Benchmarks for High-Performance Computing Environments

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Documentation for package ‘RHPCBenchmark’ version 0.1.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.

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RHPCBenchmark-package	RHPCBenchmark: A package for performance testing intrinsic R functionality and established packages relevant to high-performance computing
CholeskyAllocator	Allocates and initializes input to the Cholesky factorization dense matrix kernel microbenchmarks
CholeskyMicrobenchmark	Conducts a single performance trial with the Cholesky factorization dense matrix kernel
ClaraClusteringMicrobenchmark	Conducts a single performance trial with the cluster::clara function
ClusteringAllocator	Allocates and initializes input to the clustering for machine learning microbenchmarks
ClusteringMicrobenchmark	This class specifies a clustering for machine learning microbenchmark.
ComputeAverageTime	Computes the average of a vector of performance trial times
ComputeStandardDeviation	Computes the standard deviation of a vector of performance trial times
CrossprodAllocator	Allocates and populates input to the matrix cross product dense matrix kernel microbenchmarks
CrossprodMicrobenchmark	Conducts a single performance trial with the matrix cross product dense matrix kernel
DeformtransAllocator	Allocates and populates input to the matrix deformation and transpose dense matrix kernel microbenchmarks
DeformtransMicrobenchmark	Conducts a single performance trial with the matrix deformation and transpose dense matrix kernel
DenseMatrixMicrobenchmark	This class specifies a dense matrix microbenchmark.
DeterminantAllocator	Allocates and populates input to the matrix determinant dense matrix kernel microbenchmarks
DeterminantMicrobenchmark	Conducts a single performance trial with the matrix determinant dense matrix kernel
EigenAllocator	Allocates and populates input to the matrix eigendecomposition kernel microbenchmarks
EigenMicrobenchmark	Conducts a single performance trial with the matrix eigendecomposition dense matrix kernel
GenerateClusterData	Generates clusters from multivariate normal distributions
GetClusteringDefaultMicrobenchmarks	Initializes the list of default clustering microbenchmarks
GetClusteringExampleMicrobenchmarks	Initializes the list of example clustering microbenchmarks
GetConfigurableEnvParameter	Retrieves the value of an environment variable referenced by another environment variable
GetDenseMatrixDefaultMicrobenchmarks	Initializes the list of default dense matrix microbenchmarks
GetDenseMatrixExampleMicrobenchmarks	Initializes the list of example dense matrix microbenchmarks
GetNumberOfThreads	Retrieves the number of threads from the environment
GetSparseCholeskyDefaultMicrobenchmarks	Initializes the list of default sparse Cholesky factorization microbenchmarks
GetSparseCholeskyExampleMicrobenchmarks	Initializes the list of example sparse Cholesky factorization microbenchmarks
GetSparseLuDefaultMicrobenchmarks	Initializes the list of default sparse LU factorization microbenchmarks
GetSparseMatrixVectorDefaultMicrobenchmarks	Initializes the list of default sparse matrix-vector microbenchmarks
GetSparseMatrixVectorExampleMicrobenchmarks	Initializes the list of example sparse matrix-vector microbenchmarks
GetSparseQrDefaultMicrobenchmarks	Initializes the list of default sparse QR factorization microbenchmarks
LsfitAllocator	Allocates and populates input to the matrix least squares fit dense matrix kernel microbenchmarks
LsfitMicrobenchmark	Conducts a single performance trial with the matrix least squares fit dense matrix kernel
MatmatAllocator	Allocates and populates input to the matrix-matrix multiplication dense matrix kernel microbenchmarks
MatmatMicrobenchmark	Conducts a single performance trial with the matrix-matrix multiplication dense matrix kernel
MatvecAllocator	Allocates and populates input to the matrix-vector multiplication dense matrix kernel microbenchmarks
MatvecMicrobenchmark	Conducts a single performance trial with the matrix-vector multiplication dense matrix kernel
MicrobenchmarkClusteringKernel	Performs microbenchmarking of a clustering for machine learning kernel
MicrobenchmarkDenseMatrixKernel	Performs microbenchmarking of a dense matrix linear algebra kernel
MicrobenchmarkSparseMatrixKernel	Performs microbenchmarking of a sparse matrix linear algebra kernel
PamClusteringMicrobenchmark	Conducts a single performance trial with the cluster::pam function
PerformClusteringMicrobenchmarking	Performs microbenchmarking of machine learning functions specified by an input list
PerformSparseMatrixKernelMicrobenchmarking	Performs microbenchmarking of sparse matrix kernels specified by an input list
PrintClusteringMicrobenchmarkResults	Prints results of a clustering for machine learning microbenchmark
PrintDenseMatrixMicrobenchmarkResults	Prints results of a dense matrix microbenchmark
PrintSparseMatrixMicrobenchmarkResults	Prints results of a sparse matrix microbenchmark
QrAllocator	Allocates and populates input to the QR factorization dense matrix kernel microbenchmarks
QrMicrobenchmark	Conducts a single performance trial with the QR factorization dense matrix kernel
RHPCBenchmark	RHPCBenchmark: A package for performance testing intrinsic R functionality and established packages relevant to high-performance computing
RunDenseMatrixBenchmark	Runs all of the dense matrix microbenchmarks
RunMachineLearningBenchmark	Runs all of the machine learning microbenchmarks
RunSparseMatrixBenchmark	Runs all of the sparse matrix microbenchmarks
SolveAllocator	Allocates and populates input to the dense matrix kernel microbenchmark for computing the solution to a system of linear equations with multiple right-hand sides
SolveMicrobenchmark	Conducts a single performance trial with the dense matrix kernel for computing the solution to a system of linear equations with multiple right-hand sides
SparseCholeskyAllocator	Allocates and initializes input to the Cholesky factorization sparse matrix kernel microbenchmarks
SparseCholeskyMicrobenchmark	Conducts a single performance trial with the Cholesky factorization sparse matrix kernel
SparseLuAllocator	Allocates and initializes input to the LU factorization sparse matrix kernel microbenchmarks
SparseLuMicrobenchmark	Conducts a single performance trial with the LU factorization sparse matrix kernel
SparseMatrixMicrobenchmark	This class specifies a sparse matrix microbenchmark.
SparseMatrixVectorAllocator	Allocates and initializes input to the matrix-vector multiplication sparse matrix kernel microbenchmarks
SparseMatrixVectorMicrobenchmark	Conducts a single performance trial with the matrix-vector multiplication sparse matrix kernel
SparseQrAllocator	Allocates and initializes input to the QR factorization sparse matrix kernel microbenchmarks
SparseQrMicrobenchmark	Conducts a single performance trial with the QR factorization sparse matrix kernel
SvdAllocator	Allocates and populates input to the singular value decomposition (SVD) dense matrix kernel microbenchmarks
SvdMicrobenchmark	Conducts a single performance trial with the singular value decomposition (SVD) dense matrix kernel
TransposeAllocator	Allocates and populates input to the matrix transpose dense matrix kernel microbenchmarks
TransposeMicrobenchmark	Conducts a single performance trial with the matrix transpose dense matrix kernel
WriteClusteringPerformanceResultsCsv	Appends performance test results of a clustering microbenchmark to a file in CSV format
WriteDenseMatrixPerformanceResultsCsv	Appends dense matrix performance test results to a file in CSV format
WriteSparseMatrixPerformanceResultsCsv	Appends sparse matrix performance test results to a file in CSV format