Back to Multiple platform build/check report for BioC 3.22:   simplified   long
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This page was generated on 2025-11-01 12:03 -0400 (Sat, 01 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4901
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4691
kjohnson3macOS 13.7.7 Venturaarm644.5.1 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 143/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
basilisk 1.22.0  (landing page)
Aaron Lun
Snapshot Date: 2025-10-31 13:45 -0400 (Fri, 31 Oct 2025)
git_url: https://git.bioconductor.org/packages/basilisk
git_branch: RELEASE_3_22
git_last_commit: 18be55f
git_last_commit_date: 2025-10-29 10:56:48 -0400 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for basilisk on lconway

To the developers/maintainers of the basilisk package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/basilisk.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.

raw results


Summary

Package: basilisk
Version: 1.22.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:basilisk.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings basilisk_1.22.0.tar.gz
StartedAt: 2025-10-31 19:39:36 -0400 (Fri, 31 Oct 2025)
EndedAt: 2025-10-31 19:50:32 -0400 (Fri, 31 Oct 2025)
EllapsedTime: 656.5 seconds
RetCode: 0
Status:   OK  
CheckDir: basilisk.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:basilisk.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings basilisk_1.22.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/basilisk.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘basilisk/DESCRIPTION’ ... OK
* this is package ‘basilisk’ version ‘1.22.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
  inst/example/.BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘basilisk’ can be installed ... NOTE
Found the following notes/warnings:
  Non-staged installation was used
See ‘/Users/biocbuild/bbs-3.22-bioc/meat/basilisk.Rcheck/00install.out’ for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                         user system elapsed
basiliskStart          41.339 11.710  86.344
createLocalBasiliskEnv 19.851  5.285  70.527
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.22-bioc/meat/basilisk.Rcheck/00check.log’
for details.

Installation output

basilisk.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL basilisk
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’
* installing *source* package ‘basilisk’ ...
** this is package ‘basilisk’ version ‘1.22.0’
** using non-staged installation via StagedInstall field
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (basilisk)

Tests output

basilisk.Rcheck/tests/testthat.Rout


R version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(basilisk)
Loading required package: reticulate
> test_check("basilisk")
Using Python: /Users/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment 'install-test-client/my_package_A' ... 
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in ./install-test-client/my_package_A/lib/python3.12/site-packages (25.0.1)
Collecting pip
  Using cached pip-25.3-py3-none-any.whl.metadata (4.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
  Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Using cached pip-25.3-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-80.9.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: pip
    Found existing installation: pip 25.0.1
    Uninstalling pip-25.0.1:
      Successfully uninstalled pip-25.0.1
Successfully installed pip-25.3 setuptools-80.9.0 wheel-0.45.1
Installing packages: 'pandas==2.2.3', 'python-dateutil==2.8.2', 'pytz==2024.1'
Collecting pandas==2.2.3
  Using cached pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl.metadata (89 kB)
Collecting python-dateutil==2.8.2
  Using cached python_dateutil-2.8.2-py2.py3-none-any.whl.metadata (8.2 kB)
Collecting pytz==2024.1
  Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
Collecting numpy>=1.26.0 (from pandas==2.2.3)
  Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
  Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB)
Collecting six>=1.5 (from python-dateutil==2.8.2)
  Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
Using cached pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl (12.5 MB)
Using cached python_dateutil-2.8.2-py2.py3-none-any.whl (247 kB)
Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl (21.0 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas

Successfully installed numpy-2.3.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2025.2
Virtual environment 'install-test-client/my_package_A' successfully created.
Using Python: /Users/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment 'install-test-client/my_package_B' ... 
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in ./install-test-client/my_package_B/lib/python3.12/site-packages (25.0.1)
Collecting pip
  Using cached pip-25.3-py3-none-any.whl.metadata (4.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
  Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Using cached pip-25.3-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-80.9.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: pip
    Found existing installation: pip 25.0.1
    Uninstalling pip-25.0.1:
      Successfully uninstalled pip-25.0.1
Successfully installed pip-25.3 setuptools-80.9.0 wheel-0.45.1
Installing packages: 'pandas==2.2.2', 'python-dateutil==2.8.2', 'pytz==2023.4'
Collecting pandas==2.2.2
  Using cached pandas-2.2.2-cp312-cp312-macosx_10_9_x86_64.whl.metadata (19 kB)
Collecting python-dateutil==2.8.2
  Using cached python_dateutil-2.8.2-py2.py3-none-any.whl.metadata (8.2 kB)
Collecting pytz==2023.4
  Using cached pytz-2023.4-py2.py3-none-any.whl.metadata (22 kB)
Collecting numpy>=1.26.0 (from pandas==2.2.2)
  Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.2)
  Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB)
Collecting six>=1.5 (from python-dateutil==2.8.2)
  Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
Using cached pandas-2.2.2-cp312-cp312-macosx_10_9_x86_64.whl (12.5 MB)
Using cached python_dateutil-2.8.2-py2.py3-none-any.whl (247 kB)
Using cached pytz-2023.4-py2.py3-none-any.whl (506 kB)
Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl (21.0 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas

Successfully installed numpy-2.3.4 pandas-2.2.2 python-dateutil-2.8.2 pytz-2023.4 six-1.17.0 tzdata-2025.2
Virtual environment 'install-test-client/my_package_B' successfully created.
Using Python: /Users/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment '/Users/biocbuild/bbs-3.22-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.22.0' ... 
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in ./install-test-client/locality/1.22.0/lib/python3.12/site-packages (25.0.1)
Collecting pip
  Using cached pip-25.3-py3-none-any.whl.metadata (4.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
  Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Using cached pip-25.3-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-80.9.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: pip
    Found existing installation: pip 25.0.1
    Uninstalling pip-25.0.1:
      Successfully uninstalled pip-25.0.1
Successfully installed pip-25.3 setuptools-80.9.0 wheel-0.45.1
Installing packages: 'pandas==2.2.3', 'python-dateutil==2.8.2', 'pytz==2024.1'
Collecting pandas==2.2.3
  Using cached pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl.metadata (89 kB)
Collecting python-dateutil==2.8.2
  Using cached python_dateutil-2.8.2-py2.py3-none-any.whl.metadata (8.2 kB)
Collecting pytz==2024.1
  Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
Collecting numpy>=1.26.0 (from pandas==2.2.3)
  Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
  Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB)
Collecting six>=1.5 (from python-dateutil==2.8.2)
  Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
Using cached pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl (12.5 MB)
Using cached python_dateutil-2.8.2-py2.py3-none-any.whl (247 kB)
Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl (21.0 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas

Successfully installed numpy-2.3.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2025.2
Virtual environment '/Users/biocbuild/bbs-3.22-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.22.0' successfully created.
Using Python: /Users/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment '/tmp/RtmpmsKeI2/file16e6c123049d0/1.22.0/basilisk/1.22.0/test' ... 
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in /private/tmp/RtmpmsKeI2/file16e6c123049d0/1.22.0/basilisk/1.22.0/test/lib/python3.12/site-packages (25.0.1)
Collecting pip
  Using cached pip-25.3-py3-none-any.whl.metadata (4.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
  Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Using cached pip-25.3-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-80.9.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: pip
    Found existing installation: pip 25.0.1
    Uninstalling pip-25.0.1:
      Successfully uninstalled pip-25.0.1
Successfully installed pip-25.3 setuptools-80.9.0 wheel-0.45.1
Installing packages: 'pandas==2.2.3'
Collecting pandas==2.2.3
  Using cached pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl.metadata (89 kB)
Collecting numpy>=1.26.0 (from pandas==2.2.3)
  Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl.metadata (62 kB)
Collecting python-dateutil>=2.8.2 (from pandas==2.2.3)
  Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl.metadata (8.4 kB)
Collecting pytz>=2020.1 (from pandas==2.2.3)
  Using cached pytz-2025.2-py2.py3-none-any.whl.metadata (22 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
  Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB)
Collecting six>=1.5 (from python-dateutil>=2.8.2->pandas==2.2.3)
  Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
Using cached pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl (12.5 MB)
Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl (21.0 MB)
Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
Using cached pytz-2025.2-py2.py3-none-any.whl (509 kB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas

Successfully installed numpy-2.3.4 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2025.2 six-1.17.0 tzdata-2025.2
Virtual environment '/tmp/RtmpmsKeI2/file16e6c123049d0/1.22.0/basilisk/1.22.0/test' successfully created.
* installing *source* package ‘son.of.basilisk’ ...
** this is package ‘son.of.basilisk’ version ‘0.99.0’
** using non-staged installation via StagedInstall field
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (son.of.basilisk)
Using Python: /Users/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment 'install-test-client/thingo' ... 
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in ./install-test-client/thingo/lib/python3.12/site-packages (25.0.1)
Collecting pip
  Using cached pip-25.3-py3-none-any.whl.metadata (4.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
  Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Using cached pip-25.3-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-80.9.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: pip
    Found existing installation: pip 25.0.1
    Uninstalling pip-25.0.1:
      Successfully uninstalled pip-25.0.1
Successfully installed pip-25.3 setuptools-80.9.0 wheel-0.45.1
Installing packages: 'pandas==2.2.3', 'python-dateutil==2.8.2', 'pytz==2024.1'
Collecting pandas==2.2.3
  Using cached pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl.metadata (89 kB)
Collecting python-dateutil==2.8.2
  Using cached python_dateutil-2.8.2-py2.py3-none-any.whl.metadata (8.2 kB)
Collecting pytz==2024.1
  Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
Collecting numpy>=1.26.0 (from pandas==2.2.3)
  Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
  Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB)
Collecting six>=1.5 (from python-dateutil==2.8.2)
  Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
Using cached pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl (12.5 MB)
Using cached python_dateutil-2.8.2-py2.py3-none-any.whl (247 kB)
Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl (21.0 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas

Successfully installed numpy-2.3.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2025.2
Virtual environment 'install-test-client/thingo' successfully created.
Using Python: /Users/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment 'install-test-client/thingo' ... 
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in ./install-test-client/thingo/lib/python3.12/site-packages (25.0.1)
Collecting pip
  Using cached pip-25.3-py3-none-any.whl.metadata (4.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
  Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Using cached pip-25.3-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-80.9.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: pip
    Found existing installation: pip 25.0.1
    Uninstalling pip-25.0.1:
      Successfully uninstalled pip-25.0.1
Successfully installed pip-25.3 setuptools-80.9.0 wheel-0.45.1
Installing packages: 'pandas==2.2.2', 'python-dateutil==2.8.2', 'pytz==2023.4'
Collecting pandas==2.2.2
  Using cached pandas-2.2.2-cp312-cp312-macosx_10_9_x86_64.whl.metadata (19 kB)
Collecting python-dateutil==2.8.2
  Using cached python_dateutil-2.8.2-py2.py3-none-any.whl.metadata (8.2 kB)
Collecting pytz==2023.4
  Using cached pytz-2023.4-py2.py3-none-any.whl.metadata (22 kB)
Collecting numpy>=1.26.0 (from pandas==2.2.2)
  Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.2)
  Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB)
Collecting six>=1.5 (from python-dateutil==2.8.2)
  Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
Using cached pandas-2.2.2-cp312-cp312-macosx_10_9_x86_64.whl (12.5 MB)
Using cached python_dateutil-2.8.2-py2.py3-none-any.whl (247 kB)
Using cached pytz-2023.4-py2.py3-none-any.whl (506 kB)
Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl (21.0 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas

