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Add to tracker ] 2024-01-22 14:50:34 by Makoto Fujiwara | Files touched by this commit (2) |  |
Log message:
(devel/R-renv) Updated 0.17.3 to 1.0.3
# renv 1.0.3
* Fixed an issue where `renv` could warn the project appeared to be out-of-sync
when using packages installed without an explicit source recorded. (#1683)
* `renv::install()` gains the `exclude` argument, which can be useful when
installing a subset of project dependencies.
* Fixed an issue where PPM repositories were not appropriately transformed
into the correct binary repository in `renv::restore()` when using pak.
* `renv::init()` no longer prompts the user for the intended action for
projects containing a library with only renv installed. (#1668)
* Fixed an issue where non-interactive usages of `renv::init()` could fail
with projects containing a DESCRIPTION file. (#1663)
* Fixed an issue that could cause code within a project `.Rprofile` to execute
before the project had been loaded in RStudio. (#1650)
* `renv::snapshot()` and `renv::status()` gain the `dev` argument. This
can be used when you'd like to capture package dependencies from
the *Suggests* field of your package's DESCRIPTION file. (#1019)
# renv 1.0.2
* renv now parses package `NAMESPACE` files for imported dependencies. (#1637)
* renv no longer locks the sandbox by default.
* Fixed an issue where renv used the wrong library paths when attempting
to activate the watchdog. This could cause a 10 second delay when activating
the sandbox.
# renv 1.0.1
* Fixed an issue where authentication headers could be duplicated when
using the `libcurl` download method. (#1605)
* `renv::use()` now defaults to setting `isolate = TRUE` when `sandbox = TRUE`.
* Fixed an issue where the renv watchdog could fail to load, leading to slowness
in activating the sandbox on startup. (#1617)
* Fixed an issue where renv did not display warnings / errors from `renv::snapshot()`
when `options(renv.verbose = FALSE)` was set. The display of these messages
is now controlled via the `renv.caution.verbose` R option. (#1607, #1608)
* `renv::load()` now notifies the user if the synchronization check took an
excessive amount of time due to the number of files being scanned in the
project. (#1573)
* `renv::init()` gains the `load` argument, making it possible to initialize
a project without explicitly loading it. (#1583)
* renv now uses a lock when synchronizing installed packages with the cache.
This should help alleviate issues that can arise when multiple R processes
are installing and caching packages concurrently. (#1571)
* Fixed a regression in parsing expressions within R Markdown chunk options. (#1558)
* Fixed an issue that prevented `renv::install()` from functioning
when source-only repositories were included. (#1578)
* Fixed a logic error in reading `RENV_AUTOLOAD_ENABLED`. (#1580)
* `renv::restore()` no longer runs without prompting on load if the
library is empty. (#1543)
* `renv::repair()` now checks for installed packages which lack a known
remote source, and updates their `DESCRIPTION` files if it can infer an
appropriate remote source. This typically occurs when a package is installed
from local sources, but appears to be maintained or published on a remote
repository (e.g. GitHub). This was previously done in `renv::snapshot()`, but
we've rolled back that change as the prompting was over-aggressive. (#1574)
* `renv::status()` now first reports on uninstalled packages, before reporting on
used <-> installed mismatches. (#1538)
* When the `RENV_STARTUP_DIAGNOSTICS` environment variable is set to `TRUE`,
renv now displays a short diagnostics report after a project's autoloader
has been run. This can be useful when diagnosing why renv is slow to load
in certain projects. (#1557)
* renv now ensures the sandbox is activated on load, for R processes which
are launched with the renv sandbox on the library paths. (#1565)
* `renv::restore()` no longer erroneously prompts when determining the packages
which need to be installed. (#1544)
* `renv::update()` now ensures the `prompt` parameter is properly respected
during package installation. (#1540)
* `renv::activate()` no longer erroneously preserves the previous library
paths after restarting the session within RStudio. (#1530)
* Use correct spelling of IRkernel package (#1528).
* Honor `R_LIBCURL_SSL_REVOKE_BEST_EFFORT` when using an external `curl.exe`
binary to download files. (#1624)
# renv 1.0.0
## New features
* New `renv::checkout()` installings the latest-available packages from a
repository. For example, `renv::checkout(date = "2023-02-08")` will \
install
the packages available on 2023-02-08 from the Posit
[Package Manager](https://packagemanager.rstudio.com/) repository.
