}}\preformatted{pak::pkg_install("tibble")
+\if{html}{\out{
}}\preformatted{pak::pkg_install("tibble")
}\if{html}{\out{
}}
-\if{html}{\figure{tldr-cran.svg}}
-
pak automatically sets a CRAN repository and the Bioconductor repositories
that correspons to the current R version.
}
\subsection{Install a package from GitHub}{
-\if{html}{\out{
}}\preformatted{pak::pkg_install("tidyverse/tibble")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#>
-#> → Will update 2 packages.
-#> → All 2 packages (0 B) are cached.
-#> + tibble 3.1.8 → 3.1.8.9002 👷🏻🔧 (GitHub: 37ec86a)
-#> + vctrs 0.5.1 → 0.5.1.9000 👷🏾♀️🔧 (GitHub: 2d7de76)
-#> ℹ No downloads are needed, 2 pkgs are cached
-#> ℹ Packaging vctrs 0.5.1.9000
-#> ✔ Packaged vctrs 0.5.1.9000 (1.4s)
-#> ℹ Building vctrs 0.5.1.9000
-#> ✔ Built vctrs 0.5.1.9000 (11.2s)
-#> ✔ Installed vctrs 0.5.1.9000 (github::r-lib/vctrs@2d7de76) (34ms)
-#> ℹ Packaging tibble 3.1.8.9002
-#> ✔ Packaged tibble 3.1.8.9002 (502ms)
-#> ℹ Building tibble 3.1.8.9002
-#> ✔ Built tibble 3.1.8.9002 (2.7s)
-#> ✔ Installed tibble 3.1.8.9002 (github::tidyverse/tibble@37ec86a) (28ms)
-#> ✔ 1 pkg + 10 deps: kept 9, upd 2 [17.5s]
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::pkg_install("tidyverse/tibble")
+}\if{html}{\out{
}}
Use the \code{user/repo} form.
You can specify a branch or tag: \code{user/repo@branch} or \code{user/repo@tag}.
@@ -51,26 +28,10 @@ You can specify a branch or tag: \code{user/repo@branch} or \code{user/repo@tag}
\subsection{Install a package from a URL}{
-\if{html}{\out{
}}\preformatted{pak::pkg_install(
+\if{html}{\out{
}}\preformatted{pak::pkg_install(
"url::https://cran.r-project.org/src/contrib/Archive/tibble/tibble_3.1.7.tar.gz"
)
-}\if{html}{\out{
}}\if{html}{\out{
-
-#>
-#> → Will install 1 package.
-#> → Will update 1 package.
-#> → All 2 packages (38.65 kB) are cached.
-#> + ellipsis 0.3.2
-#> + tibble 3.1.8.9002 → 3.1.7 👷🏻♀️🔧
-#> ℹ No downloads are needed, 2 pkgs (38.65 kB) are cached
-#> ✔ Installed ellipsis 0.3.2 (18ms)
-#> ℹ Building tibble 3.1.7
-#> ✔ Built tibble 3.1.7 (2.5s)
-#> ✔ Installed tibble 3.1.7 (31ms)
-#> ✔ 1 pkg + 11 deps: kept 10, upd 1, added 1 [3.3s]
-
-}}
-
+}\if{html}{\out{
}}
The URL may point to an R package file, made with \verb{R CMD build}, or a
\code{.tar.gz} or \code{.zip} archive of a package tree.
@@ -80,34 +41,16 @@ The URL may point to an R package file, made with \verb{R CMD build}, or a
\section{Package updates}{
\subsection{Update a package}{
-\if{html}{\out{
}}\preformatted{pak::pkg_install("tibble")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#>
-#> → Will update 1 package.
-#> → The package (724.32 kB) is cached.
-#> + tibble 3.1.7 → 3.1.8
-#> ℹ No downloads are needed, 1 pkg (724.32 kB) is cached
-#> ✔ Installed tibble 3.1.8 (36ms)
-#> ✔ 1 pkg + 10 deps: kept 10, upd 1 [368ms]
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::pkg_install("tibble")
+}\if{html}{\out{
}}
\code{pak::pkg_install()} automatically updates the package.
}
\subsection{Update all dependencies of a package}{
-\if{html}{\out{
}}\preformatted{pak::pkg_install("tibble", upgrade = TRUE)
-}\if{html}{\out{
}}\if{html}{\out{
-
-#>
-#> ℹ No downloads are needed
-#> ✔ 1 pkg + 10 deps: kept 11 [278ms]
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::pkg_install("tibble", upgrade = TRUE)
+}\if{html}{\out{
}}
\code{upgrade = TRUE} updates the package itself and all of its dependencies, if
necessary.
@@ -117,124 +60,32 @@ necessary.
Add \code{?reinstall} to the package name or package reference in general:
-\if{html}{\out{
}}\preformatted{pak::pkg_install("tibble?reinstall")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#>
-#> → Will install 1 package.
-#> → The package (724.32 kB) is cached.
-#> + tibble 3.1.8
-#> ℹ No downloads are needed, 1 pkg (724.32 kB) is cached
-#> ✔ Installed tibble 3.1.8 (60ms)
-#> ✔ 1 pkg + 10 deps: kept 10, added 1 [340ms]
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::pkg_install("tibble?reinstall")
+}\if{html}{\out{
}}
}
}
\section{Dependency lookup}{
\subsection{Dependencies of a CRAN or Bioconductor package}{
-\if{html}{\out{
}}\preformatted{pak::pkg_deps("tibble")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 11 × 32
-#> ref type direct direc…¹ status package version license needs…²
-#> <chr> <chr> <lgl> <lgl> <chr> <chr> <chr> <chr> <lgl>
-#> 1 cli stan… FALSE FALSE OK cli 3.4.1 MIT + … FALSE
-#> 2 fansi stan… FALSE FALSE OK fansi 1.0.3 GPL-2 … FALSE
-#> 3 glue stan… FALSE FALSE OK glue 1.6.2 MIT + … FALSE
-#> 4 lifecycle stan… FALSE FALSE OK lifecy… 1.0.3 MIT + … FALSE
-#> 5 magrittr stan… FALSE FALSE OK magrit… 2.0.3 MIT + … FALSE
-#> 6 pillar stan… FALSE FALSE OK pillar 1.8.1 MIT + … FALSE
-#> 7 pkgconfig stan… FALSE FALSE OK pkgcon… 2.0.3 MIT + … FALSE
-#> 8 rlang stan… FALSE FALSE OK rlang 1.0.6 MIT + … FALSE
-#> 9 tibble stan… TRUE TRUE OK tibble 3.1.8 MIT + … FALSE
-#> 10 utf8 stan… FALSE FALSE OK utf8 1.2.2 Apache… FALSE
-#> 11 vctrs stan… FALSE FALSE OK vctrs 0.5.1 MIT + … FALSE
-#> # … with 23 more variables: priority <chr>, md5sum <chr>, sha256 <chr>,
-#> # filesize <int>, built <chr>, platform <chr>, rversion <chr>,
-#> # repotype <chr>, repodir <chr>, target <chr>, deps <list>,
-#> # mirror <chr>, sources <list>, remote <list>, error <list>,
-#> # metadata <list>, dep_types <list>, params <list>, sysreqs <chr>,
-#> # cache_status <chr>, lib_status <chr>, old_version <chr>,
-#> # new_version <chr>, and abbreviated variable names ¹directpkg, …
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::pkg_deps("tibble")
+}\if{html}{\out{
}}
The results are returned in a data frame.
}
\subsection{Dependency tree of a CRAN / Bioconductor package}{
-\if{html}{\out{
}}\preformatted{pak::pkg_deps_tree("tibble")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> tibble 3.1.8 ✨
-#> ├─fansi 1.0.3 ✨
-#> ├─lifecycle 1.0.3 ✨
-#> │ ├─cli 3.4.1 ✨
-#> │ ├─glue 1.6.2 ✨
-#> │ └─rlang 1.0.6 ✨
-#> ├─magrittr 2.0.3 ✨
-#> ├─pillar 1.8.1 ✨
-#> │ ├─cli
-#> │ ├─fansi
-#> │ ├─glue
-#> │ ├─lifecycle
-#> │ ├─rlang
-#> │ ├─utf8 1.2.2 ✨
-#> │ └─vctrs 0.5.1 ✨
-#> │ ├─cli
-#> │ ├─glue
-#> │ ├─lifecycle
-#> │ └─rlang
-#> ├─pkgconfig 2.0.3 ✨
-#> ├─rlang
-#> └─vctrs
-#>
-#> Key: ✨ new
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::pkg_deps_tree("tibble")
+}\if{html}{\out{
}}
The results are also silently returned in a data frame.
}
\subsection{Dependency tree of a package on GitHub}{
-\if{html}{\out{
}}\preformatted{pak::pkg_deps_tree("tidyverse/tibble")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> tidyverse/tibble 3.1.8.9002 ✨👷🏼🔧
-#> ├─fansi 1.0.3 ✨
-#> ├─lifecycle 1.0.3 ✨
-#> │ ├─cli 3.4.1 ✨
-#> │ ├─glue 1.6.2 ✨
-#> │ └─rlang 1.0.6 ✨
-#> ├─magrittr 2.0.3 ✨
-#> ├─pillar 1.8.1 ✨
-#> │ ├─cli
-#> │ ├─fansi
-#> │ ├─glue
-#> │ ├─lifecycle
-#> │ ├─rlang
-#> │ ├─utf8 1.2.2 ✨
-#> │ └─r-lib/vctrs 0.5.1.9000 ✨👷🏼🔧
-#> │ ├─cli
-#> │ ├─glue
-#> │ ├─lifecycle
-#> │ └─rlang
-#> ├─pkgconfig 2.0.3 ✨
-#> ├─rlang
-#> └─r-lib/vctrs
-#>
-#> Key: ✨ new | 👷🏼 build | 🔧 compile
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::pkg_deps_tree("tidyverse/tibble")
+}\if{html}{\out{
}}
Use the \code{user/repo} form.
As usual, you can also select a branch, tag, or sha, with the
@@ -243,36 +94,8 @@ As usual, you can also select a branch, tag, or sha, with the
\subsection{Dependency tree of the package in the current directory}{
-\if{html}{\out{
}}\preformatted{pak::local_deps_tree("tibble")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> local::tibble 3.1.8 ✨👷🏻♀️🔧
-#> ├─fansi 1.0.3 ✨
-#> ├─lifecycle 1.0.3 ✨
-#> │ ├─cli 3.4.1 ✨
-#> │ ├─glue 1.6.2 ✨
-#> │ └─rlang 1.0.6 ✨
-#> ├─magrittr 2.0.3 ✨
-#> ├─pillar 1.8.1 ✨
-#> │ ├─cli
-#> │ ├─fansi
-#> │ ├─glue
-#> │ ├─lifecycle
-#> │ ├─rlang
-#> │ ├─utf8 1.2.2 ✨
-#> │ └─vctrs 0.5.1 ✨
-#> │ ├─cli
-#> │ ├─glue
-#> │ ├─lifecycle
-#> │ └─rlang
-#> ├─pkgconfig 2.0.3 ✨
-#> ├─rlang
-#> └─vctrs
-#>
-#> Key: ✨ new | 👷🏻♀️ build | 🔧 compile
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::local_deps_tree("tibble")
+}\if{html}{\out{
}}
Assuming package is in directory \code{tibble}.
}
@@ -281,20 +104,8 @@ Assuming package is in directory \code{tibble}.
