config.param: Adding param file

In tgirke/systemPipeR: systemPipeR: workflow management and report generation environment

Adding param file

Description

Replace or adding a input configuration setting at "YML" param file

Usage

config.param(input_file = NULL, param, file = "default", silent = FALSE)

Arguments

input_file	a list of parameters, param file path, or SYSargs2 object.
param	object of class list, expressing the values and names to be added or replace at the command-line definition or the configuration files.
file	name and path of the new file. If set to default, the name of the write file will have the pattern: <Date-Time>_<OriginalName>.yml. If set to append, the param information it will be append on the same file.
silent	if set to TRUE, all messages returned by the function will be suppressed.

Author(s)

Daniela Cassol

Examples

## Not run: 
input_file <- system.file("extdata", "cwl/hisat2/hisat2-mapping-se.yml", package="systemPipeR")
param <- list(thread=10, fq=list(class="File", path="./results2"))
input <- config.param(input_file=input_file, param, file="default")
 
## End(Not run)

tgirke/systemPipeR documentation built on March 27, 2024, 11:31 p.m.