The `actions` argument allows you choose whether a lockfile is generated from
the provided repositories ("snapshot"), or whether packages are installed
from the provided repositories ("restore").
* `renv::deactivate()` gains a `clean` argument: when `TRUE` it will delete
all renv files/directories, leaving the project the way it was found.
* `renv::init()` now uses [Posit Public Package \
Manager](https://packagemanager.posit.co)
by default, for new projects where the repositories have not already been
configured externally. See the options `renv.config.ppm.enabled`,
`renv.config.ppm.default`, and `renv.config.ppm.url` in `?config` for more
details (#430).
* `renv::lockfile_create()`, `renv::lockfile_read()`, `renv::lockfile_write()`
and `renv::lockfile_modify()` provide a small family of functions for
interacting with renv lockfiles programmatically (#1438).
* Handling of development dependencies has been refined. `renv::snapshot()`
and `renv::status()` no longer track development dependencies, while
`install()` continues to install them (#1019). `Suggested` packages listed in
`DESCRIPTION` files are declared as development dependencies regardless of
whether or not they're a "package" project.
* MRAN integration is now disabled by default, pending the upcoming shutdown
of Microsoft's MRAN service. Users who require binaries of older R packages
on Windows + macOS can consider using the instance of CRAN mirrored by the
[Posit Public Package Manager](https://packagemanager.posit.co) (#1343).
## Bug fixes and minor improvements
* Development versions of renv are now tracked using the Git SHA of the
current commit, rather than a version number that's incremented on every
change (#1327). This shouldn't have any user facing impact, but makes
renv maintenance a little easier.
* Fixed an issue causing "restarting interrupted promise evaluation" \
warnings
to be displayed when querying available packages failed. (#1260)
* `renv::activate()` uses a three option menu that hopefully make your choices
more clear (#1372).
* `renv::dependencies()` now discovers R package dependencies inside Jupyter
notebooks (#929).
* `renv::dependencies()` includes packages used by user profile (`~/.Rprofile`)
if `renv::config$user.profile()` is `TRUE`. They are set as development
dependencies, which means that they will be installed by `install()` but not
recorded in the snapshot.
* `renv::dependencies()` only extracts dependencies from text in YAML
headers that looks like valid R code (#1288).
* `renv::dependencies()` no longer treats `box::use(module/file)` as using
package `module` (#1377).
* `renv::init()` now prompts the user to select a snapshot type if the project
contains a top-level DESCRIPTION file (#1485).
* `renv::install(type = "source")` now ensures source repositories are used
in projects using [PPM](https://packagemanager.posit.co/). (#927)
* `renv::install()` activates Bioconductor repositories when installing a
package from a remote (e.g. GitHub) which declares a Bioconductor dependency
(via a non-empty 'biocViews' field) (#934).
* `renv::install()` respects the project snapshot type, if set.
* `renv::install()` now keeps source when installing packages from source (#522).
* `renv::install()` now validates that binary packages can be loaded after
installation, in a manner similar to source packages (#1275).
* `renv::install()` now supports Bioconductor remotes of the form
`bioc::<BiocVersion>/<Package>`, for installing packages from
a particular version of Bioconductor. Aliases like 'release' and
'devel' are also supported (#1195).
* `renv::install()` now requires interactive confirmation that you want to
install packages (#587).
* `renv::load()` gives a more informative message if a lockfile is present but
no packages are installed (#353).
* `renv::load()` no longer attempts to query package repositories when checking
if a project is synchronized (#812).
* `renv::load()` no longer duplicates entries on the `PATH` environment variable
(#1095).
* `renv::restore()` can now use `pak::pkg_install()` to install packages
when `pak` integration is enabled. Set `RENV_CONFIG_PAK_ENABLED = TRUE`
in your project's `.Renviron` if you'd like to opt-in to this behavior.
Note that this requires a nightly build of `pak` (>= 0.4.0-9000);
see https://pak.r-lib.org/dev/reference/install.html for more details.
* `renv::restore()` now emits an error if called within a project that
does not contain a lockfile (#1474).
* `renv::restore()` correctly restores packages downloaded and installed
from [r-universe](https://r-universe.dev/) (#1359).
* `renv::snapshot()` now standardises pak metadata so CRAN packages installed via
pak look the same as CRAN packages installed with renv or `install.packages()`
(#1239).
