Back to Mac ARM64 build report for BioC 3.17
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This page was generated on 2023-10-20 09:37:58 -0400 (Fri, 20 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson2macOS 12.6.1 Montereyarm644.3.1 (2023-06-16) -- "Beagle Scouts" 4347
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 133/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
basilisk 1.12.1  (landing page)
Aaron Lun
Snapshot Date: 2023-10-15 14:00:07 -0400 (Sun, 15 Oct 2023)
git_url: https://git.bioconductor.org/packages/basilisk
git_branch: RELEASE_3_17
git_last_commit: 374eda1
git_last_commit_date: 2023-06-07 02:59:19 -0400 (Wed, 07 Jun 2023)
kjohnson2macOS 12.6.1 Monterey / arm64  OK    OK    TIMEOUT    OK  

CHECK results for basilisk on kjohnson2


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.

raw results

Summary

Package: basilisk
Version: 1.12.1
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_1.12.1.tar.gz
StartedAt: 2023-10-17 04:11:34 -0400 (Tue, 17 Oct 2023)
EndedAt: 2023-10-17 04:51:35 -0400 (Tue, 17 Oct 2023)
EllapsedTime: 2401.0 seconds
RetCode: None
Status:   TIMEOUT  
CheckDir: basilisk.Rcheck
Warnings: NA

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_1.12.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck’
* using R version 4.3.1 (2023-06-16)
* using platform: aarch64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.6.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘basilisk/DESCRIPTION’ ... OK
* this is package ‘basilisk’ version ‘1.12.1’
* 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-3.17-bioc-mac-arm64/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 R 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 ... WARNING
'library' or 'require' call not declared from: ‘reticulate’
'library' or 'require' call to ‘reticulate’ in package code.
  Please use :: or requireNamespace() instead.
  See section 'Suggested packages' in the 'Writing R Extensions' manual.
* 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 line endings in shell scripts ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                          user system elapsed
basiliskStart          177.331 43.539 444.238
createLocalBasiliskEnv  60.157 19.701 172.328
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’

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/4.3-arm64/Resources/library’
* installing *source* package ‘basilisk’ ...
** 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 4.3.1 (2023-06-16) -- "Beagle Scouts"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20 (64-bit)

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)
> test_check("basilisk")
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-arm64::bzip2-1.0.8-h3422bc3_4
  ca-certificates    conda-forge/osx-arm64::ca-certificates-2023.7.22-hf0a4a13_0
  libffi             conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
  libsqlite          conda-forge/osx-arm64::libsqlite-3.43.2-h091b4b1_0
  libzlib            conda-forge/osx-arm64::libzlib-1.2.13-h53f4e23_5
  ncurses            conda-forge/osx-arm64::ncurses-6.4-h7ea286d_0
  openssl            conda-forge/osx-arm64::openssl-3.1.3-h53f4e23_0
  pip                conda-forge/noarch::pip-23.3-pyhd8ed1ab_0
  python             conda-forge/osx-arm64::python-3.8.13-hd3575e6_0_cpython
  readline           conda-forge/osx-arm64::readline-8.2-h92ec313_1
  setuptools         conda-forge/noarch::setuptools-68.2.2-pyhd8ed1ab_0
  sqlite             conda-forge/osx-arm64::sqlite-3.43.2-hf2abe2d_0
  tk                 conda-forge/osx-arm64::tk-8.6.13-hb31c410_0
  wheel              conda-forge/noarch::wheel-0.41.2-pyhd8ed1ab_0
  xz                 conda-forge/osx-arm64::xz-5.2.6-h57fd34a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2023.7.2~ --> pkgs/main::ca-certificates-2023.08.22-hca03da5_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl             conda-forge::openssl-3.1.3-h53f4e23_0 --> pkgs/main::openssl-3.0.11-h1a28f6b_2


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - pandas=1.4.3
    - python-dateutil=2.8.2
    - python=3.8.13
    - pytz=2022.2.1


