lhs,Dynamic>::type LhsNested;
152
+ typedef typename nested_eval<Rhs,Dynamic>::type RhsNested;
153
+ LhsNested lhsNested(xpr.nestedExpression().lhs());
154
+ RhsNested rhsNested(xpr.nestedExpression().rhs());
155
+
156
+ internal::sparse_sparse_product_with_pruning_selector<typename remove_all<LhsNested>::type,
157
+ typename remove_all<RhsNested>::type, PlainObject>::run(lhsNested,rhsNested,m_result,
158
+ abs(xpr.reference())*xpr.epsilon());
159
+ }
160
+
161
+ protected:
162
+ PlainObject m_result;
163
+ };
164
+
165
+ } // end namespace internal
166
+
167
+ } // end namespace Eigen
168
+
169
+ #endif // EIGEN_SPARSEPRODUCT_H
@@ -0,0 +1,49 @@
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_SPARSEREDUX_H
11
+ #define EIGEN_SPARSEREDUX_H
12
+
13
+ namespace Eigen {
14
+
15
+ template<typename Derived>
16
+ typename internal::traits<Derived>::Scalar
17
+ SparseMatrixBase<Derived>::sum() const
18
+ {
19
+ eigen_assert(rows()>0 && cols()>0 && "you are using a non initialized matrix");
20
+ Scalar res(0);
21
+ internal::evaluator<Derived> thisEval(derived());
22
+ for (Index j=0; j<outerSize(); ++j)
23
+ for (typename internal::evaluator<Derived>::InnerIterator iter(thisEval,j); iter; ++iter)
24
+ res += iter.value();
25
+ return res;
26
+ }
27
+
28
+ template<typename _Scalar, int _Options, typename _Index>
29
+ typename internal::traits<SparseMatrix<_Scalar,_Options,_Index> >::Scalar
30
+ SparseMatrix<_Scalar,_Options,_Index>::sum() const
31
+ {
32
+ eigen_assert(rows()>0 && cols()>0 && "you are using a non initialized matrix");
33
+ if(this->isCompressed())
34
+ return Matrix<Scalar,1,Dynamic>::Map(m_data.valuePtr(), m_data.size()).sum();
35
+ else
36
+ return Base::sum();
37
+ }
38
+
39
+ template<typename _Scalar, int _Options, typename _Index>
40
+ typename internal::traits<SparseVector<_Scalar,_Options, _Index> >::Scalar
41
+ SparseVector<_Scalar,_Options,_Index>::sum() const
42
+ {
43
+ eigen_assert(rows()>0 && cols()>0 && "you are using a non initialized matrix");
44
+ return Matrix<Scalar,1,Dynamic>::Map(m_data.valuePtr(), m_data.size()).sum();
45
+ }
46
+
47
+ } // end namespace Eigen
48
+
49
+ #endif // EIGEN_SPARSEREDUX_H
@@ -0,0 +1,397 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 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_SPARSE_REF_H
11
+ #define EIGEN_SPARSE_REF_H
12
+
13
+ namespace Eigen {
14
+
15
+ enum {
16
+ StandardCompressedFormat = 2 /**< used by Ref<SparseMatrix> to specify whether the input storage must be in standard compressed form */
17
+ };
18
+
19
+ namespace internal {
20
+
21
+ template<typename Derived> class SparseRefBase;
22
+
23
+ template<typename MatScalar, int MatOptions, typename MatIndex, int _Options, typename _StrideType>
24
+ struct traits<Ref<SparseMatrix<MatScalar,MatOptions,MatIndex>, _Options, _StrideType> >
25
+ : public traits<SparseMatrix<MatScalar,MatOptions,MatIndex> >
26
+ {
27
+ typedef SparseMatrix<MatScalar,MatOptions,MatIndex> PlainObjectType;
28
+ enum {
29
+ Options = _Options,
30
+ Flags = traits<PlainObjectType>::Flags | CompressedAccessBit | NestByRefBit
31
+ };
32
+
33
+ template<typename Derived> struct match {
34
+ enum {
35
+ StorageOrderMatch = PlainObjectType::IsVectorAtCompileTime || Derived::IsVectorAtCompileTime || ((PlainObjectType::Flags&RowMajorBit)==(Derived::Flags&RowMajorBit)),
36
+ MatchAtCompileTime = (Derived::Flags&CompressedAccessBit) && StorageOrderMatch
37
+ };
38
+ typedef typename internal::conditional<MatchAtCompileTime,internal::true_type,internal::false_type>::type type;
39
+ };
40
+
41
+ };
42
+
43
+ template<typename MatScalar, int MatOptions, typename MatIndex, int _Options, typename _StrideType>