* If `renv::snapshot()` finds missing packages, a new prompt allows you to
install them before continuing (#1198).
* `renv::snapshot()` no longer requires confirmation when writing the first
snapshot, since that's an action that can easily be undone (by deleting
`renv.lock`) (#1281).
* `renv::snapshot()` reports if the R version changes, even if no packages
change (#962).
* `renv::snapshot(exclude = <...>)` no longer warns when attempting to exclude
a package that is not installed (#1396).
* `renv::status()` now uses a more compact display when packages have some
inconsistent combination of being installed, used, and recorded.
* `renv::status()` now works more like `renv::restore()` when package versions
are different (#675).
* `renv::update()` can now update packages installed from GitLab (#136) and
BitBucket (#1194).
* `renv::settings$package.dependency.fields()` now only affects packages
installed directly by the user, not downstream dependencies of those packages.
* renv functions give a clearer error if `renv.lock` has somehow become
corrupted (#1027).
|
| 2023-06-18 16:10:23 by Makoto Fujiwara | Files touched by this commit (2) | |
Log message:
(devel/R-renv) Updated 0.16.0 to 0.17.3
# renv 0.17.3
* Fixed an issue where `renv::install("bioc::<package>")` could \
fail if
`BiocManager` was not already installed. (#1184)
* Fixed an issue where package names were not included in the output
of `renv::diagnostics()`. (#1182)
* The clarity of the message printed by `renv::status()` has been improved;
in particular, `renv` should better report the recommended actions when
a package required by the project is not installed.
* `renv::snapshot()` gains the `exclude` argument, for explicitly
excluding certain packages from the generated lockfile.
* Fixed an issue where `renv` was passing the wrong argument name to
`installed.packages()`, causing usages of `renv` to fail with
R (<= 3.4.0). (#1173)
* `renv` now sets the `SDKROOT` environment variable on macOS if it detects
that R was built using an LLVM build of `clang` on macOS.
* `renv::install()` now parses the remotes included within, for example,
a `DESCRIPTION` file's `Config/Needs/...` field.
* `renv` now checks that the index directory is writable before attempting to
use it, e.g. for the `R` available packages index maintained by `renv`. (#1171)
* `renv` now checks that the version of `curl` used for downloads appears to
be functional, and reports a warning if it does not (for example, because
a requisite system library is missing). The version of `curl` used for
downloads can also be configured via the `RENV_CURL_EXECUTABLE` environment
variable.
# renv 0.17.2
* Fixed a regression that caused package hashes to be computed incorrectly
in some cases. This was a regression in the 0.17.1 release. (#1168)
# renv 0.17.1
* `renv` gains the configuration option `install.remotes`, which can be used
to control whether `renv` attempts to read and use the `Remotes:` field
included with installed packages. This can be set to `FALSE` if you'd
like to ignore this field; e.g. because you know they will not be
accessible. (#1133)
* General performance optimizations. In particular, `renv::update(check = TRUE)`
should now execute much faster.
* `renv` now stores project settings within `renv/settings.json` rather than
`renv/settings.dcf`. Old settings will be automatically migrated.
* The `renv` sandbox is now placed within the `renv` cache directory. (#1158)
* Fixed an issue where `renv::status()` could erroneously report a project was
out-of-sync when using explicit snapshots. (#1159)
* Fixed an issue where `renv::hydrate()` would print spurious warnings. (#1160)
* `renv::status()` now suggests running `renv::restore()` if there are no
packages installed in the project library. (#1060)
* Fixed an issue where `renv` would fail to query \
[r-universe](https://r-universe.dev/)
repositories. (#1156)
* `renv` no longer tries to set the `SDKROOT` environment variable on
macOS for R (>= 4.0.0).
* Fixed an issue where installation of Bioconductor packages could fail
when `BiocManager` was not installed. (#1156, #1155)
* Fixed an issue where the amount of time elapsed reported by `renv::install()`
failed to include the time spent retrieving packages.
# renv 0.17.0
* The performance of `renv::snapshot()` has improved.
* `renv` now maintains an index of available packages, as retrieved from the
active package repositories, that is shared across `R` sessions. This should
improve `renv`'s performance when querying for available packages across
multiple different `R` sessions.
* `renv::hydrate()` gains the `prompt` parameter. When `TRUE` (the default),
`renv` will prompt for confirmation before attempting to hydrate the active
library.
