Closed
Description
remotes::install_github("rstudio/blogdown")
#> Downloading GitHub repo rstudio/blogdown@master
#> Error in FUN(X[[i]], ...): is.remote(remote) is not TRUECreated on 2019-03-10 by the reprex package (v0.2.1)
Session info
devtools::session_info()
#> ─ Session info ──────────────────────────────────────────────────────────
#> setting value
#> version R version 3.5.2 Patched (2019-01-14 r75994)
#> os macOS Mojave 10.14.3
#> system x86_64, darwin15.6.0
#> ui X11
#> language (EN)
#> collate en_US.UTF-8
#> ctype en_US.UTF-8
#> tz America/Los_Angeles
#> date 2019-03-10
#>
#> ─ Packages ──────────────────────────────────────────────────────────────
#> package * version date lib source
#> assertthat 0.2.0 2017-04-11 [1] CRAN (R 3.5.0)
#> backports 1.1.3 2018-12-14 [1] CRAN (R 3.5.0)
#> callr 3.1.1 2018-12-21 [1] CRAN (R 3.5.0)
#> cli 1.0.1 2018-09-25 [1] CRAN (R 3.5.0)
#> crayon 1.3.4 2017-09-16 [1] CRAN (R 3.5.0)
#> curl 3.3 2019-01-10 [1] CRAN (R 3.5.2)
#> desc 1.2.0 2018-05-01 [1] CRAN (R 3.5.0)
#> devtools 2.0.1 2018-10-26 [1] CRAN (R 3.5.2)
#> digest 0.6.18 2018-10-10 [1] CRAN (R 3.5.0)
#> evaluate 0.13 2019-02-12 [1] CRAN (R 3.5.2)
#> fs 1.2.6 2018-08-23 [1] CRAN (R 3.5.0)
#> glue 1.3.0 2018-07-17 [1] CRAN (R 3.5.0)
#> highr 0.7 2018-06-09 [1] standard (@0.7)
#> htmltools 0.3.6 2017-04-28 [1] standard (@0.3.6)
#> knitr 1.22 2019-03-08 [1] CRAN (R 3.5.2)
#> magrittr 1.5 2014-11-22 [1] CRAN (R 3.5.0)
#> memoise 1.1.0 2017-04-21 [1] CRAN (R 3.5.0)
#> pkgbuild 1.0.2 2018-10-16 [1] CRAN (R 3.5.0)
#> pkgload 1.0.2 2018-10-29 [1] CRAN (R 3.5.0)
#> prettyunits 1.0.2 2015-07-13 [1] CRAN (R 3.5.0)
#> processx 3.3.0 2019-03-10 [1] CRAN (R 3.5.2)
#> ps 1.3.0 2018-12-21 [1] CRAN (R 3.5.0)
#> R6 2.4.0 2019-02-14 [1] CRAN (R 3.5.2)
#> Rcpp 1.0.0 2018-11-07 [1] CRAN (R 3.5.0)
#> remotes 2.0.2.9000 2019-03-11 [1] Github (r-lib/remotes@6212345)
#> rlang 0.3.1 2019-01-08 [1] CRAN (R 3.5.2)
#> rmarkdown 1.11 2018-12-08 [1] standard (@1.11)
#> rprojroot 1.3-2 2018-01-03 [1] CRAN (R 3.5.0)
#> sessioninfo 1.1.1 2018-11-05 [1] CRAN (R 3.5.0)
#> stringi 1.3.1 2019-02-13 [1] CRAN (R 3.5.2)
#> stringr 1.4.0 2019-02-10 [1] CRAN (R 3.5.2)
#> testthat 2.0.1 2018-10-13 [1] standard (@2.0.1)
#> usethis 1.4.0 2018-08-14 [1] CRAN (R 3.5.0)
#> withr 2.1.2 2018-03-15 [1] CRAN (R 3.5.0)
#> xfun 0.5 2019-02-20 [1] CRAN (R 3.5.2)
#> yaml 2.2.0 2018-07-25 [1] standard (@2.2.0)
#>
#> [1] /Users/kevin/Library/R/3.5/library
#> [2] /Library/Frameworks/R.framework/Versions/3.5/Resources/libraryLooks like things are failing while attempting to update some other packages:
> remotes::install_github("rstudio/blogdown")
Downloading GitHub repo rstudio/blogdown@master
Error in FUN(X[[i]], ...) : is.remote(remote) is not TRUE
Enter a frame number, or 0 to exit
1: remotes::install_github("rstudio/blogdown")
2: install_remotes(remotes, auth_token = auth_token, host = host, dependencies = dependencies, upgrade = upgrade,
3: vapply(remotes, install_remote, ..., FUN.VALUE = character(1))
4: FUN(X[[i]], ...)
