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docs/pdf/manual.pdf
docs/src/developers.tex
docs/src/index.bib
docs/src/index.tex
docs/src/models.tex
docs/src/users.tex
Doxyfile
inc/Module/Install.pm
inc/Module/Install/Base.pm
inc/Module/Install/Can.pm
inc/Module/Install/Fetch.pm
inc/Module/Install/Makefile.pm
inc/Module/Install/Metadata.pm
inc/Module/Install/Scripts.pm
inc/Module/Install/Share.pm
inc/Module/Install/Win32.pm
inc/Module/Install/WriteAll.pm
INSTALL.md
INSTALL_GENERIC.md
INSTALL_LINUX.md
INSTALL_MAC.md
INSTALL_WIN.md
lib/Bi.pm
lib/Bi/Action.pm
lib/Bi/Action/beta.pm
lib/Bi/Action/betabin.pm
lib/Bi/Action/binomial.pm
lib/Bi/Action/cholesky.pm
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lib/Bi/Action/exclusive_scan.pm
lib/Bi/Action/exponential.pm
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lib/Bi/Action/gaussian.pm
lib/Bi/Action/gemm_.pm
lib/Bi/Action/gemv_.pm
lib/Bi/Action/inclusive_scan.pm
lib/Bi/Action/inverse_gamma.pm
lib/Bi/Action/log_gaussian.pm
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lib/Bi/Action/negbin.pm
lib/Bi/Action/normal.pm
lib/Bi/Action/ode_.pm
lib/Bi/Action/pdf.pm
lib/Bi/Action/poisson.pm
lib/Bi/Action/std_.pm
lib/Bi/Action/transpose.pm
lib/Bi/Action/truncated_gaussian.pm
lib/Bi/Action/truncated_normal.pm
lib/Bi/Action/uniform.pm
lib/Bi/Action/wiener.pm
lib/Bi/ArgHandler.pm
lib/Bi/Block.pm
lib/Bi/Block/bridge.pm
lib/Bi/Block/cholesky_.pm
lib/Bi/Block/common_orthogonal_std_.pm
lib/Bi/Block/common_std_.pm
lib/Bi/Block/const_std_.pm
lib/Bi/Block/eval_.pm
lib/Bi/Block/initial.pm
lib/Bi/Block/lookahead_observation.pm
lib/Bi/Block/lookahead_transition.pm
lib/Bi/Block/matrix_.pm
lib/Bi/Block/observation.pm
lib/Bi/Block/ode.pm
lib/Bi/Block/orthogonal_std_.pm
lib/Bi/Block/parameter.pm
lib/Bi/Block/pdf_.pm
lib/Bi/Block/proposal_initial.pm
lib/Bi/Block/proposal_parameter.pm
lib/Bi/Block/std_.pm
lib/Bi/Block/transition.pm
lib/Bi/Block/wiener_.pm
lib/Bi/Builder.pm
lib/Bi/Client.pm
lib/Bi/Client/draw.pm
lib/Bi/Client/filter.pm
lib/Bi/Client/help.pm
lib/Bi/Client/optimise.pm
lib/Bi/Client/optimize.pm
lib/Bi/Client/package.pm
lib/Bi/Client/rewrite.pm
lib/Bi/Client/sample.pm
lib/Bi/Expression.pm
lib/Bi/Expression/BinaryOperator.pm
lib/Bi/Expression/ConstIdentifier.pm
lib/Bi/Expression/DimAliasIdentifier.pm
lib/Bi/Expression/Function.pm
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lib/Bi/Expression/MatrixReference.pm
lib/Bi/Expression/Range.pm
lib/Bi/Expression/Shape.pm
lib/Bi/Expression/StringLiteral.pm
lib/Bi/Expression/TernaryOperator.pm
lib/Bi/Expression/UnaryOperator.pm
lib/Bi/Expression/VarIdentifier.pm
lib/Bi/Expression/Vector.pm
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lib/Bi/FrontEnd.pm
lib/Bi/Gen.pm
lib/Bi/Gen/Bi.pm
lib/Bi/Gen/Build.pm
lib/Bi/Gen/Cpp.pm
lib/Bi/Gen/Dot.pm
lib/Bi/Gen/Doxyfile.pm
lib/Bi/Model.pm
lib/Bi/Model/Const.pm
lib/Bi/Model/Dim.pm
lib/Bi/Model/DimAlias.pm
lib/Bi/Model/Inline.pm
lib/Bi/Model/Spec.pm
lib/Bi/Model/Var.pm
lib/Bi/Model/VarGroup.pm
lib/Bi/Node.pm
lib/Bi/Optimiser.pm
lib/Bi/Parser.pm
lib/Bi/Test/test.pm
lib/Bi/Test/test_resampler.pm
lib/Bi/Utility.pm
lib/Bi/Visitor.pm
lib/Bi/Visitor/EvalConst.pm
lib/Bi/Visitor/ExtendedTransformer.pm
lib/Bi/Visitor/GetDims.pm
lib/Bi/Visitor/GetNodesOfType.pm
lib/Bi/Visitor/InitialToParamTransformer.pm
lib/Bi/Visitor/IsBasic.pm
lib/Bi/Visitor/IsConst.pm
lib/Bi/Visitor/IsElement.pm