The following NEW packages will be INSTALLED:

  libblas            conda-forge/osx-arm64::libblas-3.9.0-19_osxarm64_openblas
  libcblas           conda-forge/osx-arm64::libcblas-3.9.0-19_osxarm64_openblas
  libcxx             conda-forge/osx-arm64::libcxx-16.0.6-h4653b0c_0
  libgfortran        conda-forge/osx-arm64::libgfortran-5.0.0-13_2_0_hd922786_1
  libgfortran5       conda-forge/osx-arm64::libgfortran5-13.2.0-hf226fd6_1
  liblapack          conda-forge/osx-arm64::liblapack-3.9.0-19_osxarm64_openblas
  libopenblas        conda-forge/osx-arm64::libopenblas-0.3.24-openmp_hd76b1f2_0
  llvm-openmp        conda-forge/osx-arm64::llvm-openmp-17.0.2-h1c12783_0
  numpy              conda-forge/osx-arm64::numpy-1.24.4-py38ha84db1f_0
  pandas             conda-forge/osx-arm64::pandas-1.4.3-py38h6724fcd_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/osx-arm64::python_abi-3.8-4_cp38
  pytz               conda-forge/noarch::pytz-2022.2.1-pyhd8ed1ab_0
  six                conda-forge/noarch::six-1.16.0-pyh6c4a22f_0

The following packages will be UPDATED:

  openssl              pkgs/main::openssl-3.0.11-h1a28f6b_2 --> conda-forge::openssl-3.1.3-h53f4e23_0

The following packages will be SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.08.22~ --> conda-forge::ca-certificates-2023.7.22-hf0a4a13_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


WARNING: There was an error checking the latest version of pip.
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-arm64::bzip2-1.0.8-h3422bc3_4
  ca-certificates    conda-forge/osx-arm64::ca-certificates-2023.7.22-hf0a4a13_0
  libffi             conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
  libsqlite          conda-forge/osx-arm64::libsqlite-3.43.2-h091b4b1_0
  libzlib            conda-forge/osx-arm64::libzlib-1.2.13-h53f4e23_5
  ncurses            conda-forge/osx-arm64::ncurses-6.4-h7ea286d_0
  openssl            conda-forge/osx-arm64::openssl-3.1.3-h53f4e23_0
  pip                conda-forge/noarch::pip-23.3-pyhd8ed1ab_0
  python             conda-forge/osx-arm64::python-3.8.13-hd3575e6_0_cpython
  readline           conda-forge/osx-arm64::readline-8.2-h92ec313_1
  setuptools         conda-forge/noarch::setuptools-68.2.2-pyhd8ed1ab_0
  sqlite             conda-forge/osx-arm64::sqlite-3.43.2-hf2abe2d_0
  tk                 conda-forge/osx-arm64::tk-8.6.13-hb31c410_0
  wheel              conda-forge/noarch::wheel-0.41.2-pyhd8ed1ab_0
  xz                 conda-forge/osx-arm64::xz-5.2.6-h57fd34a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2023.7.2~ --> pkgs/main::ca-certificates-2023.08.22-hca03da5_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl             conda-forge::openssl-3.1.3-h53f4e23_0 --> pkgs/main::openssl-3.0.11-h1a28f6b_2


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - pandas=1.4.2
    - python-dateutil=2.8.1
    - python=3.8.13
    - pytz=2022.1


The following NEW packages will be INSTALLED:

  libblas            conda-forge/osx-arm64::libblas-3.9.0-19_osxarm64_openblas
  libcblas           conda-forge/osx-arm64::libcblas-3.9.0-19_osxarm64_openblas
  libcxx             conda-forge/osx-arm64::libcxx-16.0.6-h4653b0c_0
  libgfortran        conda-forge/osx-arm64::libgfortran-5.0.0-13_2_0_hd922786_1
  libgfortran5       conda-forge/osx-arm64::libgfortran5-13.2.0-hf226fd6_1
  liblapack          conda-forge/osx-arm64::liblapack-3.9.0-19_osxarm64_openblas
  libopenblas        conda-forge/osx-arm64::libopenblas-0.3.24-openmp_hd76b1f2_0
  llvm-openmp        conda-forge/osx-arm64::llvm-openmp-17.0.2-h1c12783_0
  numpy              conda-forge/osx-arm64::numpy-1.24.4-py38ha84db1f_0
  pandas             conda-forge/osx-arm64::pandas-1.4.2-py38h6724fcd_2
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.1-py_0
  python_abi         conda-forge/osx-arm64::python_abi-3.8-4_cp38
  pytz               conda-forge/noarch::pytz-2022.1-pyhd8ed1ab_0
  six                conda-forge/noarch::six-1.16.0-pyh6c4a22f_0

The following packages will be UPDATED:

  openssl              pkgs/main::openssl-3.0.11-h1a28f6b_2 --> conda-forge::openssl-3.1.3-h53f4e23_0

The following packages will be SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.08.22~ --> conda-forge::ca-certificates-2023.7.22-hf0a4a13_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


WARNING: There was an error checking the latest version of pip.
WARNING: There was an error checking the latest version of pip.
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... failed

PackagesNotFoundError: The following packages are not available from current channels:

  - python=2.7

Current channels:

  - https://conda.anaconda.org/conda-forge/osx-arm64
  - https://conda.anaconda.org/conda-forge/noarch
  - https://repo.anaconda.com/pkgs/main/osx-arm64
  - https://repo.anaconda.com/pkgs/main/noarch
  - https://repo.anaconda.com/pkgs/r/osx-arm64
  - https://repo.anaconda.com/pkgs/r/noarch

To search for alternate channels that may provide the conda package you're
looking for, navigate to

    https://anaconda.org

and use the search bar at the top of the page.


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-arm64::bzip2-1.0.8-h3422bc3_4
  ca-certificates    conda-forge/osx-arm64::ca-certificates-2023.7.22-hf0a4a13_0
  libffi             conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
  libsqlite          conda-forge/osx-arm64::libsqlite-3.43.2-h091b4b1_0
  libzlib            conda-forge/osx-arm64::libzlib-1.2.13-h53f4e23_5
  ncurses            conda-forge/osx-arm64::ncurses-6.4-h7ea286d_0
  openssl            conda-forge/osx-arm64::openssl-3.1.3-h53f4e23_0
  pip                conda-forge/noarch::pip-23.3-pyhd8ed1ab_0
  python             conda-forge/osx-arm64::python-3.8.13-hd3575e6_0_cpython
  readline           conda-forge/osx-arm64::readline-8.2-h92ec313_1
  setuptools         conda-forge/noarch::setuptools-68.2.2-pyhd8ed1ab_0
  sqlite             conda-forge/osx-arm64::sqlite-3.43.2-hf2abe2d_0
  tk                 conda-forge/osx-arm64::tk-8.6.13-hb31c410_0
  wheel              conda-forge/noarch::wheel-0.41.2-pyhd8ed1ab_0
  xz                 conda-forge/osx-arm64::xz-5.2.6-h57fd34a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2023.7.2~ --> pkgs/main::ca-certificates-2023.08.22-hca03da5_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl             conda-forge::openssl-3.1.3-h53f4e23_0 --> pkgs/main::openssl-3.0.11-h1a28f6b_2


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python-dateutil=2.8.1
    - python=3.8.13
    - pytz=2022.1


The following NEW packages will be INSTALLED:

  python-dateutil    conda-forge/noarch::python-dateutil-2.8.1-py_0
  pytz               conda-forge/noarch::pytz-2022.1-pyhd8ed1ab_0
  six                conda-forge/noarch::six-1.16.0-pyh6c4a22f_0

The following packages will be UPDATED:

  openssl              pkgs/main::openssl-3.0.11-h1a28f6b_2 --> conda-forge::openssl-3.1.3-h53f4e23_0