How does tibble depend on rlang?
-\if{html}{\out{
}}\preformatted{pak::pkg_deps_explain("tibble", "rlang")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> tibble -> lifecycle -> rlang
-#> tibble -> pillar -> lifecycle -> rlang
-#> tibble -> pillar -> rlang
-#> tibble -> pillar -> vctrs -> lifecycle -> rlang
-#> tibble -> pillar -> vctrs -> rlang
-#> tibble -> rlang
-#> tibble -> vctrs -> lifecycle -> rlang
-#> tibble -> vctrs -> rlang
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::pkg_deps_explain("tibble", "rlang")
+}\if{html}{\out{
}}
Use can also use the \code{user/repo} form for packages from GitHub,
\code{url::...} for packages at URLs, etc.
@@ -304,243 +115,20 @@ Use can also use the \code{user/repo} form for packages from GitHub,
\section{Package development}{
\subsection{Install dependencies of local package}{
-\if{html}{\out{
}}\preformatted{pak::local_install_deps()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ✔ Loading metadata database ... done
-#>
-#> → The package (0 B) is cached.
-#> ℹ No downloads are needed
-#> ✔ 10 deps: kept 10 [3.2s]
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::local_install_deps()
+}\if{html}{\out{
}}
}
\subsection{Install local package}{
-\if{html}{\out{
}}\preformatted{pak::local_install()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#>
-#> → Will update 1 package.
-#> → The package (0 B) is cached.
-#> + tibble 3.1.8 → 3.1.8 👷🏻♂️🔧
-#> ℹ No downloads are needed, 1 pkg is cached
-#> ✔ Got tibble 3.1.8 (source) (96 B)
-#> ℹ Packaging tibble 3.1.8
-#> ✔ Packaged tibble 3.1.8 (864ms)
-#> ℹ Building tibble 3.1.8
-#> ✔ Built tibble 3.1.8 (2.4s)
-#> ✔ Installed tibble 3.1.8 (local) (38ms)
-#> ✔ 1 pkg + 10 deps: kept 10, upd 1, dld 1 (NA B) [4.2s]
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::local_install()
+}\if{html}{\out{
}}
}
\subsection{Install all dependencies of local package}{
-\if{html}{\out{
}}\preformatted{pak::local_install_dev_deps()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#>
-#> → Will install 86 packages.
-#> → Will update 2 packages.
-#> → All 89 packages (100.53 MB) are cached.
-#> + askpass 1.1
-#> + base64enc 0.1-3
-#> + bench 1.1.2
-#> + bit 4.0.5
-#> + bit64 4.0.5
-#> + blob 1.2.3
-#> + brio 1.1.3
-#> + bslib 0.4.1
-#> + cachem 1.0.6
-#> + callr 3.7.3
-#> + clipr 0.8.0
-#> + colorspace 2.0-3
-#> + covr 3.6.1
-#> + crayon 1.5.2
-#> + curl 4.3.3
-#> + desc 1.4.2
-#> + DiagrammeR 1.0.9
-#> + diffobj 0.3.5
-#> + digest 0.6.31
-#> + downloader 0.4
-#> + dplyr 1.0.10
-#> + evaluate 0.19 👷🏿♂️
-#> + farver 2.1.1
-#> + fastmap 1.1.0
-#> + formattable 0.2.1
-#> + fs 1.5.2
-#> + generics 0.1.3
-#> + ggplot2 3.4.0
-#> + gridExtra 2.3
-#> + gtable 0.3.1
-#> + highr 0.9
-#> + hms 1.1.2
-#> + htmltools 0.5.4
-#> + htmlwidgets 1.6.0 👷🏾♂️
-#> + httr 1.4.4
-#> + igraph 1.3.5
-#> + influenceR 0.1.0.1
-#> + isoband 0.2.6
-#> + jquerylib 0.1.4
-#> + jsonlite 1.8.4
-#> + knitr 1.41
-#> + labeling 0.4.2
-#> + lazyeval 0.2.2
-#> + lubridate 1.9.0
-#> + Matrix 1.5-1 → 1.5-3
-#> + memoise 2.0.1
-#> + mime 0.12
-#> + mockr 0.2.0
-#> + munsell 0.5.0
-#> + nlme 3.1-160 → 3.1-161 👷♂️🔧
-#> + nycflights13 1.0.2
-#> + openssl 2.0.5
-#> + pkgbuild 1.4.0
-#> + pkgload 1.3.2
-#> + praise 1.0.0
-#> + prettyunits 1.1.1
-#> + processx 3.8.0
-#> + profmem 0.6.0
-#> + ps 1.7.2
-#> + purrr 0.3.5
-#> + R6 2.5.1
-#> + rappdirs 0.3.3
-#> + RColorBrewer 1.1-3
-#> + readr 2.1.3
-#> + rematch2 2.1.2
-#> + rex 1.2.1
-#> + rmarkdown 2.19 👷♂️
-#> + rprojroot 2.0.3
-#> + rstudioapi 0.14
-#> + sass 0.4.4
-#> + scales 1.2.1
-#> + stringi 1.7.8
-#> + stringr 1.5.0
-#> + sys 3.4.1
-#> + testthat 3.1.6
-#> + tidyr 1.2.1
-#> + tidyselect 1.2.0
-#> + timechange 0.1.1
-#> + tinytex 0.43 👷🏻♂️
-#> + tzdb 0.3.0
-#> + viridis 0.6.2
-#> + viridisLite 0.4.1
-#> + visNetwork 2.1.2
-#> + vroom 1.6.0
-#> + waldo 0.4.0
-#> + withr 2.5.0
-#> + xfun 0.35
-#> + yaml 2.3.6
-#> ℹ No downloads are needed, 88 pkgs (100.53 MB) are cached
-#> ℹ Packaging tibble 3.1.8
-#> ℹ Building evaluate 0.19
-#> ℹ Building nlme 3.1-161
-#> ✔ Installed R6 2.5.1 (31ms)
-#> ✔ Installed DiagrammeR 1.0.9 (76ms)
-#> ✔ Installed RColorBrewer 1.1-3 (72ms)
-#> ✔ Installed askpass 1.1 (79ms)
-#> ✔ Installed Matrix 1.5-3 (137ms)
-#> ✔ Installed base64enc 0.1-3 (125ms)
-#> ✔ Installed bench 1.1.2 (90ms)
-#> ✔ Installed bit64 4.0.5 (44ms)
-#> ✔ Installed bit 4.0.5 (43ms)
-#> ✔ Installed blob 1.2.3 (41ms)
-#> ✔ Installed brio 1.1.3 (40ms)
-#> ✔ Installed cachem 1.0.6 (31ms)
-#> ✔ Installed callr 3.7.3 (53ms)
-#> ✔ Installed clipr 0.8.0 (89ms)
-#> ✔ Installed colorspace 2.0-3 (99ms)
-#> ✔ Installed covr 3.6.1 (58ms)
-#> ✔ Installed crayon 1.5.2 (75ms)
-#> ✔ Installed curl 4.3.3 (83ms)
-#> ✔ Packaged tibble 3.1.8 (684ms)
-#> ✔ Installed bslib 0.4.1 (315ms)
-#> ✔ Installed desc 1.4.2 (77ms)
-#> ✔ Installed diffobj 0.3.5 (68ms)
-#> ✔ Installed digest 0.6.31 (60ms)
-#> ✔ Installed downloader 0.4 (39ms)
-#> ✔ Installed dplyr 1.0.10 (39ms)
-#> ✔ Installed farver 2.1.1 (41ms)
-#> ✔ Installed fastmap 1.1.0 (38ms)
-#> ✔ Installed formattable 0.2.1 (43ms)
-#> ✔ Built evaluate 0.19 (903ms)
-#> ✔ Installed fs 1.5.2 (49ms)
-#> ✔ Installed generics 0.1.3 (46ms)
-#> ✔ Installed ggplot2 3.4.0 (65ms)
-#> ✔ Installed gridExtra 2.3 (43ms)
-#> ✔ Installed gtable 0.3.1 (38ms)
-#> ✔ Installed highr 0.9 (37ms)
-#> ✔ Installed hms 1.1.2 (39ms)
-#> ✔ Installed htmltools 0.5.4 (40ms)
-#> ✔ Installed httr 1.4.4 (40ms)
-#> ✔ Installed influenceR 0.1.0.1 (17ms)
-#> ✔ Installed igraph 1.3.5 (96ms)
-#> ✔ Installed isoband 0.2.6 (68ms)
-#> ✔ Installed jquerylib 0.1.4 (38ms)
-#> ✔ Installed jsonlite 1.8.4 (37ms)
-#> ✔ Installed labeling 0.4.2 (14ms)
-#> ✔ Installed knitr 1.41 (73ms)
-#> ✔ Installed lazyeval 0.2.2 (43ms)
-#> ✔ Installed lubridate 1.9.0 (38ms)
-#> ✔ Installed memoise 2.0.1 (39ms)
-#> ✔ Installed mime 0.12 (58ms)
-#> ✔ Installed mockr 0.2.0 (38ms)
-#> ✔ Installed munsell 0.5.0 (36ms)
-#> ✔ Installed nycflights13 1.0.2 (37ms)
-#> ✔ Installed openssl 2.0.5 (41ms)
-#> ✔ Installed pkgbuild 1.4.0 (39ms)
-#> ✔ Installed pkgload 1.3.2 (37ms)
-#> ✔ Installed praise 1.0.0 (35ms)
-#> ✔ Installed prettyunits 1.1.1 (56ms)
-#> ✔ Installed processx 3.8.0 (37ms)
-#> ✔ Installed profmem 0.6.0 (37ms)
-#> ✔ Installed ps 1.7.2 (37ms)
-#> ✔ Installed purrr 0.3.5 (38ms)
-#> ✔ Installed rappdirs 0.3.3 (37ms)
-#> ✔ Installed readr 2.1.3 (42ms)
-#> ✔ Installed rematch2 2.1.2 (41ms)
-#> ✔ Installed rex 1.2.1 (58ms)
-#> ✔ Installed rprojroot 2.0.3 (58ms)
-#> ✔ Installed rstudioapi 0.14 (40ms)
-#> ✔ Installed sass 0.4.4 (42ms)
-#> ✔ Installed scales 1.2.1 (39ms)
-#> ✔ Installed stringr 1.5.0 (33ms)
-#> ✔ Installed sys 3.4.1 (49ms)
-#> ✔ Installed testthat 3.1.6 (88ms)
-#> ✔ Installed tidyr 1.2.1 (77ms)
-#> ✔ Installed stringi 1.7.8 (195ms)
-#> ✔ Installed tidyselect 1.2.0 (113ms)
-#> ✔ Installed timechange 0.1.1 (55ms)
-#> ✔ Installed tzdb 0.3.0 (40ms)
-#> ✔ Installed viridisLite 0.4.1 (39ms)
-#> ✔ Installed viridis 0.6.2 (39ms)
-#> ✔ Installed visNetwork 2.1.2 (77ms)
-#> ✔ Installed vroom 1.6.0 (77ms)
-#> ✔ Installed waldo 0.4.0 (62ms)
-#> ✔ Installed withr 2.5.0 (40ms)
-#> ✔ Installed xfun 0.35 (39ms)
-#> ℹ Building tinytex 0.43
-#> ✔ Installed yaml 2.3.6 (43ms)
-#> ✔ Installed evaluate 0.19 (15ms)
-#> ✔ Built tinytex 0.43 (1.1s)
-#> ✔ Installed tinytex 0.43 (15ms)
-#> ℹ Building rmarkdown 2.19
-#> ✔ Built rmarkdown 2.19 (3.9s)
-#> ✔ Installed rmarkdown 2.19 (85ms)
-#> ℹ Building htmlwidgets 1.6.0
-#> ✔ Built nlme 3.1-161 (8s)
-#> ✔ Installed nlme 3.1-161 (33ms)
-#> ✔ Built htmlwidgets 1.6.0 (1.1s)
-#> ✔ Installed htmlwidgets 1.6.0 (22ms)
-#> ✔ 103 deps: kept 15, upd 2, added 86 [10.2s]
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::local_install_dev_deps()
+}\if{html}{\out{
}}
Installs development and optional dependencies as well.
