[R-SIG-Mac] update.packages() re-downloading old versions
Gavin Simpson
uc|@g|@ @end|ng |rom gm@||@com
Fri Apr 4 08:47:14 CEST 2025
Hi Spencer,
I don't see a response to this, but I am too seeing this on my M3 Macbook
Air.
It looks to me like this is update.packages() looking at whether a package
is outdated but then downloading the latest Mac binary. I don't know if
this is because I've not got my system set up to build from sources or not
(I mostly use the binaries but I can build packages by hand so *shrug* -
I'm very new to Macs).
The packages this is affecting right now are all packages that got updated
a day or two ago and for which the mac binaries are not yet available.
All the best
G
On Thu, 14 Nov 2024 at 19:41, Spencer Graves <spencer.graves using prodsyse.com>
wrote:
> 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, ligges using 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 using r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>
--
Gavin Simpson, PhD [he/him/his]
[tw] @ucfagls [OrciD] 0000-0002-9084-8413
[web] fromthebottomoftheheap.net
• Assistant Professor
• Department of Animal & Veterinary Sciences, Aarhus University
• Adjunct Professor, Department of Biology, University of Regina.
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