find_packages: Find package across all conda envs

In RajLabMSSM/echoconda: echoverse module: conda environment management

Find package across all conda envs

Description

Search for a package (or list of packages) across all available conda environments. By default, returns all packages from all conda environments.

Usage

find_packages(
  packages = NULL,
  conda_env = NULL,
  conda = "auto",
  method = c("r", "reticulate", "basilisk"),
  types = c("r", "python", "binary"),
  return_path = FALSE,
  robust = FALSE,
  filter_paths = FALSE,
  sort_names = FALSE,
  nThread = 1,
  verbose = TRUE
)

Arguments

packages	A package (e.g. "pandas") or a list of packages (e.g. c("pandas","r-dplyr","bgzip")). Will recognize R packages with or without the prefixes "r-" and "bioconductor-" (i.e. "r-dplyr" is equivalent to "dplyr").
conda_env	Conda environments to search in. If NULL (default), will search all conda environments.
conda	The path to a conda executable. Use "auto" to allow reticulate to automatically find an appropriate conda binary. See Finding Conda and conda_binary() for more details.
method	Method to use: "basilisk" "reticulate"
types	Path type to search for and include in the table.
return_path	Return only the path to each package.
robust	Uses a more robust (but slower) method for identifying paths to conda environments and package executables (default: FALSE). When robust=FALSE, only executables in the main "bin" directory will be detected. When robust=TRUE, additional executables to R packages, Python packages, and executables in nested subdirectories will be detected.
filter_paths	Filter out packages without callable executable paths from the table.
sort_names	Sort packages alphanumerically by their name.
nThread	Number of threads to use when parallelizing searches across multiple conda envs.
verbose	Print messages.

Value

Merged data.table with all packages installed in each conda environment.

Examples

pkgs <- echoconda::find_packages(conda_env="base")

RajLabMSSM/echoconda documentation built on May 21, 2023, 10:19 a.m.