}
@@ -549,21 +137,8 @@ Installs development and optional dependencies as well.
\section{Repositories}{
\subsection{List current repositories}{
-\if{html}{\out{
}}\preformatted{pak::repo_get()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 5 × 5
-#> name url type r_ver…¹ bioc_…²
-#> * <chr> <chr> <chr> <chr> <chr>
-#> 1 CRAN https://cloud.r-project.org cran * NA
-#> 2 BioCsoft https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 3 BioCann https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 4 BioCexp https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 5 BioCworkflows https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> # … with abbreviated variable names ¹r_version, ²bioc_version
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::repo_get()
+}\if{html}{\out{
}}
If you haven't set a CRAN or Bioconductor repository, pak does that
automatically.
@@ -571,43 +146,16 @@ automatically.
\subsection{Add custom repository}{
-\if{html}{\out{
}}\preformatted{pak::repo_add(rhub = 'https://r-hub.r-universe.dev')
+\if{html}{\out{
}}\preformatted{pak::repo_add(rhub = 'https://r-hub.r-universe.dev')
pak::repo_get()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 6 × 5
-#> name url type r_ver…¹ bioc_…²
-#> * <chr> <chr> <chr> <chr> <chr>
-#> 1 CRAN https://cloud.r-project.org cran * NA
-#> 2 rhub https://r-hub.r-universe.dev cran… * NA
-#> 3 BioCsoft https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 4 BioCann https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 5 BioCexp https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 6 BioCworkflows https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> # … with abbreviated variable names ¹r_version, ²bioc_version
-
-}}
-
+}\if{html}{\out{
}}
}
\subsection{Remove custom repositories}{
-\if{html}{\out{
}}\preformatted{options(repos = getOption("repos")["CRAN"])
+\if{html}{\out{
}}\preformatted{options(repos = getOption("repos")["CRAN"])
pak::repo_get()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 5 × 5
-#> name url type r_ver…¹ bioc_…²
-#> * <chr> <chr> <chr> <chr> <chr>
-#> 1 CRAN https://cloud.r-project.org cran * NA
-#> 2 BioCsoft https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 3 BioCann https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 4 BioCexp https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 5 BioCworkflows https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> # … with abbreviated variable names ¹r_version, ²bioc_version
-
-}}
-
+}\if{html}{\out{
}}
If you set the \code{repos} option to a CRAN repo only, or unset it completely,
then pak keeps only CRAN and (by default) Bioconductor.
@@ -615,22 +163,9 @@ then pak keeps only CRAN and (by default) Bioconductor.
\subsection{Time travel using RSPM}{
-\if{html}{\out{
}}\preformatted{pak::repo_add(CRAN = "RSPM@2022-06-30")
+\if{html}{\out{
}}\preformatted{pak::repo_add(CRAN = "RSPM@2022-06-30")
pak::repo_get()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 5 × 5
-#> name url type r_ver…¹ bioc_…²
-#> * <chr> <chr> <chr> <chr> <chr>
-#> 1 CRAN https://packagemanager.posit.co/c… cran * NA
-#> 2 BioCsoft https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 3 BioCann https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 4 BioCexp https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 5 BioCworkflows https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> # … with abbreviated variable names ¹r_version, ²bioc_version
-
-}}
-
+}\if{html}{\out{
}}
Sets a repository that is equivalent to CRAN's state closest to the
specified date.
@@ -640,22 +175,9 @@ repository.
\subsection{Time travel using MRAN}{
-\if{html}{\out{
}}\preformatted{pak::repo_add(CRAN = "MRAN@2022-06-30")
+\if{html}{\out{
}}\preformatted{pak::repo_add(CRAN = "MRAN@2022-06-30")
pak::repo_get()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 5 × 5
-#> name url type r_ver…¹ bioc_…²
-#> * <chr> <chr> <chr> <chr> <chr>
-#> 1 CRAN https://cran.microsoft.com/snapsh… cran * NA
-#> 2 BioCsoft https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 3 BioCann https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 4 BioCexp https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 5 BioCworkflows https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> # … with abbreviated variable names ¹r_version, ²bioc_version
-
-}}
-
+}\if{html}{\out{
}}
Sets a repository that is equivalent to CRAN's state at the specified date.
Name this repository \code{CRAN}, otherwise pak will also add a default CRAN
@@ -667,34 +189,8 @@ repository.
By default pak caches both metadata and downloaded packages.
\subsection{Inspect metadata cache}{
-\if{html}{\out{
}}\preformatted{pak::meta_list()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ✔ Updated metadata database: 4.55 MB in 4 files.
-#> ✔ Updating metadata database ... done
-#> # A data frame: 43,718 × 32
-#> package version depends sugge…¹ license imports linki…² archs enhan…³
-#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
-#> 1 A3 1.0.0 R (>= … random… GPL (>… NA NA NA NA
-#> 2 AATtoo… 0.0.1 R (>= … NA GPL-3 magrit… NA NA NA
-#> 3 ABACUS 1.0.0 R (>= … rmarkd… GPL-3 ggplot… NA NA NA
-#> 4 ABC.RAP 0.9.0 R (>= … knitr,… GPL-3 graphi… NA NA NA
-#> 5 ABCana… 1.2.1 R (>= … NA GPL-3 plotrix NA NA NA
-#> 6 ABCopt… 0.15.0 NA testth… MIT + … Rcpp, … Rcpp ABCo… NA
-#> 7 ABCp2 1.2 MASS NA GPL-2 NA NA NA NA
-#> 8 ABHgen… 1.0.1 NA knitr,… GPL-3 ggplot… NA NA NA
-#> 9 ABPS 0.3 NA testth… GPL (>… kernlab NA NA NA
-#> 10 ACA 1.1 R (>= … NA GPL graphi… NA NA NA
-#> # … with 43,708 more rows, 23 more variables: os_type <chr>,
-#> # priority <chr>, license_is_foss <chr>, license_restricts_use <chr>,
-#> # repodir <chr>, rversion <chr>, platform <chr>,
-#> # needscompilation <chr>, ref <chr>, type <chr>, direct <lgl>,
-#> # status <chr>, target <chr>, mirror <chr>, sources <list>,
-#> # filesize <int>, sha256 <chr>, sysreqs <chr>, built <chr>,
-#> # published <dttm>, deps <list>, md5sum <chr>, path <chr>, and …
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::meta_list()
+}\if{html}{\out{
}}
}
\subsection{Update metadata cache}{
@@ -703,86 +199,29 @@ By default \code{pkg_install()} and similar functions automatically update the
metadata for the currently set repositories if it is older than 24 hours.
You can also force an update manually:
-\if{html}{\out{
}}\preformatted{pak::meta_update()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ✔ Updating metadata database ... done
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::meta_update()
+}\if{html}{\out{
}}
}
\subsection{Clean metadata cache}{
-\if{html}{\out{
}}\preformatted{pak::meta_clean(force = TRUE)
+\if{html}{\out{
}}\preformatted{pak::meta_clean(force = TRUE)
pak::meta_summary()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> [1] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metad
-#> ata"
-#>
-#> $current_db
-#> [1] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metad
-#> ata/pkgs-d1c324e625.rds"
-#>
-#> $raw_files
-#> character(0)
-#>
-#> $db_files
-#> character(0)
-#>
-#> $size
-#> [1] 0
-#>
-
-}}
-
+}\if{html}{\out{
}}
}
\subsection{Inspect package cache}{
Downloaded packages are also cached.
-\if{html}{\out{
}}\preformatted{pak::cache_list()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 480 × 11
-#> fullpath path package url etag sha256 version platf…¹ built
-#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <int>
-#> 1 /Users/gaborc… arch… NA http… "\\"1… 0c8f0… NA NA NA
-#> 2 /Users/gaborc… bin/… evalua… http… "\\"1… 08a39… 0.17 aarch6… NA
-#> 3 /Users/gaborc… bin/… crayon http… "\\"2… 1e6d5… 1.5.2 aarch6… NA
-#> 4 /Users/gaborc… bin/… common… http… "\\"4… 47b4a… 1.8.1 aarch6… NA
-#> 5 /Users/gaborc… bin/… curl http… "\\"b… 7b8ba… 4.3.3 aarch6… NA
-#> 6 /Users/gaborc… bin/… tinytex http… "\\"2… 7e9ba… 0.42 aarch6… NA
-#> 7 /Users/gaborc… bin/… jsonli… http… "\\"1… 68e59… 1.8.2 aarch6… NA
-#> 8 /Users/gaborc… bin/… lifecy… http… "\\"1… 7ce27… 1.0.3 aarch6… NA
-#> 9 /Users/gaborc… bin/… vctrs http… "\\"1… c3a69… 0.4.2 aarch6… NA
-#> 10 /Users/gaborc… src/… pkgcac… NA NA 9b70a… NA NA 0
-#> # … with 470 more rows, 2 more variables: vignettes <int>,
-#> # rversion <chr>, and abbreviated variable name ¹platform
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::cache_list()
+}\if{html}{\out{
}}
}
\subsection{View a package cache summary}{
-\if{html}{\out{
}}\preformatted{pak::cache_summary()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> $cachepath
-#> [1] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/pkg"
-#>
-#> $files
-#> [1] 480
-#>
-#> $size
-#> [1] 653325143
-#>
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::cache_summary()
+}\if{html}{\out{
}}
}
\subsection{Clean package cache}{
@@ -795,32 +234,8 @@ Downloaded packages are also cached.
\section{Libraries}{
\subsection{List packages in a library}{
-\if{html}{\out{
}}\preformatted{pak::lib_status(Sys.getenv("R_LIBS_USER"))
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 701 × 39
-#> library package title version depends repos…¹ license needs…² built
-#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <lgl> <chr>
-#> 1 /Users/g… abc "Too… 2.2.1 R (>= … CRAN GPL (>… FALSE R 4.…
-#> 2 /Users/g… abc.da… "Dat… 1.0 R (>= … CRAN GPL (>… FALSE R 4.…
-#> 3 /Users/g… abind "Com… 1.4-5 R (>= … CRAN LGPL (… FALSE R 4.…
-#> 4 /Users/g… ade4 "Ana… 1.7-19 R (>= … CRAN GPL (>… TRUE R 4.…
-#> 5 /Users/g… ape "Ana… 5.6-2 R (>= … CRAN GPL-2 … TRUE R 4.…
-#> 6 /Users/g… aplot "Dec… 0.1.7 NA CRAN Artist… FALSE R 4.…
-#> 7 /Users/g… archive "Mul… 1.1.5 R (>= … CRAN MIT + … TRUE R 4.…
-#> 8 /Users/g… arrayh… "Con… 1.1-0 NA CRAN GPL FALSE R 4.…
-#> 9 /Users/g… arrow "Int… 9.0.0 R (>= … CRAN Apache… TRUE R 4.…
-#> 10 /Users/g… arules "Min… 1.7-5 R (>= … CRAN GPL-3 TRUE R 4.…
-#> # … with 691 more rows, 30 more variables: remotetype <chr>,
-#> # remotepkgref <chr>, remoteref <chr>, remoterepos <chr>,
-#> # remotepkgplatform <chr>, remotesha <chr>, imports <chr>,
-#> # suggests <chr>, linkingto <chr>, remotes <chr>, remotehost <chr>,
-#> # remoterepo <chr>, remoteusername <chr>, enhances <chr>,
-#> # biocviews <chr>, remoteurl <chr>, remotesubdir <chr>,
-#> # priority <chr>, remoteetag <chr>, remotepackaged <chr>, …
-
-}}
-
+\if{html}{\out{
}}\preformatted{pak::lib_status(Sys.getenv("R_LIBS_USER"))
+}\if{html}{\out{
}}
Pass the directory of the library as the argument.
