Aaron Lun
| Snapshot Date: 2026-05-05 13:45 -0400 (Tue, 05 May 2026) |
| git_url: https://git.bioconductor.org/packages/basilisk |
| git_branch: devel |
| git_last_commit: 33507d8 |
| git_last_commit_date: 2026-04-28 08:51:49 -0400 (Tue, 28 Apr 2026) |
| Back to Multiple platform build/check report for BioC 3.24: simplified long |
|
This page was generated on 2026-05-06 11:34 -0400 (Wed, 06 May 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-17 r89917) -- "Because it was There" | 4878 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4663 |
| 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 142/2366 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| basilisk 1.25.0 (landing page) Aaron Lun
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
| See other builds for basilisk in R Universe. | ||||||||||||||
|
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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: basilisk |
| Version: 1.25.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:basilisk.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings basilisk_1.25.0.tar.gz |
| StartedAt: 2026-05-05 07:22:51 -0000 (Tue, 05 May 2026) |
| EndedAt: 2026-05-05 07:32:22 -0000 (Tue, 05 May 2026) |
| EllapsedTime: 570.7 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: basilisk.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:basilisk.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings basilisk_1.25.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.24-bioc/meat/basilisk.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘basilisk/DESCRIPTION’ ... OK
* this is package ‘basilisk’ version ‘1.25.0’
* 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 ‘/home/biocbuild/bbs-3.24-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 loading without being on the library search path ... 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 38.638 3.113 85.766
createLocalBasiliskEnv 19.239 1.721 25.395
* 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
‘/home/biocbuild/bbs-3.24-bioc/meat/basilisk.Rcheck/00check.log’
for details.
basilisk.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL basilisk ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’ * installing *source* package ‘basilisk’ ... ** this is package ‘basilisk’ version ‘1.25.0’ ** 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)
basilisk.Rcheck/tests/testthat.Rout
R version 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu
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: /home/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-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
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-manylinux2014_aarch64.manylinux_2_17_aarch64.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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl.metadata (6.6 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2026.2-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-manylinux2014_aarch64.manylinux_2_17_aarch64.whl (15.2 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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl (15.7 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2026.2-py2.py3-none-any.whl (349 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.4.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2026.2
Virtual environment 'install-test-client/my_package_A' successfully created.
Using Python: /home/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-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
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-manylinux_2_17_aarch64.manylinux2014_aarch64.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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl.metadata (6.6 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.2)
Using cached tzdata-2026.2-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-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (15.2 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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl (15.7 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2026.2-py2.py3-none-any.whl (349 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.4.4 pandas-2.2.2 python-dateutil-2.8.2 pytz-2023.4 six-1.17.0 tzdata-2026.2
Virtual environment 'install-test-client/my_package_B' successfully created.
Using Python: /home/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment '/home/biocbuild/bbs-3.24-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.25.0' ...
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in ./install-test-client/locality/1.25.0/lib/python3.12/site-packages (25.0.1)
Collecting pip
Using cached pip-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
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-manylinux2014_aarch64.manylinux_2_17_aarch64.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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl.metadata (6.6 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2026.2-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-manylinux2014_aarch64.manylinux_2_17_aarch64.whl (15.2 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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl (15.7 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2026.2-py2.py3-none-any.whl (349 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.4.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2026.2
Virtual environment '/home/biocbuild/bbs-3.24-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.25.0' successfully created.
Using Python: /home/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment '/home/biocbuild/tmp/RtmppmJ3F2/file3b6a2c75bf9706/1.25.0/basilisk/1.25.0/test' ...
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in /home/biocbuild/tmp/RtmppmJ3F2/file3b6a2c75bf9706/1.25.0/basilisk/1.25.0/test/lib/python3.12/site-packages (25.0.1)
Collecting pip
Using cached pip-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
Installing packages: 'pandas==2.2.3'
Collecting pandas==2.2.3
Using cached pandas-2.2.3-cp312-cp312-manylinux2014_aarch64.manylinux_2_17_aarch64.whl.metadata (89 kB)
Collecting numpy>=1.26.0 (from pandas==2.2.3)
Using cached numpy-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl.metadata (6.6 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-2026.2-py2.py3-none-any.whl.metadata (22 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2026.2-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-manylinux2014_aarch64.manylinux_2_17_aarch64.whl (15.2 MB)
Using cached numpy-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl (15.7 MB)
Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
Using cached pytz-2026.2-py2.py3-none-any.whl (510 kB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2026.2-py2.py3-none-any.whl (349 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.4.4 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2026.2 six-1.17.0 tzdata-2026.2
Virtual environment '/home/biocbuild/tmp/RtmppmJ3F2/file3b6a2c75bf9706/1.25.0/basilisk/1.25.0/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: /home/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment '/home/biocbuild/.cache/R/basilisk/1.25.0/son.of.basilisk/0.99.0/env1' ...
