| Back to Rapid builds (Linux only) of a subset of BioC 3.21 Report updated every 6 hours |
This page was generated on 2025-03-19 21:49 -0400 (Wed, 19 Mar 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | R Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences" | 869 |
| 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 21/217 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | |||||||
| basilisk 1.19.2 (landing page) Aaron Lun
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||
|
To the developers/maintainers of the basilisk package: - 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: basilisk |
| Version: 1.19.2 |
| Command: /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD check --install=check:basilisk.install-out.txt --library=/home/rapidbuild/bbs-3.21-bioc-rapid/R/site-library --timings basilisk_1.19.2.tar.gz |
| StartedAt: 2025-03-19 19:49:06 -0400 (Wed, 19 Mar 2025) |
| EndedAt: 2025-03-19 19:55:07 -0400 (Wed, 19 Mar 2025) |
| EllapsedTime: 361.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: basilisk.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD check --install=check:basilisk.install-out.txt --library=/home/rapidbuild/bbs-3.21-bioc-rapid/R/site-library --timings basilisk_1.19.2.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/basilisk.Rcheck’
* using R Under development (unstable) (2025-01-20 r87609)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.1 LTS
* using session charset: UTF-8
* checking for file ‘basilisk/DESCRIPTION’ ... OK
* this is package ‘basilisk’ version ‘1.19.2’
* 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 ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/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 22.194 3.490 34.105
createLocalBasiliskEnv 10.769 1.626 18.719
* 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 2 NOTEs
See
‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/basilisk.Rcheck/00check.log’
for details.
basilisk.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/rapidbuild/bbs-3.21-bioc-rapid/R/bin/R CMD INSTALL basilisk ### ############################################################################## ############################################################################## * installing to library ‘/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library’ * installing *source* package ‘basilisk’ ... ** this is package ‘basilisk’ version ‘1.19.2’ ** 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 Under development (unstable) (2025-01-20 r87609) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-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
> if (.Platform$OS.type != "windows") test_check("basilisk")
Using Python: /home/rapidbuild/.pyenv/versions/3.12.9/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 (24.3.1)
Collecting pip
Using cached pip-25.0.1-py3-none-any.whl.metadata (3.7 kB)
Collecting wheel
Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-77.0.1-py3-none-any.whl.metadata (6.7 kB)
Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-77.0.1-py3-none-any.whl (1.3 MB)
Installing collected packages: wheel, setuptools, pip
Attempting uninstall: pip
Found existing installation: pip 24.3.1
Uninstalling pip-24.3.1:
Successfully uninstalled pip-24.3.1
Successfully installed pip-25.0.1 setuptools-77.0.1 wheel-0.45.1
Virtual environment 'install-test-client/my_package_A' successfully created.
Using virtual environment 'install-test-client/my_package_A' ...
Collecting pandas==2.2.3
Using cached pandas-2.2.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2025.1-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-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (12.7 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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.1 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.1-py2.py3-none-any.whl (346 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.2.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2025.1
Using Python: /home/rapidbuild/.pyenv/versions/3.12.9/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 (24.3.1)
Collecting pip
Using cached pip-25.0.1-py3-none-any.whl.metadata (3.7 kB)
Collecting wheel
Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-77.0.1-py3-none-any.whl.metadata (6.7 kB)
Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-77.0.1-py3-none-any.whl (1.3 MB)
Installing collected packages: wheel, setuptools, pip
Attempting uninstall: pip
Found existing installation: pip 24.3.1
Uninstalling pip-24.3.1:
Successfully uninstalled pip-24.3.1
Successfully installed pip-25.0.1 setuptools-77.0.1 wheel-0.45.1
Virtual environment 'install-test-client/my_package_B' successfully created.
Using virtual environment 'install-test-client/my_package_B' ...
Collecting pandas==2.2.2
Using cached pandas-2.2.2-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.2)
Using cached tzdata-2025.1-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_x86_64.manylinux2014_x86_64.whl (12.7 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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.1 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.1-py2.py3-none-any.whl (346 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.2.4 pandas-2.2.2 python-dateutil-2.8.2 pytz-2023.4 six-1.17.0 tzdata-2025.1
Using Python: /home/rapidbuild/.pyenv/versions/3.12.9/bin/python3.12
Creating virtual environment '/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.19.2' ...
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in ./install-test-client/locality/1.19.2/lib/python3.12/site-packages (24.3.1)
Collecting pip
Using cached pip-25.0.1-py3-none-any.whl.metadata (3.7 kB)
Collecting wheel
Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-77.0.1-py3-none-any.whl.metadata (6.7 kB)
Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-77.0.1-py3-none-any.whl (1.3 MB)
Installing collected packages: wheel, setuptools, pip
Attempting uninstall: pip
Found existing installation: pip 24.3.1
Uninstalling pip-24.3.1:
Successfully uninstalled pip-24.3.1
Successfully installed pip-25.0.1 setuptools-77.0.1 wheel-0.45.1
Virtual environment '/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.19.2' successfully created.
Using virtual environment '/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.19.2' ...
