renderReport {systemPipeR} | R Documentation

## Render RMarkdown Report

### Description

Render the input file to the specified output format using pandoc.

### Usage

    renderReport(sysargslist, type = c("html_document"),  silent = FALSE)

### Arguments

`sysargslist` | object of class SYSargsList.
`type` | The R Markdown output format to convert to. Default is `"ALL"`.The option can be the name of a format (e.g. `"pdf_document"` or `"html_document"`).
`silent` | If set to `TRUE`, all messages returned by the function will be suppressed.

### Value

It will return an `SYSargsList` updated.

### Author(s)

Daniela Cassol and Thomas Girke

### See Also

See also as `SYSargsList-class`.

### Examples

    ## 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")
    renderReport(x=sysargslist)

    ## End(Not run)

[Package systemPipeR version 1.26.3 Index]