[shark] 01/04: Merge tag 'upstream/3.1.0+ds1' into debian/experimental

[Ghislain Vaillant]

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ghisvail-guest pushed a commit to branch debian/master
in repository shark.

commit da50294865fd4577246e78b2734cc0c499f22f13
Merge: 56b08e3 390e8a0
Author: Ghislain Antony Vaillant <ghisvail at gmail.com>
Date:   Wed Mar 16 10:49:22 2016 +0000

    Merge tag 'upstream/3.1.0+ds1' into debian/experimental
    
    Upstream version 3.1.0+ds1

 CMakeLists.txt                                     |  14 +-
 Test/Algorithms/DirectSearch/CMA.cpp               |  12 +-
 .../Algorithms/DirectSearch/CrossEntropyMethod.cpp |  56 +++
 Test/Algorithms/DirectSearch/MOCMA.cpp             |   8 +-
 .../Operators/Mutation/BitflipMutation.cpp         |   2 +-
 .../DirectSearch/Operators/Selection/Selection.cpp |   4 +-
 Test/Algorithms/DirectSearch/RealCodedNSGAII.cpp   |  13 +-
 .../{RealCodedNSGAII.cpp => SMS-EMOA.cpp}          |  21 +-
 Test/Algorithms/DirectSearch/SteadyStateMOCMA.cpp  |   5 +-
 Test/Algorithms/Hypervolume.cpp                    | 125 ++++--
 Test/Algorithms/Trainers/FisherLDA.cpp             |   2 +-
 Test/Algorithms/Trainers/LDA.cpp                   |   8 +-
 Test/Algorithms/Trainers/LinearRegression.cpp      |   2 +-
 Test/Algorithms/Trainers/Normalization.cpp         |   6 +-
 Test/Algorithms/Trainers/PCA.cpp                   |   6 +-
 Test/Algorithms/testFunction.h                     |   1 +
 Test/CMakeLists.txt                                |   2 +
 Test/ObjectiveFunctions/Benchmarks.cpp             |   7 -
 Test/ObjectiveFunctions/ErrorFunction.cpp          |   2 +-
 Test/Rng/MultiNomial.cpp                           |   4 +-
 Test/Rng/MultiVariateNormal.cpp                    |   4 +-
 examples/EA/SOO/AckleyES.tpp                       |   4 +-
 examples/EA/SOO/CMASimple.tpp                      |   4 +-
 examples/EA/SOO/TSP.tpp                            |   7 +-
 examples/Supervised/DeepNetworkTraining.tpp        |   2 +-
 examples/Unsupervised/PCA.tpp                      |   2 +-
 include/shark/Algorithms/DirectSearch/CMA.h        | 448 +++++++++++----------
 .../Algorithms/DirectSearch/CMA/CMAIndividual.h    |  18 +-
 .../shark/Algorithms/DirectSearch/CMA/Chromosome.h |   7 +-
 include/shark/Algorithms/DirectSearch/CMSA.h       | 240 ++++++-----
 .../Algorithms/DirectSearch/CrossEntropyMethod.h   | 258 ++++++++++++
 include/shark/Algorithms/DirectSearch/ElitistCMA.h |   4 +-
 .../DirectSearch/HypervolumeCalculator.h           | 121 +++++-
 .../DirectSearch/Indicators/HypervolumeIndicator.h |   1 +
 include/shark/Algorithms/DirectSearch/LMCMA.h      |   9 +-
 include/shark/Algorithms/DirectSearch/MOCMA.h      | 221 +++++-----
 .../Operators/Mutation/BitflipMutator.h            |   4 +-
 .../Operators/Mutation/PolynomialMutation.h        |  69 ++--
 .../Operators/Recombination/OnePointCrossover.h    |   6 +-
 .../Recombination/SimulatedBinaryCrossover.h       |  86 ++--
 .../Operators/Recombination/UniformCrossover.h     |   8 +-
 .../Operators/Selection/EPTournamentSelection.h    |  10 +-
 .../Operators/Selection/IndicatorBasedSelection.h  |   3 +-
 .../Operators/Selection/LinearRanking.h            |   3 +-
 .../Operators/Selection/RouletteWheelSelection.h   |   4 +-
 .../Operators/Selection/TournamentSelection.h      |   9 +-
 .../Operators/Selection/UniformRanking.h           |   3 +-
 .../Algorithms/DirectSearch/RealCodedNSGAII.h      | 236 +++++++----
 include/shark/Algorithms/DirectSearch/SMS-EMOA.h   | 200 +++++----
 .../Algorithms/DirectSearch/SteadyStateMOCMA.h     | 220 ++++++----
 include/shark/Algorithms/DirectSearch/VDCMA.h      |   8 +-
 include/shark/Algorithms/QP/QpBoxLinear.h          |  74 ++--
 include/shark/Algorithms/Trainers/CSvmTrainer.h    |  32 +-
 .../Trainers/Distribution/NormalTrainer.h          |   6 +-
 .../shark/Algorithms/Trainers/McSvmOVATrainer.h    |   4 +-
 include/shark/Core/OpenMP.h                        |   2 +-
 include/shark/Core/Timer.h                         |  10 +-
 include/shark/Data/Csv.h                           |   2 -
 include/shark/Data/DataDistribution.h              |   2 +-
 .../Data/Impl/BoostFusion151DefineStructInl.hpp    |   2 +-
 include/shark/LinAlg/BLAS/kernels/lapack/syev.hpp  |   2 +-
 include/shark/LinAlg/rotations.h                   |   8 +-
 include/shark/Models/Kernels/SubrangeKernel.h      |   2 +-
 include/shark/Models/Trees/CARTClassifier.h        |  16 +-
 include/shark/Models/Trees/RFClassifier.h          |  25 ++
 .../shark/ObjectiveFunctions/Benchmarks/DTLZ4.h    |   4 +-
 .../ObjectiveFunctions/Loss/EpsilonHingeLoss.h     |   3 -
 .../Loss/SquaredEpsilonHingeLoss.h                 |   3 +-
 include/shark/Rng/Bernoulli.h                      |  10 +-
 include/shark/Rng/Binomial.h                       |   8 +-
 include/shark/Rng/DiscreteUniform.h                | 128 +++---
 include/shark/Rng/GlobalRng.h                      |   5 -
 include/shark/Rng/Normal.h                         |   9 +-
 include/shark/Rng/Uniform.h                        |   7 +
 .../Distributions/MultiNomialDistribution.h        |  13 +-
 .../Distributions/MultiVariateNormalDistribution.h |  42 +-
 src/Algorithms/DirectSearch/CMA.cpp                | 137 ++++---
 src/Algorithms/DirectSearch/CMSA.cpp               | 109 +++--
 src/Algorithms/DirectSearch/CrossEntropyMethod.cpp | 216 ++++++++++
 src/Algorithms/DirectSearch/ElitistCMA.cpp         |   4 +-
 src/Models/RNNet.cpp                               |  14 +-
 81 files changed, 2268 insertions(+), 1150 deletions(-)

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