5: install(source, dependencies = dependencies, upgrade = upgrade, force = force, quiet = quiet, build = build, b
6: install_deps(pkgdir, dependencies = dependencies, quiet = quiet, build = build, build_opts = build_opts, upgra
7: update(packages, dependencies = dep_deps, quiet = quiet, upgrade = upgrade, build = build, build_opts = build_
8: update.package_deps(packages, dependencies = dep_deps, quiet = quiet, upgrade = upgrade, build = build, build_
9: install_remotes(object$remote[!object$is_cran & behind], dependencies = dependencies, upgrade = upgrade, force
10: vapply(remotes, install_remote, ..., FUN.VALUE = character(1))
11: FUN(X[[i]], ...)
12: stopifnot(is.remote(remote))
Looks like this is caused by NULL entries sneaking into the set of package dependencies:
> str(remotes::package_deps("rmarkdown"))
Classes 'package_deps' and 'data.frame': 18 obs. of 6 variables:
$ package : chr "base64enc" "digest" "evaluate" "glue" ...
$ installed: chr "0.1-3" "0.6.18" "0.13" "1.3.0" ...
$ available: chr "0.1-3" "0.6.18" "0.13" "1.3.0" ...
$ diff : int 0 0 0 0 0 0 0 0 0 0 ...
$ is_cran : logi TRUE TRUE TRUE TRUE FALSE FALSE ...
$ remote :List of 18
..$ :List of 4
.. ..$ name : chr "base64enc"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "0.1-3"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ :List of 4
.. ..$ name : chr "digest"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "0.6.18"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ :List of 4
.. ..$ name : chr "evaluate"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "0.13"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ :List of 4
.. ..$ name : chr "glue"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "1.3.0"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ : NULL
..$ : NULL
..$ :List of 4
.. ..$ name : chr "jsonlite"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "1.6"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ :List of 4
.. ..$ name : chr "knitr"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "1.22"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ :List of 4
.. ..$ name : chr "magrittr"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "1.5"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ : NULL
..$ :List of 4
.. ..$ name : chr "mime"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "0.6"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ :List of 4
.. ..$ name : chr "Rcpp"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "1.0.0"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ : NULL
..$ :List of 4
.. ..$ name : chr "stringi"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "1.3.1"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ :List of 4
.. ..$ name : chr "stringr"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "1.4.0"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ : NULL
..$ :List of 4
.. ..$ name : chr "xfun"
.. ..$ repos : Named chr "https://cran.rstudio.com"
.. .. ..- attr(*, "names")= chr "CRAN"
.. ..$ pkg_type: chr "both"
.. ..$ sha : chr "0.5"
.. ..- attr(*, "class")= chr "cran_remote" "remote"
..$ : NULL
..- attr(*, "class")= chr "remotes"
- attr(*, "repos")= Named chr "https://cran.rstudio.com"
..- attr(*, "names")= chr "CRAN"
- attr(*, "type")= chr "both"
I believe this is because some of the packages I have were installed by pak, and list their RemoteType as standard which is not yet understood by the remotes package.
> str(remotes:::package2remote("highr"))
NULL
> str(read.dcf(system.file("DESCRIPTION", package = "highr"), all = TRUE))
'data.frame': 1 obs. of 25 variables:
$ Package : chr "highr"
$ Type : chr "Package"
$ Title : chr "Syntax Highlighting for R Source Code"
$ Version : chr "0.7"
$ Authors@R : chr "c(person(\"Christopher\", \"Gandrud\", role = \"ctb\"),\nperson(\"Qiang\", \"Li\", role = \"ctb\"),\nperson(\"Y"| __truncated__
$ Maintainer : chr "Yihui Xie <xie@yihui.name>"
$ Description : chr "Provides syntax highlighting for R source code. Currently it\nsupports LaTeX and HTML output. Source code of ot"| __truncated__
$ Depends : chr "R (>= 3.0.2)"
$ Suggests : chr "knitr, testit"
$ License : chr "GPL"
$ URL : chr "https://github.com/yihui/highr"
$ BugReports : chr "https://github.com/yihui/highr/issues"
$ VignetteBuilder : chr "knitr"
$ RoxygenNote : chr "6.0.1"
$ NeedsCompilation: chr "no"
$ Packaged : chr "2018-06-09 07:37:11 UTC; yihui"
$ Author : chr "Christopher Gandrud [ctb],\nQiang Li [ctb],\nYixuan Qiu [aut],\nYihui Xie [aut, cre]"
$ Repository : chr "CRAN"
$ Date/Publication: chr "2018-06-09 15:46:28 UTC"
$ Built : chr "R 3.5.0; ; 2018-06-10 13:59:10 UTC; unix"
$ RemoteType : chr "standard"
$ RemoteRef : chr "highr"
$ RemoteRepos : chr "https://cloud.r-project.org"
$ RemotePkgType : chr "macos"
$ RemoteSha : chr "0.7"
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