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 +1,83 @@
1
+ /*
2
+ Copyright (c) 2011, Intel Corporation. All rights reserved.
3
+
4
+ Redistribution and use in source and binary forms, with or without modification,
5
+ are permitted provided that the following conditions are met:
6
+
7
+ * Redistributions of source code must retain the above copyright notice, this
8
+ list of conditions and the following disclaimer.
9
+ * Redistributions in binary form must reproduce the above copyright notice,
10
+ this list of conditions and the following disclaimer in the documentation
11
+ and/or other materials provided with the distribution.
12
+ * Neither the name of Intel Corporation nor the names of its contributors may
13
+ be used to endorse or promote products derived from this software without
14
+ specific prior written permission.
15
+
16
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
17
+ ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
18
+ WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
19
+ DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR
20
+ ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
21
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES;
22
+ LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON
23
+ ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
24
+ (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
25
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
26
+
27
+ ********************************************************************************
28
+ * Content : Eigen bindings to LAPACKe
29
+ * LU decomposition with partial pivoting based on LAPACKE_?getrf function.
30
+ ********************************************************************************
31
+ */
32
+
33
+ #ifndef EIGEN_PARTIALLU_LAPACK_H
34
+ #define EIGEN_PARTIALLU_LAPACK_H
35
+
36
+ namespace Eigen {
37
+
38
+ namespace internal {
39
+
40
+ /** \internal Specialization for the data types supported by LAPACKe */
41
+
42
+ #define EIGEN_LAPACKE_LU_PARTPIV(EIGTYPE, LAPACKE_TYPE, LAPACKE_PREFIX) \
43
+ template<int StorageOrder> \
44
+ struct partial_lu_impl<EIGTYPE, StorageOrder, lapack_int> \
45
+ { \
46
+ /* \internal performs the LU decomposition in-place of the matrix represented */ \
47
+ static lapack_int blocked_lu(Index rows, Index cols, EIGTYPE* lu_data, Index luStride, lapack_int* row_transpositions, lapack_int& nb_transpositions, lapack_int maxBlockSize=256) \
48
+ { \
49
+ EIGEN_UNUSED_VARIABLE(maxBlockSize);\
50
+ lapack_int matrix_order, first_zero_pivot; \
51
+ lapack_int m, n, lda, *ipiv, info; \
52
+ EIGTYPE* a; \
53
+ /* Set up parameters for ?getrf */ \
54
+ matrix_order = StorageOrder==RowMajor ? LAPACK_ROW_MAJOR : LAPACK_COL_MAJOR; \
55
+ lda = convert_index<lapack_int>(luStride); \
56
+ a = lu_data; \
57
+ ipiv = row_transpositions; \
58
+ m = convert_index<lapack_int>(rows); \
59
+ n = convert_index<lapack_int>(cols); \
60
+ nb_transpositions = 0; \
61
+ \
62
+ info = LAPACKE_##LAPACKE_PREFIX##getrf( matrix_order, m, n, (LAPACKE_TYPE*)a, lda, ipiv ); \
63
+ \
64
+ for(int i=0;i<m;i++) { ipiv[i]--; if (ipiv[i]!=i) nb_transpositions++; } \
65
+ \
66
+ eigen_assert(info >= 0); \
67
+ /* something should be done with nb_transpositions */ \
68
+ \
69
+ first_zero_pivot = info; \
70
+ return first_zero_pivot; \
71
+ } \
72
+ };
73
+
74
+ EIGEN_LAPACKE_LU_PARTPIV(double, double, d)
75
+ EIGEN_LAPACKE_LU_PARTPIV(float, float, s)
76
+ EIGEN_LAPACKE_LU_PARTPIV(dcomplex, lapack_complex_double, z)
77
+ EIGEN_LAPACKE_LU_PARTPIV(scomplex, lapack_complex_float, c)
78
+
79
+ } // end namespace internal
80
+
81
+ } // end namespace Eigen
82
+
83
+ #endif // EIGEN_PARTIALLU_LAPACK_H
@@ -0,0 +1,338 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 2001 Intel Corporation
5
+ // Copyright (C) 2010 Gael Guennebaud <gael.guennebaud@inria.fr>
6
+ // Copyright (C) 2009 Benoit Jacob <jacob.benoit.1@gmail.com>
7
+ //
8
+ // This Source Code Form is subject to the terms of the Mozilla
9
+ // Public License v. 2.0. If a copy of the MPL was not distributed
10
+ // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
11
+
12
+ // The SSE code for the 4x4 float and double matrix inverse in this file
13
+ // comes from the following Intel's library:
14
+ // http://software.intel.com/en-us/articles/optimized-matrix-library-for-use-with-the-intel-pentiumr-4-processors-sse2-instructions/
15
+ //
16
+ // Here is the respective copyright and license statement:
17
+ //
18
+ // Copyright (c) 2001 Intel Corporation.