lib/Bi/Visitor/IsStatic.pm
lib/Bi/Visitor/IteratedFilteringTransformer.pm
lib/Bi/Visitor/IteratedSmoothingTransformer.pm
lib/Bi/Visitor/ObsToStateTransformer.pm
lib/Bi/Visitor/ParamToStateTransformer.pm
lib/Bi/Visitor/Simplify.pm
lib/Bi/Visitor/Standardiser.pm
lib/Bi/Visitor/StaticExtractor.pm
lib/Bi/Visitor/StaticReplacer.pm
lib/Bi/Visitor/TargetReplacer.pm
lib/Bi/Visitor/ToAscii.pm
lib/Bi/Visitor/ToCpp.pm
lib/Bi/Visitor/ToPerl.pm
lib/Bi/Visitor/ToSymbolic.pm
lib/Bi/Visitor/Unroller.pm
lib/Bi/Visitor/VarReplacer.pm
lib/Bi/Visitor/Wrapper.pm
lib/Parse/Bi.pm
LICENSE
MakeDocs.PL
Makefile.PL
MakeParser.PL
README.md
script/bi
script/libbi
share/autogen.sh
share/bi.lex
share/bi.yp
share/configure.ac
share/emacs/bi-mode.el
share/nvcc_wrapper.pl
share/src/bi/adapter/Adapter.hpp
share/src/bi/adapter/AdapterFactory.cpp
share/src/bi/adapter/AdapterFactory.hpp
share/src/bi/adapter/GaussianAdapter.cpp
share/src/bi/adapter/GaussianAdapter.hpp
share/src/bi/bi.cpp
share/src/bi/bi.hpp
share/src/bi/buffer/buffer.hpp
share/src/bi/buffer/InputBuffer.hpp
share/src/bi/buffer/KalmanFilterBuffer.hpp
share/src/bi/buffer/MCMCBuffer.hpp
share/src/bi/buffer/ParticleFilterBuffer.hpp
share/src/bi/buffer/SimulatorBuffer.hpp
share/src/bi/buffer/SMCBuffer.hpp
share/src/bi/buffer/SRSBuffer.hpp
share/src/bi/bugs.hpp
share/src/bi/cache/AdaptivePFCache.hpp
share/src/bi/cache/AncestryCache.hpp
share/src/bi/cache/BootstrapPFCache.hpp
share/src/bi/cache/Cache.cpp
share/src/bi/cache/Cache.hpp
share/src/bi/cache/Cache1D.hpp
share/src/bi/cache/Cache2D.hpp
share/src/bi/cache/CacheCross.hpp
share/src/bi/cache/CacheObject.hpp
share/src/bi/cache/ExtendedKFCache.hpp
share/src/bi/cache/MCMCCache.hpp
share/src/bi/cache/SimulatorCache.hpp
share/src/bi/cache/SMCCache.hpp
share/src/bi/cache/SRSCache.hpp
share/src/bi/concept/ConditionalPdf.hpp
share/src/bi/concept/Kernel.hpp
share/src/bi/concept/Norm.hpp
share/src/bi/concept/Partitioner.hpp
share/src/bi/concept/Pdf.hpp
share/src/bi/cuda/cache/AncestryCacheGPU.cuh
share/src/bi/cuda/cache/AncestryCacheKernel.cuh
share/src/bi/cuda/constant.cuh
share/src/bi/cuda/cuda.hpp
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share/src/bi/cuda/global_store_visitor.cuh
share/src/bi/cuda/math/cublas.cu
share/src/bi/cuda/math/cublas.hpp
share/src/bi/cuda/math/io.hpp
share/src/bi/cuda/math/matrix.hpp
share/src/bi/cuda/math/multi_operation.hpp
share/src/bi/cuda/math/operation.hpp
share/src/bi/cuda/math/sim_temp_matrix.hpp
share/src/bi/cuda/math/sim_temp_vector.hpp
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share/src/bi/cuda/math/vector.hpp
share/src/bi/cuda/ode/DOPRI5IntegratorGPU.cuh
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share/src/bi/cuda/ode/DOPRI5VisitorGPU.cuh
share/src/bi/cuda/ode/IntegratorConstants.cuh
share/src/bi/cuda/ode/RK43IntegratorGPU.cuh
share/src/bi/cuda/ode/RK43KernelGPU.cuh
share/src/bi/cuda/ode/RK43VisitorGPU.cuh
share/src/bi/cuda/ode/RK4IntegratorGPU.cuh
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share/src/bi/cuda/ode/RK4VisitorGPU.cuh
share/src/bi/cuda/primitive/matrix_primitive.cuh
share/src/bi/cuda/primitive/matrix_primitive_kernel.cuh
share/src/bi/cuda/random/curandStateSA.hpp
share/src/bi/cuda/random/RandomGPU.cu
share/src/bi/cuda/random/RandomGPU.cuh
share/src/bi/cuda/random/RandomGPU.hpp
share/src/bi/cuda/random/RandomKernel.cu
share/src/bi/cuda/random/RandomKernel.cuh
share/src/bi/cuda/random/RngGPU.cuh
