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###
### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data StatescopeR
###
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* checking for file ‘StatescopeR/DESCRIPTION’ ... OK
* preparing ‘StatescopeR’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘StatescopeR.Rmd’ using rmarkdown
python-build: use openssl from homebrew
python-build: use readline from homebrew
Downloading Python-3.6.15.tar.xz...
-> https://www.python.org/ftp/python/3.6.15/Python-3.6.15.tar.xz
Installing Python-3.6.15...
patching file configure
patching file configure.ac
patching file 'Misc/NEWS.d/next/macOS/2019-06-03-05-49-49.bpo-36231.RfmW_p.rst'
patching file setup.py
patching file setup.py
patching file 'Doc/library/ctypes.rst'
patching file 'Lib/test/test_unicode.py'
patching file 'Modules/_ctypes/_ctypes.c'
patching file 'Modules/_ctypes/callproc.c'
patching file 'Modules/_ctypes/ctypes.h'
patching file setup.py
patching file 'Misc/NEWS.d/next/macOS/2020-06-24-13-51-57.bpo-41100.mcHdc5.rst'
patching file configure
patching file configure.ac
patching file 'Misc/NEWS.d/next/Core and Builtins/2020-06-30-04-44-29.bpo-41100.PJwA6F.rst'
patching file 'Modules/_decimal/libmpdec/mpdecimal.h'
patching file setup.py
patching file 'Misc/NEWS.d/next/Build/2021-10-11-16-27-38.bpo-45405.iSfdW5.rst'
patching file configure
patching file configure.ac
patching file 'Misc/NEWS.d/next/Core and Builtins/2019-04-16-11-52-21.bpo-27987.n2_DcQ.rst'
patching file 'Objects/obmalloc.c'
patching file 'Include/objimpl.h'
patching file 'Misc/NEWS.d/next/Core and Builtins/2019-05-15-18-28-43.bpo-27987.FaxuLy.rst'
patching file 'Misc/NEWS.d/next/Library/2019-02-25-13-21-43.bpo-36106.VuhEiQ.rst'
patching file 'Modules/mathmodule.c'
python-build: use tcl-tk from homebrew
python-build: use readline from homebrew
python-build: use zlib from xcode sdk

BUILD FAILED (OS X 13.7.8 using python-build 2.6.14)

Inspect or clean up the working tree at /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/python-build.20251202175124.53625
Results logged to /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/python-build.20251202175124.53625.log

Last 10 log lines:
checking for a thread-safe mkdir -p... ./install-sh -c -d
checking for --with-pydebug... no
checking for --with-assertions... no
checking for --enable-optimizations... yes
checking for --with-lto... yes
checking target system type... arm-apple-darwin22.6.0
checking for -llvm-ar... no
checking for llvm-ar... ''
configure: error: llvm-ar is required for a --with-lto build with clang but could not be found.
make: *** No targets specified and no makefile found.  Stop.

Quitting from StatescopeR.Rmd:125-152 [Prepare StatescopeR input]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! installation of Python 3.6 failed
---
Backtrace:
    ▆
 1. └─StatescopeR::select_genes(scRNAseq, 3L, 5L, labels = scRNAseq$`cell type`)
 2.   └─basilisk::basiliskStart(autogenes, testload = c("autogenes"))
 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 'StatescopeR.Rmd' failed with diagnostics:
installation of Python 3.6 failed
--- failed re-building ‘StatescopeR.Rmd’

SUMMARY: processing the following file failed:
  ‘StatescopeR.Rmd’

Error: Vignette re-building failed.
Execution halted