Collecting pandas==2.2.3
Using cached pandas-2.2.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2025.1-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-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (12.7 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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.1 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.1-py2.py3-none-any.whl (346 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.2.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2025.1
Using Python: /home/rapidbuild/.pyenv/versions/3.12.9/bin/python3.12
Creating virtual environment '/tmp/Rtmp5TEiBU/file17d2ab65bba78a/1.19.2/basilisk/1.19.2/test' ...
Done!
Installing packages: pip, wheel, setuptools
Requirement already satisfied: pip in /tmp/Rtmp5TEiBU/file17d2ab65bba78a/1.19.2/basilisk/1.19.2/test/lib/python3.12/site-packages (24.3.1)
Collecting pip
Using cached pip-25.0.1-py3-none-any.whl.metadata (3.7 kB)
Collecting wheel
Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-77.0.1-py3-none-any.whl.metadata (6.7 kB)
Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-77.0.1-py3-none-any.whl (1.3 MB)
Installing collected packages: wheel, setuptools, pip
Attempting uninstall: pip
Found existing installation: pip 24.3.1
Uninstalling pip-24.3.1:
Successfully uninstalled pip-24.3.1
Successfully installed pip-25.0.1 setuptools-77.0.1 wheel-0.45.1
Virtual environment '/tmp/Rtmp5TEiBU/file17d2ab65bba78a/1.19.2/basilisk/1.19.2/test' successfully created.
Using virtual environment '/tmp/Rtmp5TEiBU/file17d2ab65bba78a/1.19.2/basilisk/1.19.2/test' ...
Collecting pandas==2.2.3
Using cached pandas-2.2.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (89 kB)
Collecting numpy>=1.26.0 (from pandas==2.2.3)
Using cached numpy-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_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-2025.1-py2.py3-none-any.whl.metadata (22 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2025.1-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-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (12.7 MB)
Using cached numpy-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.1 MB)
Using cached python_dateutil-2.9.0.post0-py2.py3-none-any.whl (229 kB)
Using cached pytz-2025.1-py2.py3-none-any.whl (507 kB)
Using cached tzdata-2025.1-py2.py3-none-any.whl (346 kB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.2.4 pandas-2.2.3 python-dateutil-2.9.0.post0 pytz-2025.1 six-1.17.0 tzdata-2025.1
* 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/rapidbuild/.pyenv/versions/3.12.9/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 (24.3.1)
Collecting pip
Using cached pip-25.0.1-py3-none-any.whl.metadata (3.7 kB)
Collecting wheel
Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-77.0.1-py3-none-any.whl.metadata (6.7 kB)
Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-77.0.1-py3-none-any.whl (1.3 MB)
Installing collected packages: wheel, setuptools, pip
Attempting uninstall: pip
Found existing installation: pip 24.3.1
Uninstalling pip-24.3.1:
Successfully uninstalled pip-24.3.1
Successfully installed pip-25.0.1 setuptools-77.0.1 wheel-0.45.1
Virtual environment 'install-test-client/thingo' successfully created.
Using virtual environment 'install-test-client/thingo' ...
Collecting pandas==2.2.3
Using cached pandas-2.2.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2025.1-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-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (12.7 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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.1 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.1-py2.py3-none-any.whl (346 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.2.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2025.1
Using Python: /home/rapidbuild/.pyenv/versions/3.12.9/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 (24.3.1)
Collecting pip
Using cached pip-25.0.1-py3-none-any.whl.metadata (3.7 kB)
Collecting wheel
Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-77.0.1-py3-none-any.whl.metadata (6.7 kB)
Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-77.0.1-py3-none-any.whl (1.3 MB)
Installing collected packages: wheel, setuptools, pip
Attempting uninstall: pip
Found existing installation: pip 24.3.1
Uninstalling pip-24.3.1:
Successfully uninstalled pip-24.3.1
Successfully installed pip-25.0.1 setuptools-77.0.1 wheel-0.45.1
Virtual environment 'install-test-client/thingo' successfully created.
Using virtual environment 'install-test-client/thingo' ...
Collecting pandas==2.2.2
Using cached pandas-2.2.2-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.2)
Using cached tzdata-2025.1-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_x86_64.manylinux2014_x86_64.whl (12.7 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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.1 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.1-py2.py3-none-any.whl (346 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.2.4 pandas-2.2.2 python-dateutil-2.8.2 pytz-2023.4 six-1.17.0 tzdata-2025.1
Using Python: /home/rapidbuild/.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 564ms
creator CPython2Posix(dest=/media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/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/rapidbuild/.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 virtual environment 'install-test-client/thingo' ...
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: python==2.7.18 in /home/rapidbuild/.pyenv/versions/2.7.18/lib/python2.7/lib-dynload (2.7.18)
Using Python: /home/rapidbuild/.pyenv/versions/3.12.9/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 (24.3.1)
Collecting pip
Using cached pip-25.0.1-py3-none-any.whl.metadata (3.7 kB)
Collecting wheel
Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-77.0.1-py3-none-any.whl.metadata (6.7 kB)
Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-77.0.1-py3-none-any.whl (1.3 MB)
Installing collected packages: wheel, setuptools, pip
Attempting uninstall: pip
Found existing installation: pip 24.3.1
Uninstalling pip-24.3.1:
Successfully uninstalled pip-24.3.1
Successfully installed pip-25.0.1 setuptools-77.0.1 wheel-0.45.1
Installing packages: numpy
Collecting numpy
Using cached numpy-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB)
Using cached numpy-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.1 MB)
Installing collected packages: numpy
Successfully installed numpy-2.2.4
Virtual environment 'install-test-client/thingo' successfully created.