19
+ //
20
+ // Permition is granted to use, copy, distribute and prepare derivative works
21
+ // of this library for any purpose and without fee, provided, that the above
22
+ // copyright notice and this statement appear in all copies.
23
+ // Intel makes no representations about the suitability of this software for
24
+ // any purpose, and specifically disclaims all warranties.
25
+ // See LEGAL.TXT for all the legal information.
26
+
27
+ #ifndef EIGEN_INVERSE_SSE_H
28
+ #define EIGEN_INVERSE_SSE_H
29
+
30
+ namespace Eigen {
31
+
32
+ namespace internal {
33
+
34
+ template<typename MatrixType, typename ResultType>
35
+ struct compute_inverse_size4<Architecture::SSE, float, MatrixType, ResultType>
36
+ {
37
+ enum {
38
+ MatrixAlignment = traits<MatrixType>::Alignment,
39
+ ResultAlignment = traits<ResultType>::Alignment,
40
+ StorageOrdersMatch = (MatrixType::Flags&RowMajorBit) == (ResultType::Flags&RowMajorBit)
41
+ };
42
+ typedef typename conditional<(MatrixType::Flags&LinearAccessBit),MatrixType const &,typename MatrixType::PlainObject>::type ActualMatrixType;
43
+
44
+ static void run(const MatrixType& mat, ResultType& result)
45
+ {
46
+ ActualMatrixType matrix(mat);
47
+ EIGEN_ALIGN16 const unsigned int _Sign_PNNP[4] = { 0x00000000, 0x80000000, 0x80000000, 0x00000000 };
48
+
49
+ // Load the full matrix into registers
50
+ __m128 _L1 = matrix.template packet<MatrixAlignment>( 0);
51
+ __m128 _L2 = matrix.template packet<MatrixAlignment>( 4);
52
+ __m128 _L3 = matrix.template packet<MatrixAlignment>( 8);
53
+ __m128 _L4 = matrix.template packet<MatrixAlignment>(12);
54
+
55
+ // The inverse is calculated using "Divide and Conquer" technique. The
56
+ // original matrix is divide into four 2x2 sub-matrices. Since each
57
+ // register holds four matrix element, the smaller matrices are
58
+ // represented as a registers. Hence we get a better locality of the
59
+ // calculations.
