tryCL: Collect information about the third-party software

In systemPipeR: systemPipeR: NGS workflow and report generation environment

Description

Function to check if third-party software or utility is installed and set in the PATH.

Usage

tryCL(command)

Arguments

command

a character vector containing the command line name to be tested.

Value

It will return a positive message if the software is set on the PATH or an error message if the software is not set it.

Note

Please note that not necessary the software is not installed if the message indicates an error, but it has not been exported on the current PATH.

Author(s)

Danela Cassol

Examples

## Not run: 
tryCL(command="R") 
tryCL(command="blastp") 
tryCL(command="hisat2") 
  
## End(Not run)

systemPipeR documentation built on Jan. 26, 2021, 2 a.m.