}
diff --git a/man/lib_status.Rd b/man/lib_status.Rd
index 764a32c58..87993b1ea 100644
--- a/man/lib_status.Rd
+++ b/man/lib_status.Rd
@@ -23,31 +23,8 @@ Status of packages in a library
\section{Examples}{
-\if{html}{\out{
}}\preformatted{lib_status(.Library)
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 31 × 31
-#> library package version prior…¹ title license sugge…² built depends
-#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
-#> 1 /Library… base 4.2.2 base "The… Part o… methods R 4.… NA
-#> 2 /Library… boot 1.3-28 recomm… "Boo… Unlimi… MASS, … R 4.… R (>= …
-#> 3 /Library… class 7.3-20 recomm… "Fun… GPL-2 … NA R 4.… R (>= …
-#> 4 /Library… cluster 2.1.4 recomm… "\\"F… GPL (>… MASS, … R 4.… R (>= …
-#> 5 /Library… codeto… 0.2-18 recomm… "Cod… GPL NA R 4.… R (>= …
-#> 6 /Library… compil… 4.2.2 base "The… Part o… NA R 4.… NA
-#> 7 /Library… datase… 4.2.2 base "The… Part o… NA R 4.… NA
-#> 8 /Library… filelo… 1.0.2 NA "Por… MIT + … callr … R 4.… NA
-#> 9 /Library… foreign 0.8-83 recomm… "Rea… GPL (>… NA R 4.… R (>= …
-#> 10 /Library… graphi… 4.2.2 base "The… Part o… NA R 4.… NA
-#> # … with 21 more rows, 22 more variables: needscompilation <lgl>,
-#> # repository <chr>, imports <chr>, remotetype <chr>,
-#> # remotepkgref <chr>, remoteref <chr>, remoterepos <chr>,
-#> # remotepkgplatform <chr>, remotesha <chr>, enhances <chr>,
-#> # linkingto <chr>, md5sum <chr>, platform <chr>, biocviews <chr>,
-#> # sysreqs <chr>, ref <chr>, type <chr>, status <chr>, rversion <chr>,
-#> # sources <list>, repotype <chr>, deps <list>, and abbreviated …
-
-}}
+\if{html}{\out{
}}\preformatted{lib_status(.Library)
+}\if{html}{\out{
}}
}
\seealso{
diff --git a/man/lockfile_create.Rd b/man/lockfile_create.Rd
index c75bf73c8..c0a17b457 100644
--- a/man/lockfile_create.Rd
+++ b/man/lockfile_create.Rd
@@ -15,12 +15,12 @@ lockfile_create(
\arguments{
\item{pkg}{Package names or package references. E.g.
\itemize{
-\item \code{ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
+\item \code{ggplot2} or \code{cran::ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
in general,
-\item \code{tidyverse/ggplot2}: package from GitHub,
-\item \code{tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
-\item \verb{https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
-\item \code{.}: package in the current working directory.
+\item \code{tidyverse/ggplot2} or \code{github::tidyverse/ggplot2}: package from GitHub,
+\item \code{tidyverse/ggplot2@v3.4.0} or \code{github::tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
+\item \verb{url::https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
+\item \code{.} or \code{local::.}: package in the current working directory.
}
See "\link{Package sources}" for more details.}
diff --git a/man/metadata.Rd b/man/metadata.Rd
index 779824c68..3a59729db 100644
--- a/man/metadata.Rd
+++ b/man/metadata.Rd
@@ -62,104 +62,48 @@ Metadata cache summary:
\if{html}{\out{
}}\preformatted{meta_summary()
#> $cachepath
-#> [1] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata"
+#> [1] "/home/runner/.cache/R/pkgcache/_metadata"
#>
#> $current_db
-#> [1] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/pkgs-34444e3072.rds"
+#> [1] "/home/runner/.cache/R/pkgcache/_metadata/pkgs-c22cd3b850.rds"
#>
#> $raw_files
-#> [1] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCann-59693086a0/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz"
-#> [2] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCann-59693086a0/src/contrib/PACKAGES.gz"
-#> [3] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCexp-90d4a3978b/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz"
-#> [4] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCexp-90d4a3978b/src/contrib/PACKAGES.gz"
-#> [5] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCsoft-2a43920999/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz"
-#> [6] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCsoft-2a43920999/src/contrib/PACKAGES.gz"
-#> [7] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCworkflows-26330ba3ca/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz"
-#> [8] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/BioCworkflows-26330ba3ca/src/contrib/PACKAGES.gz"
-#> [9] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/CRAN-075c426938/bin/macosx/big-sur-arm64/contrib/4.2/PACKAGES.gz"
-#> [10] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/CRAN-075c426938/src/contrib/PACKAGES.gz"
+#> [1] "/home/runner/.cache/R/pkgcache/_metadata/BioCann-133378caf4/src/contrib/PACKAGES.gz"
+#> [2] "/home/runner/.cache/R/pkgcache/_metadata/BioCbooks-acae71babc/src/contrib/PACKAGES.gz"
+#> [3] "/home/runner/.cache/R/pkgcache/_metadata/BioCexp-9d0a1dae1d/src/contrib/PACKAGES.gz"
+#> [4] "/home/runner/.cache/R/pkgcache/_metadata/BioCsoft-41b228b7fc/src/contrib/PACKAGES.gz"
+#> [5] "/home/runner/.cache/R/pkgcache/_metadata/BioCworkflows-6b25871327/src/contrib/PACKAGES.gz"
+#> [6] "/home/runner/.cache/R/pkgcache/_metadata/CRAN-075c426938/src/contrib/PACKAGES.gz"
+#> [7] "/home/runner/.cache/R/pkgcache/_metadata/RSPM-49260a4dff/src/contrib/PACKAGES.gz"
#>
#> $db_files
-#> [1] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/pkgs-34444e3072.rds"
-#> [2] "/Users/gaborcsardi/Library/Caches/org.R-project.R/R/pkgcache/_metadata/pkgs-ccacf1b389.rds"
+#> [1] "/home/runner/.cache/R/pkgcache/_metadata/pkgs-c22cd3b850.rds"
#>
#> $size
-#> [1] 174848200
+#> [1] 111564643
}\if{html}{\out{
}}
The current metadata DB:
-\if{html}{\out{
}}\preformatted{meta_list()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ✔ Loading metadata database ... done
-#> # A data frame: 45,279 × 32
-#> package version depends sugge…¹ license imports linki…² archs enhan…³
-#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
-#> 1 A3 1.0.0 R (>= … random… GPL (>… NA NA NA NA
-#> 2 AATtoo… 0.0.2 R (>= … NA GPL-3 magrit… NA NA NA
-#> 3 ABACUS 1.0.0 R (>= … rmarkd… GPL-3 ggplot… NA NA NA
-#> 4 ABC.RAP 0.9.0 R (>= … knitr,… GPL-3 graphi… NA NA NA
-#> 5 ABCana… 1.2.1 R (>= … NA GPL-3 plotrix NA NA NA
-#> 6 ABCopt… 0.15.0 NA testth… MIT + … Rcpp, … Rcpp ABCo… NA
-#> 7 ABCp2 1.2 MASS NA GPL-2 NA NA NA NA
-#> 8 ABHgen… 1.0.1 NA knitr,… GPL-3 ggplot… NA NA NA
-#> 9 ABPS 0.3 NA testth… GPL (>… kernlab NA NA NA
-#> 10 ACA 1.1 R (>= … NA GPL graphi… NA NA NA
-#> # … with 45,269 more rows, 23 more variables:
-#> # license_restricts_use <chr>, os_type <chr>, priority <chr>,
-#> # license_is_foss <chr>, repodir <chr>, rversion <chr>,
-#> # platform <chr>, needscompilation <chr>, ref <chr>, type <chr>,
-#> # direct <lgl>, status <chr>, target <chr>, mirror <chr>,
-#> # sources <list>, filesize <int>, sha256 <chr>, sysreqs <chr>,
-#> # built <chr>, published <dttm>, deps <list>, md5sum <chr>, …
-
-}}
-
+\if{html}{\out{
}}\preformatted{meta_list()
+}\if{html}{\out{
}}
Selected packages only:
-\if{html}{\out{
}}\preformatted{meta_list(pkg = c("shiny", "htmlwidgets"))
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> package version depends sugge…¹ license imports linki…² archs enhan…³
-#> * <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
-#> 1 htmlwid… 1.5.4 NA "knitr… MIT + … "grDev… NA NA shiny …
-#> 2 shiny 1.7.3 R (>= … "datas… GPL-3 … "utils… NA NA NA
-#> 3 htmlwid… 1.6.0 NA "testt… MIT + … "grDev… NA NA shiny …
-#> 4 shiny 1.7.4 R (>= … "datas… GPL-3 … "utils… NA NA NA
-#> # … with 23 more variables: license_restricts_use <chr>, os_type <chr>,
-#> # priority <chr>, license_is_foss <chr>, repodir <chr>,
-#> # rversion <chr>, platform <chr>, needscompilation <chr>, ref <chr>,
-#> # type <chr>, direct <lgl>, status <chr>, target <chr>, mirror <chr>,
-#> # sources <list>, filesize <int>, sha256 <chr>, sysreqs <chr>,
-#> # built <chr>, published <dttm>, deps <list>, md5sum <chr>,
-#> # path <chr>, and abbreviated variable names ¹suggests, ²linkingto,
-#> …
-
-}}
+\if{html}{\out{
}}\preformatted{meta_list(pkg = c("shiny", "htmlwidgets"))
+}\if{html}{\out{
}}
Update the metadata DB
-\if{html}{\out{
}}\preformatted{meta_update()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ✔ Updated metadata database: 1.23 MB in 1 file.
-#> ✔ Updating metadata database ... done
-
-}}
+\if{html}{\out{
}}\preformatted{meta_update()
+}\if{html}{\out{
}}
Delete the metadata DB
-\if{html}{\out{
}}\preformatted{meta_clean()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ℹ Cleaning up cache directory /Users/gaborcsardi/Library/Caches/org.R-pr
-#> oject.R/R/pkgcache/_metadata.
-
-}}
+\if{html}{\out{
}}\preformatted{meta_clean()
+}\if{html}{\out{
}}
}
diff --git a/man/pak_sitrep.Rd b/man/pak_sitrep.Rd
index 933f9c94e..27977c597 100644
--- a/man/pak_sitrep.Rd
+++ b/man/pak_sitrep.Rd
@@ -20,27 +20,8 @@ It prints
\section{Examples}{
-\if{html}{\out{
}}\preformatted{pak_sitrep()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> compatible)
-#> - pak repository: - (local install?)