* Improved handling of package installation via SSH URLs with `git`. (#667)
* Improved handling of R version validation when using projects with
Bioconductor. If you find `renv` is erroneously reporting that your version
of R is incompatible with the version of Bioconductor you are using, you can
set `options(renv.bioconductor.validate = FALSE)` to disable this validation
behaviour. (#1148)
* Package names can now be associated with remotes in `renv::install()`; for
example, you can use `renv::install("igraph=igraph/rigraph")` to install
the `igraph` package. This is mainly important when using the `renv.auth`
authentication tools, where the package name of a remote needs to be
declared explicitly. (#667)
* Fixed an issue that could prevent `renv::restore()` from functioning when
attempting to install packages which had been archived on CRAN. (#1141)
* `renv::install()` gains the `dependencies` argument, which behaves similarly
to the equivalent argument in `remotes::install_*()`. In particular, this can
be set to fields like `Config/Needs/dev` to tell `renv` to use custom
DESCRIPTION fields for dependency resolution in installation.
* Fixed an issue where the function variant of the `renv.auth` option was not
resolved correctly. (#667)
* `renv::install()` now supports remotes with a trailing slash -- such slashes
are now removed. (#1135)
* Integration with the RStudio (Posit) Package Manager is now disabled
by default on aarch64 Linux instances.
* The `RENV_CACHE_MODE` environment variable can now also be used
to adjust the permissions set on downloaded package tarballs / binaries.
(#988)
* Fixed an issue where fields of the form `Remotes.1` could
enter lockfile records for older versions of R. (#736)
* Fixed the performance of `renv::update()` in cases where
integration with MRAN is enabled.
* Fixed an issue where package installation using `pak` could fail
in some cases.
* `renv_file_find()` can now scan up to the root directory in Docker
containers. (#1115)
* `renv` no longer uses the R temporary directory on Windows for the
sandbox. The sandbox directory can be customized via the
`RENV_PATHS_SANDBOX` environment variable if required. (#835)
* `renv` now reports the elapsed time when installing packages. (#1104)
* For projects using "explicit" snapshots, `renv` now reports if
a package is required by the project, but the package is not
currently installed. (#949)
* Fixed an issue where `renv::snapshot()` could fail to detect when
no changes had been made to the lockfile.
* Fixed an issue where `renv` could emit JSON lockfiles which could not
be parsed by external JSON readers. (#1102)
* `renv` now marks the sandbox as non-writable, which should hopefully
alleviate issues where attempts to update installed packages would
inadvertently install the updated package into the sandbox. (#1090)
* `renv::use()` gains the `sandbox` argument, which allows one to control
whether the system library is sandboxed after a call to `renv::use()`.
(#1083)
* The path to the Conda `environment.yml` file created by `renv` can
now be customized via the `RENV_PATHS_CONDA_EXPORT` environment
variable. We recommend setting this within your project-local
`.Renviron` file as appropriate. (#1089)
* Fixed an issue where the `renv` sandbox location did not respect the
active `renv` profile. (#1088)
|
| 2022-12-18 05:18:29 by Makoto Fujiwara | Files touched by this commit (2) | |
Log message:
(devel/R-renv) Updated 0.14.0 to 0.16.0
# renv 0.16.0
* `renv` now supports installation of packages with remotes of the form
`<package>=<remote>`. However, the provided package name is ignored
and is instead parsed from the remote itself. (#1064)
* `renv` now passes along the headers produced by the `renv.download.headers`
option when bootstrapping itself in the call to `utils::download.file()`.
(#1084)
* `renv` now reports if `renv::snapshot()` will change or update the
version of R recorded in the lockfile. (#1069)
* `renv` now supports the `install.packages.check.source` R option, which
is used to allow R to query source repositories even if the option
`options(pkgType = "binary")` is set. (#1074)
* `renv` better handles packages containing git submodules when installed
from GitHub remotes. (#1075)
* `renv` now handles local sources within the current working directory. (#1079)
* The `renv` sandbox is once again enabled by default. On Unix, the sandbox
is now created by default within the project's `renv/sandbox` library.
On Windows, the sandbox is created within the R session's `tempdir()`.
The path to the `renv` sandbox can be customized via the `RENV_PATHS_SANDBOX`
environment variable if required.
