############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data orthos ### ############################################################################## ############################################################################## * checking for file ‘orthos/DESCRIPTION’ ... OK * preparing ‘orthos’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes * creating vignettes ... ERROR --- re-building ‘orthosIntro.Rmd’ using rmarkdown python-build: use openssl@3 from homebrew python-build: use readline from homebrew Downloading Python-3.12.12.tar.xz... -> https://www.python.org/ftp/python/3.12.12/Python-3.12.12.tar.xz Installing Python-3.12.12... python-build: use readline from homebrew python-build: use ncurses from homebrew python-build: use zlib from xcode sdk BUILD FAILED (OS X 12.7.6 using python-build 2.6.12) Inspect or clean up the working tree at /tmp/python-build.20251103180749.1739 Results logged to /tmp/python-build.20251103180749.1739.log Last 10 log lines: Undefined symbols for architecture x86_64: "_mkfifoat", referenced from: _os_mkfifo in 127.x86_64.thinlto.o "_mknodat", referenced from: _os_mknod in 127.x86_64.thinlto.o ld: symbol(s) not found for architecture x86_64 clang: error: linker command failed with exit code 1 (use -v to see invocation) make[2]: *** [Programs/_freeze_module] Error 1 make[1]: *** [profile-gen-stamp] Error 2 make: *** [profile-run-stamp] Error 2 Quitting from orthosIntro.Rmd:280-285 [unnamed-chunk-4] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: ! installation of Python 3.12 failed --- Backtrace: ▆ 1. └─orthos::decomposeVar(...) 2. └─basilisk::basiliskStart(orthosenv, testload = "tensorflow") 3. └─basilisk::obtainEnvironmentPath(env) 4. └─basilisk::setupBasiliskEnv(...) 5. ├─base::suppressMessages(install_python(version)) 6. │ └─base::withCallingHandlers(...) 7. └─reticulate::install_python(version) 8. └─reticulate:::stopf("installation of Python %s failed", version) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'orthosIntro.Rmd' failed with diagnostics: installation of Python 3.12 failed --- failed re-building ‘orthosIntro.Rmd’ SUMMARY: processing the following file failed: ‘orthosIntro.Rmd’ Error: Vignette re-building failed. Execution halted