-#> * Optional packages installed:
-#> - pillar
-#> * Library path:
-#> - /private/var/folders/ph/fpcmzfd16rgbbk8mxvy9m2_h0000gn/T/RtmpcpVAdU/fi
-#> led8ef3d7a46fc
-#> - /private/var/folders/ph/fpcmzfd16rgbbk8mxvy9m2_h0000gn/T/RtmpcpVAdU/fi
-#> led8ef2562d6ef
-#> - /Users/gaborcsardi/Library/R/arm64/4.2/library
-#> - /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library
-#> * Private library location:
-#> - /Users/gaborcsardi/Library/Caches/org.R-project.R/R/pak/lib/4.2/aarch6
-#> 4
-#> * Private library exists.
-#> * Private library is functional
-
-}}
+\if{html}{\out{
}}\preformatted{pak_sitrep()
+}\if{html}{\out{
}}
}
\seealso{
diff --git a/man/pkg_deps.Rd b/man/pkg_deps.Rd
index 8ea02a005..be82143cb 100644
--- a/man/pkg_deps.Rd
+++ b/man/pkg_deps.Rd
@@ -9,12 +9,12 @@ pkg_deps(pkg, upgrade = TRUE, dependencies = NA)
\arguments{
\item{pkg}{Package names or package references. E.g.
\itemize{
-\item \code{ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
+\item \code{ggplot2} or \code{cran::ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
in general,
-\item \code{tidyverse/ggplot2}: package from GitHub,
-\item \code{tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
-\item \verb{https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
-\item \code{.}: package in the current working directory.
+\item \code{tidyverse/ggplot2} or \code{github::tidyverse/ggplot2}: package from GitHub,
+\item \code{tidyverse/ggplot2@v3.4.0} or \code{github::tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
+\item \verb{url::https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
+\item \code{.} or \code{local::.}: package in the current working directory.
}
See "\link{Package sources}" for more details.}
@@ -45,60 +45,13 @@ Look up the dependencies of a package
\section{Examples}{
-\if{html}{\out{
}}\preformatted{pkg_deps("dplyr")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 16 × 32
-#> ref type direct direc…¹ status package version license needs…²
-#> <chr> <chr> <lgl> <lgl> <chr> <chr> <chr> <chr> <lgl>
-#> 1 R6 stan… FALSE FALSE OK R6 2.5.1 MIT + … FALSE
-#> 2 cli stan… FALSE FALSE OK cli 3.4.1 MIT + … FALSE
-#> 3 dplyr stan… TRUE TRUE OK dplyr 1.0.10 MIT + … FALSE
-#> 4 fansi stan… FALSE FALSE OK fansi 1.0.3 GPL-2 … FALSE
-#> 5 generics stan… FALSE FALSE OK generi… 0.1.3 MIT + … FALSE
-#> 6 glue stan… FALSE FALSE OK glue 1.6.2 MIT + … FALSE
-#> 7 lifecycle stan… FALSE FALSE OK lifecy… 1.0.3 MIT + … FALSE
-#> 8 magrittr stan… FALSE FALSE OK magrit… 2.0.3 MIT + … FALSE
-#> 9 pillar stan… FALSE FALSE OK pillar 1.8.1 MIT + … FALSE
-#> 10 pkgconfig stan… FALSE FALSE OK pkgcon… 2.0.3 MIT + … FALSE
-#> 11 rlang stan… FALSE FALSE OK rlang 1.0.6 MIT + … FALSE
-#> 12 tibble stan… FALSE FALSE OK tibble 3.1.8 MIT + … FALSE
-#> 13 tidysele… stan… FALSE FALSE OK tidyse… 1.2.0 MIT + … FALSE
-#> 14 utf8 stan… FALSE FALSE OK utf8 1.2.2 Apache… FALSE
-#> 15 vctrs stan… FALSE FALSE OK vctrs 0.5.1 MIT + … FALSE
-#> 16 withr stan… FALSE FALSE OK withr 2.5.0 MIT + … FALSE
-#> # … with 23 more variables: priority <chr>, md5sum <chr>, sha256 <chr>,
-#> # filesize <int>, built <chr>, platform <chr>, rversion <chr>,
-#> # repotype <chr>, repodir <chr>, target <chr>, deps <list>,
-#> # mirror <chr>, sources <list>, remote <list>, error <list>,
-#> # metadata <list>, dep_types <list>, params <list>, sysreqs <chr>,
-#> # cache_status <chr>, lib_status <chr>, old_version <chr>,
-#> # new_version <chr>, and abbreviated variable names ¹directpkg, …
-
-}}
-
+\if{html}{\out{
}}\preformatted{pkg_deps("dplyr")
+}\if{html}{\out{
}}
For a package on GitHub:
-\if{html}{\out{
}}\preformatted{pkg_deps("r-lib/callr")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 4 × 32
-#> ref type direct direc…¹ status package version license needs…²
-#> <chr> <chr> <lgl> <lgl> <chr> <chr> <chr> <chr> <lgl>
-#> 1 r-lib/cal… gith… TRUE TRUE OK callr 3.7.3.… MIT + … TRUE
-#> 2 R6 stan… FALSE FALSE OK R6 2.5.1 MIT + … FALSE
-#> 3 processx stan… FALSE FALSE OK proces… 3.8.0 MIT + … FALSE
-#> 4 ps stan… FALSE FALSE OK ps 1.7.2 MIT + … FALSE
-#> # … with 23 more variables: priority <chr>, md5sum <chr>, sha256 <chr>,
-#> # filesize <int>, built <chr>, platform <chr>, rversion <chr>,
-#> # repotype <chr>, repodir <chr>, target <chr>, deps <list>,
-#> # mirror <chr>, sources <list>, remote <list>, error <list>,
-#> # metadata <list>, dep_types <list>, params <list>, sysreqs <chr>,
-#> # cache_status <chr>, lib_status <chr>, old_version <chr>,
-#> # new_version <chr>, and abbreviated variable names ¹directpkg, …
-
-}}
+\if{html}{\out{
}}\preformatted{pkg_deps("r-lib/callr")
+}\if{html}{\out{
}}
}
\seealso{
diff --git a/man/pkg_deps_explain.Rd b/man/pkg_deps_explain.Rd
index 0c6844a99..bea275f6a 100644
--- a/man/pkg_deps_explain.Rd
+++ b/man/pkg_deps_explain.Rd
@@ -9,12 +9,12 @@ pkg_deps_explain(pkg, deps, upgrade = TRUE, dependencies = NA)
\arguments{
\item{pkg}{Package names or package references. E.g.
\itemize{
-\item \code{ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
+\item \code{ggplot2} or \code{cran::ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
in general,
-\item \code{tidyverse/ggplot2}: package from GitHub,
-\item \code{tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
-\item \verb{https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
-\item \code{.}: package in the current working directory.
+\item \code{tidyverse/ggplot2} or \code{github::tidyverse/ggplot2}: package from GitHub,
+\item \code{tidyverse/ggplot2@v3.4.0} or \code{github::tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
+\item \verb{url::https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
+\item \code{.} or \code{local::.}: package in the current working directory.
}
See "\link{Package sources}" for more details.}
@@ -53,47 +53,12 @@ to read if you are only interested is certain packages (\code{deps}).
How does dplyr depend on rlang?
-\if{html}{\out{
}}\preformatted{pkg_deps_explain("dplyr", "rlang")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ✔ Updated metadata database: 5.09 MB in 12 files.
-#> ✔ Updating metadata database ... done
-#> dplyr -> lifecycle -> rlang
-#> dplyr -> rlang
-#> dplyr -> tibble -> lifecycle -> rlang
-#> dplyr -> tibble -> pillar -> lifecycle -> rlang
-#> dplyr -> tibble -> pillar -> rlang
-#> dplyr -> tibble -> pillar -> vctrs -> lifecycle -> rlang
-#> dplyr -> tibble -> pillar -> vctrs -> rlang
-#> dplyr -> tibble -> rlang
-#> dplyr -> tibble -> vctrs -> lifecycle -> rlang
-#> dplyr -> tibble -> vctrs -> rlang
-#> dplyr -> tidyselect -> lifecycle -> rlang
-#> dplyr -> tidyselect -> rlang
-#> dplyr -> tidyselect -> vctrs -> lifecycle -> rlang
-#> dplyr -> tidyselect -> vctrs -> rlang
-#> dplyr -> vctrs -> lifecycle -> rlang
-#> dplyr -> vctrs -> rlang
-#> dplyr -> pillar -> lifecycle -> rlang
-#> dplyr -> pillar -> rlang
-#> dplyr -> pillar -> vctrs -> lifecycle -> rlang
-#> dplyr -> pillar -> vctrs -> rlang
-
-}}
-
+\if{html}{\out{
}}\preformatted{pkg_deps_explain("dplyr", "rlang")
+}\if{html}{\out{
}}
How does the GH version of usethis depend on cli and ps?
-\if{html}{\out{
}}\preformatted{pkg_deps_explain("r-lib/usethis", c("cli", "ps"))
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> usethis -> cli
-#> usethis -> desc -> cli
-#> usethis -> gh -> cli
-#> usethis -> lifecycle -> cli
-#>
-#> x ps
-
-}}
+\if{html}{\out{
}}\preformatted{pkg_deps_explain("r-lib/usethis", c("cli", "ps"))
+}\if{html}{\out{
}}
}
diff --git a/man/pkg_deps_tree.Rd b/man/pkg_deps_tree.Rd
index 467b6281a..d246ecf02 100644
--- a/man/pkg_deps_tree.Rd
+++ b/man/pkg_deps_tree.Rd
@@ -9,12 +9,12 @@ pkg_deps_tree(pkg, upgrade = TRUE, dependencies = NA)
\arguments{
\item{pkg}{Package names or package references. E.g.
\itemize{
-\item \code{ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
+\item \code{ggplot2} or \code{cran::ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
in general,
-\item \code{tidyverse/ggplot2}: package from GitHub,
-\item \code{tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
-\item \verb{https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
-\item \code{.}: package in the current working directory.
+\item \code{tidyverse/ggplot2} or \code{github::tidyverse/ggplot2}: package from GitHub,
+\item \code{tidyverse/ggplot2@v3.4.0} or \code{github::tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
+\item \verb{url::https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
+\item \code{.} or \code{local::.}: package in the current working directory.