share/src/bi/cuda/resampler/MetropolisResamplerGPU.cuh
share/src/bi/cuda/resampler/MetropolisResamplerKernel.cuh
share/src/bi/cuda/resampler/misc.hpp
share/src/bi/cuda/resampler/MultinomialResamplerGPU.hpp
share/src/bi/cuda/resampler/RejectionResamplerGPU.cuh
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share/src/bi/cuda/resampler/ResamplerKernel.cuh
share/src/bi/cuda/resampler/StratifiedResamplerGPU.cuh
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share/src/bi/cuda/updater/DynamicLogDensityGPU.cuh
share/src/bi/cuda/updater/DynamicLogDensityKernel.cuh
share/src/bi/cuda/updater/DynamicLogDensityMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/DynamicLogDensityVisitorGPU.cuh
share/src/bi/cuda/updater/DynamicMaxLogDensityGPU.cuh
share/src/bi/cuda/updater/DynamicMaxLogDensityKernel.cuh
share/src/bi/cuda/updater/DynamicMaxLogDensityMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/DynamicMaxLogDensityVisitorGPU.cuh
share/src/bi/cuda/updater/DynamicSamplerGPU.cuh
share/src/bi/cuda/updater/DynamicSamplerKernel.cuh
share/src/bi/cuda/updater/DynamicSamplerMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/DynamicSamplerVisitorGPU.cuh
share/src/bi/cuda/updater/DynamicUpdaterGPU.cuh
share/src/bi/cuda/updater/DynamicUpdaterKernel.cuh
share/src/bi/cuda/updater/DynamicUpdaterMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/DynamicUpdaterVisitorGPU.cuh
share/src/bi/cuda/updater/SparseStaticLogDensityGPU.cuh
share/src/bi/cuda/updater/SparseStaticLogDensityKernel.cuh
share/src/bi/cuda/updater/SparseStaticLogDensityMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/SparseStaticLogDensityVisitorGPU.cuh
share/src/bi/cuda/updater/SparseStaticMaxLogDensityGPU.cuh
share/src/bi/cuda/updater/SparseStaticMaxLogDensityKernel.cuh
share/src/bi/cuda/updater/SparseStaticMaxLogDensityMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/SparseStaticMaxLogDensityVisitorGPU.cuh
share/src/bi/cuda/updater/SparseStaticSamplerGPU.cuh
share/src/bi/cuda/updater/SparseStaticSamplerKernel.cuh
share/src/bi/cuda/updater/SparseStaticSamplerMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/SparseStaticSamplerVisitorGPU.cuh
share/src/bi/cuda/updater/SparseStaticUpdaterGPU.cuh
share/src/bi/cuda/updater/SparseStaticUpdaterKernel.cuh
share/src/bi/cuda/updater/SparseStaticUpdaterMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/SparseStaticUpdaterVisitorGPU.cuh
share/src/bi/cuda/updater/StaticLogDensityGPU.cuh
share/src/bi/cuda/updater/StaticLogDensityKernel.cuh
share/src/bi/cuda/updater/StaticLogDensityMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/StaticLogDensityVisitorGPU.cuh
share/src/bi/cuda/updater/StaticMaxLogDensityGPU.cuh
share/src/bi/cuda/updater/StaticMaxLogDensityKernel.cuh
share/src/bi/cuda/updater/StaticMaxLogDensityMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/StaticMaxLogDensityVisitorGPU.cuh
share/src/bi/cuda/updater/StaticSamplerGPU.cuh
share/src/bi/cuda/updater/StaticSamplerKernel.cuh
share/src/bi/cuda/updater/StaticSamplerMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/StaticSamplerVisitorGPU.cuh
share/src/bi/cuda/updater/StaticUpdaterGPU.cuh
share/src/bi/cuda/updater/StaticUpdaterKernel.cuh
share/src/bi/cuda/updater/StaticUpdaterMatrixVisitorGPU.cuh
share/src/bi/cuda/updater/StaticUpdaterVisitorGPU.cuh
share/src/bi/filter/AdaptivePF.hpp
share/src/bi/filter/BootstrapPF.hpp
