I think I've seen this error before, so pardon me if this is a repeat.
I'm unable to install Azimuth on a Mac with Intel CPU running MacOS Sonoma 14.6.1. I get an error that seems to indicate that the installer/compiler is looking for llvm v16.0.2, whereas the indicated folder (/usr/local/cellar) contains llvm v18.1.8. I've tried installing the Mac version of RTools but that didn't help. Any suggestions?
I've gotten this to work before but this is now after upgrades to MacOS, R and R Studio.
Thanks in advance.
Heithem
R version 4.4.1 (2024-06-14) -- "Race for Your Life"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
remotes::install_github('satijalab/azimuth', ref = 'master')
Using GitHub PAT from the git credential store.
Downloading GitHub repo satijalab/azimuth@master
Error: Failed to install 'Azimuth' from GitHub:
Could not find tools necessary to compile a package
Call pkgbuild::check_build_tools(debug = TRUE) to diagnose the problem.
pkgbuild::check_build_tools(debug = TRUE)
Trying to compile a simple C file
Running /Library/Frameworks/R.framework/Resources/bin/R CMD SHLIB foo.c
sh: /usr/local/Cellar/llvm/16.0.2/bin/clang: No such file or directory
using SDK: ‘’
/usr/local/Cellar/llvm/16.0.2/bin/clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -I/usr/local/opt/icu4c/include -I/usr/local/opt/libxml2/include -I/usr/local/opt/openssl@1.1/include -I/usr/local/opt/libpng/include/ -I/usr/local/opt/gettext/include -I/usr/local/opt/llvm/include -I/usr/local/opt/openblas/include -I/usr/local/opt/lapack/include -I/usr/local/opt/tcl-tk/include -I/usr/local/opt/udunits/include/ -I/usr/local/opt/expat/include -I/usr/local/opt/krb5/include -I/usr/local/opt/libpq/include -I/usr/local/opt/qt@5/include -fPIC -I/usr/local/include -c foo.c -o foo.o
/bin/sh: /usr/local/Cellar/llvm/16.0.2/bin/clang: No such file or directory
make: *** [foo.o] Error 127
Error: Could not find tools necessary to compile a package
Call pkgbuild::check_build_tools(debug = TRUE) to diagnose the problem.
sessionInfo()
R version 4.4.1 (2024-06-14)
Platform: x86_64-apple-darwin20
Running under: macOS Sonoma 14.6.1
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-x86_64/Resources/lib/libRlapack.dylib; LAPACK version 3.12.0
I think I've seen this error before, so pardon me if this is a repeat.
I'm unable to install Azimuth on a Mac with Intel CPU running MacOS Sonoma 14.6.1. I get an error that seems to indicate that the installer/compiler is looking for llvm v16.0.2, whereas the indicated folder (/usr/local/cellar) contains llvm v18.1.8. I've tried installing the Mac version of RTools but that didn't help. Any suggestions?
I've gotten this to work before but this is now after upgrades to MacOS, R and R Studio.
Thanks in advance.
Heithem
R version 4.4.1 (2024-06-14) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin20
R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R.
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-x86_64/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/New_York tzcode source: internal
attached base packages: [1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached): [1] utf8_1.2.4 R6_2.5.1 tidyselect_1.2.1 magrittr_2.0.3 remotes_2.5.0 glue_1.8.0 tibble_3.2.1
[8] pkgconfig_2.0.3 dplyr_1.1.4 generics_0.1.3 lifecycle_1.0.4 ps_1.7.7 cli_3.6.3 processx_3.8.4
[15] fansi_1.0.6 callr_3.7.6 vctrs_0.6.5 compiler_4.4.1 plyr_1.8.9 rstudioapi_0.16.0 tools_4.4.1
[22] pkgbuild_1.4.4 curl_5.2.2 pillar_1.9.0 Rcpp_1.0.13 rlang_1.1.4