addExperiments: Add Experiments to the Registry
In batchtools: Tools for Computation on Batch Systems

addExperiments

R Documentation

Add Experiments to the Registry

Description

Adds experiments (parametrized combinations of problems with algorithms) to the registry and thereby defines batch jobs.

If multiple problem designs or algorithm designs are provided, they are combined via the Cartesian product. E.g., if you have two problems p1 and p2 and three algorithms a1, a2 and a3, addExperiments creates experiments for all parameters for the combinations (p1, a1), (p1, a2), (p1, a3), (p2, a1), (p2, a2) and (p2, a3).

Usage

addExperiments(
  prob.designs = NULL,
  algo.designs = NULL,
  repls = 1L,
  combine = "crossprod",
  reg = getDefaultRegistry()
)

Arguments

`prob.designs`	[named list of `data.frame`] Named list of data frames (or `data.table`). The name must match the problem name while the column names correspond to parameters of the problem. If `NULL`, experiments for all defined problems without any parameters are added.
`algo.designs`	[named list of `data.table` or `data.frame`] Named list of data frames (or `data.table`). The name must match the algorithm name while the column names correspond to parameters of the algorithm. If `NULL`, experiments for all defined algorithms without any parameters are added.
`repls`	[`integer()`] Number of replications for each problem design in 'prob.designs' (automatically replicated to the correct length).
`combine`	[`character(1)`] How to combine the rows of a single problem design with the rows of a single algorithm design? Default is “crossprod” which combines each row of the problem design which each row of the algorithm design in a cross-product fashion. Set to “bind” to just `cbind` the tables of problem and algorithm designs where the shorter table is repeated if necessary.
`reg`	[`ExperimentRegistry`] Registry. If not explicitly passed, uses the last created registry.

Value

[data.table] with ids of added jobs stored in column “job.id”.

Note

R's data.frame converts character vectors to factors by default in R versions prior to 4.0.0 which frequently resulted in problems using addExperiments. Therefore, this function will warn about factor variables if the following conditions hold:

R version is < 4.0.0
The design is passed as a data.frame, not a data.table or tibble.
The option “stringsAsFactors” is not set or set to TRUE.

Examples


tmp = makeExperimentRegistry(file.dir = NA, make.default = FALSE)

# add first problem
fun = function(job, data, n, mean, sd, ...) rnorm(n, mean = mean, sd = sd)
addProblem("rnorm", fun = fun, reg = tmp)

# add second problem
fun = function(job, data, n, lambda, ...) rexp(n, rate = lambda)
addProblem("rexp", fun = fun, reg = tmp)

# add first algorithm
fun = function(instance, method, ...) if (method == "mean") mean(instance) else median(instance)
addAlgorithm("average", fun = fun, reg = tmp)

# add second algorithm
fun = function(instance, ...) sd(instance)
addAlgorithm("deviation", fun = fun, reg = tmp)

# define problem and algorithm designs
library(data.table)
prob.designs = algo.designs = list()
prob.designs$rnorm = CJ(n = 100, mean = -1:1, sd = 1:5)
prob.designs$rexp = data.table(n = 100, lambda = 1:5)
algo.designs$average = data.table(method = c("mean", "median"))
algo.designs$deviation = data.table()

# add experiments and submit
addExperiments(prob.designs, algo.designs, reg = tmp)

# check what has been created
summarizeExperiments(reg = tmp)
unwrap(getJobPars(reg = tmp))

batchtools documentation built on April 20, 2023, 5:09 p.m.