The following packages will be SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.08.22~ --> conda-forge::ca-certificates-2023.7.22-hf0a4a13_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting pandas==1.4.2
  Downloading pandas-1.4.2-cp38-cp38-macosx_11_0_arm64.whl (9.9 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 9.9/9.9 MB 32.3 MB/s eta 0:00:00
Requirement already satisfied: python-dateutil>=2.8.1 in ./install-test-client/thingo/lib/python3.8/site-packages (from pandas==1.4.2) (2.8.1)
Requirement already satisfied: pytz>=2020.1 in ./install-test-client/thingo/lib/python3.8/site-packages (from pandas==1.4.2) (2022.1)
Collecting numpy>=1.20.0 (from pandas==1.4.2)
  Downloading numpy-1.24.4-cp38-cp38-macosx_11_0_arm64.whl.metadata (5.6 kB)
Requirement already satisfied: six>=1.5 in ./install-test-client/thingo/lib/python3.8/site-packages (from python-dateutil>=2.8.1->pandas==1.4.2) (1.16.0)
Downloading numpy-1.24.4-cp38-cp38-macosx_11_0_arm64.whl (13.8 MB)
   ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 13.8/13.8 MB 34.1 MB/s eta 0:00:00
Installing collected packages: numpy, pandas
Successfully installed numpy-1.24.4 pandas-1.4.2
WARNING: There was an error checking the latest version of pip.
WARNING: There was an error checking the latest version of pip.
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-arm64::bzip2-1.0.8-h3422bc3_4
  ca-certificates    conda-forge/osx-arm64::ca-certificates-2023.7.22-hf0a4a13_0
  libffi             conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
  libsqlite          conda-forge/osx-arm64::libsqlite-3.43.2-h091b4b1_0
  libzlib            conda-forge/osx-arm64::libzlib-1.2.13-h53f4e23_5
  ncurses            conda-forge/osx-arm64::ncurses-6.4-h7ea286d_0
  openssl            conda-forge/osx-arm64::openssl-3.1.3-h53f4e23_0
  pip                conda-forge/noarch::pip-23.3-pyhd8ed1ab_0
  python             conda-forge/osx-arm64::python-3.8.13-hd3575e6_0_cpython
  readline           conda-forge/osx-arm64::readline-8.2-h92ec313_1
  setuptools         conda-forge/noarch::setuptools-68.2.2-pyhd8ed1ab_0
  sqlite             conda-forge/osx-arm64::sqlite-3.43.2-hf2abe2d_0
  tk                 conda-forge/osx-arm64::tk-8.6.13-hb31c410_0
  wheel              conda-forge/noarch::wheel-0.41.2-pyhd8ed1ab_0
  xz                 conda-forge/osx-arm64::xz-5.2.6-h57fd34a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2023.7.2~ --> pkgs/main::ca-certificates-2023.08.22-hca03da5_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl             conda-forge::openssl-3.1.3-h53f4e23_0 --> pkgs/main::openssl-3.0.11-h1a28f6b_2


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following packages will be UPDATED:

  openssl              pkgs/main::openssl-3.0.11-h1a28f6b_2 --> conda-forge::openssl-3.1.3-h53f4e23_0