* Fixed an issue where `renv::status()` could report spurious changes when
comparing packages installed using `pak` in some cases. (#1070)
* `renv::restore()` now also ensures the project activate script is updated
after a successful restore. (#1066)
* Fixed an issue where `renv` could attempt to install a package from the
repository archives even when `type = "binary"` was set. (#1046)
* Fixed an issue where package installation could fail when the R session
is configured to use multiple repositories, some of which do not provide
any information on available packages for certain binary arms of the
repository. (#1045)
* `renv` now uses `jsonlite` for reading lockfiles when loaded. This should
help ensure useful errors are provided for manually-edited lockfiles
which contain a JSON parsing error. If the `jsonlite` package is not loaded,
`renv` will fall back to its own internal JSON parser. (#1027)
* Fixed an issue that would cause `renv` to fail to source the user
`~/.Rprofile` if it attempted to register global calling handlers,
e.g. as `prompt::set_prompt()` does. (#1036)
* (Linux only) `renv` now resets ACLs on packages copied to the cache, to
avoid persisting default ACLs that might have been inherited on packages
installed into a local project library. If desired, this behavior can be
disabled by setting the `RENV_CACHE_ACLS` environment variable to `FALSE`.
If you need finer control over ACLs set on packages moved into the cache,
consider defining a custom callback via the `renv.cache.callback` R option.
(#1025)
* Fixed an issue where `.gitignore` inclusion rules for sub-directories were
not parsed correctly by `renv` for dependency discovery. (#403)
* Fixed an issue where `renv` could report spurious diffs within `renv::status()`
when comparing package records installed from `pak` versus the default R
package installer. (#998)
* Fixed an issue where `renv::use_python()` could cause the Requirements field
for packages in the lockfile to be unintentionally dropped. (#974)
* The R option `renv.cache.callback` can now be set, to run a user-defined
callback after a package has been copied into the cache. This can be useful
if you'd like to take some action on the cached package's contents after
the package has been moved into the cache.
* (Unix only) The `RENV_CACHE_MODE` environment variable can now be used to
change the access permissions of packages copied into the cache. When set,
after a package is copied into the cache, `renv` will use `chmod -Rf` to try
and change the permissions of the cache entry to the requested permissions.
* (Unix only) The `RENV_CACHE_USER` environment variable can now be used to
change the ownership of folders copied into the cache. When set, after a
package is copied into the cache, `renv` will use `chown -Rf` to try and
change the ownership of that cache entry to the requested user account.
* Fixed an issue where repositories containing multiple packages in
sub-directories could fail to install. (#1016)
# renv 0.15.5
* Fixed an issue where indexing of packages in the package cellar could
be slow. (#1014)
* Fixed an issue where installation of packages from Bioconductor's binary
Linux package repositories could fail. (#1013)
* `renv::restore()` now supports restoration of packages installed from
[R-Forge](https://r-forge.r-project.org/). (#671)
* Fixed an issue where `renv::init(bioconductor = TRUE)` would not update
the version of Bioconductor used if a project setting had already been
set.
* It is now possible to "update" an existing lockfile by using
`renv::snapshot(update = TRUE)`. When set, any records existing in the
old lockfile, but not the new lockfile, will be preserved. (#727)
* Fixed an issue where `renv` could fail to parse Git remotes for users
whose username contains a number. (#1004)
* `renv` no longer infers a dependency on the "quarto" R package in \
projects
containing a `_quarto.yml` file. (#995)
* Fixed an issue where `renv` could fail to download a package from MRAN if
a compatible source package of the same version was available from the
active R repositories. (#990)
* `renv` now reports permission errors during download more clearly. (#985)
* Fixed an issue where `RENV_PATHS_LIBRARY_ROOT_ASIS` was not interpreted
correctly. (#976)
* `renv::modify()` gains the `changes` argument, which can be used to modify
a project lockfile non-interactively.
* `renv::clean()` now returns the project directory, as documented. (#922)
* Fixed an issue where `renv` could fail to parse embedded YAML chunk options
in R Markdown documents. (#963)
* `renv` now sets default placeholder names for the `repos` R option, for
any repository URLs which happen to be unnamed. (#964)
* Fixed an issue where `renv` didn't respect the `PATH` ordering when
discovering Python installations via `renv_python_discover()`. (#961)
* Fixed an issue where `renv` could fail to install packages containing
multibyte unicode characters in their DESCRIPTION file. (#956)
* Fixed detection of Rtools 4.2 (#1002)
# renv 0.15.4
* Fixed an issue where package installation could fail when referencing the
cache via a tilde-aliased path, e.g. `~/.local/share/renv`. (#953)
# renv 0.15.3
* A variety of fixes for R CMD check.
