run_gunzip: Run gunzip

In RajLabMSSM/echotabix: echoverse module: automated creation and querying of tabix files

Run gunzip

Description

Decompress a file using gunzip.

Usage

run_gunzip(
  path,
  conda_env = "echoR_mini",
  method = c("R.utils", "conda"),
  outputs = c("command", "path", "data"),
  verbose = TRUE
)

Arguments

path	Path to file.
conda_env	Conda environments to search in. If NULL (default), will search all conda environments.
method	Method to gunzip path with: "conda": Finds gunzip binary in the specified conda_env and uses it. "R.utils": Uses the gunzip function.
outputs	Which outputs to return in a list. Can be one or more of the following: "command" : The command run to gunzip the file. "path" : Path to the gunzipped file. "data" : The data imported from the gunzipped file. If only one valid option is selected, the item will be returned without being embedded within a list.
verbose	Print messages.

Examples

dat <- echodata::BST1
tmp <- tempfile(fileext = ".csv.gz")
data.table::fwrite(dat, tmp)
out <- echotabix::run_gunzip(path=tmp)

RajLabMSSM/echotabix documentation built on Nov. 21, 2023, 8:02 a.m.