60
+
61
+ __m128 A, B, C, D; // the four sub-matrices
62
+ if(!StorageOrdersMatch)
63
+ {
64
+ A = _mm_unpacklo_ps(_L1, _L2);
65
+ B = _mm_unpacklo_ps(_L3, _L4);
66
+ C = _mm_unpackhi_ps(_L1, _L2);
67
+ D = _mm_unpackhi_ps(_L3, _L4);
68
+ }
69
+ else
70
+ {
71
+ A = _mm_movelh_ps(_L1, _L2);
72
+ B = _mm_movehl_ps(_L2, _L1);
73
+ C = _mm_movelh_ps(_L3, _L4);
74
+ D = _mm_movehl_ps(_L4, _L3);
75
+ }
76
+
77
+ __m128 iA, iB, iC, iD, // partial inverse of the sub-matrices
78
+ DC, AB;
79
+ __m128 dA, dB, dC, dD; // determinant of the sub-matrices
80
+ __m128 det, d, d1, d2;
81
+ __m128 rd; // reciprocal of the determinant
82
+
83
+ // AB = A# * B
84
+ AB = _mm_mul_ps(_mm_shuffle_ps(A,A,0x0F), B);
85
+ AB = _mm_sub_ps(AB,_mm_mul_ps(_mm_shuffle_ps(A,A,0xA5), _mm_shuffle_ps(B,B,0x4E)));
86
+ // DC = D# * C
87
+ DC = _mm_mul_ps(_mm_shuffle_ps(D,D,0x0F), C);
88
+ DC = _mm_sub_ps(DC,_mm_mul_ps(_mm_shuffle_ps(D,D,0xA5), _mm_shuffle_ps(C,C,0x4E)));
89
+
90
+ // dA = |A|
91
+ dA = _mm_mul_ps(_mm_shuffle_ps(A, A, 0x5F),A);
92
+ dA = _mm_sub_ss(dA, _mm_movehl_ps(dA,dA));
93
+ // dB = |B|
94
+ dB = _mm_mul_ps(_mm_shuffle_ps(B, B, 0x5F),B);
95
+ dB = _mm_sub_ss(dB, _mm_movehl_ps(dB,dB));
96
+
97
+ // dC = |C|
98
+ dC = _mm_mul_ps(_mm_shuffle_ps(C, C, 0x5F),C);
99
+ dC = _mm_sub_ss(dC, _mm_movehl_ps(dC,dC));
100
+ // dD = |D|
101
+ dD = _mm_mul_ps(_mm_shuffle_ps(D, D, 0x5F),D);
102
+ dD = _mm_sub_ss(dD, _mm_movehl_ps(dD,dD));
103
+
104
+ // d = trace(AB*DC) = trace(A#*B*D#*C)
105
+ d = _mm_mul_ps(_mm_shuffle_ps(DC,DC,0xD8),AB);
106
+
107
+ // iD = C*A#*B
108
+ iD = _mm_mul_ps(_mm_shuffle_ps(C,C,0xA0), _mm_movelh_ps(AB,AB));
109
+ iD = _mm_add_ps(iD,_mm_mul_ps(_mm_shuffle_ps(C,C,0xF5), _mm_movehl_ps(AB,AB)));
110
+ // iA = B*D#*C
111
+ iA = _mm_mul_ps(_mm_shuffle_ps(B,B,0xA0), _mm_movelh_ps(DC,DC));
112
+ iA = _mm_add_ps(iA,_mm_mul_ps(_mm_shuffle_ps(B,B,0xF5), _mm_movehl_ps(DC,DC)));
113
+
114
+ // d = trace(AB*DC) = trace(A#*B*D#*C) [continue]
115
+ d = _mm_add_ps(d, _mm_movehl_ps(d, d));
116
+ d = _mm_add_ss(d, _mm_shuffle_ps(d, d, 1));
117
+ d1 = _mm_mul_ss(dA,dD);
118
+ d2 = _mm_mul_ss(dB,dC);
119
+
120
+ // iD = D*|A| - C*A#*B
121
+ iD = _mm_sub_ps(_mm_mul_ps(D,_mm_shuffle_ps(dA,dA,0)), iD);
122
+
123
+ // iA = A*|D| - B*D#*C;
124
+ iA = _mm_sub_ps(_mm_mul_ps(A,_mm_shuffle_ps(dD,dD,0)), iA);
125
+
126
+ // det = |A|*|D| + |B|*|C| - trace(A#*B*D#*C)
127
+ det = _mm_sub_ss(_mm_add_ss(d1,d2),d);
128
+ rd = _mm_div_ss(_mm_set_ss(1.0f), det);
129
+
130
+ // #ifdef ZERO_SINGULAR
131