share/src/bi/filter/BridgePF.hpp
share/src/bi/filter/ExtendedKF.hpp
share/src/bi/filter/Filter.hpp
share/src/bi/filter/FilterFactory.hpp
share/src/bi/filter/LookaheadPF.hpp
share/src/bi/host/cache/AncestryCacheHost.hpp
share/src/bi/host/host.hpp
share/src/bi/host/host_load_visitor.hpp
share/src/bi/host/host_store_visitor.hpp
share/src/bi/host/math/cblas.cpp
share/src/bi/host/math/cblas.hpp
share/src/bi/host/math/io.hpp
share/src/bi/host/math/lapack.cpp
share/src/bi/host/math/lapack.hpp
share/src/bi/host/math/matrix.hpp
share/src/bi/host/math/multi_operation.hpp
share/src/bi/host/math/operation.hpp
share/src/bi/host/math/qrupdate.cpp
share/src/bi/host/math/qrupdate.hpp
share/src/bi/host/math/sim_temp_matrix.hpp
share/src/bi/host/math/sim_temp_vector.hpp
share/src/bi/host/math/temp_matrix.hpp
share/src/bi/host/math/temp_vector.hpp
share/src/bi/host/math/vector.hpp
share/src/bi/host/ode/DOPRI5IntegratorHost.hpp
share/src/bi/host/ode/DOPRI5VisitorHost.hpp
share/src/bi/host/ode/IntegratorConstants.cpp
share/src/bi/host/ode/IntegratorConstants.hpp
share/src/bi/host/ode/RK43IntegratorHost.hpp
share/src/bi/host/ode/RK43VisitorHost.hpp
share/src/bi/host/ode/RK4IntegratorHost.hpp
share/src/bi/host/ode/RK4VisitorHost.hpp
share/src/bi/host/primitive/matrix_primitive.hpp
share/src/bi/host/random/RandomHost.cpp
share/src/bi/host/random/RandomHost.hpp
share/src/bi/host/random/RngHost.hpp
share/src/bi/host/resampler/MetropolisResamplerHost.hpp
share/src/bi/host/resampler/MultinomialResamplerHost.hpp
share/src/bi/host/resampler/RejectionResamplerHost.hpp
share/src/bi/host/resampler/ResamplerHost.hpp
share/src/bi/host/resampler/StratifiedResamplerHost.hpp
share/src/bi/host/updater/DynamicLogDensityHost.hpp
share/src/bi/host/updater/DynamicLogDensityMatrixVisitorHost.hpp
share/src/bi/host/updater/DynamicLogDensityVisitorHost.hpp
share/src/bi/host/updater/DynamicMaxLogDensityHost.hpp
share/src/bi/host/updater/DynamicMaxLogDensityMatrixVisitorHost.hpp
share/src/bi/host/updater/DynamicMaxLogDensityVisitorHost.hpp
share/src/bi/host/updater/DynamicSamplerHost.hpp
share/src/bi/host/updater/DynamicSamplerMatrixVisitorHost.hpp
share/src/bi/host/updater/DynamicSamplerVisitorHost.hpp
share/src/bi/host/updater/DynamicUpdaterHost.hpp
share/src/bi/host/updater/DynamicUpdaterMatrixVisitorHost.hpp
share/src/bi/host/updater/DynamicUpdaterVisitorHost.hpp
share/src/bi/host/updater/SparseStaticLogDensityHost.hpp
share/src/bi/host/updater/SparseStaticLogDensityMatrixVisitorHost.hpp
share/src/bi/host/updater/SparseStaticLogDensityVisitorHost.hpp
share/src/bi/host/updater/SparseStaticMaxLogDensityHost.hpp
share/src/bi/host/updater/SparseStaticMaxLogDensityMatrixVisitorHost.hpp
share/src/bi/host/updater/SparseStaticMaxLogDensityVisitorHost.hpp
share/src/bi/host/updater/SparseStaticSamplerHost.hpp
share/src/bi/host/updater/SparseStaticSamplerMatrixVisitorHost.hpp
share/src/bi/host/updater/SparseStaticSamplerVisitorHost.hpp
share/src/bi/host/updater/SparseStaticUpdaterHost.hpp
share/src/bi/host/updater/SparseStaticUpdaterMatrixVisitorHost.hpp
share/src/bi/host/updater/SparseStaticUpdaterVisitorHost.hpp
share/src/bi/host/updater/StaticLogDensityHost.hpp
share/src/bi/host/updater/StaticLogDensityMatrixVisitorHost.hpp
share/src/bi/host/updater/StaticLogDensityVisitorHost.hpp
share/src/bi/host/updater/StaticMaxLogDensityHost.hpp
share/src/bi/host/updater/StaticMaxLogDensityMatrixVisitorHost.hpp
