hi,
a possible workaround is to install directly from the repo using the
syntax "Bioconductor/pkgname" in the call to 'BiocManager::install()'.
this just worked in my current devel container:
BiocManager::install("Bioconductor/GenomeInfoDb")
while attempting to 'BiocManager::install("GenomeInfDb")' didn't. i
think the following discussion we had on June last year in this list is
relevant to his issue:
https://stat.ethz.ch/pipermail/bioc-devel/2020-June/016857.html
cheers,
robert.
On 3/10/21 3:11 PM, Nitesh Turaga wrote:
Hi Laurent,
Since you are using the devel version of `bioconductor_docker` it's possible
that the packages failed to build on the build system.
For example,
http://bioconductor.org/checkResults/devel/bioc-LATEST/MultiAssayExperiment/ ,
MultiAsssayExperiment failed to build on devel. A better solution for this, is
to use the release 3.12 version of 'bioconductor_docker:RELEASE_3_12'.
This may be transient, and could be fixed by the maintainers.
Best,
Nitesh
On 3/9/21, 4:51 PM, "Bioc-devel on behalf of Laurent Gatto"
<bioc-devel-boun...@r-project.org on behalf of laurent.ga...@uclouvain.be> wrote:
I am setting up a repo/docker for the coming Bioc2021 workshops, and
apparently packages ‘GenomeInfoDb’, ‘MultiAssayExperiment’ are not available
for this version of R [1] (they indeed fail on devel). Surprisingly, they
seemed to be available earlier in the day - my action failed for a different
reason, much later in the process.
Laurent
[1]
https://github.com/lgatto/QFeaturesScpWorkshop2021/runs/2070746544?check_suite_focus=true#step:8:157
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