##############################################################################
##############################################################################
###
### Running command:
###
###   chmod a+r cfTools -R && F:\biocbuild\bbs-3.22-bioc\R\bin\R.exe --arch x64 CMD build --keep-empty-dirs --no-resave-data cfTools
###
##############################################################################
##############################################################################


* checking for file 'cfTools/DESCRIPTION' ... OK
* preparing 'cfTools':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'cfTools-vignette.Rmd' using rmarkdown


2025-08-14 19:05:30.606514: W tensorflow/stream_executor/platform/default/dso_loader.cc:64] Could not load dynamic library 'cudart64_110.dll'; dlerror: cudart64_110.dll not found
2025-08-14 19:05:30.606891: I tensorflow/stream_executor/cuda/cudart_stub.cc:29] Ignore above cudart dlerror if you do not have a GPU set up on your machine.
C:\Users\BIOCBU~1\AppData\Local\R-RETI~1\R-RETI~1\pyenv\PYENV-~1\versions\381406~1.10\python.exe: can't open file 'PYTHONWARNINGS=ignore': [Errno 2] No such file or directory
C:\Users\BIOCBU~1\AppData\Local\R-RETI~1\R-RETI~1\pyenv\PYENV-~1\versions\381406~1.10\python.exe: can't open file 'PYTHONWARNINGS=ignore': [Errno 2] No such file or directory

Quitting from cfTools-vignette.Rmd:403-406 [unnamed-chunk-17]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `file()`:
! cannot open the connection
---
Backtrace:
    ▆
 1. └─cfTools::cfSort(fragMethInfo, id = "demo")
 2.   └─utils::read.csv(tissue.composition.1, header = FALSE, sep = "\t")
 3.     └─utils::read.table(...)
 4.       └─base::file(file, "rt")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'cfTools-vignette.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building 'cfTools-vignette.Rmd'

SUMMARY: processing the following file failed:
  'cfTools-vignette.Rmd'

Error: Vignette re-building failed.
Execution halted