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in /home/biocbuild/.cache/R/basilisk/1.25.0/son.of.basilisk/0.99.0/env1/lib/python3.12/site-packages (25.0.1)
Collecting pip
Using cached pip-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
Installing packages: 'pandas==2.2.3'
Collecting pandas==2.2.3
Using cached pandas-2.2.3-cp312-cp312-manylinux2014_aarch64.manylinux_2_17_aarch64.whl.metadata (89 kB)
Collecting numpy>=1.26.0 (from pandas==2.2.3)
Using cached numpy-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl.metadata (6.6 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-2026.2-py2.py3-none-any.whl.metadata (22 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2026.2-py2.py3-none-any.whl.metadata (1.4 kB)
Collecting six>=1.5 (from python-dateutil>=2.8.2->pandas==2.2.3)
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Using cached pandas-2.2.3-cp312-cp312-manylinux2014_aarch64.manylinux_2_17_aarch64.whl (15.2 MB)
Using cached numpy-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl (15.7 MB)
Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
Using cached pytz-2026.2-py2.py3-none-any.whl (510 kB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2026.2-py2.py3-none-any.whl (349 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.4.4 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2026.2 six-1.17.0 tzdata-2026.2
Virtual environment '/home/biocbuild/.cache/R/basilisk/1.25.0/son.of.basilisk/0.99.0/env1' successfully created.
Using Python: /home/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment '/home/biocbuild/.cache/R/basilisk/1.25.0/son.of.basilisk/0.99.0/env2' ...
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in /home/biocbuild/.cache/R/basilisk/1.25.0/son.of.basilisk/0.99.0/env2/lib/python3.12/site-packages (25.0.1)
Collecting pip
Using cached pip-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
Installing packages: 'scikit-learn==1.6.1'
Collecting scikit-learn==1.6.1
Using cached scikit_learn-1.6.1-cp312-cp312-manylinux_2_17_aarch64.manylinux2014_aarch64.whl.metadata (18 kB)
Collecting numpy>=1.19.5 (from scikit-learn==1.6.1)
Using cached numpy-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl.metadata (6.6 kB)
Collecting scipy>=1.6.0 (from scikit-learn==1.6.1)
Using cached scipy-1.17.1-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl.metadata (62 kB)
Collecting joblib>=1.2.0 (from scikit-learn==1.6.1)
Using cached joblib-1.5.3-py3-none-any.whl.metadata (5.5 kB)
Collecting threadpoolctl>=3.1.0 (from scikit-learn==1.6.1)
Using cached threadpoolctl-3.6.0-py3-none-any.whl.metadata (13 kB)
Using cached scikit_learn-1.6.1-cp312-cp312-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (12.3 MB)
Using cached joblib-1.5.3-py3-none-any.whl (309 kB)
Using cached numpy-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl (15.7 MB)
Using cached scipy-1.17.1-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl (32.9 MB)
Using cached threadpoolctl-3.6.0-py3-none-any.whl (18 kB)
Installing collected packages: threadpoolctl, numpy, joblib, scipy, scikit-learn
Successfully installed joblib-1.5.3 numpy-2.4.4 scikit-learn-1.6.1 scipy-1.17.1 threadpoolctl-3.6.0
Virtual environment '/home/biocbuild/.cache/R/basilisk/1.25.0/son.of.basilisk/0.99.0/env2' successfully created.
Using Python: /home/biocbuild/.pyenv/versions/3.12.10/bin/python3.12
Creating virtual environment '/home/biocbuild/.cache/R/basilisk/1.25.0/son.of.basilisk/0.99.0/env3' ...
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in /home/biocbuild/.cache/R/basilisk/1.25.0/son.of.basilisk/0.99.0/env3/lib/python3.12/site-packages (25.0.1)
Collecting pip
Using cached pip-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
Virtual environment '/home/biocbuild/.cache/R/basilisk/1.25.0/son.of.basilisk/0.99.0/env3' successfully created.
Processing /home/biocbuild/tmp/RtmppmJ3F2/Rlib.3b6a2c2d91a389/son.of.basilisk/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=6a799e85f06227c431055c3e8aa601a1eb4021aea958ed72606c316b7cdd8e5b
Stored in directory: /home/biocbuild/tmp/pip-ephem-wheel-cache-hrzwdnf8/wheels/3c/52/73/23b0dae2c0fac4304aa76a5bdb26d2977806ff2172c69dfd55
Successfully built test_dummy
Installing collected packages: test_dummy
Successfully installed test_dummy-0.1
Using Python: /home/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-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
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-manylinux2014_aarch64.manylinux_2_17_aarch64.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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl.metadata (6.6 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2026.2-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-manylinux2014_aarch64.manylinux_2_17_aarch64.whl (15.2 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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl (15.7 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2026.2-py2.py3-none-any.whl (349 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.4.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2026.2
Virtual environment 'install-test-client/thingo' successfully created.
