[Bioc-devel] Travis CI errors for BiocManager

[Martin Morgan]

This is fixed in r75946 https://stat.ethz.ch/pipermail/r-devel/2019-January/077155.html

Martin

On 1/3/19, 12:06 PM, "Erik Fasterius" <erik.fasterius using outlook.com> wrote:

    Ah, okey! Very good to know, thank you! Is there a way I can keep track of this, to see when it gets fixed?
    
    Erik
    
    > On 3 Jan 2019, at 14:00, Martin Morgan <mtmorgan.bioc using gmail.com> wrote:
    > 
    > 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)$vers
    > 
    > returned
    > 
    >  [1] '1.2' '1.2'
    > 
    > now (r75945) we have
    > 
    >> rbind(df, df)$vers
    > [[1]]
    > [1] 1 2
    > 
    > [[2]]
    > [1] 1 2
    > 
    > Martin
    > 
    > 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:
    > 
    >    Hi,
    > 
    >    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!
    >    Erik
    > 
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    > 
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