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Error after "Skipping (package), it is already being installed." #225

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jsal13 opened this issue Oct 26, 2018 · 5 comments
Closed

Error after "Skipping (package), it is already being installed." #225

jsal13 opened this issue Oct 26, 2018 · 5 comments

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@jsal13
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jsal13 commented Oct 26, 2018

Issue: Installing a package (using a devtools::install_* function) with a dependency that already was installed by another package seems to give an error:

Skipping (package_name), it is already being installed
Error in vapply(remotes, install_remote, ..., FUN.VALUE = character(1)) :
  values must be type 'character',
 but FUN(X[[1]]) result is type 'logical'
Execution halted

Setup: I'm working in a Centos docker image (though the issue still happens on latest MacOS) with the following session info (with a truncated "loaded via a namespace (and not attached)" since this was done with nearly no packages; I included only what seemed important):

R version 3.5.1 (2018-07-02)
Platform: x86_64-redhat-linux-gnu (64-bit)
Running under: CentOS Linux 7 (Core)

Matrix products: default
BLAS/LAPACK: /usr/lib64/R/lib/libRblas.so

locale:
[1] C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

loaded via a namespace (and not attached):
[1] compiler_3.5.1
        Package                Version
             BH               1.62.0-1
    R.methodsS3                  1.7.1
           R.oo                 1.22.0
        R.utils                  2.5.0
       devtools                  2.0.0
       pkgbuild                  1.0.2
      pkgconfig                  2.0.2
        pkgload                  1.0.1
      rcmdcheck                  1.3.0
        remotes                  2.0.1
          rlang                  0.3.0
       roxygen2                  6.1.0

Reproduction Steps: This happens for a number of packages but I've found the following code in a docker image with the version of R above (3.5.1) will throw the error:

devtools::install_version("shiny", version="1.0.0", dependencies = c("Depends", "Imports"))
devtools::install_version("shinyBS", version="0.61", dependencies = c("Depends", "Imports"))

You may need to wrap this in suppressWarnings so that the warnings are not converted to an error. The error should appear after the warning that "BH" has already been installed.

@jimhester
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jimhester commented Oct 26, 2018

this should be fixed by #226

@mrustl
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mrustl commented Dec 19, 2018

@jimhester could you re-open the issue for the above referenced issues e.g. KWB-R/kwb.fakin#11

@gatsoulis
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gatsoulis commented Jan 15, 2019

Same issue here when trying to install packages using an Rscript called from a dockerfile. Tried devtools::install_local|url|version functions and all produce the same error. A bit more detail on when this happened.

Hostmachine running Ubuntu 17.10. Building a child docker from a parent with debian:testing, R 3.5.2 and devtools 2.0.1. It fails when trying to install magrittr, stringr and httr in this order. Just the two of them seem to work for some weird reason. Putting the installation of httr first seems to work (but fails when other packages follow, e.g. noticed with curl). Example:

Skipping curl, it is already being installed
Error in vapply(remotes, install_remote, ..., FUN.VALUE = character(1)) : 
  values must be type 'character',
 but FUN(X[[1]]) result is type 'logical'
Calls: <Anonymous> ... update -> update.package_deps -> install_remotes -> vapply
Execution halted

@maurolepore
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maurolepore commented Feb 6, 2019

I get a similar error when trying to install a package from drat repository on Travis CI running on mac. I don't get the on Travis CI running on Linux.

Maybe this issue belongs to https://github.com/travis-ci/travis-ci/?


https://travis-ci.org/forestgeo/fgeo.tool/builds/489369672

Installing package dependencies
1.18s$ Rscript -e 'if (!requireNamespace("devtools", quietly = TRUE)) install.packages("devtools")'
6.06s$ Rscript -e 'deps <- devtools::dev_package_deps(dependencies = NA);devtools::install_deps(dependencies = TRUE);if (!all(deps$package %in% installed.packages())) { message("missing: ", paste(setdiff(deps$package, installed.packages()), collapse=", ")); q(status = 1, save = "no")}'
fgeo.x (1.1.2 -> NA) [local]
Error in if (!file.info(path)$isdir) { : 
  missing value where TRUE/FALSE needed
Calls: <Anonymous> ... update.package_deps -> install_remotes -> vapply -> FUN -> source_pkg
In addition: Warning message:
In file.copy(x$path, bundle, recursive = TRUE) :
  problem copying /Users/usernlivt8Gy/fgeo.x_1.1.2.tar.gz to /var/folders/nz/vv4_9tw56nv9k3tkvyszvwg80000gn/T//RtmpYOD1vb/file14a5353e97439/fgeo.x_1.1.2.tar.gz: No such file or directory
Execution halted

.travis.yml

# R for travis: see documentation at https://docs.travis-ci.com/user/languages/r

language: R
sudo: false
cache: packages

matrix:
  include:
  - os: osx
  - r: devel
  - r: release
    after_success: Rscript -e 'covr::coveralls()'
    before_deploy: Rscript -e 'remotes::install_cran("pkgdown")'
    deploy:
      provider: script
      script: Rscript -e 'pkgdown::deploy_site_github()'
      skip_cleanup: true
  - r: oldrel
  - r: 3.3
  - r: 3.2

DESCRIPTION

# ... more stuff
Additional_repositories: https://forestgeo.github.io/drat/
Suggests: 
    fgeo.x (>= 1.1.2)
# ... more stuff

@dokato
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dokato commented Feb 19, 2019

It looks like I'm still having this one:

Skipping purrr, it is already being installed
Error in vapply(remotes, install_remote, ..., FUN.VALUE = character(1)) : 
  values must be type 'character',
 but FUN(X[[3]]) result is type 'logical'

with versions:

devtools_2.0.1   
remotes_2.0.2

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