The following packages will be SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.08.22~ --> conda-forge::ca-certificates-2023.7.22-hf0a4a13_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Processing /Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/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=1279 sha256=db04c3fbc0a5404d8adebce78282aad304f296da59171c4783876aa9e866680d
  Stored in directory: /private/tmp/pip-ephem-wheel-cache-oehdalal/wheels/4b/45/a3/0a5664e82686f9ff082e72b24badc10314eb7c7a2bfefd3bfd
Successfully built test-dummy
Installing collected packages: test-dummy
Successfully installed test-dummy-0.1
WARNING: There was an error checking the latest version of pip.
WARNING: There was an error checking the latest version of pip.
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-arm64::bzip2-1.0.8-h3422bc3_4
  ca-certificates    conda-forge/osx-arm64::ca-certificates-2023.7.22-hf0a4a13_0
  libffi             conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
  libsqlite          conda-forge/osx-arm64::libsqlite-3.43.2-h091b4b1_0
  libzlib            conda-forge/osx-arm64::libzlib-1.2.13-h53f4e23_5
  ncurses            conda-forge/osx-arm64::ncurses-6.4-h7ea286d_0
  openssl            conda-forge/osx-arm64::openssl-3.1.3-h53f4e23_0
  pip                conda-forge/noarch::pip-23.3-pyhd8ed1ab_0
  python             conda-forge/osx-arm64::python-3.8.13-hd3575e6_0_cpython
  readline           conda-forge/osx-arm64::readline-8.2-h92ec313_1
  setuptools         conda-forge/noarch::setuptools-68.2.2-pyhd8ed1ab_0
  sqlite             conda-forge/osx-arm64::sqlite-3.43.2-hf2abe2d_0
  tk                 conda-forge/osx-arm64::tk-8.6.13-hb31c410_0
  wheel              conda-forge/noarch::wheel-0.41.2-pyhd8ed1ab_0
  xz                 conda-forge/osx-arm64::xz-5.2.6-h57fd34a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2023.7.2~ --> pkgs/main::ca-certificates-2023.08.22-hca03da5_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl             conda-forge::openssl-3.1.3-h53f4e23_0 --> pkgs/main::openssl-3.0.11-h1a28f6b_2


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.

PackagesNotFoundError: The following packages are not available from current channels:

  - whheeeeeeeeeeeeeeeeee=0.0.1

Current channels:

  - https://conda.anaconda.org/conda-forge/osx-arm64
  - https://conda.anaconda.org/conda-forge/noarch
  - https://repo.anaconda.com/pkgs/main/osx-arm64
  - https://repo.anaconda.com/pkgs/main/noarch
  - https://repo.anaconda.com/pkgs/r/osx-arm64
  - https://repo.anaconda.com/pkgs/r/noarch

To search for alternate channels that may provide the conda package you're
looking for, navigate to

    https://anaconda.org

and use the search bar at the top of the page.


trying URL 'https://repo.anaconda.com/miniconda/Miniconda3-py38_4.12.0-MacOSX-arm64.sh'
Content type 'application/x-sh' length 55043341 bytes (52.5 MB)
==================================================
downloaded 52.5 MB

PREFIX=/tmp/RtmpqQxMWr/file138c22a4836d8/1.12.1/0
Unpacking payload ...