}
See "\link{Package sources}" for more details.}
@@ -43,111 +43,11 @@ Draw the dependency tree of a package
\section{Examples}{
-\if{html}{\out{
}}\preformatted{pkg_deps_tree("dplyr")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> dplyr 1.0.10 ✨
-#> ├─generics 0.1.3 ✨
-#> ├─glue 1.6.2 ✨
-#> ├─lifecycle 1.0.3 ✨
-#> │ ├─cli 3.4.1 ✨
-#> │ ├─glue
-#> │ └─rlang 1.0.6 ✨
-#> ├─magrittr 2.0.3 ✨
-#> ├─R6 2.5.1 ✨
-#> ├─rlang
-#> ├─tibble 3.1.8 ✨
-#> │ ├─fansi 1.0.3 ✨
-#> │ ├─lifecycle
-#> │ ├─magrittr
-#> │ ├─pillar 1.8.1 ✨
-#> │ │ ├─cli
-#> │ │ ├─fansi
-#> │ │ ├─glue
-#> │ │ ├─lifecycle
-#> │ │ ├─rlang
-#> │ │ ├─utf8 1.2.2 ✨
-#> │ │ └─vctrs 0.5.1 ✨
-#> │ │ ├─cli
-#> │ │ ├─glue
-#> │ │ ├─lifecycle
-#> │ │ └─rlang
-#> │ ├─pkgconfig 2.0.3 ✨
-#> │ ├─rlang
-#> │ └─vctrs
-#> ├─tidyselect 1.2.0 ✨
-#> │ ├─cli
-#> │ ├─glue
-#> │ ├─lifecycle
-#> │ ├─rlang
-#> │ ├─vctrs
-#> │ └─withr 2.5.0 ✨
-#> ├─vctrs
-#> └─pillar
-#>
-#> Key: ✨ new
-
-}}
-
+\if{html}{\out{
}}\preformatted{pkg_deps_tree("dplyr")
+}\if{html}{\out{
}}
-\if{html}{\out{
}}\preformatted{pkg_deps_tree("r-lib/usethis")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> r-lib/usethis 2.1.6.9000 ✨👷🏼🔧
-#> ├─cli 3.4.1 ✨
-#> ├─clipr 0.8.0 ✨
-#> ├─crayon 1.5.2 ✨
-#> ├─curl 4.3.3 ✨
-#> ├─desc 1.4.2 ✨
-#> │ ├─cli
-#> │ ├─R6 2.5.1 ✨
-#> │ └─rprojroot 2.0.3 ✨
-#> ├─fs 1.5.2 ✨
-#> ├─gert 1.9.2 ✨ ⬇ (1.91 MB)
-#> │ ├─askpass 1.1 ✨
-#> │ │ └─sys 3.4.1 ✨
-#> │ ├─credentials 1.3.2 ✨ ⬇ (170.15 kB)
-#> │ │ ├─openssl 2.0.5 ✨
-#> │ │ │ └─askpass
-#> │ │ ├─sys
-#> │ │ ├─curl
-#> │ │ ├─jsonlite 1.8.4 ✨
-#> │ │ └─askpass
-#> │ ├─openssl
-#> │ ├─rstudioapi 0.14 ✨
-#> │ ├─sys
-#> │ └─zip 2.2.2 ✨
-#> ├─gh 1.3.1 ✨ ⬇ (95.20 kB)
-#> │ ├─cli
-#> │ ├─gitcreds 0.1.2 ✨ ⬇ (95.59 kB)
-#> │ ├─httr 1.4.4 ✨
-#> │ │ ├─curl
-#> │ │ ├─jsonlite
-#> │ │ ├─mime 0.12 ✨
-#> │ │ ├─openssl
-#> │ │ └─R6
-#> │ ├─ini 0.3.1 ✨ ⬇ (13.13 kB)
-#> │ └─jsonlite
-#> ├─glue 1.6.2 ✨
-#> ├─jsonlite
-#> ├─lifecycle 1.0.3 ✨
-#> │ ├─cli
-#> │ ├─glue
-#> │ └─rlang 1.0.6 ✨
-#> ├─purrr 0.3.5 ✨
-#> │ ├─magrittr 2.0.3 ✨
-#> │ └─rlang
-#> ├─rappdirs 0.3.3 ✨
-#> ├─rlang
-#> ├─rprojroot
-#> ├─rstudioapi
-#> ├─whisker 0.4.1 ✨ ⬇ (65.36 kB)
-#> ├─withr 2.5.0 ✨
-#> └─yaml 2.3.6 ✨
-#>
-#> Key: ✨ new | ⬇ download | 👷🏼 build | 🔧 compile
-
-}}
+\if{html}{\out{
}}\preformatted{pkg_deps_tree("r-lib/usethis")
+}\if{html}{\out{
}}
}
\seealso{
diff --git a/man/pkg_download.Rd b/man/pkg_download.Rd
index eb9bbfd80..81afb311f 100644
--- a/man/pkg_download.Rd
+++ b/man/pkg_download.Rd
@@ -15,12 +15,12 @@ pkg_download(
\arguments{
\item{pkg}{Package names or package references. E.g.
\itemize{
-\item \code{ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
+\item \code{ggplot2} or \code{cran::ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
in general,
-\item \code{tidyverse/ggplot2}: package from GitHub,
-\item \code{tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
-\item \verb{https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
-\item \code{.}: package in the current working directory.
+\item \code{tidyverse/ggplot2} or \code{github::tidyverse/ggplot2}: package from GitHub,
+\item \code{tidyverse/ggplot2@v3.4.0} or \code{github::tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
+\item \verb{url::https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
+\item \code{.} or \code{local::.}: package in the current working directory.
}
See "\link{Package sources}" for more details.}
@@ -58,48 +58,17 @@ TODO: explain result
\section{Examples}{
-\if{html}{\out{
}}\preformatted{dl <- pkg_download("forcats")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ℹ No downloads are needed, 2 pkgs (641.53 kB) are cached
-
-}}
-
+\if{html}{\out{
}}\preformatted{dl <- pkg_download("forcats")
+}\if{html}{\out{
}}
-\if{html}{\out{
}}\preformatted{dl
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 2 × 35
-#> ref type direct direc…¹ status package version license needs…²
-#> <chr> <chr> <lgl> <lgl> <chr> <chr> <chr> <chr> <lgl>
-#> 1 forcats standard TRUE TRUE OK forcats 0.5.2 MIT + … FALSE
-#> 2 forcats standard TRUE TRUE OK forcats 0.5.2 MIT + … FALSE
-#> # … with 26 more variables: priority <chr>, md5sum <chr>, sha256 <chr>,
-#> # filesize <int>, built <chr>, platform <chr>, rversion <chr>,
-#> # repotype <chr>, repodir <chr>, target <chr>, deps <list>,
-#> # mirror <chr>, sources <list>, remote <list>, error <list>,
-#> # metadata <list>, extra <list>, dep_types <list>, params <list>,
-#> # sysreqs <chr>, cache_status <chr>, fulltarget <chr>,
-#> # fulltarget_tree <chr>, download_status <chr>, …
-
-}}
+\if{html}{\out{
}}\preformatted{dl
+}\if{html}{\out{
}}
+\if{html}{\out{
}}\preformatted{dl$fulltarget
+}\if{html}{\out{
}}
-\if{html}{\out{
}}\preformatted{dl$fulltarget
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> [1] "./bin/macosx/big-sur-arm64/contrib/4.2/forcats_0.5.2.tgz"
-#> [2] "./src/contrib/forcats_0.5.2.tar.gz"
-
-}}
-
-
-\if{html}{\out{
}}\preformatted{pkg_download("r-lib/pak", platforms = "source")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ℹ No downloads are needed, 1 pkg is cached
-
-}}
+\if{html}{\out{
}}\preformatted{pkg_download("r-lib/pak", platforms = "source")
+}\if{html}{\out{
}}
}
\seealso{
diff --git a/man/pkg_history.Rd b/man/pkg_history.Rd
index 902d269ac..0a200049a 100644
--- a/man/pkg_history.Rd
+++ b/man/pkg_history.Rd
@@ -20,30 +20,7 @@ Query the history of a CRAN package
\section{Examples}{
-\if{html}{\out{
}}\preformatted{pkg_history("ggplot2")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 44 × 30
-#> Package Type Title Version Date Author Maint…¹ Descr…² License
-#> * <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
-#> 1 ggplot2 Package An impl… 0.5 2007… Hadle… Hadley… "An im… GPL
-#> 2 ggplot2 Package An impl… 0.5.1 2007… Hadle… Hadley… "An im… GPL
-#> 3 ggplot2 Package An impl… 0.5.2 2007… Hadle… Hadley… "An im… GPL
-#> 4 ggplot2 Package An impl… 0.5.4 2007… Hadle… Hadley… "An im… GPL
-#> 5 ggplot2 Package An impl… 0.5.5 2007… Hadle… Hadley… "An im… GPL
-#> 6 ggplot2 Package An impl… 0.5.6 2007… Hadle… Hadley… "An im… GPL
-#> 7 ggplot2 Package An impl… 0.5.7 2007… Hadle… Hadley… "An im… GPL
-#> 8 ggplot2 Package An impl… 0.6 2008… Hadle… Hadley… "An im… GPL
-#> 9 ggplot2 Package An impl… 0.7 2008… Hadle… Hadley… "An im… GPL
-#> 10 ggplot2 Package An impl… 0.8 2008… Hadle… Hadley… "An im… GPL
-#> # … with 34 more rows, 21 more variables: SaveImage <chr>,
-#> # LazyData <chr>, Packaged <chr>, crandb_file_date <chr>, date <chr>,
-#> # dependencies <list>, URL <chr>, LazyLoad <chr>, Extends <chr>,
-#> # Collate <chr>, Repository <chr>, `Date/Publication` <chr>,
-#> # NeedsCompilation <chr>, VignetteBuilder <chr>, BugReports <chr>,
-#> # `Authors@R` <chr>, RoxygenNote <chr>, Encoding <chr>, MD5sum <chr>,
-#> # `Config/Needs/website` <chr>, `Config/testthat/edition` <chr>, …
-
-}}
+\if{html}{\out{
}}\preformatted{pkg_history("ggplot2")
+}\if{html}{\out{
}}
}
diff --git a/man/pkg_install.Rd b/man/pkg_install.Rd
index ae1df2527..f1d1cf44b 100644
--- a/man/pkg_install.Rd
+++ b/man/pkg_install.Rd
@@ -15,12 +15,12 @@ pkg_install(
\arguments{
\item{pkg}{Package names or package references. E.g.
\itemize{
-\item \code{ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
+\item \code{ggplot2} or \code{cran::ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
in general,
-\item \code{tidyverse/ggplot2}: package from GitHub,
-\item \code{tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
-\item \verb{https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
-\item \code{.}: package in the current working directory.
+\item \code{tidyverse/ggplot2} or \code{github::tidyverse/ggplot2}: package from GitHub,
+\item \code{tidyverse/ggplot2@v3.4.0} or \code{github::tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
+\item \verb{url::https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
+\item \code{.} or \code{local::.}: package in the current working directory.
}
See "\link{Package sources}" for more details.}
@@ -69,145 +69,24 @@ package library.
\section{Examples}{
-\if{html}{\out{
}}\preformatted{pkg_install("dplyr")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#>
-#> → Will install 5 packages.
-#> → All 5 packages (2.14 MB) are cached.
-#> + dplyr 1.0.9
-#> + generics 0.1.2
-#> + purrr 0.3.4
-#> + R6 2.5.1
-#> + tidyselect 1.1.2
-#> ℹ No downloads are needed, 5 pkgs (2.14 MB) are cached
-#> ✔ Got R6 2.5.1 (aarch64-apple-darwin20) (82.52 kB)
-#> ✔ Installed R6 2.5.1 (43ms)
-#> ✔ Installed generics 0.1.2 (62ms)
-#> ✔ Installed dplyr 1.0.9 (88ms)
-#> ✔ Installed purrr 0.3.4 (88ms)
-#> ✔ Installed tidyselect 1.1.2 (94ms)
-#> ✔ 1 pkg + 17 deps: kept 12, added 5, dld 1 (82.52 kB) [1.2s]
-
-}}
-
+\if{html}{\out{
}}\preformatted{pkg_install("dplyr")
+}\if{html}{\out{
}}
Upgrade dplyr and all its dependencies:
-\if{html}{\out{
}}\preformatted{pkg_install("dplyr", upgrade = TRUE)
-}\if{html}{\out{
}}\if{html}{\out{
-
-#>
-#> → Will update 1 package.