+ // rd = _mm_and_ps(_mm_cmpneq_ss(det,_mm_setzero_ps()), rd);
132
+ // #endif
133
+
134
+ // iB = D * (A#B)# = D*B#*A
135
+ iB = _mm_mul_ps(D, _mm_shuffle_ps(AB,AB,0x33));
136
+ iB = _mm_sub_ps(iB, _mm_mul_ps(_mm_shuffle_ps(D,D,0xB1), _mm_shuffle_ps(AB,AB,0x66)));
137
+ // iC = A * (D#C)# = A*C#*D
138
+ iC = _mm_mul_ps(A, _mm_shuffle_ps(DC,DC,0x33));
139
+ iC = _mm_sub_ps(iC, _mm_mul_ps(_mm_shuffle_ps(A,A,0xB1), _mm_shuffle_ps(DC,DC,0x66)));
140
+
141
+ rd = _mm_shuffle_ps(rd,rd,0);
142
+ rd = _mm_xor_ps(rd, _mm_load_ps((float*)_Sign_PNNP));
143
+
144
+ // iB = C*|B| - D*B#*A
145
+ iB = _mm_sub_ps(_mm_mul_ps(C,_mm_shuffle_ps(dB,dB,0)), iB);
146
+
147
+ // iC = B*|C| - A*C#*D;
148
+ iC = _mm_sub_ps(_mm_mul_ps(B,_mm_shuffle_ps(dC,dC,0)), iC);
149
+
150
+ // iX = iX / det
151
+ iA = _mm_mul_ps(rd,iA);
152
+ iB = _mm_mul_ps(rd,iB);
153
+ iC = _mm_mul_ps(rd,iC);
154
+ iD = _mm_mul_ps(rd,iD);
155
+
156
+ Index res_stride = result.outerStride();
157
+ float* res = result.data();
158
+ pstoret<float, Packet4f, ResultAlignment>(res+0, _mm_shuffle_ps(iA,iB,0x77));
159
+ pstoret<float, Packet4f, ResultAlignment>(res+res_stride, _mm_shuffle_ps(iA,iB,0x22));
160
+ pstoret<float, Packet4f, ResultAlignment>(res+2*res_stride, _mm_shuffle_ps(iC,iD,0x77));
161
+ pstoret<float, Packet4f, ResultAlignment>(res+3*res_stride, _mm_shuffle_ps(iC,iD,0x22));
162
+ }
163
+
164
+ };
165
+
166
+ template<typename MatrixType, typename ResultType>
167
+ struct compute_inverse_size4<Architecture::SSE, double, MatrixType, ResultType>
168
+ {
169
+ enum {
170
+ MatrixAlignment = traits<MatrixType>::Alignment,
171
+ ResultAlignment = traits<ResultType>::Alignment,
172
+ StorageOrdersMatch = (MatrixType::Flags&RowMajorBit) == (ResultType::Flags&RowMajorBit)
173
+ };
174
+ typedef typename conditional<(MatrixType::Flags&LinearAccessBit),MatrixType const &,typename MatrixType::PlainObject>::type ActualMatrixType;
175
+
176
+ static void run(const MatrixType& mat, ResultType& result)
177
+ {
178
+ ActualMatrixType matrix(mat);
179
+ const __m128d _Sign_NP = _mm_castsi128_pd(_mm_set_epi32(0x0,0x0,0x80000000,0x0));
180
+ const __m128d _Sign_PN = _mm_castsi128_pd(_mm_set_epi32(0x80000000,0x0,0x0,0x0));
181
+
182
+ // The inverse is calculated using "Divide and Conquer" technique. The
183
+ // original matrix is divide into four 2x2 sub-matrices. Since each
184
+ // register of the matrix holds two elements, the smaller matrices are
185
+ // consisted of two registers. Hence we get a better locality of the
186
+ // calculations.
