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This page was generated on 2025-10-27 12:45 -0400 (Mon, 27 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4637 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 329/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| cfTools 1.9.0 (landing page) Ran Hu
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | ||||||||
|
To the developers/maintainers of the cfTools package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cfTools.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: cfTools |
| Version: 1.9.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data cfTools |
| StartedAt: 2025-10-26 15:54:55 -0400 (Sun, 26 Oct 2025) |
| EndedAt: 2025-10-26 16:00:38 -0400 (Sun, 26 Oct 2025) |
| EllapsedTime: 342.7 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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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 cfTools
###
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* 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
python-build: use openssl from homebrew
python-build: use readline from homebrew
Downloading Python-3.8.20.tar.xz...
-> https://www.python.org/ftp/python/3.8.20/Python-3.8.20.tar.xz
error: failed to download Python-3.8.20.tar.xz
BUILD FAILED (OS X 13.7.7 using python-build 2.6.11-2-g1b7d2f0)
Results logged to /var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/python-build.20251026160017.73094.log
Last 10 log lines:
/var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/python-build.20251026160017.73094 /private/var/folders/r0/l4fjk6cj5xj0j3brt4bplpl40000gt/T/RtmpD1JssV/Rbuildab116735dd7c/cfTools/vignettes
curl: (35) LibreSSL SSL_connect: SSL_ERROR_SYSCALL in connection to www.python.org:443
Quitting from cfTools-vignette.Rmd:172-175 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! installation of Python 3.8 failed
---
Backtrace:
▆
1. └─cfTools::MergePEReads(PEReads)
2. └─basilisk::basiliskStart(my_env)
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 'cfTools-vignette.Rmd' failed with diagnostics:
installation of Python 3.8 failed
--- failed re-building ‘cfTools-vignette.Rmd’
SUMMARY: processing the following file failed:
‘cfTools-vignette.Rmd’
Error: Vignette re-building failed.
Execution halted