[Bioc-devel] Travis CI errors for BiocManager

Martin Morgan mtmorg@n@bioc @ending from gm@il@com
Thu Jan 3 14:00:58 CET 2019

This seems to be a regression in R-devel, and has been reported.

Previously (at least svn r75833, I think)

  df <- data.frame(vers= package_version("1.2"))
  rbind(df, df)$vers


  [1] '1.2' '1.2'

now (r75945) we have

  > rbind(df, df)$vers
[1] 1 2

[1] 1 2


On 1/3/19, 5:25 AM, "Bioc-devel on behalf of Erik Fasterius" <bioc-devel-bounces using r-project.org on behalf of erik.fasterius using outlook.com> wrote:

    I’m currently updating my package `seqCAT` with some new code, and I always run it through Travis CI before pushing changes to Bioconductor. The last build errors with the following message:
    Updating HTML index of packages in '.Library'
    Making 'packages.html' ... done
    Error: invalid version specification ‘c(3, 9)’
    Execution halted
    The command "eval Rscript -e 'if (!requireNamespace("BiocManager", quietly=TRUE))  install.packages("BiocManager");if (TRUE) BiocManager::install(version = "devel");cat(append = TRUE, file = "~/.Rprofile.site<http://Rprofile.site>", "options(repos = BiocManager::repositories());")' " failed.
    This happens even though both `devtools::check()` and `BiocCheck()` completes without errors, like normal. I have never had this error before, and it started with the most recent change I did: `n()` to `dplyr::n()` in a single line of code (to account for the upcoming changes to the `dplyr` package), so I don’t believe the code itself is to blame.
    Does anybody know what the problem is here?
    Thanks in advance!
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