retrieve_data_files {CALANGO}R Documentation

Retrieve data files from the Github repository

Description

This script downloads relevant data files from the CALANGO project repository. It will extract the data into a folder containing directories related to dictionary files, Gene Ontology annotation files, tree files, etc. Note: you may need to edit the file paths in the example scripts contained under the 'parameters' subfolder of 'target.dir', or pass an appropriate base path using parameter 'basedir' in [run_CALANGO()].

Usage

retrieve_data_files(
  target.dir,
  method = "auto",
  unzip = getOption("unzip"),
  ...
)

Arguments

target.dir

path to the folder where the files will be saved ( accepts relative and absolute paths)

method

Method to be used for downloading files. Current download methods are "internal", "wininet" (Windows only) "libcurl", "wget" and "curl", and there is a value "auto": see _Details_ and _Note_ in the documentation of utils::download.file().

unzip

The unzip method to be used. See the documentation of utils::unzip() for details.

...

additional attributes (currently ignored)

Details

If the 'target.dir' provided does not exist it is created (recursively) by the function.

Value

No return value, called for side effects (see Description).

Examples

## Not run: 
  CALANGO::retrieve_data_files(target.dir = "./data")

## End(Not run)


[Package CALANGO version 1.0.12 Index]