187
+
188
+ // the four sub-matrices
189
+ __m128d A1, A2, B1, B2, C1, C2, D1, D2;
190
+
191
+ if(StorageOrdersMatch)
192
+ {
193
+ A1 = matrix.template packet<MatrixAlignment>( 0); B1 = matrix.template packet<MatrixAlignment>( 2);
194
+ A2 = matrix.template packet<MatrixAlignment>( 4); B2 = matrix.template packet<MatrixAlignment>( 6);
195
+ C1 = matrix.template packet<MatrixAlignment>( 8); D1 = matrix.template packet<MatrixAlignment>(10);
196
+ C2 = matrix.template packet<MatrixAlignment>(12); D2 = matrix.template packet<MatrixAlignment>(14);
197
+ }
198
+ else
199
+ {
200
+ __m128d tmp;
201
+ A1 = matrix.template packet<MatrixAlignment>( 0); C1 = matrix.template packet<MatrixAlignment>( 2);
202
+ A2 = matrix.template packet<MatrixAlignment>( 4); C2 = matrix.template packet<MatrixAlignment>( 6);
203
+ tmp = A1;
204
+ A1 = _mm_unpacklo_pd(A1,A2);
205
+ A2 = _mm_unpackhi_pd(tmp,A2);
206
+ tmp = C1;
207
+ C1 = _mm_unpacklo_pd(C1,C2);
208
+ C2 = _mm_unpackhi_pd(tmp,C2);
209
+
210
+ B1 = matrix.template packet<MatrixAlignment>( 8); D1 = matrix.template packet<MatrixAlignment>(10);
211
+ B2 = matrix.template packet<MatrixAlignment>(12); D2 = matrix.template packet<MatrixAlignment>(14);
212
+ tmp = B1;
213
+ B1 = _mm_unpacklo_pd(B1,B2);
214
+ B2 = _mm_unpackhi_pd(tmp,B2);
215
+ tmp = D1;
216
+ D1 = _mm_unpacklo_pd(D1,D2);
217
+ D2 = _mm_unpackhi_pd(tmp,D2);
218
+ }
219
+
220
+ __m128d iA1, iA2, iB1, iB2, iC1, iC2, iD1, iD2, // partial invese of the sub-matrices
221
+ DC1, DC2, AB1, AB2;
222
+ __m128d dA, dB, dC, dD; // determinant of the sub-matrices
223
+ __m128d det, d1, d2, rd;
224
+
225
+ // dA = |A|
226
+ dA = _mm_shuffle_pd(A2, A2, 1);
227
+ dA = _mm_mul_pd(A1, dA);
228
+ dA = _mm_sub_sd(dA, _mm_shuffle_pd(dA,dA,3));
229
+ // dB = |B|
230
+ dB = _mm_shuffle_pd(B2, B2, 1);
231
+ dB = _mm_mul_pd(B1, dB);
232
+ dB = _mm_sub_sd(dB, _mm_shuffle_pd(dB,dB,3));
233
+
234
+ // AB = A# * B
235
+ AB1 = _mm_mul_pd(B1, _mm_shuffle_pd(A2,A2,3));
236
+ AB2 = _mm_mul_pd(B2, _mm_shuffle_pd(A1,A1,0));
237
+ AB1 = _mm_sub_pd(AB1, _mm_mul_pd(B2, _mm_shuffle_pd(A1,A1,3)));
238
+ AB2 = _mm_sub_pd(AB2, _mm_mul_pd(B1, _mm_shuffle_pd(A2,A2,0)));
239
+
240
+ // dC = |C|
241
+ dC = _mm_shuffle_pd(C2, C2, 1);
242
+ dC = _mm_mul_pd(C1, dC);
243
+ dC = _mm_sub_sd(dC, _mm_shuffle_pd(dC,dC,3));
244
+ // dD = |D|
245
+ dD = _mm_shuffle_pd(D2, D2, 1);
246
+ dD = _mm_mul_pd(D1, dD);
247
