runCWLBatch: run CWL with batchtools

In Rcwl: An R interface to the Common Workflow Language

Description

run CWL with batchtools

Usage

runCWLBatch(
  cwl,
  outdir = getwd(),
  inputList,
  paramList = list(),
  BPPARAM = BatchtoolsParam(workers = lengths(inputList)[1]),
  ...
)

Arguments

cwl	A 'cwlParam' or 'cwlStepParam' object.
outdir	Directory to output results
inputList	An input list to run in parallel. The list names must be in the inputs of cwl. Jobs will be submitted in parallel for each element in the list. The output directory of each job will be made using the name of each element under the 'outdir'.
paramList	A parameter list for the cwl. The list names must be in the inputs of cwl.
BPPARAM	The options for 'BiocParallelParam'.
...	The options from runCWL.

Value

Results from computing nodes and logs from cwltool.

Rcwl documentation built on Nov. 8, 2020, 8:11 p.m.