44
+ struct traits<Ref<const SparseMatrix<MatScalar,MatOptions,MatIndex>, _Options, _StrideType> >
45
+ : public traits<Ref<SparseMatrix<MatScalar,MatOptions,MatIndex>, _Options, _StrideType> >
46
+ {
47
+ enum {
48
+ Flags = (traits<SparseMatrix<MatScalar,MatOptions,MatIndex> >::Flags | CompressedAccessBit | NestByRefBit) & ~LvalueBit
49
+ };
50
+ };
51
+
52
+ template<typename MatScalar, int MatOptions, typename MatIndex, int _Options, typename _StrideType>
53
+ struct traits<Ref<SparseVector<MatScalar,MatOptions,MatIndex>, _Options, _StrideType> >
54
+ : public traits<SparseVector<MatScalar,MatOptions,MatIndex> >
55
+ {
56
+ typedef SparseVector<MatScalar,MatOptions,MatIndex> PlainObjectType;
57
+ enum {
58
+ Options = _Options,
59
+ Flags = traits<PlainObjectType>::Flags | CompressedAccessBit | NestByRefBit
60
+ };
61
+
62
+ template<typename Derived> struct match {
63
+ enum {
64
+ MatchAtCompileTime = (Derived::Flags&CompressedAccessBit) && Derived::IsVectorAtCompileTime
65
+ };
66
+ typedef typename internal::conditional<MatchAtCompileTime,internal::true_type,internal::false_type>::type type;
67
+ };
68
+
69
+ };
70
+
71
+ template<typename MatScalar, int MatOptions, typename MatIndex, int _Options, typename _StrideType>
72
+ struct traits<Ref<const SparseVector<MatScalar,MatOptions,MatIndex>, _Options, _StrideType> >
73
+ : public traits<Ref<SparseVector<MatScalar,MatOptions,MatIndex>, _Options, _StrideType> >
74
+ {
75
+ enum {
76
+ Flags = (traits<SparseVector<MatScalar,MatOptions,MatIndex> >::Flags | CompressedAccessBit | NestByRefBit) & ~LvalueBit
77
+ };
78
+ };
79
+
80
+ template<typename Derived>
81
+ struct traits<SparseRefBase<Derived> > : public traits<Derived> {};
82
+
83
+ template<typename Derived> class SparseRefBase
84
+ : public SparseMapBase<Derived>
85
+ {
86
+ public:
87
+
88
+ typedef SparseMapBase<Derived> Base;
89
+ EIGEN_SPARSE_PUBLIC_INTERFACE(SparseRefBase)
90
+
91
+ SparseRefBase()
92
+ : Base(RowsAtCompileTime==Dynamic?0:RowsAtCompileTime,ColsAtCompileTime==Dynamic?0:ColsAtCompileTime, 0, 0, 0, 0, 0)
93
+ {}
94
+
95
+ protected:
96
+
97
+ template<typename Expression>
98
+ void construct(Expression& expr)
99
+ {
100
+ if(expr.outerIndexPtr()==0)
101
+ ::new (static_cast<Base*>(this)) Base(expr.size(), expr.nonZeros(), expr.innerIndexPtr(), expr.valuePtr());
102
+ else
103
+ ::new (static_cast<Base*>(this)) Base(expr.rows(), expr.cols(), expr.nonZeros(), expr.outerIndexPtr(), expr.innerIndexPtr(), expr.valuePtr(), expr.innerNonZeroPtr());
104
+ }
105
+ };
106
+
107
+ } // namespace internal
108
+
109
+
110
+ /**
111
+ * \ingroup SparseCore_Module
112
+ *
113
+ * \brief A sparse matrix expression referencing an existing sparse expression
114
+ *
115
+ * \tparam SparseMatrixType the equivalent sparse matrix type of the referenced data, it must be a template instance of class SparseMatrix.
116
+ * \tparam Options specifies whether the a standard compressed format is required \c Options is \c #StandardCompressedFormat, or \c 0.
117
+ * The default is \c 0.
118
+ *
119
+ * \sa class Ref
120
+ */
121
+ #ifndef EIGEN_PARSED_BY_DOXYGEN
122
+ template<typename MatScalar, int MatOptions, typename MatIndex, int Options, typename StrideType>
123
+ class Ref<SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType >
124
+ : public internal::SparseRefBase<Ref<SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType > >
125
+ #else
126
+ template<typename SparseMatrixType, int Options>
127
+ class Ref<SparseMatrixType, Options>
128
+ : public SparseMapBase<Derived,WriteAccessors> // yes, that's weird to use Derived here, but that works!
