rix(): now correctly handles packages with several DESCRIPTION files, such as
{basilisk}, thanks to mihemrix(): now correctly handles packages with no dependencies, thanks to
jrosellrix(): Clearer error message when providing an R version that is too recentrenv2nix(): switch from RemoteType to RemoteHost in renv.lock files to
detect packages to be added from Github or Gitlabrenv2nix(): added new argument, override_r_ver, to manually set R version
in generated Nix expression. This deals with situations where an renv.lock
lists a version of R that is not (yet) included in nixpkgs.renv2nix(): converts renv.lock file into a default.nix expression. For
now, only the R version is matched, not package versions.
Thanks to RichardJActon for implementing.rix_init(), rix(): previous attempt at fixing bug was only partially
correct, it is now fixed. Several more tests were added to avoid this in the
future.rix_init(), rix(): fix bug in rix_init(), that led to empty .Rprofile
files.inst/extdata/default.nixinst/extdata/default.nix with this patch release of {rix}NEWS entries in 0.12.1 released previously, which is the
first CRAN release version.DESCRIPTION (forgotten in
first CRAN release 0.12.1)rix(): The is no default argument in project_path anymore. Before, it
defaulted to the current directory, which violated CRAN policy to have any
default path in writing functions.DESCRIPTION:
tempdir() instead of the user
directoryR CMD check and R CMD build when running them in a nix-shell --pure
development environment based on the default.nix of {rix} package root.
Use manually controlled Nix expression from r_ver = "latest" pinned source.rix::rix(): Clean detrius files/folders in temporary folders that are not
needed. Also fixes failing vignette builds in R CMD build (including helpers
rix::rix_init(), rix:::hash_url()) by properly handling file connections,
closing them on exit, and unlink temporary file folders. (#308)nix_build(): Fix SIGINT termination (ctrl+c) for linux, so that all the
nix-build background processes are properly stopped when the user interupts
the build process.rix::rix(): when hashing Git provider packages (e.g., GitHub) remotely via
the https://git2nixsha.dev API, https protocol is now used (previously http).
Hashing via this service is done when Nix is not installed or when requested
via option.default.nix for {rix} development environment.pre-commit config because it does not play well with Nix
(R-tooling/package inst based on {renv})R CMD check pass without NOTE because of file artefacts when running
vignettes and doing tests (tests/testthat/test-rix.R){rix} is now an rOpenSci package!
with_nix(), using recursive = TRUE in
dir.create()rix::rix(): It is not necessary anymore to provide the branch_name list
element for R packages from GitHub in git_pkgs.rix::rix():
ide = "rstudio" and no additional R packages are
chosen. In the situation, the rStudioWrapper approach does not work and the
resulting Nix expression would not build. The returned error states to either
add rstudio to system_pkgs, or add R packages in r_pkgs or git_pkgs.rix::rix() docs: explain options(rix.sri_hash).{styler}rix():
local_r_pkgs argument.options(rix.sri_hash="API_server"), so that online
hashing via http://git2nixsha.dev can be requested even when Nix is
installed locally.rix():
rix_init() to ensure runtime purity via .Rprofile.
This will exclude the system's user library from .libPaths(), so that the
search path will only contain a path each per package in the Nix store.message_type option to control signalling what is done.nix_build(), with_nix(): stabilize API; get rid of exec_mode in core functions. In most cases, "non-blocking" system calls are being run for system commands like nix-shell or nix-build.rix_init(), nix_build(), and with_nix(): gain a
message_type = "quiet", which suppresses messages. Further, messaging is
standardized via internal helpers called.nix_file interface for with_nix()default.nix files.ga_cachix(), a function to create a GA workflow file that builds and pushes an environment to a Cachix cachewith_nix(): do not use --vanilla because it does not respect custom code startup via .Rprofilenix_build() and with_nix(): improvements. Remove nix-build artefact file by using Sys.which() for checking availability. with_nix(): clean all itermediary and output artefacts (files) on exitrix() with shell_hook = NULL default, Nix-R wrappers nix_build() and with_nix(); update testfileswith_nix(): try sessionInfo(); fails under R Nixpkgs on darwinR_LIBS_USER from .libPaths() in covr test environmentnix_build() & with_nix(): fix segmentation fault with adjusting LD_LIBRARY_PATH temporarilynix_build(): consistently separate cmd and args for nix-build system commandnix_build(): another guardrail for run-time purity of Nixpkgs Rnix_file to specify specific .nix filenix_shell() and with_nix() compatible with RStudio on macOS, where the R session is not (yet) started from a shell. Now /nix/var/nix/profiles/default/bin is added to the PATH variable after nix_shell() or with_nix() are called from an RStudio version of the system (not as Nix package).rix::init() to initiate and maintain an isolated, project-specific and pure R setup via NixglibcLocales patch
-with_nix() needs patch for R <= 4.2.0; glibcLocalesUtf8 -> gibcLocaleswith_nix() to valuate function in R or shell command via nix-shell environmenttar_nix_ga(), a function to run targets pipelines on Github Actions using a Nix expressionwith_nix(): evaluate and return R functions or shell commands in Nix env:
nix_file argument as alternative to project_path. Specify *.nix
fle defining the Nix software environment in which you want to run expr.macOS: made it compatible with system's RStudio version on macOS, where
the R session can not (yet) be started from a shell when launched from Dock.
Now /nix/var/nix/profiles/default/bin is added to the PATH variable
while with_nix() are called.nix_build() -- invoke nix-build from R:
macOS: made it compatible with system's RStudio version on macOS, where
the R session can not (yet) be started from a shell when launched from Dock.
