processCommandLine {ramwas} | R Documentation

## Scan Parameters From Command Line

### Description

The pipeline parameters can be provided via command line.

For example:
`R pipeline.r dirproject="/project" maxrepeats=0 modeloutcome="Age"`

Each command line argument is treated as an R statement.

All variables defined this way are collected in a list which is returned.

### Usage

    processCommandLine(.arg = NULL)

### Arguments

`.arg` | Vector of command line parameters. Obtained from `commandArgs` if omitted.

### Details

If a command line argument defines variable `"fileparam"`, it is assumed to be a filename, and the file with this name is scanned for extra pipeline parameters, as by `parametersFromFile`.

### Value

Returns the list with all the variables set by the statement in the command line.

### Note

Variables with names starting with period (.) are ignored.

### Author(s)

Andrey A Shabalin andrey.shabalin@gmail.com

### See Also

See vignettes: `browseVignettes("ramwas")`.

### Examples

    filename = tempfile()

    # Assume command line with two components:
    # dirproject="."
    # modelcovariates=c("Age","Sex")

    arg = c(
        "dirproject = \".\"",
        "modelcovariates = c(\"Age\",\"Sex\")")

    # Process the command line
    param = processCommandLine(arg)

    # Show the list
    print(param)

[Package ramwas version 1.10.5 Index]