-#> → The package (742.51 kB) is cached.
-#> + rlang 1.0.2 → 1.0.3 👷🏿♀️🔧
-#> ℹ No downloads are needed, 1 pkg (742.51 kB) is cached
-#> ℹ Building rlang 1.0.3
-#> ✔ Built rlang 1.0.3 (5.8s)
-#> ✔ Installed rlang 1.0.3 (32ms)
-#> ✔ 1 pkg + 17 deps: kept 17, upd 1 [6.3s]
-
-}}
-
+\if{html}{\out{
}}\preformatted{pkg_install("dplyr", upgrade = TRUE)
+}\if{html}{\out{
}}
Install the development version of dplyr:
-\if{html}{\out{
}}\preformatted{pkg_install("tidyverse/dplyr")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ✔ Loading metadata database ... done
-#>
-#> → Will install 16 packages.
-#> → All 16 packages (8.09 MB) are cached.
-#> + cli 3.4.1
-#> + dplyr 1.0.99.9000 👷🏾♂️🔧 (GitHub: e6252f8)
-#> + fansi 1.0.3
-#> + generics 0.1.3
-#> + glue 1.6.2
-#> + lifecycle 1.0.3
-#> + magrittr 2.0.3
-#> + pillar 1.8.1
-#> + pkgconfig 2.0.3
-#> + R6 2.5.1
-#> + rlang 1.0.6
-#> + tibble 3.1.8
-#> + tidyselect 1.2.0
-#> + utf8 1.2.2
-#> + vctrs 0.5.1
-#> + withr 2.5.0
-#> ℹ No downloads are needed, 16 pkgs (8.09 MB) are cached
-#> ✔ Installed R6 2.5.1 (58ms)
-#> ✔ Installed cli 3.4.1 (69ms)
-#> ✔ Installed fansi 1.0.3 (92ms)
-#> ✔ Installed generics 0.1.3 (99ms)
-#> ✔ Installed glue 1.6.2 (108ms)
-#> ✔ Installed lifecycle 1.0.3 (144ms)
-#> ✔ Installed magrittr 2.0.3 (152ms)
-#> ✔ Installed pillar 1.8.1 (160ms)
-#> ✔ Installed pkgconfig 2.0.3 (63ms)
-#> ✔ Installed rlang 1.0.6 (37ms)
-#> ✔ Installed tibble 3.1.8 (41ms)
-#> ✔ Installed tidyselect 1.2.0 (38ms)
-#> ✔ Installed utf8 1.2.2 (36ms)
-#> ✔ Installed vctrs 0.5.1 (39ms)
-#> ✔ Installed withr 2.5.0 (30ms)
-#> ℹ Packaging dplyr 1.0.99.9000
-#> ✔ Packaged dplyr 1.0.99.9000 (8.3s)
-#> ℹ Building dplyr 1.0.99.9000
-#> ✔ Built dplyr 1.0.99.9000 (5.2s)
-#> ✔ Installed dplyr 1.0.99.9000 (github::tidyverse/dplyr@e6252f8) (24ms)
-#> ✔ 1 pkg + 15 deps: added 16 [18.9s]
-
-}}
-
+\if{html}{\out{
}}\preformatted{pkg_install("tidyverse/dplyr")
+}\if{html}{\out{
}}
Switch back to the CRAN version. This will be fast because
pak will have cached the prior install.
-\if{html}{\out{
}}\preformatted{pkg_install("dplyr")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ✔ Updated metadata database: 2.43 MB in 6 files.
-#> ✔ Updating metadata database ... done
-#>
-#> → Will install 16 packages.
-#> → All 16 packages (9.42 MB) are cached.
-#> + cli 3.4.1
-#> + dplyr 1.0.10
-#> + fansi 1.0.3
-#> + generics 0.1.3
-#> + glue 1.6.2
-#> + lifecycle 1.0.3
-#> + magrittr 2.0.3
-#> + pillar 1.8.1
-#> + pkgconfig 2.0.3
-#> + R6 2.5.1
-#> + rlang 1.0.6
-#> + tibble 3.1.8
-#> + tidyselect 1.2.0
-#> + utf8 1.2.2
-#> + vctrs 0.5.1
-#> + withr 2.5.0
-#> ℹ No downloads are needed, 16 pkgs (9.42 MB) are cached
-#> ✔ Installed R6 2.5.1 (66ms)
-#> ✔ Installed cli 3.4.1 (76ms)
-#> ✔ Installed dplyr 1.0.10 (111ms)
-#> ✔ Installed fansi 1.0.3 (119ms)
-#> ✔ Installed generics 0.1.3 (125ms)
-#> ✔ Installed glue 1.6.2 (132ms)
-#> ✔ Installed lifecycle 1.0.3 (149ms)
-#> ✔ Installed magrittr 2.0.3 (162ms)
-#> ✔ Installed pillar 1.8.1 (56ms)
-#> ✔ Installed pkgconfig 2.0.3 (35ms)
-#> ✔ Installed rlang 1.0.6 (57ms)
-#> ✔ Installed tibble 3.1.8 (41ms)
-#> ✔ Installed tidyselect 1.2.0 (40ms)
-#> ✔ Installed utf8 1.2.2 (37ms)
-#> ✔ Installed vctrs 0.5.1 (39ms)
-#> ✔ Installed withr 2.5.0 (31ms)
-#> ✔ 1 pkg + 15 deps: added 16 [7.2s]
-
-}}
+\if{html}{\out{
}}\preformatted{pkg_install("dplyr")
+}\if{html}{\out{
}}
}
\seealso{
diff --git a/man/pkg_name_check.Rd b/man/pkg_name_check.Rd
index 07db18810..a8369add8 100644
--- a/man/pkg_name_check.Rd
+++ b/man/pkg_name_check.Rd
@@ -59,32 +59,7 @@ See the \code{dictionaries} argument.
\section{Examples}{
-\if{html}{\out{
}}\preformatted{pkg_name_check("sicily")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> ╔══════════════════════════════════════════════════════════════════════╗
-#> ║ –*– sicily –*– ║
-#> ╚══════════════════════════════════════════════════════════════════════╝
-#> ┌──────────────────────────────────────────────────────────────────────┐
-#> │ ✔ valid name ✔ CRAN ✔ Bioconductor │
-#> │ ✔ not a profanity │
-#> └──────────────────────────────────────────────────────────────────────┘
-#> ┌ Wikipedia ───────────────────────────────────────────────────────────┐
-#> │ Sicily Sicily (Italian: Sicilia [siˈtʃiːlja], Sicilian │
-#> │ pronunciation: [sɪˈʃiːlja]) is the largest island in the │
-#> │ Mediterranean Sea and one of the 20 regions of Italy. The Strait of │
-#> │ Messina divides it from the region of Calabria in Southern Italy. │
-#> │ It is one of the five Italian autonomous regions and is officially │
-#> │ referred to as Regione Siciliana. The region has 5 million │
-#> │ … │
-#> └──────────────────────────────── https://en.wikipedia.org/wiki/Sicily ┘
-#> ┌ Wiktionary ──────────────────────────────────────────────────────────┐
-#> │ sicily No English definition found │
-#> └──────────────────────────────────────────────────────────────────── ┘
-#> ┌──────────────────────────────────────────────────────────────────────┐
-#> │ Sentiment: 😐 (0) │
-#> └──────────────────────────────────────────────────────────────────────┘
-
-}}
+\if{html}{\out{
}}\preformatted{pkg_name_check("sicily")
+}\if{html}{\out{
}}
}
diff --git a/man/pkg_search.Rd b/man/pkg_search.Rd
index 11c167b9d..241e1832e 100644
--- a/man/pkg_search.Rd
+++ b/man/pkg_search.Rd
@@ -9,7 +9,12 @@ pkg_search(query, ...)
\arguments{
\item{query}{Search query string.}
-\item{...}{Additional arguments passed to \code{\link[pkgsearch:pkg_search]{pkgsearch::pkg_search()}}}
+\item{...}{
+ Arguments passed on to \code{\link[pkgsearch:pkg_search]{pkgsearch::pkg_search}}
+ \describe{
+ \item{\code{from}}{Where to start listing the results, for pagination.}
+ \item{\code{size}}{The number of results to list.}
+ }}
}
\value{
A data frame, that is also a \code{pak_search_result} object
@@ -26,69 +31,13 @@ etc.
Simple search
-\if{html}{\out{
}}\preformatted{pkg_search("survival")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#>
-#> 1 survival 3.4.0 -- by Terry M Therneau, 4 months ago
-#> Survival Analysis
-#>
-#> 2 survminer 0.4.9 -- by Alboukadel Kassambara, 2 years ago
-#> Drawing Survival Curves using 'ggplot2'
-#>
-#> 3 flexsurv 2.2 -- by Christopher Jackson, 6 months ago
-#> Flexible Parametric Survival and Multi-State Models
-#>
-#> 4 muhaz 1.2.6.4 -- by David Winsemius, 2 years ago
-#> Hazard Function Estimation in Survival Analysis
-#>
-#> 5 pec 2022.5.4 -- by Thomas A. Gerds, 8 months ago
-#> Prediction Error Curves for Risk Prediction Models in Survival Analysi
-#> s
-#>
-#> 6 randomForestSRC 3.1.1 -- by Udaya B. Kogalur, 5 months ago
-#> Fast Unified Random Forests for Survival, Regression, and Classificati
-#> on (RF-SRC)
-#>
-#> 7 relsurv 2.2.8 -- by Damjan Manevski, 4 months ago
-#> Relative Survival
-#>
-#> 8 survRM2 1.0.4 -- by Hajime Uno, 6 months ago
-#> Comparing Restricted Mean Survival Time
-#>
-#> 9 titanic 0.1.0 -- by Paul Hendricks, 7 years ago
-#> Titanic Passenger Survival Data Set
-#>
-#> 10 KMsurv 0.1.5 -- by Jun Yan, 10 years ago
-#> Data sets from Klein and Moeschberger (1997), Survival Analysis
-
-}}
-
+\if{html}{\out{
}}\preformatted{pkg_search("survival")
+}\if{html}{\out{
}}
See the underlying data frame
-\if{html}{\out{
}}\preformatted{psro <- pkg_search("ropensci")
+\if{html}{\out{
}}\preformatted{psro <- pkg_search("ropensci")
psro[]
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 10 × 15
-#> score package version title descr…¹ date maint…²
-#> <dbl> <chr> <pckg_vrs> <chr> <chr> <dttm> <chr>
-#> 1 538. webmockr 0.8.2 Stub… "Stubb… 2022-08-28 19:20:02 Scott …
-#> 2 520. RSelenium 1.7.9 R Bi… "Provi… 2022-09-02 07:10:11 Ju Yeo…
-#> 3 416. tracerer 2.2.2 Trac… "'BEAS… 2021-05-30 08:40:03 Richèl…
-#> 4 376. rfisheries 0.2 'Pro… "A pro… 2016-02-19 08:50:03 Karthi…
-#> 5 367. mcbette 1.15 Mode… "'BEAS… 2022-08-27 12:30:02 Richèl…
-#> 6 359. taxize 0.9.100 Taxo… "Inter… 2022-04-22 07:30:02 Zachar…
-#> 7 350. beastier 2.4.11 Call… "'BEAS… 2022-08-11 13:40:04 Richèl…
-#> 8 347. spocc 1.2.0 Inte… "A pro… 2021-01-05 19:50:03 Scott …
-#> 9 316. chromer 0.3 Inte… "A pro… 2022-10-27 22:45:36 Karl W…
-#> 10 315. visdat 0.5.3 Prel… "Creat… 2019-02-15 14:30:03 Nichol…
-#> # … with 8 more variables: maintainer_email <chr>, revdeps <int>,
-#> # downloads_last_month <int>, license <chr>, url <chr>,
-#> # bugreports <chr>, package_data <I<list>>, ago <chr>, and
-#> # abbreviated variable names ¹description, ²maintainer_name
-
-}}
+}\if{html}{\out{
}}
}
diff --git a/man/pkg_status.Rd b/man/pkg_status.Rd
index 26ddbe796..e3e99ebcc 100644
--- a/man/pkg_status.Rd
+++ b/man/pkg_status.Rd
@@ -22,23 +22,8 @@ Display installed locations of a package
\section{Examples}{
-\if{html}{\out{
}}\preformatted{pkg_status("MASS")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 2 × 39
-#> library package title version depends repos…¹ license needs…² built
-#> * <chr> <chr> <chr> <chr> <chr> <chr> <chr> <lgl> <chr>
-#> 1 /Users/ga… MASS Supp… 7.3-58… R (>= … CRAN GPL-2 … TRUE R 4.…
-#> 2 /Library/… MASS Supp… 7.3-58… R (>= … CRAN GPL-2 … TRUE R 4.…
-#> # … with 30 more variables: remotetype <chr>, remotepkgref <chr>,
-#> # remoteref <chr>, remoterepos <chr>, remotepkgplatform <chr>,
-#> # remotesha <chr>, imports <chr>, suggests <chr>, linkingto <chr>,
-#> # remotes <chr>, remotehost <chr>, remoterepo <chr>,
-#> # remoteusername <chr>, enhances <chr>, biocviews <chr>,
-#> # remoteurl <chr>, remotesubdir <chr>, priority <chr>,
-#> # remoteetag <chr>, remotepackaged <chr>, md5sum <chr>, …
-
-}}
+\if{html}{\out{
}}\preformatted{pkg_status("MASS")
+}\if{html}{\out{
}}
}
\seealso{
diff --git a/man/pkg_sysreqs.Rd b/man/pkg_sysreqs.Rd
index ac71e83f1..e7a85726e 100644
--- a/man/pkg_sysreqs.Rd
+++ b/man/pkg_sysreqs.Rd
@@ -9,12 +9,12 @@ pkg_sysreqs(pkg, upgrade = TRUE, dependencies = NA, sysreqs_platform = NULL)
\arguments{
\item{pkg}{Package names or package references. E.g.