Now /nix/var/nix/profiles/default/bin is added to the PATH variable
while with_nix() are called.rix_init() -- create an isolated, project-specific, and runtime-pure R setup via Nix
nix_file argument to specify a specific .nix filerix() -- Generate a Nix expressions that build reproducible development
environments:
shell_hook = NULL becomes the new default; before it was
= "R --vanilla". The new default ensures that with_nix() applied on
a specific project_path directory containing a custom .Rprofile file
that was generated with rix_init(), together with a default.nix
expression file, can read that profile file to effectively enforce run-time
pure R libraries (only from Nix store).nix_build() -- invoke nix-build from R:
nix-build binary.
The internal helper now uses Sys.which("nix-build") for checking
availability on PATH in the R session.R_LIBS_USER path from .libPaths().with_nix() -- evaluate and return R functions or shell commands in Nix env:
nix-shell) session environment when exiting. These file artefacts
are now written in a subdirectory with_nix under tempdir() of the
current R session and all files are deleted. Now, when an expr errors
in a Nix shell evaluation (i.e. custom R function), but had a previous
successful run with a different expr and/or R global environment state
with success and _out.Rds produced, the current session fails to bring
this output into the current R session.project_path, now attemps to
record sessionInfo() with try. We found failures of that command under
older R versions on Nixpkgs for macOS (i.e., aarch64-darwin).LD_LIBRARY_PATH.glibcLocalesUtf8 with gibcLocales (imports all
locales). This was necessary to support Nixpkgs R versions <= 4.2.0, where
glibcLocalsUtf8 derivation was not yet available. We do not sacrifice
reproducibility but rather have larger total sizes of derivations involved
in the subshell (around 200MB extra).nix_build(): consistently separate cmd and args for nix-build systemrix::init() to initialize and maintain an isolated, project-specific,
and pure R setup via Nix. It accomplishes this by writing a custom .Rprofile
that guarantees R packages can only be attached from Nix paths, preventing
unnoticed loading from the system's R user library (R_LIBS_USER and ensuring
runtime purity regarding packages and linked libraries). Additionally, it
appends /nix/var/nix/profiles/default/bin to the PATH. Currently, this
modification only takes effect in the current R session and not in new R
sessions for RStudio on MacOS. This is because the default R session is not
started from a shell. The PATH will be modified by RStudio when starting the
R session, effectively after loading the local .Rprofile. Future versions
of RStudio will hopefully respect all environmental variables from a shell
environment.rix::rix(): patch for nixpkgs revisions corresponding to R (r_ver)
<= 4.2.0; nix-build failed because attribute glibcLocalesUtf8 was
not found. Fixed by importing gibcLocales. Thanks @motorlearner for
reporting.Added with_nix(), which can evaluate a function in R or shell command via
nix-shell environment, and return the output into the current R session.
This works for both evaluating R code from a nix-R session within an other
nix-R session, or also from a host R session (i.e., on macOS or linux) within
a specific nix-R session. This feature is useful to test dependencies and
specific setups of software in controlled environments.
Added tar_nix_ga(), a function to run targets pipelines on Github Actions
using a Nix expression.
rix::rix(): fix missing pkgs.mkShell when shell_hook = NULL.
Both shell_hook = "" and shell_hook = NULL are now producing valid nix
expressions.rix::rix() now defaults to "en_US.UTF-8" for the relevant locale
variables (LANG, LC_ALL, LC_TIME, LC_MONETARY, LC_PAPER,
LC_MEASUREMENT) and sets these environment variables in
the Nix shell. These will be correctly propagated into the Nix R session.
Users can modify the locale setting via
options(rix.nix_locale_variables = list(LANG = "de_CH.UTF-8", <...>), e.g.,
but it needs to be an UTF-8 locale. This is because we only import the
glibcLocalesUtf8 subset, to not keep the size reasonable.glibcLocalesUtf8 from Nix for "x86_64-linux".rix::rix(tex_pkgs = NULL)rix::rix() argument tex_pkgs.inst/extdata/default.nix so that it installs {rix} v0.3.0.nix_build() now supports --max_jobs flag of nix-build via options(rix.nix_build_max_jobs = <integer>). Custom settings of this option can be useful for leveraging full I/O latency or efficient builds on shared memory multiprocessing systems.nix_build() in interactive use vignette (#68).create_default_nix() so that project_path is directory name.inst/extdata/default.nix to latest commit of {rix} prior bumping.rix() to allow empty r_pkgs (##67).rix() to do bug-free calling of rix_build() within default nix
shell.create_default_nix() to bootstrap
./inst/extdata/default.nixshell_hook arg for rix::rix(), which will create a shellHook entry in default.nix.inst/extdata/default.nix: use R --vanilla in shellHook to not propagate user-specific .Renviron and .Rprofile. Fixes #56inst/exdata/default.nix so that LOCALE_ARCHIVE shellHook that was set to
glibc locale does not fail on MacOS anymore
(#40; fixed with 37f7ab8).nix_build(): fix defensive check so the error message is referring to project_path
instead of nix_file. The patch does not change correct behavior of nix_build(),
hence it is only of cosmetic nature.nix_build() now correctly checks presence of nix-build. (4be69b2)nix_build() helper that runs nix-build interactively from R.
(#22)rix() now supports installing packages from GitHub and the CRAN archives.rix() now supports using a nixpkgs revision instead of an R version
for reproducibilitydefault.nix files now also include the call that was made to
generate them as top-level comment.path argument of rix() changed to project_path.