FWIW I also get the same thing (i.e. R crashes on loading CRAN binary
packages) if I configure R 4.0 alpha like here
https://svn.r-project.org/R-dev-web/trunk/QA/Simon/R4/conf.high-sierra-x86_64,
that is, if all the compilers use -mmacosx-version-min=10.13 and I set
--build=x86_64-apple-darwin17.0
In that case I end up with the following sessionInfo():
> sessionInfo()
R version 4.0.0 alpha (2020-04-01 r78132)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Mojave 10.14.6
Matrix products: default
BLAS: /Users/biocbuild/bbs-3.11-bioc/R/lib/libRblas.dylib
LAPACK: /Users/biocbuild/bbs-3.11-bioc/R/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] compiler_4.0.0
H.
On 4/1/20 23:47, Hervé Pagès wrote:
Hi Simon,
After installing R 4.0 alpha from source on a macOS Mojave system, R
won't let me use type="both" to install CRAN packages. I get:
Error in install.packages("rJava", type = "both", repos =
"https://urldefense.proofpoint.com/v2/url?u=https-3A__cran.r-2Dproject.org&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=H0XG-BbaqC0wtDJVNafEVTuhS6RZzzjXrTCwAq3rYGg&s=iXhmlQ7VZsVt9PcHpO66FPP66TY_GHko8gQqVv_CCNw&e=
") :
type == "both" can only be used on Windows or a CRAN build for macOS
OK so this suggests that the CRAN binary packages for R 4.0 are not
compatible with my R. Surprisingly though using type="mac.binary"
doesn't complain and lets me install these binaries. But then trying to
load them causes segfaults. I've tried this with rJava, Rcpp, ggplot2,
and doing library() on any of them crashes my session. Note that
installing all these packages from source works without any problem.
So my questions are: is it the case that CRAN binary packages are not
meant to be used with an R 4.0 installed from source? If yes then why
isn't type="mac.binary" blocking this like type="both" does?
Thanks,
H.
> sessionInfo()
R version 4.0.0 alpha (2020-04-01 r78132)
Platform: x86_64-apple-darwin18.7.0 (64-bit)
Running under: macOS Mojave 10.14.6
Matrix products: default
BLAS: /Users/biocbuild/bbs-3.11-bioc/R/lib/libRblas.dylib
LAPACK: /Users/biocbuild/bbs-3.11-bioc/R/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] compiler_4.0.0
--
Hervé Pagès
Program in Computational Biology
Division of Public Health Sciences
Fred Hutchinson Cancer Research Center
1100 Fairview Ave. N, M1-B514
P.O. Box 19024
Seattle, WA 98109-1024
E-mail: hpa...@fredhutch.org
Phone: (206) 667-5791
Fax: (206) 667-1319
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