+ dD = _mm_sub_sd(dD, _mm_shuffle_pd(dD,dD,3));
248
+
249
+ // DC = D# * C
250
+ DC1 = _mm_mul_pd(C1, _mm_shuffle_pd(D2,D2,3));
251
+ DC2 = _mm_mul_pd(C2, _mm_shuffle_pd(D1,D1,0));
252
+ DC1 = _mm_sub_pd(DC1, _mm_mul_pd(C2, _mm_shuffle_pd(D1,D1,3)));
253
+ DC2 = _mm_sub_pd(DC2, _mm_mul_pd(C1, _mm_shuffle_pd(D2,D2,0)));
254
+
255
+ // rd = trace(AB*DC) = trace(A#*B*D#*C)
256
+ d1 = _mm_mul_pd(AB1, _mm_shuffle_pd(DC1, DC2, 0));
257
+ d2 = _mm_mul_pd(AB2, _mm_shuffle_pd(DC1, DC2, 3));
258
+ rd = _mm_add_pd(d1, d2);
259
+ rd = _mm_add_sd(rd, _mm_shuffle_pd(rd, rd,3));
260
+
261
+ // iD = C*A#*B
262
+ iD1 = _mm_mul_pd(AB1, _mm_shuffle_pd(C1,C1,0));
263
+ iD2 = _mm_mul_pd(AB1, _mm_shuffle_pd(C2,C2,0));
264
+ iD1 = _mm_add_pd(iD1, _mm_mul_pd(AB2, _mm_shuffle_pd(C1,C1,3)));
265
+ iD2 = _mm_add_pd(iD2, _mm_mul_pd(AB2, _mm_shuffle_pd(C2,C2,3)));
266
+
267
+ // iA = B*D#*C
268
+ iA1 = _mm_mul_pd(DC1, _mm_shuffle_pd(B1,B1,0));
269
+ iA2 = _mm_mul_pd(DC1, _mm_shuffle_pd(B2,B2,0));
270
+ iA1 = _mm_add_pd(iA1, _mm_mul_pd(DC2, _mm_shuffle_pd(B1,B1,3)));
271
+ iA2 = _mm_add_pd(iA2, _mm_mul_pd(DC2, _mm_shuffle_pd(B2,B2,3)));
272
+
273
+ // iD = D*|A| - C*A#*B
274
+ dA = _mm_shuffle_pd(dA,dA,0);
275
+ iD1 = _mm_sub_pd(_mm_mul_pd(D1, dA), iD1);
276
+ iD2 = _mm_sub_pd(_mm_mul_pd(D2, dA), iD2);
277
+
278
+ // iA = A*|D| - B*D#*C;
279
+ dD = _mm_shuffle_pd(dD,dD,0);
280
+ iA1 = _mm_sub_pd(_mm_mul_pd(A1, dD), iA1);
281
+ iA2 = _mm_sub_pd(_mm_mul_pd(A2, dD), iA2);
282
+
283
+ d1 = _mm_mul_sd(dA, dD);
284
+ d2 = _mm_mul_sd(dB, dC);
285
+
286
+ // iB = D * (A#B)# = D*B#*A
287
+ iB1 = _mm_mul_pd(D1, _mm_shuffle_pd(AB2,AB1,1));
288
+ iB2 = _mm_mul_pd(D2, _mm_shuffle_pd(AB2,AB1,1));
289
+ iB1 = _mm_sub_pd(iB1, _mm_mul_pd(_mm_shuffle_pd(D1,D1,1), _mm_shuffle_pd(AB2,AB1,2)));
290
+ iB2 = _mm_sub_pd(iB2, _mm_mul_pd(_mm_shuffle_pd(D2,D2,1), _mm_shuffle_pd(AB2,AB1,2)));
291
+
292
+ // det = |A|*|D| + |B|*|C| - trace(A#*B*D#*C)
293
+ det = _mm_add_sd(d1, d2);
294
+ det = _mm_sub_sd(det, rd);
295
+
296
+ // iC = A * (D#C)# = A*C#*D
297
+ iC1 = _mm_mul_pd(A1, _mm_shuffle_pd(DC2,DC1,1));
298
+ iC2 = _mm_mul_pd(A2, _mm_shuffle_pd(DC2,DC1,1));
299
+ iC1 = _mm_sub_pd(iC1, _mm_mul_pd(_mm_shuffle_pd(A1,A1,1), _mm_shuffle_pd(DC2,DC1,2)));
300
+ iC2 = _mm_sub_pd(iC2, _mm_mul_pd(_mm_shuffle_pd(A2,A2,1), _mm_shuffle_pd(DC2,DC1,2)));
301
+
302
+ rd = _mm_div_sd(_mm_set_sd(1.0), det);
303
+ // #ifdef ZERO_SINGULAR
304