share/src/bi/host/updater/StaticMaxLogDensityVisitorHost.hpp
share/src/bi/host/updater/StaticSamplerHost.hpp
share/src/bi/host/updater/StaticSamplerMatrixVisitorHost.hpp
share/src/bi/host/updater/StaticSamplerVisitorHost.hpp
share/src/bi/host/updater/StaticUpdaterHost.hpp
share/src/bi/host/updater/StaticUpdaterMatrixVisitorHost.hpp
share/src/bi/host/updater/StaticUpdaterVisitorHost.hpp
share/src/bi/init.hpp
share/src/bi/kd/FastGaussianKernel.hpp
share/src/bi/kd/kde.hpp
share/src/bi/kd/KDTree.hpp
share/src/bi/kd/KDTreeNode.hpp
share/src/bi/kd/MedianPartitioner.hpp
share/src/bi/kd/partition.hpp
share/src/bi/math/constant.hpp
share/src/bi/math/function.hpp
share/src/bi/math/gsl.hpp
share/src/bi/math/io.hpp
share/src/bi/math/loc_matrix.hpp
share/src/bi/math/loc_temp_matrix.hpp
share/src/bi/math/loc_temp_vector.hpp
share/src/bi/math/loc_vector.hpp
share/src/bi/math/matrix.hpp
share/src/bi/math/misc.hpp
share/src/bi/math/multi_operation.hpp
share/src/bi/math/operation.hpp
share/src/bi/math/scalar.hpp
share/src/bi/math/serialization.hpp
share/src/bi/math/sim_temp_matrix.hpp
share/src/bi/math/sim_temp_vector.hpp
share/src/bi/math/temp_matrix.hpp
share/src/bi/math/temp_vector.hpp
share/src/bi/math/vector.hpp
share/src/bi/math/view.hpp
share/src/bi/misc/assert.hpp
share/src/bi/misc/compile.hpp
share/src/bi/misc/exception.hpp
share/src/bi/misc/location.hpp
share/src/bi/misc/macro.hpp
share/src/bi/misc/omp.cpp
share/src/bi/misc/omp.hpp
share/src/bi/misc/TicToc.hpp
share/src/bi/model/Dim.hpp
share/src/bi/model/Model.hpp
share/src/bi/model/Var.hpp
share/src/bi/mpi/adapter/ClientServerAdapter.hpp
share/src/bi/mpi/adapter/DistributedAdapter.hpp
share/src/bi/mpi/adapter/DistributedAdapterFactory.cpp
share/src/bi/mpi/adapter/DistributedAdapterFactory.hpp
share/src/bi/mpi/Client.cpp
share/src/bi/mpi/Client.hpp
share/src/bi/mpi/handler/HandlerFactory.hpp
share/src/bi/mpi/handler/MarginalSISHandler.hpp
share/src/bi/mpi/mpi.cpp
share/src/bi/mpi/mpi.hpp
share/src/bi/mpi/resampler/DistributedResampler.hpp
share/src/bi/mpi/resampler/DistributedResamplerFactory.cpp
share/src/bi/mpi/resampler/DistributedResamplerFactory.hpp
share/src/bi/mpi/Server.cpp
share/src/bi/mpi/Server.hpp
share/src/bi/mpi/stopper/ClientServerStopper.hpp
share/src/bi/mpi/stopper/DistributedStopper.hpp
share/src/bi/mpi/stopper/DistributedStopperFactory.cpp
share/src/bi/mpi/stopper/DistributedStopperFactory.hpp
share/src/bi/mpi/TreeNetworkNode.cpp
share/src/bi/mpi/TreeNetworkNode.hpp
share/src/bi/netcdf/InputNetCDFBuffer.cpp
share/src/bi/netcdf/InputNetCDFBuffer.hpp
share/src/bi/netcdf/KalmanFilterNetCDFBuffer.cpp
share/src/bi/netcdf/KalmanFilterNetCDFBuffer.hpp
share/src/bi/netcdf/MCMCNetCDFBuffer.cpp
share/src/bi/netcdf/MCMCNetCDFBuffer.hpp
share/src/bi/netcdf/netcdf.cpp
share/src/bi/netcdf/netcdf.hpp
share/src/bi/netcdf/NetCDFBuffer.cpp
share/src/bi/netcdf/NetCDFBuffer.hpp
share/src/bi/netcdf/OptimiserNetCDFBuffer.cpp
share/src/bi/netcdf/OptimiserNetCDFBuffer.hpp
share/src/bi/netcdf/ParticleFilterNetCDFBuffer.cpp
share/src/bi/netcdf/ParticleFilterNetCDFBuffer.hpp
share/src/bi/netcdf/SimulatorNetCDFBuffer.cpp
share/src/bi/netcdf/SimulatorNetCDFBuffer.hpp
share/src/bi/netcdf/SMCNetCDFBuffer.cpp
share/src/bi/netcdf/SMCNetCDFBuffer.hpp
share/src/bi/null/InputNullBuffer.cpp
share/src/bi/null/InputNullBuffer.hpp
share/src/bi/null/KalmanFilterNullBuffer.cpp
