runWF {systemPipeR} | R Documentation |
Function to execute all the code list specified in SYSargsList object.
runWF(sysargslist, steps = "ALL")
sysargslist |
object of class SYSargsList. |
steps |
a character vector of all steps desires to preserve on the output file.
Default is |
It will return an SYSargsList
updated.
Daniela Cassol and Thomas Girke
See also as SYSargsList-class
.
## Not run: ## Construct SYSargsList object from Rmd file library(systemPipeRdata) script <- system.file("extdata/workflows/rnaseq", "systemPipeRNAseq.Rmd", package="systemPipeRdata") targets <- system.file("extdata", "targets.txt", package="systemPipeR") dir_path <- tempdir() SYSconfig <- initProject(projPath=dir_path, targets=targets, script=script, overwrite = TRUE) sysargslist <- initWF(sysconfig ="SYSconfig.yml") sysargslist <- configWF(x=sysargslist, input_steps = "1:3") sysargslist <- runWF(sysargslist = sysargslist, steps = "ALL") sysargslist <- runWF(sysargslist = sysargslist, steps = "1:2") ## End(Not run)