+ // rd = _mm_and_pd(_mm_cmpneq_sd(det,_mm_setzero_pd()), rd);
305
+ // #endif
306
+ rd = _mm_shuffle_pd(rd,rd,0);
307
+
308
+ // iB = C*|B| - D*B#*A
309
+ dB = _mm_shuffle_pd(dB,dB,0);
310
+ iB1 = _mm_sub_pd(_mm_mul_pd(C1, dB), iB1);
311
+ iB2 = _mm_sub_pd(_mm_mul_pd(C2, dB), iB2);
312
+
313
+ d1 = _mm_xor_pd(rd, _Sign_PN);
314
+ d2 = _mm_xor_pd(rd, _Sign_NP);
315
+
316
+ // iC = B*|C| - A*C#*D;
317
+ dC = _mm_shuffle_pd(dC,dC,0);
318
+ iC1 = _mm_sub_pd(_mm_mul_pd(B1, dC), iC1);
319
+ iC2 = _mm_sub_pd(_mm_mul_pd(B2, dC), iC2);
320
+
321
+ Index res_stride = result.outerStride();
322
+ double* res = result.data();
323
+ pstoret<double, Packet2d, ResultAlignment>(res+0, _mm_mul_pd(_mm_shuffle_pd(iA2, iA1, 3), d1));
324
+ pstoret<double, Packet2d, ResultAlignment>(res+res_stride, _mm_mul_pd(_mm_shuffle_pd(iA2, iA1, 0), d2));
325
+ pstoret<double, Packet2d, ResultAlignment>(res+2, _mm_mul_pd(_mm_shuffle_pd(iB2, iB1, 3), d1));
326
+ pstoret<double, Packet2d, ResultAlignment>(res+res_stride+2, _mm_mul_pd(_mm_shuffle_pd(iB2, iB1, 0), d2));
327
+ pstoret<double, Packet2d, ResultAlignment>(res+2*res_stride, _mm_mul_pd(_mm_shuffle_pd(iC2, iC1, 3), d1));
328
+ pstoret<double, Packet2d, ResultAlignment>(res+3*res_stride, _mm_mul_pd(_mm_shuffle_pd(iC2, iC1, 0), d2));
329
+ pstoret<double, Packet2d, ResultAlignment>(res+2*res_stride+2,_mm_mul_pd(_mm_shuffle_pd(iD2, iD1, 3), d1));
330
+ pstoret<double, Packet2d, ResultAlignment>(res+3*res_stride+2,_mm_mul_pd(_mm_shuffle_pd(iD2, iD1, 0), d2));
331
+ }
332
+ };
333
+
334
+ } // end namespace internal
335
+
336
+ } // end namespace Eigen
337
+
338
+ #endif // EIGEN_INVERSE_SSE_H
@@ -0,0 +1,137 @@
1
+ // This file is part of Eigen, a lightweight C++ template library
2
+ // for linear algebra.
3
+ //
4
+ // Copyright (C) 2012 Désiré Nuentsa-Wakam <desire.nuentsa_wakam@inria.fr>
5
+ //
6
+ // This Source Code Form is subject to the terms of the Mozilla
7
+ // Public License v. 2.0. If a copy of the MPL was not distributed
8
+ // with this file, You can obtain one at http://mozilla.org/MPL/2.0/.
9
+ #ifndef METIS_SUPPORT_H
10
+ #define METIS_SUPPORT_H
11
+
12
+ namespace Eigen {
13
+ /**
14
+ * Get the fill-reducing ordering from the METIS package
15
+ *
16
+ * If A is the original matrix and Ap is the permuted matrix,
17
+ * the fill-reducing permutation is defined as follows :
18
+ * Row (column) i of A is the matperm(i) row (column) of Ap.