129
+ #endif
130
+ {
131
+ typedef SparseMatrix<MatScalar,MatOptions,MatIndex> PlainObjectType;
132
+ typedef internal::traits<Ref> Traits;
133
+ template<int OtherOptions>
134
+ inline Ref(const SparseMatrix<MatScalar,OtherOptions,MatIndex>& expr);
135
+ template<int OtherOptions>
136
+ inline Ref(const MappedSparseMatrix<MatScalar,OtherOptions,MatIndex>& expr);
137
+ public:
138
+
139
+ typedef internal::SparseRefBase<Ref> Base;
140
+ EIGEN_SPARSE_PUBLIC_INTERFACE(Ref)
141
+
142
+
143
+ #ifndef EIGEN_PARSED_BY_DOXYGEN
144
+ template<int OtherOptions>
145
+ inline Ref(SparseMatrix<MatScalar,OtherOptions,MatIndex>& expr)
146
+ {
147
+ EIGEN_STATIC_ASSERT(bool(Traits::template match<SparseMatrix<MatScalar,OtherOptions,MatIndex> >::MatchAtCompileTime), STORAGE_LAYOUT_DOES_NOT_MATCH);
148
+ eigen_assert( ((Options & int(StandardCompressedFormat))==0) || (expr.isCompressed()) );
149
+ Base::construct(expr.derived());
150
+ }
151
+
152
+ template<int OtherOptions>
153
+ inline Ref(MappedSparseMatrix<MatScalar,OtherOptions,MatIndex>& expr)
154
+ {
155
+ EIGEN_STATIC_ASSERT(bool(Traits::template match<SparseMatrix<MatScalar,OtherOptions,MatIndex> >::MatchAtCompileTime), STORAGE_LAYOUT_DOES_NOT_MATCH);
156
+ eigen_assert( ((Options & int(StandardCompressedFormat))==0) || (expr.isCompressed()) );
157
+ Base::construct(expr.derived());
158
+ }
159
+
160
+ template<typename Derived>
161
+ inline Ref(const SparseCompressedBase<Derived>& expr)
162
+ #else
163
+ /** Implicit constructor from any sparse expression (2D matrix or 1D vector) */
164
+ template<typename Derived>
165
+ inline Ref(SparseCompressedBase<Derived>& expr)
166
+ #endif
167
+ {
168
+ EIGEN_STATIC_ASSERT(bool(internal::is_lvalue<Derived>::value), THIS_EXPRESSION_IS_NOT_A_LVALUE__IT_IS_READ_ONLY);
169
+ EIGEN_STATIC_ASSERT(bool(Traits::template match<Derived>::MatchAtCompileTime), STORAGE_LAYOUT_DOES_NOT_MATCH);
170
+ eigen_assert( ((Options & int(StandardCompressedFormat))==0) || (expr.isCompressed()) );
171
+ Base::construct(expr.const_cast_derived());
172
+ }
173
+ };
174
+
175
+ // this is the const ref version
176
+ template<typename MatScalar, int MatOptions, typename MatIndex, int Options, typename StrideType>
177
+ class Ref<const SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType>
178
+ : public internal::SparseRefBase<Ref<const SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType> >
179
+ {
180
+ typedef SparseMatrix<MatScalar,MatOptions,MatIndex> TPlainObjectType;
181
+ typedef internal::traits<Ref> Traits;
182
+ public:
183
+
184
+ typedef internal::SparseRefBase<Ref> Base;
185
+ EIGEN_SPARSE_PUBLIC_INTERFACE(Ref)
186
+
187
+ template<typename Derived>
188
+ inline Ref(const SparseMatrixBase<Derived>& expr) : m_hasCopy(false)
189
+ {
190
+ construct(expr.derived(), typename Traits::template match<Derived>::type());
191
+ }
192
+
193
+ inline Ref(const Ref& other) : Base(other), m_hasCopy(false) {
194
+ // copy constructor shall not copy the m_object, to avoid unnecessary malloc and copy
195
+ }
196
+
197
+ template<typename OtherRef>
198
+ inline Ref(const RefBase<OtherRef>& other) : m_hasCopy(false) {
199
+ construct(other.derived(), typename Traits::template match<OtherRef>::type());
200
+ }
201
+
202
+ ~Ref() {
203
+ if(m_hasCopy) {
204
+ TPlainObjectType* obj = reinterpret_cast<TPlainObjectType*>(m_object_bytes);
205
+ obj->~TPlainObjectType();
206
+ }
207
+ }
208
+
209
+ protected:
210
+
211
+ template<typename Expression>
212
+ void construct(const Expression& expr,internal::true_type)
213
+ {
214
+ if((Options & int(StandardCompressedFormat)) && (!expr.isCompressed()))
215
+ {
216
+ TPlainObjectType* obj = reinterpret_cast<TPlainObjectType*>(m_object_bytes);
217
