[Bioc-devel] Failing Travis build on bioc-devel

[Charlotte Soneson]

Hi Waldir,

try to delete the travis cache (under More Options - Caches) and restart the build. That helped for me.

Best,
Charlotte

> On 7 May 2020, at 11:33, Waldir Leoncio Netto <w.l.netto using medisin.uio.no> wrote:
> 
> Dear fellow developers,
> 
> I have a package which has been failing on Travis CI's bioc-devel build since the release of R 4.0.0 and Bioconductor 3.11. The bioc-release build is still working fine.
> 
> The error happens when installing the SummarizedExperiment dependency (or, apparently, when installing its dependency, GenomicRanges). Here is the relevant part of the log:
> 
> * installing *source* package ‘SummarizedExperiment’ ...
> ** using staged installation
> ** R
> ** inst
> ** byte-compile and prepare package for lazy loading
> Error: package or namespace load failed for ‘GenomicRanges’:
> .onLoad failed in loadNamespace() for 'XVector', details:
>  call: NULL
>  error: (converted from warning) undefined slot classes in definition of "XRaw": elementMetadata(class "DataTable_OR_NULL")
> Error: package ‘GenomicRanges’ could not be loaded
> Execution halted
> ERROR: lazy loading failed for package ‘SummarizedExperiment’
> * removing ‘/home/travis/R/Library/SummarizedExperiment’
> * restoring previous ‘/home/travis/R/Library/SummarizedExperiment’
> Error in i.p(...) :
>  (converted from warning) installation of package ‘SummarizedExperiment’ had non-zero exit status
> Calls: <Anonymous> ... with_rprofile_user -> with_envvar -> force -> force -> i.p
> Execution halted
> travis_time:end:0be4d543:start=1588839621760310466,finish=1588839851948469642,duration=230188159176,event=
> The command "Rscript -e 'deps <- remotes::dev_package_deps(dependencies = NA);remotes::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")}'" failed and exited with 1 during .
> 
> Your build has been stopped.
> 
> I was wondering if anyone else went through this or can offer a solution.
> 
> Best regards,
> Waldir
> 
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> 
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