  0%|          | 0/34 [00:00<?, ?it/s]
Extracting : python-3.8.13-hbdb9e5c_0.conda:   0%|          | 0/34 [00:04<?, ?it/s]
Extracting : python-3.8.13-hbdb9e5c_0.conda:   3%|▎         | 1/34 [00:04<02:39,  4.84s/it]
Extracting : sqlite-3.38.3-h1058600_0.conda:   3%|▎         | 1/34 [00:04<02:39,  4.84s/it]
Extracting : requests-2.27.1-pyhd3eb1b0_0.conda:   6%|▌         | 2/34 [00:04<02:34,  4.84s/it]
Extracting : zlib-1.2.12-h5a0b063_2.conda:   9%|▉         | 3/34 [00:04<02:30,  4.84s/it]      
Extracting : certifi-2022.5.18.1-py38hca03da5_0.conda:  12%|█▏        | 4/34 [00:04<02:25,  4.84s/it]
Extracting : tk-8.6.11-hb8d0fd4_1.conda:  15%|█▍        | 5/34 [00:04<02:20,  4.84s/it]              
Extracting : python.app-3-py38h1a28f6b_0.conda:  18%|█▊        | 6/34 [00:04<02:15,  4.84s/it]
Extracting : pysocks-1.7.1-py38hca03da5_0.conda:  21%|██        | 7/34 [00:04<02:10,  4.84s/it]
Extracting : cffi-1.15.0-py38h22df2f2_1.conda:  24%|██▎       | 8/34 [00:04<02:05,  4.84s/it]  
Extracting : ca-certificates-2022.4.26-hca03da5_0.conda:  26%|██▋       | 9/34 [00:04<02:01,  4.84s/it]
Extracting : six-1.16.0-pyhd3eb1b0_1.conda:  29%|██▉       | 10/34 [00:04<01:56,  4.84s/it]            
Extracting : readline-8.1.2-h1a28f6b_1.conda:  32%|███▏      | 11/34 [00:04<01:51,  4.84s/it]
Extracting : xz-5.2.5-h1a28f6b_1.conda:  35%|███▌      | 12/34 [00:04<01:46,  4.84s/it]      
Extracting : cryptography-37.0.1-py38h834c97f_0.conda:  38%|███▊      | 13/34 [00:04<01:41,  4.84s/it]
Extracting : wheel-0.37.1-pyhd3eb1b0_0.conda:  41%|████      | 14/34 [00:04<01:36,  4.84s/it]         
Extracting : charset-normalizer-2.0.4-pyhd3eb1b0_0.conda:  44%|████▍     | 15/34 [00:04<01:31,  4.84s/it]
Extracting : conda-package-handling-1.8.1-py38h1a28f6b_0.conda:  47%|████▋     | 16/34 [00:04<01:27,  4.84s/it]
Extracting : brotlipy-0.7.0-py38h1a28f6b_1002.conda:  50%|█████     | 17/34 [00:04<01:22,  4.84s/it]           
Extracting : setuptools-61.2.0-py38hca03da5_0.conda:  53%|█████▎    | 18/34 [00:04<01:17,  4.84s/it]
Extracting : ruamel_yaml-0.15.100-py38h1a28f6b_0.conda:  56%|█████▌    | 19/34 [00:04<01:12,  4.84s/it]
Extracting : ncurses-6.3-h1a28f6b_2.conda:  59%|█████▉    | 20/34 [00:04<01:07,  4.84s/it]             
Extracting : libcxx-12.0.0-hf6beb65_1.conda:  62%|██████▏   | 21/34 [00:04<01:02,  4.84s/it]
Extracting : pycparser-2.21-pyhd3eb1b0_0.conda:  65%|██████▍   | 22/34 [00:04<00:58,  4.84s/it]
Extracting : libffi-3.4.2-hc377ac9_2.conda:  68%|██████▊   | 23/34 [00:04<00:53,  4.84s/it]    
Extracting : pyopenssl-22.0.0-pyhd3eb1b0_0.conda:  71%|███████   | 24/34 [00:04<00:48,  4.84s/it]
Extracting : openssl-1.1.1o-h1a28f6b_0.conda:  74%|███████▎  | 25/34 [00:04<00:43,  4.84s/it]    
Extracting : conda-4.12.0-py38hca03da5_0.conda:  76%|███████▋  | 26/34 [00:06<00:38,  4.84s/it]
Extracting : conda-4.12.0-py38hca03da5_0.conda:  79%|███████▉  | 27/34 [00:06<00:01,  5.65it/s]
Extracting : pip-21.2.4-py38hca03da5_0.conda:  79%|███████▉  | 27/34 [00:06<00:01,  5.65it/s]  
Extracting : conda-content-trust-0.1.1-pyhd3eb1b0_0.conda:  82%|████████▏ | 28/34 [00:06<00:01,  5.65it/s]
Extracting : urllib3-1.26.9-py38hca03da5_0.conda:  85%|████████▌ | 29/34 [00:06<00:00,  5.65it/s]         
Extracting : idna-3.3-pyhd3eb1b0_0.conda:  88%|████████▊ | 30/34 [00:06<00:00,  5.65it/s]        
Extracting : tqdm-4.64.0-py38hca03da5_0.conda:  91%|█████████ | 31/34 [00:06<00:00,  5.65it/s]
Extracting : yaml-0.2.5-h1a28f6b_0.conda:  94%|█████████▍| 32/34 [00:06<00:00,  5.65it/s]     
Extracting : pycosat-0.6.3-py38h1a28f6b_0.conda:  97%|█████████▋| 33/34 [00:06<00:00,  5.65it/s]
                                                                                                
