After a recent upgrade of "R" I have many broken links that never resolve

[Kenneth Wolcott]

A more complete error capture:

Could not open /opt/local/Library/Frameworks/R.framework/Versions/4.5/Resources/lib/libR.dylib:
Error opening or reading file (referenced from
/opt/local/Library/Frameworks/R.framework/Versions/4.5/Resources/library/foreign/libs/foreign.so)
Could not open /opt/local/Library/Frameworks/R.framework/Versions/4.5/Resources/lib/libRblas.dylib:
Error opening or reading file (referenced from
/opt/local/Library/Frameworks/R.framework/Versions/4.5/Resources/library/Matrix/libs/Matrix.so)
Could not open /opt/local/Library/Frameworks/R.framework/Versions/4.5/Resources/lib/libRlapack.dylib:
Error opening or reading file (referenced from
/opt/local/Library/Frameworks/R.framework/Versions/4.5/Resources/library/Matrix/libs/Matrix.so)
--->  Found 33 broken files, matching files to ports
--->  Found 29 broken ports, determining rebuild order
You can always run 'port rev-upgrade' again to fix errors.
The following ports will be rebuilt:
 R-foreign @0.8-87
 R-lattice @0.22-6
 R-MASS @7.3-61
 R-class @7.3-22
 R-Matrix @1.7-1+gcc14
 R-nlme @3.1-166+gcc14
 R-mgcv @1.9-1+gcc14
 R-nnet @7.3-19
 R-rpart @4.1.23
 R-spatial @7.3-17
 R-survival @3.7-0
 R-gmp @0.7-5
 R-Rmpfr @1.0-0
 R-base64enc @0.1-3
 R-cli @3.6.3
 R-glue @1.8.0
 R-magrittr @2.0.3
 R-rlang @1.1.4
 R-vctrs @0.6.5
 R-digest @0.6.37
 R-stringi @1.8.4
 R-app @1.82
 R-jsonlite @1.8.9
 R-purrr @1.0.2
 R-xml2 @1.3.6
 R-backports @1.5.0
 R-gtools @3.9.5
 R-proxy @0.4-27
 R-e1071 @1.7-16
Continue? [Y/n]:

On Wed, Jun 10, 2026 at 4:24 PM Kenneth Wolcott
<kennethwolcott at gmail.com> wrote:
>
> How to fix this?
>
> I hope that these ports are arm64 and not universal...
>
> Here is an excerpt of the last attempt when I agree to an revbuild:
>
> DEBUG: universal_variant is false, so not adding the default universal variant
> DEBUG: Executing variant gcc14 provides gcc14
> Error: R-Matrix: Variant gcc14 conflicts with gcc15
> DEBUG: Error evaluating variants
>     while executing
> "error "Error evaluating variants""
>     (procedure "mportopen" line 72)
>     invoked from within
> "mportopen $porturl $interp_options $installedvariations"
> Error: Unable to open port: Error evaluating variants
> DEBUG: Rebuilding port R-backports finished with status 1
> DEBUG: rev-upgrade failed: Error rebuilding R-backports
>     while executing
> "error "Error rebuilding $portname""
>     (procedure "revupgrade_scanandrebuild" line 489)
>     invoked from within
> "revupgrade_scanandrebuild broken_port_counts $opts"
> Error: rev-upgrade failed: Error rebuilding R-backports
> Error: Follow https://guide.macports.org/#project.tickets if you
> believe there is a bug.
> ~:
>
>
> R-app @1.82
>  R-MASS @7.3-61
>  R-class @7.3-22
>  R-backports @1.5.0
>  R-base64enc @0.1-3
>  R-cli @3.6.3
>  R-digest @0.6.37
>  R-foreign @0.8-87
>  R-glue @1.8.0
>  R-gmp @0.7-5
>  R-Rmpfr @1.0-0
>  R-gtools @3.9.5
>  R-jsonlite @1.8.9
>  R-lattice @0.22-6
>  R-Matrix @1.7-1+gcc14
>  R-magrittr @2.0.3
>  R-nlme @3.1-166+gcc14
>  R-mgcv @1.9-1+gcc14
>  R-nnet @7.3-19
>  R-proxy @0.4-27
>  R-e1071 @1.7-16
>  R-rlang @1.1.4
>  R-rpart @4.1.23
>  R-spatial @7.3-17
>  R-stringi @1.8.4
>  R-survival @3.7-0
>  R-vctrs @0.6.5
>  R-purrr @1.0.2
>  R-xml2 @1.3.6
> Continue? [Y/n]:
>
> Every time I say yes, it dies...
>
> Thanks,
> Ken Wolcott