\itemize{
-\item \code{ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
+\item \code{ggplot2} or \code{cran::ggplot2}: package from CRAN, Bioconductor or a CRAN-like repository
in general,
-\item \code{tidyverse/ggplot2}: package from GitHub,
-\item \code{tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
-\item \verb{https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
-\item \code{.}: package in the current working directory.
+\item \code{tidyverse/ggplot2} or \code{github::tidyverse/ggplot2}: package from GitHub,
+\item \code{tidyverse/ggplot2@v3.4.0} or \code{github::tidyverse/ggplot2@v3.4.0}: package from GitHub tag or branch,
+\item \verb{url::https://examples.com/.../ggplot2_3.3.6.tar.gz}: package from URL,
+\item \code{.} or \code{local::.}: package in the current working directory.
}
See "\link{Package sources}" for more details.}
diff --git a/man/repo_add.Rd b/man/repo_add.Rd
index f6620c4dd..98202a2f1 100644
--- a/man/repo_add.Rd
+++ b/man/repo_add.Rd
@@ -94,49 +94,18 @@ will trigger an error.
\section{Exaples}{
-\if{html}{\out{
}}\preformatted{repo_add(PPMdplyr100 = "PPM@dplyr-1.0.0")
+\if{html}{\out{
}}\preformatted{repo_add(PPMdplyr100 = "PPM@dplyr-1.0.0")
repo_get()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 7 × 5
-#> name url type r_version bioc_version
-#> * <chr> <chr> <chr> <chr> <chr>
-#> 1 CRAN https://cloud.r-project.org cran * NA
-#> 2 PPMdplyr100 https://packagemanager.pos… cran… * NA
-#> 3 BioCsoft https://bioconductor.org/p… bioc 4.3.1 3.17
-#> 4 BioCann https://bioconductor.org/p… bioc 4.3.1 3.17
-#> 5 BioCexp https://bioconductor.org/p… bioc 4.3.1 3.17
-#> 6 BioCworkflows https://bioconductor.org/p… bioc 4.3.1 3.17
-#> 7 BioCbooks https://bioconductor.org/p… bioc 4.3.1 3.17
-
-}}
-
-
-\if{html}{\out{
}}\preformatted{repo_resolve("PPM@2020-01-21")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> CRAN
-#> "https://packagemanager.posit.co/cran/245"
-
-}}
-
+}\if{html}{\out{
}}
-\if{html}{\out{
}}\preformatted{repo_resolve("PPM@dplyr-1.0.0")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> CRAN
-#> "https://packagemanager.posit.co/cran/289"
-
-}}
+\if{html}{\out{
}}\preformatted{repo_resolve("PPM@2020-01-21")
+}\if{html}{\out{
}}
+\if{html}{\out{
}}\preformatted{repo_resolve("PPM@dplyr-1.0.0")
+}\if{html}{\out{
}}
-\if{html}{\out{
}}\preformatted{repo_resolve("PPM@R-4.0.0")
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> CRAN
-#> "https://packagemanager.posit.co/cran/276"
-
-}}
+\if{html}{\out{
}}\preformatted{repo_resolve("PPM@R-4.0.0")
+}\if{html}{\out{
}}
}
\seealso{
diff --git a/man/repo_get.Rd b/man/repo_get.Rd
index 1ef531fdc..b983c2fea 100644
--- a/man/repo_get.Rd
+++ b/man/repo_get.Rd
@@ -27,20 +27,8 @@ Bioconductor repositories. See the \code{cran_mirror} and \code{bioc} arguments.
\section{Examples}{
-\if{html}{\out{
}}\preformatted{repo_get()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 5 × 5
-#> name url type r_ver…¹ bioc_…²
-#> * <chr> <chr> <chr> <chr> <chr>
-#> 1 CRAN https://cloud.r-project.org cran * NA
-#> 2 BioCsoft https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 3 BioCann https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 4 BioCexp https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> 5 BioCworkflows https://bioconductor.org/packages… bioc 4.2.2 3.16
-#> # … with abbreviated variable names ¹r_version, ²bioc_version
-
-}}
+\if{html}{\out{
}}\preformatted{repo_get()
+}\if{html}{\out{
}}
}
\seealso{
diff --git a/man/repo_status.Rd b/man/repo_status.Rd
index 8c512d3eb..86af83f2c 100644
--- a/man/repo_status.Rd
+++ b/man/repo_status.Rd
@@ -67,69 +67,17 @@ summary of the data, and it returns its result invisibly.
\section{Examples}{
-\if{html}{\out{
}}\preformatted{repo_status()
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 10 × 10
-#> name url type bioc_…¹ platf…² path r_ver…³ ok ping error
-#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <lgl> <dbl> <list>
-#> 1 CRAN http… cran NA source src/… 4.2 TRUE 0.269 <NULL>
-#> 2 CRAN http… cran NA aarch6… bin/… 4.2 TRUE 0.265 <NULL>
-#> 3 BioCsoft http… bioc 3.16 source src/… 4.2 TRUE 0.264 <NULL>
-#> 4 BioCsoft http… bioc 3.16 aarch6… bin/… 4.2 TRUE 0.271 <NULL>
-#> 5 BioCann http… bioc 3.16 source src/… 4.2 TRUE 0.383 <NULL>
-#> 6 BioCann http… bioc 3.16 aarch6… bin/… 4.2 TRUE 0.392 <NULL>
-#> 7 BioCexp http… bioc 3.16 source src/… 4.2 TRUE 0.507 <NULL>
-#> 8 BioCexp http… bioc 3.16 aarch6… bin/… 4.2 TRUE 0.739 <NULL>
-#> 9 BioCwor… http… bioc 3.16 source src/… 4.2 TRUE 0.505 <NULL>
-#> 10 BioCwor… http… bioc 3.16 aarch6… bin/… 4.2 TRUE 0.766 <NULL>
-#> # … with abbreviated variable names ¹bioc_version, ²platform,
-#> # ³r_version
-
-}}
+\if{html}{\out{
}}\preformatted{repo_status()
+}\if{html}{\out{
}}
-
-\if{html}{\out{
}}\preformatted{repo_status(
+\if{html}{\out{
}}\preformatted{repo_status(
platforms = c("windows", "macos"),
r_version = c("4.0", "4.1")
)
-}\if{html}{\out{
}}\if{html}{\out{
-
-#> # A data frame: 15 × 10
-#> name url type bioc_…¹ platf…² r_ver…³ path ok ping
-#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <lgl> <dbl>
-#> 1 CRAN https… cran NA i386+x… 4.0 bin/… TRUE 0.198
-#> 2 CRAN https… cran NA i386+x… 4.1 bin/… TRUE 0.197
-#> 3 CRAN https… cran NA aarch6… 4.1 bin/… TRUE 0.197
-#> 4 BioCsoft https… bioc 3.12 i386+x… 4.0 bin/… TRUE 0.988
-#> 5 BioCann https… bioc 3.12 i386+x… 4.0 bin/… TRUE 1.03
-#> 6 BioCexp https… bioc 3.12 i386+x… 4.0 bin/… TRUE 1.25
-#> 7 BioCworkflows https… bioc 3.12 i386+x… 4.0 bin/… TRUE 1.47
-#> 8 BioCsoft https… bioc 3.14 i386+x… 4.1 bin/… TRUE 1.48
-#> 9 BioCsoft https… bioc 3.14 aarch6… 4.1 bin/… FALSE NA
-#> 10 BioCann https… bioc 3.14 i386+x… 4.1 bin/… TRUE 1.45
-#> 11 BioCann https… bioc 3.14 aarch6… 4.1 bin/… FALSE NA
-#> 12 BioCexp https… bioc 3.14 i386+x… 4.1 bin/… TRUE 1.72
-#> 13 BioCexp https… bioc 3.14 aarch6… 4.1 bin/… FALSE NA
-#> 14 BioCworkflows https… bioc 3.14 i386+x… 4.1 bin/… TRUE 1.71
-#> 15 BioCworkflows https… bioc 3.14 aarch6… 4.1 bin/… FALSE NA
-#> # … with 1 more variable: error <list>, and abbreviated variable names
-#> # ¹bioc_version, ²platform, ³r_version
-
-}}
-
+}\if{html}{\out{
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-\if{html}{\out{
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-}\if{html}{\out{
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-#> Repository summary: source aarch64-apple-darwin20
-#> CRAN @ cloud.r-project.org ✔ ✔ (194ms)
-#> BioCsoft @ bioconductor.org ✔ ✔ (352ms)
-#> BioCann @ bioconductor.org ✔ ✔ (511ms)
-#> BioCexp @ bioconductor.org ✔ ✔ (675ms)
-#> BioCworkflows @ bioconductor.org ✔ ✔ (698ms)
-
-}}
+\if{html}{\out{
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+}\if{html}{\out{
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}
\seealso{