* `renv` gains an experimental function, `renv::autoload()`, to be used as a
helper for automatically loading a project for R processes launched within a
sub-directory of that project. See `?renv::autoload` for more details.
* `renv` will now print a warning message when attempting to read a lockfile
containing merge conflict markers (as from e.g. a git merge). (#945)
* Fixed an issue where `renv::install()` could install into the wrong library
path on Windows, if the R installation had a site-wide profile that mutated
the library paths. (#941)
* Fixed an issue where `renv::install()` would fail to find a package within
the cache when using an abbreviated commit hash for installation. (#943)
* Fixed an issue where `renv`'s automatic snapshot was not run after calls to
`renv::install()` in some cases. (#939)
* Fixed an issue where `renv` would incorrectly copy a package from the cache,
if the cached version of the package and the requested version of the package
had the same package version, even if they were retrieved from different
sources. (#938)
* The path to an `renv` tarball can now be set via the environment variable
`RENV_BOOTSTRAP_TARBALL`, to be used to help `renv` bootstrap from local
sources. This can either be the path to a directory containing `renv`
source tarballs, or the path to the tarball itself.
* Fixed an issue where the R site library would not be appropriately masked
for resumed RStudio sessions. (#936)
# renv 0.15.2
* Fixed issues encountered in R CMD check.
# renv 0.15.1
* Fixed an issue where `renv` inadvertently inserted extra newlines into
a `DESCRIPTION` file when adding `Remotes` fields after install. (#914)
* Fixed an issue where packages installed from a remote sub-directory would
fail to install when later re-installed from the cache. (#913)
* `renv` now recognizes YAML chunk options of the form `#| key: value` when
used in R Markdown documents. (#912)
* Fixed an issue where the R site library was visible in `renv` projects with
the system library sandbox disabled.
* Fixed an issue where `renv` could update the wrong `.gitignore` in R
processes launched by `callr` (e.g. in `devtools::install`). (#910)
* Fixed an issue where `renv` could fail to read mis-encoded
DESCRIPTION files. (#908)
* Fixed an issue where `config$cache.symlinks()` would report `NULL` when
unset. (#906)
# renv 0.15.0
* The development branch for `renv` has moved from master to main.
* `renv` package records in the lockfile now include a `Requirements`
entry, which gives a list of R packages this package depends on
in some way. This is primarily for internal use by the `pak`
package.
* Fixed an issue where packages containing DESCRIPTION files using
a latin1 encoding would not be read correctly by `renv`.
* Fixed an issue that could cause `renv::dependencies()` to fail
when a malformed `DESCRIPTION` file was encountered. (#892)
* The path to the project-local `renv` folder can now be configured
via the `RENV_PATHS_RENV` environment variable. This can be useful
if you'd prefer to store your project's `renv` resources within
an alternate location in the project. (#472)
* `renv` now uses an external library by default for R package projects,
with the library located within `tools::R_user_dir("renv", \
"cache")`.
This directory can be configured via the `RENV_PATHS_LIBRARY_ROOT`
environment variable if desired. See
`vignette("packages", package = "renv")` for more details. \
(#384)
* `renv` now uses the repositories as defined within the project lockfile
(if any) when attempting to bootstrap itself in a project. (#820)
* The `renv` sandbox is now disabled by default -- see #614 for more details.
* `renv` gains the function `repair()`, to be used to attempt to repair
the project library when links into the global package cache appear to
be broken. (#378)
* Fixed an issue where the staging library used during install could fail to
inherit the same directory permissions as the target library itself. (#331)
* Fixed an regression which caused `renv::history()` to fail. (#886)
* `renv` gains experimental support for the [pak](https://pak.r-lib.org/)
package. Set `RENV_CONFIG_PAK_ENABLED = TRUE` in an appropriate `.Renviron`
file to enable `pak` integration. When enabled, calls to `renv::install()`
will use `pak` to download and install packages.
* `renv::init()` gains the `bioconductor` argument, to be used to initialize
a project with a particular Bioconductor release. You can also use
`renv::init(bioconductor = TRUE)` to initialize with the latest-available
release for the version of R being used.
