Hey all, I noticed today that my builds failed for only R >= 4.0.0 versions on travis. As we did not changed anything in the travis.yml and it still works for 3.6.3 I assume it might be the setup script. you can see the failing jobs here: https://travis-ci.com/github/c-mertes/FRASER/builds/181678…

Issue appears solved to me: my Bioconductor builds pass :+1:. Thanks @jeroen and @native-api !

yes I did this already. Under the cache option I clicked Delete all repository caches.

We just starting to hit this with R 3.6.3 as well: https://travis-ci.com/github/bimberlabinternal/OOSAP/jobs/378528732 The command "eval Rscript -e 'if (!requireNamespace("BiocManager", quietly=TRUE)) install.packages("BiocManager");if (FALSE) BiocManager::install(version = "devel", ask = FALSE);c…

I am also seeing this on all my new unix builds from R 3.4 to R 4.0. My guess is that since you guys are now using a Debian package to install R it’s probably installing it in a different path than it used to when you were unzipping it directly.

I’m not sure that export is being invoked from https://github.com/travis-ci/travis-build/blob/master/lib/travis/build/script/r.rb#L47 or if the gdebi installation is overwriting these?

Same problem here. The build fails because it can’t write the library path for R >=4.0. https://travis-ci.org/github/harpomaxx/GSgalgoR/builds/722161711 Any idea for bypassing the problem, at least for now?

Same error. It started to appear around August 27, 2020. Google currently points only to this thread. Looking for advice what to do. https://travis-ci.com/github/dozmorovlab/preciseTAD/jobs/379115179#L758 Installing Bioconductor $ Rscript -e 'if (!requireNamespace("BiocManager", quietly=TRUE)) in…

I think @muschellij2 is right that somehow the export is not invoked. Based on my little test it seems like its only coming up with bioc versions. https://travis-ci.com/github/c-mertes/test-ci/builds/182026369 So I guess a workaround is to use base R versions and install the bioconductor packages…

It seems that the PATH variable was changed in a recent commit. I’ve asked Jim @jimhester for more info here https://github.com/travis-ci/travis-build/commit/51f5f85ad56a6cfea94a3ce71d8ced29c26d4e45

We have the same error here: https://travis-ci.org/github/metabaRfactory/metabaR/builds/723096728 Has anyone found a solution to bypass the problem?

@c-mertes had a good point above - we just switched our config to use base R (require_bioc=False), and installed bioconductor ourselves.

In R version 4.0.0 library path not writable

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Topic		Replies	Views
R install broken: travis-ci.rstudio.org returns 403 R build-env	4	828	August 27, 2020
BiocCheck installation cannot install scripts; thus "R CMD BiocCheck" fails R travis-build , bug	12	1473	February 19, 2021
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“r: bioc-devel” is broken: "Bioconductor version '3.11' requires R version '4.0'" R bug	6	1751	February 19, 2021
R missing on Xenial Xenial r , travis-build	7	862	September 7, 2020

In R version 4.0.0 library path not writable

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