RunDenseMatrixBenchmark {RHPCBenchmark}

Runs all of the dense matrix microbenchmarks

Description

RunDenseMatrixBenchmark runs all of the microbenchmarks for performance testing the dense matrix linear algebra kernels

Usage

RunDenseMatrixBenchmark(runIdentifier, resultsDirectory,
  microbenchmarks = GetDenseMatrixDefaultMicrobenchmarks())

Arguments

runIdentifier

a character string specifying the suffix to be appended to the base of the file name of the output CSV format files

resultsDirectory

a character string specifying the directory where all of the CSV performance results files will be saved

microbenchmarks

a list of DenseMatrixMicrobenchmark objects defining the microbenchmarks to execute as part of the dense matrix benchmark. Default values are provided by the function GetDenseMatrixDefaultMicrobenchmarks.

Details

This function runs all of the dense matrix microbenchmarks defined in the microbenchmarks input list for which the active field is set to TRUE. For each microbenchmark, it attempts to create a separate output file in CSV format containing the performance results for each matrix tested by the microbenchmark. The names of the output files follow the format benchmarkName_runIdentifier.csv, where benchmarkName is specified in the DenseMatrixMicrobenchmark object of each microbenchmark, and runIdentifier is an input parameter to this function. If the file already exists, the results will be appended to the existing file. The microbenchmarks input list contains instances of the DenseMatrixMicrobenchmark class defining each microbenchmark. The default microbenchmarks are generated by the function GetDenseMatrixDefaultMicrobenchmarks. If the linear algebra kernels are multithreaded, by linking to multithreaded BLAS or LAPACK libraries for example, then the number of threads must be retrievable from an environment variable which is set before execution of the R programming environment. The name of the environment variable specifying the number of threads must be provided in the R HPC benchmark environment variable R_BENCH_NUM_THREADS_VARIABLE. This function will retrieve the number of threads through R_BENCH_NUM_THREADS_VARIABLE so that the number of threads can be printed to the results files and recorded in data frames for reporting purposes. This function utilizes the number of threads only for reporting purposes and is not used by the benchmark to effect the actual number of threads utilized by the kernels, as that is assumed to be controlled by the numerical library. An error exception will be thrown if the environment variable R_BENCH_NUM_THREADS_VARIABLE and the variable it is set to are not both set.

Value

a data frame containing the benchmark name, user, system, and elapsed (wall clock) times of each performance trial for each microbenchmark

See Also

GetDenseMatrixDefaultMicrobenchmarks GetDenseMatrixExampleMicrobenchmarks

Examples

## Not run: 
# Set needed environment variables for multithreading.  Only single threading
# is used in the example.
#
# Note: The environment variables are usually set by the user before starting
#       the R programming environment; they are set here only to facilitate
#       a working example.  See the section on multithreading in the vignette
#       for further details.
Sys.setenv(R_BENCH_NUM_THREADS_VARIABLE="MKL_NUM_THREADS")
Sys.setenv(MKL_NUM_THREADS="1")
#
# Generate example microbechmarks that can be run in a few minutes; see
# the vignette for more involved examples.  The Cholesky factorization and
# matrix crossproduct microbenchmarks are performed in the example code
# below.
#
# Note: These microbenchmarks are different than the microbenchmarks
#       generated by \code{\link{GetDenseMatrixDefaultMicrobenchmarks}}.
#       They are chosen for their short run times and suitability for
#       example code. 
exampleMicrobenchmarks <- GetDenseMatrixExampleMicrobenchmarks()
# Set the output directory of the CSV summary results files
resultsDirectory <- "./DenseMatrixExampleOutput"
# Create the output directory
dir.create(resultsDirectory)
# Set an appropriate run identifier
runIdentifier <- "example"
resultsFrame <- RunDenseMatrixBenchmark(runIdentifier, resultsDirectory,
   microbenchmarks=exampleMicrobenchmarks)

# This example runs all but the matrix transpose microbenchmarks.
exampleMicrobenchmarks[["transpose"]]$active <- FALSE
# Set an appropriate run identifier
runIdentifier <- "no_transpose"
exTransposeResultsFrame <- RunDenseMatrixBenchmark(runIdentifier,
  resultsDirectory, microbenchmarks=exampleMicrobenchmarks)

# This example runs only the matrix-matrix multiplication microbenchmark,
# and it adds a larger matrix to test.
matMatMicrobenchmark <- list()
matMatMicrobenchmark[["matmat"]] <- GetDenseMatrixExampleMicrobenchmarks()[["matmat"]]
matMatMicrobenchmark[["matmat"]]$dimensionParameters <- as.integer(c(1000, 2000))
matMatMicrobenchmark[["matmat"]]$numberOfTrials <- as.integer(c(3, 3))
matMatMicrobenchmark[["matmat"]]$numberOfWarmupTrials <- as.integer(c(1, 1))
# Set an appropriate run identifier
runIdentifier <- "matmat"
matMatResults <- RunDenseMatrixBenchmark(runIdentifier, resultsDirectory,
   microbenchmarks=matMatMicrobenchmark)

## End(Not run)