Successfully installed numpy-2.3.4 pandas-2.2.2 python-dateutil-2.8.2 pytz-2023.4 six-1.17.0 tzdata-2025.2
Virtual environment 'install-test-client/thingo' successfully created.
Using Python: /Users/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment 'install-test-client/thingo' ... 
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in ./install-test-client/thingo/lib/python3.12/site-packages (25.0.1)
Collecting pip
  Using cached pip-25.3-py3-none-any.whl.metadata (4.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
  Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Using cached pip-25.3-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-80.9.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: pip
    Found existing installation: pip 25.0.1
    Uninstalling pip-25.0.1:
      Successfully uninstalled pip-25.0.1
Successfully installed pip-25.3 setuptools-80.9.0 wheel-0.45.1
Virtual environment 'install-test-client/thingo' successfully created.
Processing /Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library/basilisk/example/inst/test_dummy
  Installing build dependencies: started
  Installing build dependencies: finished with status 'done'
  Getting requirements to build wheel: started
  Getting requirements to build wheel: finished with status 'done'
  Preparing metadata (pyproject.toml): started
  Preparing metadata (pyproject.toml): finished with status 'done'
Building wheels for collected packages: test_dummy
  Building wheel for test_dummy (pyproject.toml): started
  Building wheel for test_dummy (pyproject.toml): finished with status 'done'
  Created wheel for test_dummy: filename=test_dummy-0.1-py3-none-any.whl size=1312 sha256=effb392e70e0028f603e11fa3ed88ea3c9cb09661ae817a9919fc6cdf922f12d
  Stored in directory: /private/tmp/pip-ephem-wheel-cache-dinl0yle/wheels/86/b2/c4/5767c45b04c9771c703581b7e406e45815abc591f667de76a3
Successfully built test_dummy
Installing collected packages: test_dummy
Successfully installed test_dummy-0.1
Using Python: /Users/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment 'install-test-client/thingo' ... 
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in ./install-test-client/thingo/lib/python3.12/site-packages (25.0.1)
Collecting pip
  Using cached pip-25.3-py3-none-any.whl.metadata (4.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
  Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Using cached pip-25.3-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-80.9.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: pip
    Found existing installation: pip 25.0.1
    Uninstalling pip-25.0.1:
      Successfully uninstalled pip-25.0.1
Successfully installed pip-25.3 setuptools-80.9.0 wheel-0.45.1
Installing packages: 'WHHEEEEEEEEEEEEEEEEEE==0.0.1'
ERROR: Could not find a version that satisfies the requirement WHHEEEEEEEEEEEEEEEEEE==0.0.1 (from versions: none)
ERROR: No matching distribution found for WHHEEEEEEEEEEEEEEEEEE==0.0.1
Using Python: /Users/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment 'install-test-client/thingo' ... 
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in ./install-test-client/thingo/lib/python3.12/site-packages (25.0.1)
Collecting pip
  Using cached pip-25.3-py3-none-any.whl.metadata (4.7 kB)
Collecting wheel
  Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
  Using cached setuptools-80.9.0-py3-none-any.whl.metadata (6.6 kB)
Using cached pip-25.3-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-80.9.0-py3-none-any.whl (1.2 MB)
Installing collected packages: wheel, setuptools, pip
  Attempting uninstall: pip
    Found existing installation: pip 25.0.1
    Uninstalling pip-25.0.1:
      Successfully uninstalled pip-25.0.1
Successfully installed pip-25.3 setuptools-80.9.0 wheel-0.45.1
Installing packages: 'pandas==2.2.3', 'python-dateutil==2.8.2', 'pytz==2024.1'
Collecting pandas==2.2.3
  Using cached pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl.metadata (89 kB)
Collecting python-dateutil==2.8.2
  Using cached python_dateutil-2.8.2-py2.py3-none-any.whl.metadata (8.2 kB)
Collecting pytz==2024.1
  Using cached pytz-2024.1-py2.py3-none-any.whl.metadata (22 kB)
Collecting numpy>=1.26.0 (from pandas==2.2.3)
  Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
  Using cached tzdata-2025.2-py2.py3-none-any.whl.metadata (1.4 kB)
Collecting six>=1.5 (from python-dateutil==2.8.2)
  Using cached six-1.17.0-py2.py3-none-any.whl.metadata (1.7 kB)
Using cached pandas-2.2.3-cp312-cp312-macosx_10_9_x86_64.whl (12.5 MB)
Using cached python_dateutil-2.8.2-py2.py3-none-any.whl (247 kB)
Using cached pytz-2024.1-py2.py3-none-any.whl (505 kB)
Using cached numpy-2.3.4-cp312-cp312-macosx_10_13_x86_64.whl (21.0 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.2-py2.py3-none-any.whl (347 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas

Successfully installed numpy-2.3.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2025.2
Virtual environment 'install-test-client/thingo' successfully created.
[ FAIL 0 | WARN 0 | SKIP 1 | PASS 60 ]

══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• On Mac (1): 'test-setupBasiliskEnv.R:32:5'

[ FAIL 0 | WARN 0 | SKIP 1 | PASS 60 ]
> 
> proc.time()
   user  system elapsed 
249.074  71.914 426.748

Example timings

basilisk.Rcheck/basilisk-Ex.timings

nameusersystemelapsed
BasiliskEnvironment-class0.0030.0000.004
PyPiLink0.0010.0000.001
basiliskOptions0.0010.0010.001
basiliskStart41.33911.71086.344
clearExternalDir0.0000.0000.001
configureBasiliskEnv0.0010.0000.001
createLocalBasiliskEnv19.851 5.28570.527
getBinaries0.0000.0000.001
getExternalDir000
getSystemDir0.0000.0000.001
listPackages0.3440.0910.476
lockExternalDir0.0030.0010.005
obtainEnvironmentPath0.0010.0000.002
platform000
setupBasiliskEnv000
useBasiliskEnv0.2630.0550.242