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• #CONDA INSTALL PACKAGE WITHOUT UPDATING OTHERS UPDATE#

Then create and use a library for each version of Bioconductor. A best practice is to create an initial R installation. It is possible to have multiple versions of Bioconductor installed on the same computer. BiocManager::install()Ĭonfirm that the updated Bioconductor is valid for your version of R BiocManager::valid()

#CONDA INSTALL PACKAGE WITHOUT UPDATING OTHERS UPDATE#

Then install the updated BiocVersion, and update all Bioconductor packages answer ‘yes’ when you are asked to update a potentially large number of Bioconductor packages. Update all Bioconductor packages in the previous installation directory by removing all versions of BiocVersion remove.packages("BiocVersion") # repeat until all instances removed The problem with this is that the previous version of Bioconductor is removed, compromising the ability to reproduce earlier results. This is described in the section on maintaining multiple versions of R and Bioconductor.Īlternatively, one could update all Bioconductor packages in the previous installation directory. Then use aliases or other approaches to create R / Bioconductor version-specific installations. So instead of installing packages into R’s system library (e.g., as ‘administrator’), install only base R into the system location. The recommended practice is to maintain a separate library for each R and Bioconductor version.

With the update, the version of Bioconductor indicated by BiocVersion is no longer valid – you’ll need to update BiocVersion and all Bioconductor packages to the most recent version available for your new version of R. In the original installation, BiocManager had installed BiocVersion appropriate for R version 3.5. This problem arises because BiocManager uses a second package, BiocVersion, to indicate the version of Bioconductor in use. onLoad failed in loadNamespace() for 'BiocManager', details:Įrror: Bioconductor version '3.8' requires R version '3.5' see After updating R (e.g., from R version 3.5.x to R version 3.6.x at the time of writing this) and trying to load BiocManager, R replies Error.