share/src/bi/null/KalmanFilterNullBuffer.hpp
share/src/bi/null/MCMCNullBuffer.cpp
share/src/bi/null/MCMCNullBuffer.hpp
share/src/bi/null/OptimiserNullBuffer.cpp
share/src/bi/null/OptimiserNullBuffer.hpp
share/src/bi/null/ParticleFilterNullBuffer.cpp
share/src/bi/null/ParticleFilterNullBuffer.hpp
share/src/bi/null/SimulatorNullBuffer.cpp
share/src/bi/null/SimulatorNullBuffer.hpp
share/src/bi/null/SMCNullBuffer.cpp
share/src/bi/null/SMCNullBuffer.hpp
share/src/bi/ode/DOPRI5Integrator.hpp
share/src/bi/ode/DOPRI5Stage.hpp
share/src/bi/ode/IntegratorConstants.hpp
share/src/bi/ode/RK43Integrator.hpp
share/src/bi/ode/RK43Stage.hpp
share/src/bi/ode/RK4Integrator.hpp
share/src/bi/ode/RK4Stage.hpp
share/src/bi/optimiser/misc.hpp
share/src/bi/optimiser/NelderMeadOptimiser.hpp
share/src/bi/pdf/functor.hpp
share/src/bi/pdf/misc.hpp
share/src/bi/pdf/primitive.hpp
share/src/bi/primitive/aligned_allocator.hpp
share/src/bi/primitive/cross_pitched_range.hpp
share/src/bi/primitive/cross_pitched_sequence.hpp
share/src/bi/primitive/cross_range.hpp
share/src/bi/primitive/cross_sequence.hpp
share/src/bi/primitive/device_allocator.hpp
share/src/bi/primitive/forward_list.hpp
share/src/bi/primitive/forward_list_const_iterator.hpp
share/src/bi/primitive/forward_list_iterator.hpp
share/src/bi/primitive/forward_list_node.hpp
share/src/bi/primitive/functor.hpp
share/src/bi/primitive/matrix_primitive.hpp
share/src/bi/primitive/pinned_allocator.hpp
share/src/bi/primitive/pipelined_allocator.hpp
share/src/bi/primitive/pitched_range.hpp
share/src/bi/primitive/pitched_sequence.hpp
share/src/bi/primitive/pointer_less.hpp
share/src/bi/primitive/pointer_less_equal.hpp
share/src/bi/primitive/pooled_allocator.hpp
share/src/bi/primitive/poset.hpp
share/src/bi/primitive/repeated_range.hpp
share/src/bi/primitive/repeated_sequence.hpp
share/src/bi/primitive/strided_pitched_range.hpp
share/src/bi/primitive/strided_pitched_sequence.hpp
share/src/bi/primitive/strided_range.hpp
share/src/bi/primitive/strided_sequence.hpp
share/src/bi/primitive/stuttered_range.hpp
share/src/bi/primitive/stuttered_sequence.hpp
share/src/bi/primitive/vector_primitive.hpp
share/src/bi/random/generic.hpp
share/src/bi/random/Random.cpp
share/src/bi/random/Random.hpp
share/src/bi/random/truncated_gaussian.hpp
share/src/bi/refs.hpp
share/src/bi/resampler/MetropolisResampler.hpp
share/src/bi/resampler/misc.hpp
share/src/bi/resampler/MultinomialResampler.hpp
share/src/bi/resampler/RejectionResampler.hpp
share/src/bi/resampler/Resampler.hpp
share/src/bi/resampler/ResamplerFactory.cpp
share/src/bi/resampler/ResamplerFactory.hpp
share/src/bi/resampler/ScanResampler.hpp
share/src/bi/resampler/StratifiedResampler.hpp
share/src/bi/resampler/SystematicResampler.hpp
share/src/bi/sampler/MarginalMH.hpp
share/src/bi/sampler/MarginalSIR.hpp
share/src/bi/sampler/MarginalSIS.hpp
share/src/bi/sampler/SamplerFactory.hpp
share/src/bi/simulator/Forcer.hpp
share/src/bi/simulator/ForcerFactory.hpp
share/src/bi/simulator/Observer.hpp
share/src/bi/simulator/ObserverFactory.hpp
share/src/bi/simulator/Simulator.hpp
share/src/bi/simulator/SimulatorFactory.hpp
share/src/bi/sse/math/avx_double.hpp
share/src/bi/sse/math/avx_float.hpp
share/src/bi/sse/math/scalar.hpp
share/src/bi/sse/math/sse_double.hpp
share/src/bi/sse/math/sse_float.hpp
share/src/bi/sse/ode/DOPRI5IntegratorSSE.hpp
share/src/bi/sse/ode/RK43IntegratorSSE.hpp
