update.packages()

Hi,

R version 4.5.1 (2025-06-13) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

When I run the update.packages(ask=FALSE) command in the terminal;
update.packages(ask = FALSE)

This Output is returning.:

trying URL 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.5/keras_2.15.0.tgz'
trying URL 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.5/quarto_1.4.4.tgz'
trying URL 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.5/xfun_0.52.tgz'

The downloaded binary packages are in
/var/folders/kj/xn8tyd_s47bg0qttzhg4x0l80000gn/T//RtmproYJcm/downloaded_packages

Keras 2.16.0, quarto 1.5.0, and xfun 0.53 versions appear to be upgradeable, but the versions already installed on the system are being downloaded and the upgrade is failing.

This problem is not Positron specific. The same issue also occurs in the R console and RStudio.
Wether or not the ‘ask=FALSE’ part changes the result.

R cannot upgrade packages that appear to have updates. However there are no new versions of these packages in the repository.

Thanks in advance.

In the final case, only the quarto package cannot be upgraded. Instead of the apparent 1.5.0 version, the existing 1.4.4 version is downloaded.