cmd_wd: Setup the context for the command

In blit: Bioinformatics Library for Integrated Tools

Setup the context for the command

Description

Setup the context for the command

Usage

cmd_wd(command, wd = NULL)

cmd_envvar(command, ..., action = "replace", sep = NULL)

cmd_envpath(command, ..., action = "prefix", name = "PATH")

cmd_conda(command, ..., root = NULL, action = "prefix")

Arguments

command	A command object.
wd	A string or NULL define the working directory of the command.
...	<dynamic dots>: cmd_envvar: Named character define the environment variables. cmd_envpath: Unnamed character to define the PATH-like environment variables name. cmd_conda: Unnamed character to specify the name of conda environment.
action	Should the new values "replace", "prefix" or "suffix" existing environment variables?
sep	A string to separate new and old value when action is "prefix" or "suffix". By default, " " will be used.
name	A string define the PATH environment variable name. You can use this to define other PATH-like environment variable such as PYTHONPATH.
root	A string specifying the path to the conda root prefix. By default, it utilizes the environment variable BLIT_CONDA_ROOT or the option blit.conda.root. If neither is set, the root prefix of appmamba() will be used.

Value

• cmd_wd: The command object itself, with working directory updated.

• cmd_envvar: The command object itself, with running environment variable updated.

• cmd_envpath: The command object itself, with running environment variable specified in name updated.

• cmd_conda: The command object itself, with running environment variable PATH updated.

Functions

• cmd_wd(): define the working directory.

• cmd_envvar(): define the environment variables.

• cmd_envpath(): define the PATH-like environment variables.

• cmd_conda(): Set conda-like path to the PATH environment variables.

See Also

• cmd_run()/cmd_help()/cmd_background()

• cmd_on_start()/cmd_on_exit()

• cmd_on_succeed()/cmd_on_fail()

• cmd_parallel()

blit documentation built on April 12, 2025, 1:16 a.m.