share/src/bi/sse/ode/RK4IntegratorSSE.hpp
share/src/bi/sse/sse_host.hpp
share/src/bi/sse/sse_host_load_visitor.hpp
share/src/bi/sse/sse_host_store_visitor.hpp
share/src/bi/sse/updater/DynamicUpdaterSSE.hpp
share/src/bi/sse/updater/SparseStaticLogDensitySSE.hpp
share/src/bi/sse/updater/StaticUpdaterSSE.hpp
share/src/bi/state/AuxiliaryPFState.hpp
share/src/bi/state/BootstrapPFState.hpp
share/src/bi/state/ExtendedKFState.hpp
share/src/bi/state/FilterState.hpp
share/src/bi/state/MarginalMHState.hpp
share/src/bi/state/MarginalSIRState.hpp
share/src/bi/state/MarginalSISState.hpp
share/src/bi/state/Mask.hpp
share/src/bi/state/OptimiserState.hpp
share/src/bi/state/Ou.hpp
share/src/bi/state/Pa.hpp
share/src/bi/state/Schedule.hpp
share/src/bi/state/ScheduleElement.hpp
share/src/bi/state/ScheduleIterator.hpp
share/src/bi/state/State.hpp
share/src/bi/stopper/DefaultStopper.hpp
share/src/bi/stopper/MinimumESSStopper.hpp
share/src/bi/stopper/StdDevStopper.hpp
share/src/bi/stopper/Stopper.hpp
share/src/bi/stopper/StopperFactory.cpp
share/src/bi/stopper/StopperFactory.hpp
share/src/bi/stopper/SumOfWeightsStopper.hpp
share/src/bi/stopper/VarStopper.hpp
share/src/bi/todo.hpp
share/src/bi/traits/action_traits.hpp
share/src/bi/traits/block_traits.hpp
share/src/bi/traits/dim_traits.hpp
share/src/bi/traits/resampler_traits.hpp
share/src/bi/traits/var_traits.hpp
share/src/bi/typelist/append.hpp
share/src/bi/typelist/back.hpp
share/src/bi/typelist/contains.hpp
share/src/bi/typelist/easy_typelist.hpp
share/src/bi/typelist/empty.hpp
share/src/bi/typelist/equals.hpp
share/src/bi/typelist/front.hpp
share/src/bi/typelist/front_spec.hpp
share/src/bi/typelist/index.hpp
share/src/bi/typelist/macro_typelist.hpp
share/src/bi/typelist/macro_typetree.hpp
share/src/bi/typelist/pop_back.hpp
share/src/bi/typelist/pop_front.hpp
share/src/bi/typelist/pop_front_spec.hpp
share/src/bi/typelist/push_back.hpp
share/src/bi/typelist/push_back_list.hpp
share/src/bi/typelist/push_back_spec.hpp
share/src/bi/typelist/push_front.hpp
share/src/bi/typelist/push_front_list.hpp
share/src/bi/typelist/runtime.hpp
share/src/bi/typelist/size.hpp
share/src/bi/typelist/typelist.hpp
share/src/bi/updater/DynamicLogDensity.hpp
share/src/bi/updater/DynamicMaxLogDensity.hpp
share/src/bi/updater/DynamicSampler.hpp
share/src/bi/updater/DynamicUpdater.hpp
share/src/bi/updater/SparseStaticLogDensity.hpp
share/src/bi/updater/SparseStaticMaxLogDensity.hpp
share/src/bi/updater/SparseStaticSampler.hpp
share/src/bi/updater/SparseStaticUpdater.hpp
share/src/bi/updater/StaticLogDensity.hpp
share/src/bi/updater/StaticMaxLogDensity.hpp
share/src/bi/updater/StaticSampler.hpp
share/src/bi/updater/StaticUpdater.hpp
share/src/bi/visitor/CppGenerator.hpp
share/src/bi/visitor/Visitor.hpp
share/src/testbi/Test.hpp
share/tt/bi/action.bi.tt
share/tt/bi/block.bi.tt
share/tt/bi/const.bi.tt
share/tt/bi/dim.bi.tt
share/tt/bi/inline.bi.tt
share/tt/bi/macro/arg_list.bi.tt
share/tt/bi/macro/dim_list.bi.tt
share/tt/bi/model.bi.tt
share/tt/bi/var.bi.tt
share/tt/bi/var_group.bi.tt
share/tt/build/Makefile.am.tt
share/tt/cpp/action/beta.hpp.tt
share/tt/cpp/action/betabin.hpp.tt
share/tt/cpp/action/binomial.hpp.tt
share/tt/cpp/action/cholesky.hpp.tt
share/tt/cpp/action/eval_.hpp.tt
share/tt/cpp/action/exclusive_scan.hpp.tt
share/tt/cpp/action/exponential.hpp.tt
share/tt/cpp/action/gamma.hpp.tt
share/tt/cpp/action/gaussian.hpp.tt