Processing /media/volume/teran2_disk/rapidbuild/bbs-3.21-bioc-rapid/R/site-library/basilisk/example/inst/test_dummy
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Building wheels for collected packages: test_dummy
Building wheel for test_dummy (setup.py): started
Building wheel for test_dummy (setup.py): finished with status 'done'
Created wheel for test_dummy: filename=test_dummy-0.1-py3-none-any.whl size=1312 sha256=da6388af5516743d4ce25bb4de60596990f2a556881d28ff2e18a4b5d6f92f4d
Stored in directory: /tmp/pip-ephem-wheel-cache-m2d1pcg3/wheels/c2/4d/d8/5f77297a8203549487964be09fd0091e11966baa8d3bb5ff4e
Successfully built test_dummy
Installing collected packages: test_dummy
Successfully installed test_dummy-0.1
Using Python: /home/rapidbuild/.pyenv/versions/3.12.9/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 (24.3.1)
Collecting pip
Using cached pip-25.0.1-py3-none-any.whl.metadata (3.7 kB)
Collecting wheel
Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-77.0.1-py3-none-any.whl.metadata (6.7 kB)
Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-77.0.1-py3-none-any.whl (1.3 MB)
Installing collected packages: wheel, setuptools, pip
Attempting uninstall: pip
Found existing installation: pip 24.3.1
Uninstalling pip-24.3.1:
Successfully uninstalled pip-24.3.1
Successfully installed pip-25.0.1 setuptools-77.0.1 wheel-0.45.1
Virtual environment 'install-test-client/thingo' successfully created.
Using virtual environment 'install-test-client/thingo' ...
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/rapidbuild/.pyenv/versions/3.12.9/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 (24.3.1)
Collecting pip
Using cached pip-25.0.1-py3-none-any.whl.metadata (3.7 kB)
Collecting wheel
Using cached wheel-0.45.1-py3-none-any.whl.metadata (2.3 kB)
Collecting setuptools
Using cached setuptools-77.0.1-py3-none-any.whl.metadata (6.7 kB)
Using cached pip-25.0.1-py3-none-any.whl (1.8 MB)
Using cached wheel-0.45.1-py3-none-any.whl (72 kB)
Using cached setuptools-77.0.1-py3-none-any.whl (1.3 MB)
Installing collected packages: wheel, setuptools, pip
Attempting uninstall: pip
Found existing installation: pip 24.3.1
Uninstalling pip-24.3.1:
Successfully uninstalled pip-24.3.1
Successfully installed pip-25.0.1 setuptools-77.0.1 wheel-0.45.1
Virtual environment 'install-test-client/thingo' successfully created.
Using virtual environment 'install-test-client/thingo' ...
Collecting pandas==2.2.3
Using cached pandas-2.2.3-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl.metadata (62 kB)
Collecting tzdata>=2022.7 (from pandas==2.2.3)
Using cached tzdata-2025.1-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-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (12.7 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-2.2.4-cp312-cp312-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (16.1 MB)
Using cached six-1.17.0-py2.py3-none-any.whl (11 kB)
Using cached tzdata-2025.1-py2.py3-none-any.whl (346 kB)
Installing collected packages: pytz, tzdata, six, numpy, python-dateutil, pandas
Successfully installed numpy-2.2.4 pandas-2.2.3 python-dateutil-2.8.2 pytz-2024.1 six-1.17.0 tzdata-2025.1
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 61 ]
>
> proc.time()
user system elapsed
136.616 24.749 230.239
basilisk.Rcheck/basilisk-Ex.timings
| name | user | system | elapsed | |
| BasiliskEnvironment-class | 0.001 | 0.000 | 0.001 | |
| PyPiLink | 0.000 | 0.000 | 0.001 | |
| basiliskOptions | 0.001 | 0.000 | 0.000 | |
| basiliskStart | 22.194 | 3.490 | 34.105 | |
| clearExternalDir | 0 | 0 | 0 | |
| configureBasiliskEnv | 0 | 0 | 0 | |
| createLocalBasiliskEnv | 10.769 | 1.626 | 18.719 | |
| getBinaries | 0.001 | 0.000 | 0.000 | |
| getExternalDir | 0 | 0 | 0 | |
| getSystemDir | 0.001 | 0.000 | 0.000 | |
| listPackages | 0.201 | 0.036 | 0.244 | |
| lockExternalDir | 0.001 | 0.001 | 0.006 | |
| obtainEnvironmentPath | 0 | 0 | 0 | |
| platform | 0 | 0 | 0 | |
| setupBasiliskEnv | 0 | 0 | 0 | |
| useBasiliskEnv | 0.148 | 0.028 | 0.221 | |