Spencer, I strongly recommend NOT selecting compilation from sources as that is non-trivial and requires a whole list of tools and libraries that you don't have - I would recommend using type="binary" in install.packages/update.packages to make sure the get the versions that haven been checked on CRAN. I’m pretty sure what you reported was just a temporary issue anyway.
If you really want to compile development versions of R packages from sources, then you'll need to follow the basic R documentation (R-admin C.3) with respect to the required tools like gfortran (see also https://mac.r-project.org/tools/ ) and also install all dependent libraries (see https://mac.r-project.org/bin/ for the version used by CRAN). Cheers, Simon (sorry for the late reponse - this was stuck in my outbox for a week) > On Nov 15, 2024, at 11:35 AM, Spencer Graves <spencer.gra...@prodsyse.com> > wrote: > > Hello, All: > > > The problem with "update.packages()" described in my email below > seems to impact also GitHub Action on macOS for my "Ecdat" package:[2] It > cannot find a function I added to the most recent release of another package > (‘[Ecfun]{findCountry}’).[3] It works fine on Windows and Ubuntu. > > > Suggestions? > Thanks, > Spencer Graves > > > p.s. Thanks to Duncan Murdoch, who noted that 'install.packages("curl", > type="source")' can overcome the problem mentioned in other question to > R-SIG-Mac earlier today (copied below). To be precise, it worked for the > first 4 of the 6 packages that were not being downloaded properly under macOS > via "update.packages()": > > > * 'install.packages("slam", type="source")' aborted because, > "library 'gfortran' not found". > > > * 'install.packages("terra", type="source")' aborted, complaining > 'configure: error: gdal-config not found or not executable.' > > > If I needed the latest version of "slam", I would invest the time to > figure out why "library 'gfortran' not found". I've had it before. I don't > know why it's not available now. Similarly, if I needed the latest version of > "terra", I would spend time trying to fix that. > > > [2] > > > https://github.com/sbgraves237/Ecdat > > > [3] > > > https://github.com/sbgraves237/Ecdat/actions/runs/11844366708/job/33007415589 > > > -------- Forwarded Message -------- > Subject: update.packages() re-downloading old versions > Date: Thu, 14 Nov 2024 12:41:08 -0600 > From: Spencer Graves <spencer.gra...@prodsyse.com> > To: r-sig-mac <r-sig-mac@r-project.org> > > Hello, All: > > > "update.packages()" now identifies 6 packages with updates but > re-downloads the old version. In the output copied below starting, "Thu Nov > 14 06:48:15 2024", it invited me to update curl, Ecfun, NLP, packageRank, > slam, and terra. I said yes to all. Then it reinstalled the old version, not > the new, for each. Then I repeated the procedure starting "Thu Nov 14 > 06:48:33 2024", 28 seconds later, with the same results. > > > I've noticed this problem roughly 2 days ago. At that time, it > downloaded several packages, some correctly but two (Ecfun and terra) > incorrectly, as here. This was shortly after I got your email saying, "Your > package Ecfun_0.3-6.tar.gz has been built for Windows and will be published > within 24 hours in the corresponding CRAN directory." > > > sessionInfo() is also provided below. > > > I asked Uwe Ligges, who suggested I "ask on a sig-mac mailing list if > this is know (to Simon in particular)?" Uwe added, "I can only tell about > source packages (as used under Linux) and Windows binaries where this should > never happen." > > > What do you think? > > > Thanks, > Spencer Graves > > > p.s. I very much appreciate this great R community. People live better the > world over because of good statistical analyses that may not have been done > -- or done as well -- without R and CRAN. > > > *** DOCUMENTATION OF WHAT I SAW: > > >> date() > [1] "Thu Nov 14 06:48:15 2024" >> update.packages() > curl : > Version 6.0.0 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 6.0.1 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > Ecfun : > Version 0.3-2 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 0.3-6 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > NLP : > Version 0.3-0 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 0.3-1 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > packageRank : > Version 0.9.3 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 0.9.4 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > slam : > Version 0.1-54 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 0.1-55 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > terra : > Version 1.7-78 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 1.7-83 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/curl_6.0.0.tgz' > Content type 'application/x-gzip' length 832416 bytes (812 