+ ::new (obj) TPlainObjectType(expr);
218
+ m_hasCopy = true;
219
+ Base::construct(*obj);
220
+ }
221
+ else
222
+ {
223
+ Base::construct(expr);
224
+ }
225
+ }
226
+
227
+ template<typename Expression>
228
+ void construct(const Expression& expr, internal::false_type)
229
+ {
230
+ TPlainObjectType* obj = reinterpret_cast<TPlainObjectType*>(m_object_bytes);
231
+ ::new (obj) TPlainObjectType(expr);
232
+ m_hasCopy = true;
233
+ Base::construct(*obj);
234
+ }
235
+
236
+ protected:
237
+ char m_object_bytes[sizeof(TPlainObjectType)];
238
+ bool m_hasCopy;
239
+ };
240
+
241
+
242
+
243
+ /**
244
+ * \ingroup SparseCore_Module
245
+ *
246
+ * \brief A sparse vector expression referencing an existing sparse vector expression
247
+ *
248
+ * \tparam SparseVectorType the equivalent sparse vector type of the referenced data, it must be a template instance of class SparseVector.
249
+ *
250
+ * \sa class Ref
251
+ */
252
+ #ifndef EIGEN_PARSED_BY_DOXYGEN
253
+ template<typename MatScalar, int MatOptions, typename MatIndex, int Options, typename StrideType>
254
+ class Ref<SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType >
255
+ : public internal::SparseRefBase<Ref<SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType > >
256
+ #else
257
+ template<typename SparseVectorType>
258
+ class Ref<SparseVectorType>
259
+ : public SparseMapBase<Derived,WriteAccessors>
260
+ #endif
261
+ {
262
+ typedef SparseVector<MatScalar,MatOptions,MatIndex> PlainObjectType;
263
+ typedef internal::traits<Ref> Traits;
264
+ template<int OtherOptions>
265
+ inline Ref(const SparseVector<MatScalar,OtherOptions,MatIndex>& expr);
266
+ public:
267
+
268
+ typedef internal::SparseRefBase<Ref> Base;
269
+ EIGEN_SPARSE_PUBLIC_INTERFACE(Ref)
270
+
271
+ #ifndef EIGEN_PARSED_BY_DOXYGEN
272
+ template<int OtherOptions>
273
+ inline Ref(SparseVector<MatScalar,OtherOptions,MatIndex>& expr)
274
+ {
275
+ EIGEN_STATIC_ASSERT(bool(Traits::template match<SparseVector<MatScalar,OtherOptions,MatIndex> >::MatchAtCompileTime), STORAGE_LAYOUT_DOES_NOT_MATCH);
276
+ Base::construct(expr.derived());
277
+ }
278
+
279
+ template<typename Derived>
280
+ inline Ref(const SparseCompressedBase<Derived>& expr)
281
+ #else
282
+ /** Implicit constructor from any 1D sparse vector expression */
283
+ template<typename Derived>
284
+ inline Ref(SparseCompressedBase<Derived>& expr)
285
+ #endif
286
+ {
287
+ EIGEN_STATIC_ASSERT(bool(internal::is_lvalue<Derived>::value), THIS_EXPRESSION_IS_NOT_A_LVALUE__IT_IS_READ_ONLY);
288
+ EIGEN_STATIC_ASSERT(bool(Traits::template match<Derived>::MatchAtCompileTime), STORAGE_LAYOUT_DOES_NOT_MATCH);
289
+ Base::construct(expr.const_cast_derived());
290
+ }
291
+ };
292
+
293
+ // this is the const ref version
294
+ template<typename MatScalar, int MatOptions, typename MatIndex, int Options, typename StrideType>
295
+ class Ref<const SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType>
296
+ : public internal::SparseRefBase<Ref<const SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType> >
297
+ {
298
+ typedef SparseVector<MatScalar,MatOptions,MatIndex> TPlainObjectType;
299
+ typedef internal::traits<Ref> Traits;
300
+ public:
301
+
302
+ typedef internal::SparseRefBase<Ref> Base;
303
+ EIGEN_SPARSE_PUBLIC_INTERFACE(Ref)
304
+
305
+ template<typename Derived>
306
+ inline Ref(const SparseMatrixBase<Derived>& expr) : m_hasCopy(false)
307
+ {
308
+ construct(expr.derived(), typename Traits::template match<Derived>::type());
309
+ }
310
+
311
+ inline Ref(const Ref& other) : Base(other), m_hasCopy(false) {
312
+ // copy constructor shall not copy the m_object, to avoid unnecessary malloc and copy
313
+ }
314
+
315
+ template<typename OtherRef>
316