* Project settings can now be overridden by setting an R option of the same
name. For example, one could force a project to use Bioconductor 3.14 by
setting `options(renv.settings.bioconductor.version = "3.14")` within
the project `.Rprofile` (or similar startup R profile).
* The ad-hoc package repository called "local sources" has been renamed to
the "package cellar". In addition, the path to the cellar is now
controlled by the `RENV_PATHS_CELLAR` environment variable, rather than
`RENV_PATHS_LOCAL`. This change was made to reduce confusion between
"local sources" of packages located somewhere on the filesystem, as
opposed to packages explicitly placed in this ad-hoc repository.
`RENV_PATHS_LOCAL` remains supported for backwards compatibility.
* The `RENV_PATHS_CELLAR` environment variable can now be set to multiple
paths. Use `;` as a separator between paths; for example,
`RENV_PATHS_LOCAL=/path/to/sources/v1;/path/to/sources/v2`. (#550)
* Packages installed via e.g. `renv::install("./path/to/package")`
will now retain the relative path to that package within the lockfile.
(#873)
* Fixed an issue where invalid `config` option values were not properly
reported. (#773)
* `renv` now supports restoration of packages installed via one of the
[r-universe](https://r-universe.dev/) repositories.
* `renv` gains the `bioconductor.version` project setting, used to freeze
the version of Bioconductor used in a particular project. When set, this
will override any version that might be selected via the `BiocManager`
package. (#864)
* `renv` now infers that parameterized R Markdown documents have a dependency
on the `shiny` package. In addition, R code included within the `params:`
list will be parsed for dependencies. (#859)
* `renv` now ignores hidden directories during dependency discovery by default.
If you want to force a particular hidden directory to be included for
discovery, you can use a `.renvignore` file with an explicit inclusion
criteria; e.g. `!.hidden/`.
* `renv` now supports the `*release` remotes specifier for GitHub repositories,
for requesting installation of the latest declared release of a package from
GitHub. (#792)
* `renv` now handles packages stored within the sub-directory of a Git
repository better. (#793)
* Fixed an issue where `renv::history()` would fail to resolve the correct
lockfile path if the working directory was changed. (#834)
* Refined dependency discovery within `glue::glue()` expressions.
* `renv` now parses packages referenced via the `base_format` field within
an R Markdown document's YAML header. (#854)
* Fixed an issue where `renv` would fail to produce the appropriate binary
repository URL for RSPM repositories built using Red Hat Enterprise Linux.
* Fixed an issue where `renv::snapshot()` could cause the environment name
and / or path associated with a Python environment to be omitted from the
lockfile. (#843)
* Fixed an issue where `renv::restore()` could fail to restore packages which
referred to their source via an explicit path in the `Source` field. (#849)
* `renv` no longer requires explicit user consent when used within Singularity
containers. (#824, @kiwiroy)
* `renv` now respects the `R_PROFILE_USER` environment variable, in addition
to the `user.profile` configuration option, when considering whether the
user `.Rprofile` should be examined for package dependencies. (#821)
* The `renv` auto-loader can now be disabled by setting the environment
variable `RENV_AUTOLOADER_ENABLED = FALSE`. This can be useful if you'd like
to explicitly control how a project is loaded, e.g. by calling `renv::load()`
explicitly.
* `renv::snapshot()` gains the `repos` argument, to be used to force
the lockfile to be generated with the requested set of R repositories
encoded within.
* `renv` now validates that the `repos` option, as used by `renv::snapshot()`,
is a named vector. (#811)
* Fixed an issue where `renv`'s shims, e.g. for `install.packages()`, failed
to pass along other optional arguments to the shimmed function correctly.
(#808)
|
| 2021-10-26 12:20:11 by Nia Alarie | Files touched by this commit (3016) |
Log message: archivers: Replace RMD160 checksums with BLAKE2s checksums All checksums have been double-checked against existing RMD160 and SHA512 hashes Could not be committed due to merge conflict: devel/py-traitlets/distinfo The following distfiles were unfetchable (note: some may be only fetched conditionally): ./devel/pvs/distinfo pvs-3.2-solaris.tgz ./devel/eclipse/distinfo eclipse-sourceBuild-srcIncluded-3.0.1.zip |
| 2021-10-07 15:44:44 by Nia Alarie | Files touched by this commit (3017) |
Log message: devel: Remove SHA1 hashes for distfiles |
New packages: