[shark] 10/24: Merge tag 'upstream/v3.0.1' into upstream
Ghislain Vaillant
ghisvail-guest at moszumanska.debian.org
Thu Dec 10 19:50:04 UTC 2015
This is an automated email from the git hooks/post-receive script.
ghisvail-guest pushed a commit to branch debian/sid
in repository shark.
commit c6fcc64f8138874886bfd9b34b93ed8c8afe7269
Merge: 60332c7 b1fa7e6
Author: Ghislain Antony Vaillant <ghisvail at gmail.com>
Date: Wed Dec 9 23:21:23 2015 +0000
Merge tag 'upstream/v3.0.1' into upstream
.travis.yml | 36 +
CMakeLists.txt | 128 ++-
README.txt | 6 +-
Test/Algorithms/DirectSearch/MOCMA.cpp | 2 +-
Test/Algorithms/DirectSearch/RealCodedNSGAII.cpp | 3 +-
Test/Algorithms/DirectSearch/SteadyStateMOCMA.cpp | 2 +-
Test/CMakeLists.txt | 6 +-
Test/Data/HDF5Tests.cpp | 7 +-
appveyor.yml | 48 +
cBlasCheck.cpp | 9 +
doc/SharkLogo.png | Bin 0 -> 14457 bytes
doc/download.png | Bin 2892 -> 320 bytes
doc/doxygen_pages/templates/header.html | 3 +-
doc/frontpage.css | 278 ++++++
doc/index.html | 318 +++++-
doc/lgplv3-147x51.png | Bin 0 -> 3343 bytes
doc/shark16.ico | Bin 0 -> 1406 bytes
doc/sphinx_pages/index.rst | 5 -
.../rest_sources/about_shark/copyright.rst | 3 +
doc/sphinx_pages/rest_sources/about_shark/news.rst | 8 +-
.../rest_sources/downloads/downloads.rst | 10 +-
.../rest_sources/getting_started/installation.rst | 48 +-
.../tutorials/concepts/data/datasets.tut | 4 +-
.../tutorials/concepts/library_design/kernels.rst | 4 +-
.../tutorials/concepts/library_design/models.rst | 4 +-
.../tutorials/concepts/misc/statistics.rst | 96 +-
.../tutorials/concepts/misc/statistics.tut | 2 +-
.../tutorials/first_steps/shark_layout.rst | 9 +-
.../rest_sources/tutorials/tutorials.rst | 1 -
doc/sphinx_pages/templates/layout.html | 2 +-
examples/CMakeLists.txt | 8 +-
include/shark/Algorithms/DirectSearch/CMSA.h | 4 +-
.../Algorithms/DirectSearch/FastNonDominatedSort.h | 27 +
include/shark/Algorithms/DirectSearch/Grid.h | 27 +
include/shark/Algorithms/DirectSearch/LMCMA.h | 4 +-
.../Algorithms/GradientDescent/Impl/dlinmin.inl | 44 +-
.../Algorithms/GradientDescent/Impl/wolfecubic.inl | 42 +-
include/shark/Algorithms/QP/QpMcLinear.h | 3 +-
.../shark/Algorithms/Trainers/KernelSGDTrainer.h | 3 +-
.../Trainers/NormalizeComponentsWhitening.h | 4 +-
include/shark/Core/DLLSupport.h | 1 +
include/shark/Core/Shark.h.in | 41 +-
include/shark/Data/HDF5.h | 10 +-
include/shark/Data/Impl/CVDatasetTools.inl | 28 +-
include/shark/Data/Impl/Dataset.inl | 34 +-
include/shark/Data/Impl/Statistics.inl | 27 +
include/shark/Data/Pgm.h | 4 +-
include/shark/LinAlg/BLAS/assignment.hpp | 606 ++++++++++++
include/shark/LinAlg/BLAS/detail/functional.hpp | 27 +
include/shark/LinAlg/BLAS/detail/iterator.hpp | 32 +-
include/shark/LinAlg/BLAS/detail/traits.hpp | 35 +-
include/shark/LinAlg/BLAS/expression_types.hpp | 121 +--
include/shark/LinAlg/BLAS/fwd.hpp | 27 +
include/shark/LinAlg/BLAS/io.hpp | 27 +
include/shark/LinAlg/BLAS/kernels/atlas/potrf.hpp | 5 +-
.../BLAS/kernels/{atlas => cblas}/cblas_inc.hpp | 40 +-
.../LinAlg/BLAS/kernels/{atlas => cblas}/dot.hpp | 16 +-
.../LinAlg/BLAS/kernels/{atlas => cblas}/gemm.hpp | 24 +-
.../LinAlg/BLAS/kernels/{atlas => cblas}/gemv.hpp | 24 +-
.../LinAlg/BLAS/kernels/{atlas => cblas}/tpmv.hpp | 12 +-
.../LinAlg/BLAS/kernels/{atlas => cblas}/trmm.hpp | 16 +-
.../LinAlg/BLAS/kernels/{atlas => cblas}/trmv.hpp | 12 +-
.../LinAlg/BLAS/kernels/{atlas => cblas}/trsm.hpp | 16 +-
.../LinAlg/BLAS/kernels/{atlas => cblas}/trsv.hpp | 12 +-
include/shark/LinAlg/BLAS/kernels/default/gemv.hpp | 12 +
include/shark/LinAlg/BLAS/kernels/dot.hpp | 10 +-
include/shark/LinAlg/BLAS/kernels/gemm.hpp | 4 +-
include/shark/LinAlg/BLAS/kernels/gemv.hpp | 4 +-
.../shark/LinAlg/BLAS/kernels/gotoblas/cblas_inc.h | 36 -
include/shark/LinAlg/BLAS/kernels/gotoblas/gemm.h | 164 ----
include/shark/LinAlg/BLAS/kernels/gotoblas/gemv.h | 137 ---
include/shark/LinAlg/BLAS/kernels/gotoblas/syrk.h | 133 ---
include/shark/LinAlg/BLAS/kernels/gotoblas/trsm.h | 128 ---
include/shark/LinAlg/BLAS/kernels/gotoblas/trsv.h | 112 ---
.../shark/LinAlg/BLAS/kernels/matrix_assign.hpp | 45 +-
include/shark/LinAlg/BLAS/kernels/potrf.hpp | 2 +-
include/shark/LinAlg/BLAS/kernels/syev.hpp | 2 +-
include/shark/LinAlg/BLAS/kernels/tpmv.hpp | 4 +-
include/shark/LinAlg/BLAS/kernels/traits.hpp | 2 +-
include/shark/LinAlg/BLAS/kernels/trmm.hpp | 6 +-
include/shark/LinAlg/BLAS/kernels/trmv.hpp | 4 +-
include/shark/LinAlg/BLAS/kernels/trsm.hpp | 4 +-
include/shark/LinAlg/BLAS/kernels/trsv.hpp | 4 +-
.../shark/LinAlg/BLAS/kernels/vector_assign.hpp | 29 +-
include/shark/LinAlg/BLAS/lu.hpp | 31 +-
include/shark/LinAlg/BLAS/matrix.hpp | 166 +---
include/shark/LinAlg/BLAS/matrix_expression.hpp | 1030 +++++++++++++-------
include/shark/LinAlg/BLAS/matrix_proxy.hpp | 890 ++++-------------
include/shark/LinAlg/BLAS/matrix_set.hpp | 27 +
include/shark/LinAlg/BLAS/matrix_sparse.hpp | 94 +-
include/shark/LinAlg/BLAS/operation.hpp | 27 +
include/shark/LinAlg/BLAS/permutation.hpp | 27 +
include/shark/LinAlg/BLAS/triangular_matrix.hpp | 145 +--
include/shark/LinAlg/BLAS/vector.hpp | 252 +----
include/shark/LinAlg/BLAS/vector_expression.hpp | 387 +++++++-
include/shark/LinAlg/BLAS/vector_proxy.hpp | 291 +-----
include/shark/LinAlg/BLAS/vector_sparse.hpp | 124 ++-
include/shark/LinAlg/Impl/Cholesky.inl | 49 +-
include/shark/LinAlg/Impl/eigensymm.inl | 31 +-
include/shark/LinAlg/Impl/pivotingRQ.inl | 48 +-
include/shark/LinAlg/Impl/solveSystem.inl | 94 +-
include/shark/LinAlg/Impl/solveTriangular.inl | 43 +-
include/shark/LinAlg/Impl/svd.inl | 43 +-
include/shark/LinAlg/Metrics.h | 4 +-
include/shark/LinAlg/rotations.h | 13 +-
include/shark/LinAlg/solveSystem.h | 4 +-
include/shark/Models/Autoencoder.h | 10 +-
include/shark/Models/ConvexCombination.h | 7 +-
include/shark/Models/FFNet.h | 10 +-
include/shark/Models/Impl/LinearModel.inl | 264 -----
include/shark/Models/Kernels/CSvmDerivative.h | 7 +-
include/shark/Models/Kernels/GaussianRbfKernel.h | 2 +-
include/shark/Models/Kernels/KernelExpansion.h | 2 +-
include/shark/Models/Kernels/LinearKernel.h | 4 +-
include/shark/Models/Kernels/MonomialKernel.h | 8 +-
include/shark/Models/Kernels/PolynomialKernel.h | 9 +-
include/shark/Models/LinearClassifier.h | 27 +
include/shark/Models/LinearModel.h | 6 +-
include/shark/Models/LinearNorm.h | 27 +
include/shark/Models/RecurrentStructure.h | 54 +-
include/shark/Models/SigmoidModel.h | 27 +
include/shark/Models/TiedAutoencoder.h | 12 +-
include/shark/Models/Trees/KDTree.h | 2 +-
include/shark/ObjectiveFunctions/Benchmarks/GSP.h | 27 +
.../Benchmarks/RotatedErrorFunction.h | 3 +-
.../ObjectiveFunctions/Impl/ErrorFunction.inl | 31 +-
.../ObjectiveFunctions/Impl/NoisyErrorFunction.inl | 32 +-
.../Impl/SparseAutoencoderError.inl | 33 +-
.../NegativeGaussianProcessEvidence.h | 3 +-
.../Distributions/MultiNomialDistribution.h | 14 +-
.../Distributions/MultiVariateNormalDistribution.h | 3 +-
.../shark/Statistics/Tests/WilcoxonRankSumTest.h | 27 +
.../Unsupervised/RBM/Impl/AverageEnergyGradient.h | 31 +-
.../RBM/Impl/ConvolutionalEnergyGradient.h | 27 +
include/shark/Unsupervised/RBM/Impl/analytics.h | 4 +-
.../Unsupervised/RBM/Neuronlayers/BinaryLayer.h | 13 +-
.../Unsupervised/RBM/Neuronlayers/BipolarLayer.h | 53 +-
.../Unsupervised/RBM/Neuronlayers/GaussianLayer.h | 7 +-
.../RBM/Neuronlayers/TruncatedExponentialLayer.h | 4 +-
.../Unsupervised/RBM/Problems/BarsAndStripes.h | 27 +
.../shark/Unsupervised/RBM/Problems/DistantModes.h | 27 +
include/shark/Unsupervised/RBM/Problems/MNIST.h | 27 +
include/shark/Unsupervised/RBM/Problems/Shifter.h | 27 +
include/shark/Unsupervised/RBM/RBM.h | 4 +-
src/Algorithms/DirectSearch/CMSA.cpp | 2 +-
src/Algorithms/FisherLDA.cpp | 4 +-
src/Algorithms/GradientDescent/BFGS.cpp | 6 +-
.../GradientDescent/TrustRegionNewton.cpp | 2 +-
src/Algorithms/LinearRegression.cpp | 2 +-
src/Algorithms/PCA.cpp | 11 +-
src/CMakeLists.txt | 8 +-
src/Models/OnlineRNNet.cpp | 20 +-
src/Models/RBFLayer.cpp | 3 +-
src/Models/RNNet.cpp | 11 +-
154 files changed, 4306 insertions(+), 3732 deletions(-)
--
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