Using Python: /home/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-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
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-manylinux_2_17_aarch64.manylinux2014_aarch64.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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl.metadata (6.6 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.2)
Using cached tzdata-2026.2-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-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (15.2 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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl (15.7 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2026.2-py2.py3-none-any.whl (349 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.4.4 pandas-2.2.2 python-dateutil-2.8.2 pytz-2023.4 six-1.17.0 tzdata-2026.2
Virtual environment 'install-test-client/thingo' successfully created.
Using Python: /home/biocbuild/.pyenv/versions/2.7.18/bin/python2.7
Creating virtual environment 'install-test-client/thingo' ...
created virtual environment CPython2.7.18.final.0-64 in 944ms
creator CPython2Posix(dest=/home/biocbuild/bbs-3.24-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo, clear=False, no_vcs_ignore=False, global=False)
seeder FromAppData(download=False, pip=bundle, wheel=bundle, setuptools=bundle, via=copy, app_data_dir=/home/biocbuild/.local/share/virtualenv)
added seed packages: pip==20.3.4, setuptools==44.1.1, wheel==0.37.1
activators NushellActivator,PythonActivator,FishActivator,CShellActivator,PowerShellActivator,BashActivator
Done!
Installing packages: pip, wheel, setuptools
DEPRECATION: Python 2.7 reached the end of its life on January 1st, 2020. Please upgrade your Python as Python 2.7 is no longer maintained. pip 21.0 will drop support for Python 2.7 in January 2021. More details about Python 2 support in pip can be found at https://pip.pypa.io/en/latest/development/release-process/#python-2-support pip 21.0 will remove support for this functionality.
Requirement already up-to-date: pip in ./install-test-client/thingo/lib/python2.7/site-packages (20.3.4)
Requirement already up-to-date: wheel in ./install-test-client/thingo/lib/python2.7/site-packages (0.37.1)
Requirement already up-to-date: setuptools in ./install-test-client/thingo/lib/python2.7/site-packages (44.1.1)
Virtual environment 'install-test-client/thingo' successfully created.
Using Python: /home/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-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
Virtual environment 'install-test-client/thingo' successfully created.
Processing /home/biocbuild/R/R-4.5.0/site-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=56d62c1195f53cd2c9477f91bf9dde4c4d5114a7b9ac732589b0020bbb0fa306
Stored in directory: /home/biocbuild/tmp/pip-ephem-wheel-cache-ospaxlro/wheels/22/4a/1e/6dadffedac009690a064fbcec1a2d4d1fa0fe3efca57c8b8c3
Successfully built test_dummy
Installing collected packages: test_dummy
Successfully installed test_dummy-0.1
Using Python: /home/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-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
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: /home/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-26.1.1-py3-none-any.whl.metadata (4.6 kB)
Collecting wheel
Using cached wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
Collecting packaging>=24.0 (from wheel)
Using cached packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
Using cached pip-26.1.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.47.0-py3-none-any.whl (32 kB)
Using cached setuptools-82.0.1-py3-none-any.whl (1.0 MB)
Using cached packaging-26.2-py3-none-any.whl (100 kB)
Installing collected packages: setuptools, pip, packaging, wheel
Attempting uninstall: pip
Found existing installation: pip 25.0.1
Uninstalling pip-25.0.1:
Successfully uninstalled pip-25.0.1
Successfully installed packaging-26.2 pip-26.1.1 setuptools-82.0.1 wheel-0.47.0
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-manylinux2014_aarch64.manylinux_2_17_aarch64.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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl.metadata (6.6 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2026.2-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-manylinux2014_aarch64.manylinux_2_17_aarch64.whl (15.2 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-2.4.4-cp312-cp312-manylinux_2_27_aarch64.manylinux_2_28_aarch64.whl (15.7 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2026.2-py2.py3-none-any.whl (349 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.4.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2026.2
Virtual environment 'install-test-client/thingo' successfully created.
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 62 ]
>
> proc.time()
user system elapsed
290.102 27.590 398.926
basilisk.Rcheck/basilisk-Ex.timings
| name | user | system | elapsed | |
| BasiliskEnvironment-class | 0.003 | 0.000 | 0.003 | |
| PyPiLink | 0.000 | 0.000 | 0.001 | |
| basiliskOptions | 0 | 0 | 0 | |
| basiliskStart | 38.638 | 3.113 | 85.766 | |
| clearExternalDir | 0.000 | 0.000 | 0.001 | |
| configureBasiliskEnv | 0 | 0 | 0 | |
| createLocalBasiliskEnv | 19.239 | 1.721 | 25.395 | |
| getBinaries | 0 | 0 | 0 | |
| getExternalDir | 0.001 | 0.000 | 0.000 | |
| getSystemDir | 0 | 0 | 0 | |
| listPackages | 0.372 | 0.047 | 0.419 | |
| lockExternalDir | 0.003 | 0.000 | 0.004 | |
| obtainEnvironmentPath | 0.001 | 0.000 | 0.001 | |
| platform | 0.001 | 0.000 | 0.000 | |
| setupBasiliskEnv | 0 | 0 | 0 | |
| useBasiliskEnv | 0.247 | 0.024 | 0.189 | |