19
+ * WARNING: As computed by METIS, this corresponds to the vector iperm (instead of perm)
20
+ */
21
+ template <typename StorageIndex>
22
+ class MetisOrdering
23
+ {
24
+ public:
25
+ typedef PermutationMatrix<Dynamic,Dynamic,StorageIndex> PermutationType;
26
+ typedef Matrix<StorageIndex,Dynamic,1> IndexVector;
27
+
28
+ template <typename MatrixType>
29
+ void get_symmetrized_graph(const MatrixType& A)
30
+ {
31
+ Index m = A.cols();
32
+ eigen_assert((A.rows() == A.cols()) && "ONLY FOR SQUARED MATRICES");
33
+ // Get the transpose of the input matrix
34
+ MatrixType At = A.transpose();
35
+ // Get the number of nonzeros elements in each row/col of At+A
36
+ Index TotNz = 0;
37
+ IndexVector visited(m);
38
+ visited.setConstant(-1);
39
+ for (StorageIndex j = 0; j < m; j++)
40
+ {
41
+ // Compute the union structure of of A(j,:) and At(j,:)
42
+ visited(j) = j; // Do not include the diagonal element
43
+ // Get the nonzeros in row/column j of A
44
+ for (typename MatrixType::InnerIterator it(A, j); it; ++it)
45
+ {
46
+ Index idx = it.index(); // Get the row index (for column major) or column index (for row major)
47
+ if (visited(idx) != j )
48
+ {
49
+ visited(idx) = j;
50
+ ++TotNz;
51
+ }
52
+ }
53
+ //Get the nonzeros in row/column j of At
54
+ for (typename MatrixType::InnerIterator it(At, j); it; ++it)
55
+ {
56
+ Index idx = it.index();
57
+ if(visited(idx) != j)
58
+ {
59
+ visited(idx) = j;
60
+ ++TotNz;
61
+ }
62
+ }
63
+ }
64
+ // Reserve place for A + At
65
+ m_indexPtr.resize(m+1);
66
+ m_innerIndices.resize(TotNz);
67
+
68
+ // Now compute the real adjacency list of each column/row
69
+ visited.setConstant(-1);
70
+ StorageIndex CurNz = 0;
71
+ for (StorageIndex j = 0; j < m; j++)
72
+ {
73
+ m_indexPtr(j) = CurNz;
74
+
75
+ visited(j) = j; // Do not include the diagonal element
76
+ // Add the pattern of row/column j of A to A+At
77
+ for (typename MatrixType::InnerIterator it(A,j); it; ++it)
78
+ {
79
+ StorageIndex idx = it.index(); // Get the row index (for column major) or column index (for row major)
80
+ if (visited(idx) != j )
81
+ {
82
+ visited(idx) = j;
83
+ m_innerIndices(CurNz) = idx;
84
+ CurNz++;
85
+ }
86
+ }
87
+ //Add the pattern of row/column j of At to A+At
88
+ for (typename MatrixType::InnerIterator it(At, j); it; ++it)
89
+ {
90
+ StorageIndex idx = it.index();
91
+ if(visited(idx) != j)
92
+ {
93
+ visited(idx) = j;
94
+ m_innerIndices(CurNz) = idx;
95
+ ++CurNz;
96
+ }
97
+ }
98
+ }
99
+ m_indexPtr(m) = CurNz;
100
+ }
101
+
102
+ template <typename MatrixType>
103
+ void operator() (const MatrixType& A, PermutationType& matperm)
104
+ {
105
+ StorageIndex m = internal::convert_index<StorageIndex>(A.cols()); // must be StorageIndex, because it is passed by address to METIS
106
+ IndexVector perm(m),iperm(m);
107
+ // First, symmetrize the matrix graph.
108
+ get_symmetrized_graph(A);
109
+ int output_error;
110
+
111
+ // Call the fill-reducing routine from METIS
112
+ output_error = METIS_NodeND(&m, m_indexPtr.data(), m_innerIndices.data(), NULL, NULL, perm.data(), iperm.data());
113
+
114
+ if(output_error != METIS_OK)
115
+ {
116
+ //FIXME The ordering interface should define a class of possible errors
117
+ std::cerr << "ERROR WHILE CALLING THE METIS PACKAGE \n";
118
+ return;
119
+ }
120
+
121
+ // Get the fill-reducing permutation
122
+ //NOTE: If Ap is the permuted matrix then perm and iperm vectors are defined as follows
123
+ // Row (column) i of Ap is the perm(i) row(column) of A, and row (column) i of A is the iperm(i) row(column) of Ap
124
+
125
+ matperm.resize(m);
126
+ for (int j = 0; j < m; j++)
127
+ matperm.indices()(iperm(j)) = j;
128
+
129
+ }
130
+
131
+ protected:
132
+ IndexVector m_indexPtr; // Pointer to the adjacenccy list of each row/column
133
+ IndexVector m_innerIndices; // Adjacency list
134
+ };
135
+
136
+ }// end namespace eigen
137
+ #endif