##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data OSTA
###
##############################################################################
##############################################################################


* checking for file ‘OSTA/DESCRIPTION’ ... OK
* preparing ‘OSTA’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘stub.Rmd’ using rmarkdown
--- finished re-building ‘stub.Rmd’

quarto render ../inst/

[ 1/43] index.qmd


processing file: index.qmd
1/4 [unnamed-chunk-1]
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3/4 [carousel]       
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output file: index.knit.md


[ 2/43] pages/bkg-introduction.qmd


processing file: bkg-introduction.qmd
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output file: bkg-introduction.knit.md


[ 3/43] pages/bkg-spatial-omics.qmd


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output file: bkg-spatial-omics.knit.md


[ 4/43] pages/bkg-infrastructure.qmd


processing file: bkg-infrastructure.qmd
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output file: bkg-infrastructure.knit.md


[ 5/43] pages/bkg-ecosystem.qmd


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2026-03-06 06:47:58.601 R[2922:28151823] XType: Using static font registry.
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output file: bkg-ecosystem.knit.md


[ 6/43] pages/bkg-importing-data.qmd


processing file: bkg-importing-data.qmd
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output file: bkg-importing-data.knit.md


[ 7/43] pages/bkg-example-datasets.qmd


processing file: bkg-example-datasets.qmd
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9/13                      
10/13 [clean-biocfilecache]
11/13                      
12/13 [unnamed-chunk-2]    
13/13                      
output file: bkg-example-datasets.knit.md

Warning: stack imbalance in 'vapply', 24 then 26
Warning: stack imbalance in 'vapply', 10 then 12

[ 8/43] pages/bkg-python-interoperability.qmd


processing file: bkg-python-interoperability.qmd
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10/41 [venv]           
python-build: use openssl from homebrew
python-build: use readline from homebrew
Downloading Python-3.8.18.tar.xz...
-> https://www.python.org/ftp/python/3.8.18/Python-3.8.18.tar.xz
Installing Python-3.8.18...
python-build: use readline from homebrew
python-build: use ncurses from homebrew
python-build: use zlib from xcode sdk

BUILD FAILED (OS X 13.7.8 using python-build 2.6.25-1-g23bcdeb)

Inspect or clean up the working tree at /tmp/python-build.20260306064859.5007
Results logged to /tmp/python-build.20260306064859.5007.log

Last 10 log lines:
checking for a thread-safe mkdir -p... ./install-sh -c -d
checking for --with-pydebug... no
checking for --with-trace-refs... no
checking for --with-assertions... no
checking for --enable-optimizations... yes
checking PROFILE_TASK... -m test --pgo
checking for --with-lto... yes
checking for llvm-ar... no
configure: error: llvm-ar is required for a --with-lto build with clang but could not be found.
make[1]: *** No targets specified and no makefile found.  Stop.
Error:
! installation of Python 3.8.18 failed
Backtrace:
    ▆
 1. └─reticulate::install_python(version = ver <- "3.8.18")
 2.   └─reticulate:::stopf("installation of Python %s failed", version)

Quitting from bkg-python-interoperability.qmd:85-90 [venv]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! installation of Python 3.8.18 failed
---
Backtrace:
    ▆
 1. └─reticulate::install_python(version = ver <- "3.8.18")
 2.   └─reticulate:::stopf("installation of Python %s failed", version)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Execution halted
make: *** [render] Error 1
Error in tools::buildVignettes(dir = ".", tangle = TRUE) : 
  running 'make' failed
Execution halted