KB) > ================================================== > downloaded 812 KB > > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/Ecfun_0.3-2.tgz' > Content type 'application/x-gzip' length 1245104 bytes (1.2 MB) > ================================================== > downloaded 1.2 MB > > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/NLP_0.3-0.tgz' > Content type 'application/x-gzip' length 396405 bytes (387 KB) > ================================================== > downloaded 387 KB > > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/packageRank_0.9.3.tgz' > Content type 'application/x-gzip' length 3504704 bytes (3.3 MB) > ================================================== > downloaded 3.3 MB > > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/slam_0.1-54.tgz' > Content type 'application/x-gzip' length 212778 bytes (207 KB) > ================================================== > downloaded 207 KB > > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/terra_1.7-78.tgz' > Content type 'application/x-gzip' length 97585776 bytes (93.1 MB) > ================================================== > downloaded 93.1 MB > > > The downloaded binary packages are in > > /var/folders/2n/zqk768wj3818l8x2wttbc5kw0000gn/T//Rtmp7DqHrd/downloaded_packages >> >> >> date() > [1] "Thu Nov 14 06:48:33 2024" >> update.packages() > curl : > Version 6.0.0 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 6.0.1 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > Ecfun : > Version 0.3-2 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 0.3-6 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > NLP : > Version 0.3-0 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 0.3-1 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > packageRank : > Version 0.9.3 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 0.9.4 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > slam : > Version 0.1-54 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 0.1-55 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > terra : > Version 1.7-78 installed in > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/library > Version 1.7-83 available at https://cran.rstudio.com > Update? (Yes/no/cancel) y > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/curl_6.0.0.tgz' > Content type 'application/x-gzip' length 832416 bytes (812 KB) > ================================================== > downloaded 812 KB > > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/Ecfun_0.3-2.tgz' > Content type 'application/x-gzip' length 1245104 bytes (1.2 MB) > ================================================== > downloaded 1.2 MB > > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/NLP_0.3-0.tgz' > Content type 'application/x-gzip' length 396405 bytes (387 KB) > ================================================== > downloaded 387 KB > > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/packageRank_0.9.3.tgz' > Content type 'application/x-gzip' length 3504704 bytes (3.3 MB) > ================================================== > downloaded 3.3 MB > > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/slam_0.1-54.tgz' > Content type 'application/x-gzip' length 212778 bytes (207 KB) > ================================================== > downloaded 207 KB > > trying URL > 'https://cran.rstudio.com/bin/macosx/big-sur-arm64/contrib/4.4/terra_1.7-78.tgz' > Content type 'application/x-gzip' length 97585776 bytes (93.1 MB) > ================================================== > downloaded 93.1 MB > > > The downloaded binary packages are in > > /var/folders/2n/zqk768wj3818l8x2wttbc5kw0000gn/T//Rtmp7DqHrd/downloaded_packages >> >> >> >> sessionInfo() > R version 4.4.2 (2024-10-31) > Platform: aarch64-apple-darwin20 > Running under: macOS Sequoia 15.0.1 > > Matrix products: default > BLAS: > /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib > > LAPACK: > /Library/Frameworks/R.framework/Versions/4.4-arm64/Resources/lib/libRlapack.dylib; > LAPACK version 3.12.0 > > locale: > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 > > time zone: America/Chicago > tzcode source: internal > > attached base packages: > [1] stats graphics grDevices utils datasets > [6] methods base > > loaded via a namespace (and not attached): > [1] compiler_4.4.2 tools_4.4.2 > > > On 11/12/24 04:48, lig...@statistik.tu-dortmund.de wrote: >> Dear package maintainer, >> this notification has been generated automatically. >> Your package Ecfun_0.3-6.tar.gz has been built for Windows and >> will be published within 24 hours in the corresponding CRAN directory. >> R version 4.4.2 (2024-10-31 ucrt) >> All the best, >> Uwe Ligges >> (Maintainer of binary packages for Windows) >> > > _______________________________________________ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac > _______________________________________________ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
