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import contextlib
import os
import shlex
import shutil
from typing import Generator
from typing import Sequence
from typing import Tuple
from pre_commit.envcontext import envcontext
from pre_commit.envcontext import PatchesT
from pre_commit.hook import Hook
from pre_commit.languages import helpers
from pre_commit.prefix import Prefix
from pre_commit.util import clean_path_on_failure
from pre_commit.util import cmd_output_b
ENVIRONMENT_DIR = 'renv'
get_default_version = helpers.basic_get_default_version
healthy = helpers.basic_healthy
def get_env_patch(venv: str) -> PatchesT:
return (
('R_PROFILE_USER', os.path.join(venv, 'activate.R')),
)
@contextlib.contextmanager
def in_env(
prefix: Prefix,
language_version: str,
) -> Generator[None, None, None]:
envdir = _get_env_dir(prefix, language_version)
with envcontext(get_env_patch(envdir)):
yield
def _get_env_dir(prefix: Prefix, version: str) -> str:
return prefix.path(helpers.environment_dir(ENVIRONMENT_DIR, version))
def _prefix_if_file_entry(
entry: Sequence[str],
prefix: Prefix,
) -> Sequence[str]:
if entry[1] == '-e':
return entry[1:]
else:
return (prefix.path(entry[1]),)
def _entry_validate(entry: Sequence[str]) -> None:
"""
Allowed entries:
# Rscript -e expr
# Rscript path/to/file
"""
if entry[0] != 'Rscript':
raise ValueError('entry must start with `Rscript`.')
if entry[1] == '-e':
if len(entry) > 3:
raise ValueError('You can supply at most one expression.')
elif len(entry) > 2:
raise ValueError(
'The only valid syntax is `Rscript -e {expr}`',
'or `Rscript path/to/hook/script`',
)
def _cmd_from_hook(hook: Hook) -> Tuple[str, ...]:
opts = ('--no-save', '--no-restore', '--no-site-file', '--no-environ')
entry = shlex.split(hook.entry)
_entry_validate(entry)
return (
*entry[:1], *opts,
*_prefix_if_file_entry(entry, hook.prefix),
*hook.args,
)
def install_environment(
prefix: Prefix,
version: str,
additional_dependencies: Sequence[str],
) -> None:
env_dir = _get_env_dir(prefix, version)
with clean_path_on_failure(env_dir):
os.makedirs(env_dir, exist_ok=True)
shutil.copy(prefix.path('renv.lock'), env_dir)
cmd_output_b(
'Rscript', '--vanilla', '-e',
f"""\
prefix_dir <- {prefix.prefix_dir!r}
missing_pkgs <- setdiff(
"renv", unname(installed.packages()[, "Package"])
)
options(
repos = c(CRAN = "https://cran.rstudio.com"),
renv.consent = TRUE
)
install.packages(missing_pkgs)
renv::activate()
renv::restore()
activate_statement <- paste0(
'renv::activate("', file.path(getwd()), '"); '
)
writeLines(activate_statement, 'activate.R')
is_package <- tryCatch({{
content_desc <- read.dcf(file.path(prefix_dir, 'DESCRIPTION'))
suppressWarnings(unname(content_desc[,'Type']) == "Package")
}},
error = function(...) FALSE
)
if (is_package) {{
renv::install(prefix_dir)
}}
""",
cwd=env_dir,
)
if additional_dependencies:
cmd_output_b(
'Rscript', '-e',
'renv::install(commandArgs(trailingOnly = TRUE))',
*additional_dependencies,
cwd=env_dir,
)
def run_hook(
hook: Hook,
file_args: Sequence[str],
color: bool,
) -> Tuple[int, bytes]:
with in_env(hook.prefix, hook.language_version):
return helpers.run_xargs(
hook, _cmd_from_hook(hook), file_args, color=color,
)
|
