[Bioc-devel] Dependencies error on Windows in long tests

[Pierrick Roger]

Thanks Hervé.

On Tue 16 Nov 21 11:34, Hervé Pagès wrote:
> Salut Pierrick,
> 
> Please give it one more week. We updated R to 4.1.2 on the release build
> machines last week and riesling1 was the last one to receive the update. For
> riesling1 this update was actually made only a few hours before the Long
> Tests builds, with the unfortunate consequence that not all deps got a
> chance to get installed on the machine before those builds started.
> 
> This is just bad timing and I'm sorry for the inconvenience.
> 
> Cheers,
> H.
> 
> 
> On 14/11/2021 23:03, Pierrick Roger wrote:
> > Hi,
> > 
> > The long tests of all my packages (biodb, biodbChebi, biodbHmdb,
> > BiodbKegg, biodbLipidmaps, biodbUniprot) are failing on Windows platform
> > (riesling1).
> > 
> > Here is the error for `biodb`:
> > ```
> > * checking package dependencies ... ERROR
> > Packages required but not available:
> >    'BiocFileCache', 'R6', 'RSQLite', 'Rcpp', 'XML', 'chk', 'jsonlite',
> >    'lgr', 'lifecycle', 'openssl', 'plyr', 'progress', 'rappdirs',
> >    'stringr', 'withr', 'yaml', 'testthat'
> > 
> > Packages suggested but not available:
> >    'BiocStyle', 'roxygen2', 'devtools', 'knitr', 'rmarkdown', 'covr',
> >    'xml2', 'git2r'
> > ```
> > 
> > See the following pages:
> >   * http://bioconductor.org/checkResults/release/bioc-longtests-LATEST/biodb/
> >   * http://bioconductor.org/checkResults/release/bioc-longtests-LATEST/biodbHmdb/
> >   * http://bioconductor.org/checkResults/release/bioc-longtests-LATEST/biodbChebi/
> >   * http://bioconductor.org/checkResults/release/bioc-longtests-LATEST/biodbKegg/
> >   * http://bioconductor.org/checkResults/release/bioc-longtests-LATEST/biodbUniprot/
> >   * http://bioconductor.org/checkResults/release/bioc-longtests-LATEST/biodbLipidmaps/
> > 
> > Does anyone have an idea of what is happening?
> > 
> 
> -- 
> Hervé Pagès
> 
> Bioconductor Core Team
> hpages.on.github using gmail.com

-- 
Research engineer Pierrick Roger
http://www.cea-tech.fr | http://workflow4metabolomics.org | http://www.metabohub.fr
https://fr.linkedin.com/in/pkrog | https://github.com/pkrog
In varietate concordia.