BiocManager::install() update change from biocLite()
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@howarthmailinglists-13534
Last seen 2.1 years ago

The behavior of BiocManager::install() for updates seems to have changed from biocLite(). Specifically, when biocLite() was executed under 'sudo R', any system R packages installed in /usr/lib/R were offered to be upgraded in /usr/local/lib/R. The new BiocManager::install() defaults to installing these in /usr/lib/R and overwriting the system copies of those packages. Is there an option that can be set that restores the prior behavior that installed any system R packages being upgraded into /usr/local/lib/R rather than overwriting the packaged copies in /usr/lib/R?

BiocManager • 293 views
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You might have success with BiocManager::install(instlib='/usr/local/lib/R'); please report back.

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