share/tt/cpp/action/gemm_.hpp.tt
share/tt/cpp/action/gemv_.hpp.tt
share/tt/cpp/action/inclusive_scan.hpp.tt
share/tt/cpp/action/inverse_gamma.hpp.tt
share/tt/cpp/action/misc/footer.hpp.tt
share/tt/cpp/action/misc/header.hpp.tt
share/tt/cpp/action/negbin.hpp.tt
share/tt/cpp/action/ode_.hpp.tt
share/tt/cpp/action/pdf.hpp.tt
share/tt/cpp/action/poisson.hpp.tt
share/tt/cpp/action/std_.hpp.tt
share/tt/cpp/action/transpose.hpp.tt
share/tt/cpp/action/truncated_gaussian.hpp.tt
share/tt/cpp/action/uniform.hpp.tt
share/tt/cpp/action/wiener.hpp.tt
share/tt/cpp/action_coord.hpp.tt
share/tt/cpp/block/bridge.hpp.tt
share/tt/cpp/block/cholesky_.hpp.tt
share/tt/cpp/block/common_orthogonal_std_.hpp.tt
share/tt/cpp/block/common_std_.hpp.tt
share/tt/cpp/block/const_std_.hpp.tt
share/tt/cpp/block/eval_.hpp.tt
share/tt/cpp/block/initial.hpp.tt
share/tt/cpp/block/lookahead_observation.hpp.tt
share/tt/cpp/block/lookahead_transition.hpp.tt
share/tt/cpp/block/matrix_.hpp.tt
share/tt/cpp/block/misc/footer.hpp.tt
share/tt/cpp/block/misc/header.hpp.tt
share/tt/cpp/block/observation.hpp.tt
share/tt/cpp/block/ode.hpp.tt
share/tt/cpp/block/orthogonal_std_.hpp.tt
share/tt/cpp/block/parameter.hpp.tt
share/tt/cpp/block/pdf_.hpp.tt
share/tt/cpp/block/proposal_initial.hpp.tt
share/tt/cpp/block/proposal_parameter.hpp.tt
share/tt/cpp/block/std_.hpp.tt
share/tt/cpp/block/transition.hpp.tt
share/tt/cpp/block/wiener_.hpp.tt
share/tt/cpp/client/filter_cpu.cpp.tt
share/tt/cpp/client/filter_gpu.cu.tt
share/tt/cpp/client/misc/header.cpp.tt
share/tt/cpp/client/optimise_cpu.cpp.tt
share/tt/cpp/client/optimise_gpu.cu.tt
share/tt/cpp/client/sample_cpu.cpp.tt
share/tt/cpp/client/sample_gpu.cu.tt
share/tt/cpp/dim.hpp.tt
share/tt/cpp/macro.hpp.tt
share/tt/cpp/macro/alias_dims.hpp.tt
share/tt/cpp/macro/create_action_typedef.hpp.tt
share/tt/cpp/macro/create_action_typelist.hpp.tt
share/tt/cpp/macro/create_action_typetree.hpp.tt
share/tt/cpp/macro/create_block_typedef.hpp.tt
share/tt/cpp/macro/create_block_typelist.hpp.tt
share/tt/cpp/macro/declare_action_function.hpp.tt
share/tt/cpp/macro/declare_action_matrix_function.hpp.tt
share/tt/cpp/macro/declare_block_function.hpp.tt
share/tt/cpp/macro/fetch_parents.hpp.tt
share/tt/cpp/macro/get_var.hpp.tt
share/tt/cpp/macro/offset_coord.hpp.tt
share/tt/cpp/macro/put_output.hpp.tt
share/tt/cpp/macro/read_argv.cpp.tt
share/tt/cpp/macro/sig_action_function.hpp.tt
share/tt/cpp/macro/sig_action_matrix_function.hpp.tt
share/tt/cpp/macro/sig_block_function.hpp.tt
share/tt/cpp/macro/std_action.hpp.tt
share/tt/cpp/macro/std_action_function.hpp.tt
share/tt/cpp/macro/std_block_function.hpp.tt
share/tt/cpp/model.cpp.tt
share/tt/cpp/model.hpp.tt
share/tt/cpp/test/test_cpu.cpp.tt
share/tt/cpp/test/test_gpu.cu.tt
share/tt/cpp/test/test_resampler_cpu.cpp.tt
share/tt/cpp/test/test_resampler_gpu.cu.tt
share/tt/cpp/var.hpp.tt
share/tt/cpp/var_coord.hpp.tt
share/tt/cpp/var_group.hpp.tt
share/tt/dot/action.dot.tt
share/tt/dot/block.dot.tt
share/tt/dot/model.dot.tt
share/tt/dot/var.dot.tt
share/tt/doxyfile/Doxyfile.tt
share/tt/package/config.conf.tt
share/tt/package/init.sh.tt
share/tt/package/LICENSE.tt
share/tt/package/MANIFEST.tt
share/tt/package/META.yml.tt
share/tt/package/Model.bi.tt
share/tt/package/README.md.tt
share/tt/package/run.sh.tt
share/tt/package/VERSION.md.tt
t/001_load.t
t/002_help.t
t/003_gen.t
t/004_build_tools.t
Test.bi
test.conf
VERSION.md