+ inline Ref(const RefBase<OtherRef>& other) : m_hasCopy(false) {
317
+ construct(other.derived(), typename Traits::template match<OtherRef>::type());
318
+ }
319
+
320
+ ~Ref() {
321
+ if(m_hasCopy) {
322
+ TPlainObjectType* obj = reinterpret_cast<TPlainObjectType*>(m_object_bytes);
323
+ obj->~TPlainObjectType();
324
+ }
325
+ }
326
+
327
+ protected:
328
+
329
+ template<typename Expression>
330
+ void construct(const Expression& expr,internal::true_type)
331
+ {
332
+ Base::construct(expr);
333
+ }
334
+
335
+ template<typename Expression>
336
+ void construct(const Expression& expr, internal::false_type)
337
+ {
338
+ TPlainObjectType* obj = reinterpret_cast<TPlainObjectType*>(m_object_bytes);
339
+ ::new (obj) TPlainObjectType(expr);
340
+ m_hasCopy = true;
341
+ Base::construct(*obj);
342
+ }
343
+
344
+ protected:
345
+ char m_object_bytes[sizeof(TPlainObjectType)];
346
+ bool m_hasCopy;
347
+ };
348
+
349
+ namespace internal {
350
+
351
+ // FIXME shall we introduce a general evaluatior_ref that we can specialize for any sparse object once, and thus remove this copy-pasta thing...
352
+
353
+ template<typename MatScalar, int MatOptions, typename MatIndex, int Options, typename StrideType>
354
+ struct evaluator<Ref<SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType> >
355
+ : evaluator<SparseCompressedBase<Ref<SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType> > >
356
+ {
357
+ typedef evaluator<SparseCompressedBase<Ref<SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType> > > Base;
358
+ typedef Ref<SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType> XprType;
359
+ evaluator() : Base() {}
360
+ explicit evaluator(const XprType &mat) : Base(mat) {}
361
+ };
362
+
363
+ template<typename MatScalar, int MatOptions, typename MatIndex, int Options, typename StrideType>
364
+ struct evaluator<Ref<const SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType> >
365
+ : evaluator<SparseCompressedBase<Ref<const SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType> > >
366
+ {
367
+ typedef evaluator<SparseCompressedBase<Ref<const SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType> > > Base;
368
+ typedef Ref<const SparseMatrix<MatScalar,MatOptions,MatIndex>, Options, StrideType> XprType;
369
+ evaluator() : Base() {}
370
+ explicit evaluator(const XprType &mat) : Base(mat) {}
371
+ };
372
+
373
+ template<typename MatScalar, int MatOptions, typename MatIndex, int Options, typename StrideType>
374
+ struct evaluator<Ref<SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType> >
375
+ : evaluator<SparseCompressedBase<Ref<SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType> > >
376
+ {
377
+ typedef evaluator<SparseCompressedBase<Ref<SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType> > > Base;
378
+ typedef Ref<SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType> XprType;
379
+ evaluator() : Base() {}
380
+ explicit evaluator(const XprType &mat) : Base(mat) {}
381
+ };
382
+
383
+ template<typename MatScalar, int MatOptions, typename MatIndex, int Options, typename StrideType>
384
+ struct evaluator<Ref<const SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType> >
385
+ : evaluator<SparseCompressedBase<Ref<const SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType> > >
386
+ {
387
+ typedef evaluator<SparseCompressedBase<Ref<const SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType> > > Base;
388
+ typedef Ref<const SparseVector<MatScalar,MatOptions,MatIndex>, Options, StrideType> XprType;
389
+ evaluator() : Base() {}
390
+ explicit evaluator(const XprType &mat) : Base(mat) {}
391
+ };
392
+
393
+ }
394
+
395
+ } // end namespace Eigen
396
+
397
+ #endif // EIGEN_SPARSE_REF_H