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /tmp/RtmpqQxMWr/file138c22a4836d8/1.12.1/0

  added / updated specs:
    - brotlipy==0.7.0=py38h1a28f6b_1002
    - ca-certificates==2022.4.26=hca03da5_0
    - certifi==2022.5.18.1=py38hca03da5_0
    - cffi==1.15.0=py38h22df2f2_1
    - charset-normalizer==2.0.4=pyhd3eb1b0_0
    - conda-content-trust==0.1.1=pyhd3eb1b0_0
    - conda-package-handling==1.8.1=py38h1a28f6b_0
    - conda==4.12.0=py38hca03da5_0
    - cryptography==37.0.1=py38h834c97f_0
    - idna==3.3=pyhd3eb1b0_0
    - libcxx==12.0.0=hf6beb65_1
    - libffi==3.4.2=hc377ac9_2
    - ncurses==6.3=h1a28f6b_2
    - openssl==1.1.1o=h1a28f6b_0
    - pip==21.2.4=py38hca03da5_0
    - pycosat==0.6.3=py38h1a28f6b_0
    - pycparser==2.21=pyhd3eb1b0_0
    - pyopenssl==22.0.0=pyhd3eb1b0_0
    - pysocks==1.7.1=py38hca03da5_0
    - python.app==3=py38h1a28f6b_0
    - python==3.8.13=hbdb9e5c_0
    - readline==8.1.2=h1a28f6b_1
    - requests==2.27.1=pyhd3eb1b0_0
    - ruamel_yaml==0.15.100=py38h1a28f6b_0
    - setuptools==61.2.0=py38hca03da5_0
    - six==1.16.0=pyhd3eb1b0_1
    - sqlite==3.38.3=h1058600_0
    - tk==8.6.11=hb8d0fd4_1
    - tqdm==4.64.0=py38hca03da5_0
    - urllib3==1.26.9=py38hca03da5_0
    - wheel==0.37.1=pyhd3eb1b0_0
    - xz==5.2.5=h1a28f6b_1
    - yaml==0.2.5=h1a28f6b_0
    - zlib==1.2.12=h5a0b063_2


The following NEW packages will be INSTALLED:

  brotlipy           pkgs/main/osx-arm64::brotlipy-0.7.0-py38h1a28f6b_1002
  ca-certificates    pkgs/main/osx-arm64::ca-certificates-2022.4.26-hca03da5_0
  certifi            pkgs/main/osx-arm64::certifi-2022.5.18.1-py38hca03da5_0
  cffi               pkgs/main/osx-arm64::cffi-1.15.0-py38h22df2f2_1
  charset-normalizer pkgs/main/noarch::charset-normalizer-2.0.4-pyhd3eb1b0_0
  conda              pkgs/main/osx-arm64::conda-4.12.0-py38hca03da5_0
  conda-content-tru~ pkgs/main/noarch::conda-content-trust-0.1.1-pyhd3eb1b0_0
  conda-package-han~ pkgs/main/osx-arm64::conda-package-handling-1.8.1-py38h1a28f6b_0
  cryptography       pkgs/main/osx-arm64::cryptography-37.0.1-py38h834c97f_0
  idna               pkgs/main/noarch::idna-3.3-pyhd3eb1b0_0
  libcxx             pkgs/main/osx-arm64::libcxx-12.0.0-hf6beb65_1
  libffi             pkgs/main/osx-arm64::libffi-3.4.2-hc377ac9_2
  ncurses            pkgs/main/osx-arm64::ncurses-6.3-h1a28f6b_2
  openssl            pkgs/main/osx-arm64::openssl-1.1.1o-h1a28f6b_0
  pip                pkgs/main/osx-arm64::pip-21.2.4-py38hca03da5_0
  pycosat            pkgs/main/osx-arm64::pycosat-0.6.3-py38h1a28f6b_0
  pycparser          pkgs/main/noarch::pycparser-2.21-pyhd3eb1b0_0
  pyopenssl          pkgs/main/noarch::pyopenssl-22.0.0-pyhd3eb1b0_0
  pysocks            pkgs/main/osx-arm64::pysocks-1.7.1-py38hca03da5_0
  python             pkgs/main/osx-arm64::python-3.8.13-hbdb9e5c_0
  python.app         pkgs/main/osx-arm64::python.app-3-py38h1a28f6b_0
  readline           pkgs/main/osx-arm64::readline-8.1.2-h1a28f6b_1
  requests           pkgs/main/noarch::requests-2.27.1-pyhd3eb1b0_0
  ruamel_yaml        pkgs/main/osx-arm64::ruamel_yaml-0.15.100-py38h1a28f6b_0
  setuptools         pkgs/main/osx-arm64::setuptools-61.2.0-py38hca03da5_0
  six                pkgs/main/noarch::six-1.16.0-pyhd3eb1b0_1
  sqlite             pkgs/main/osx-arm64::sqlite-3.38.3-h1058600_0
  tk                 pkgs/main/osx-arm64::tk-8.6.11-hb8d0fd4_1
  tqdm               pkgs/main/osx-arm64::tqdm-4.64.0-py38hca03da5_0
  urllib3            pkgs/main/osx-arm64::urllib3-1.26.9-py38hca03da5_0
  wheel              pkgs/main/noarch::wheel-0.37.1-pyhd3eb1b0_0
  xz                 pkgs/main/osx-arm64::xz-5.2.5-h1a28f6b_1
  yaml               pkgs/main/osx-arm64::yaml-0.2.5-h1a28f6b_0
  zlib               pkgs/main/osx-arm64::zlib-1.2.12-h5a0b063_2


Preparing transaction: ...working... done
Executing transaction: ...working... 
done
installation finished.
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /private/tmp/RtmpqQxMWr/file138c22a4836d8/1.12.1/basilisk.utils/1.12.1/test

  added / updated specs:
    - python=3.8.13


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    bzip2-1.0.8                |       h3422bc3_4         148 KB  conda-forge
    ca-certificates-2023.7.22  |       hf0a4a13_0         146 KB  conda-forge
    libffi-3.4.2               |       h3422bc3_5          38 KB  conda-forge
    libsqlite-3.43.2           |       h091b4b1_0         790 KB  conda-forge
    libzlib-1.2.13             |       h53f4e23_5          47 KB  conda-forge
    ncurses-6.4                |       h7ea286d_0         780 KB  conda-forge
    openssl-3.1.3              |       h53f4e23_0         2.1 MB  conda-forge
    pip-23.3                   |     pyhd8ed1ab_0         1.3 MB  conda-forge
    python-3.8.13              |hd3575e6_0_cpython        12.3 MB  conda-forge
    readline-8.2               |       h92ec313_1         244 KB  conda-forge
    setuptools-68.2.2          |     pyhd8ed1ab_0         454 KB  conda-forge
    sqlite-3.43.2              |       hf2abe2d_0         777 KB  conda-forge
    tk-8.6.13                  |       hb31c410_0         3.1 MB  conda-forge
    wheel-0.41.2               |     pyhd8ed1ab_0          56 KB  conda-forge
    xz-5.2.6                   |       h57fd34a_0         230 KB  conda-forge
    ------------------------------------------------------------
                                           Total:        22.4 MB

The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-arm64::bzip2-1.0.8-h3422bc3_4
  ca-certificates    conda-forge/osx-arm64::ca-certificates-2023.7.22-hf0a4a13_0
  libffi             conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
  libsqlite          conda-forge/osx-arm64::libsqlite-3.43.2-h091b4b1_0
  libzlib            conda-forge/osx-arm64::libzlib-1.2.13-h53f4e23_5
  ncurses            conda-forge/osx-arm64::ncurses-6.4-h7ea286d_0
  openssl            conda-forge/osx-arm64::openssl-3.1.3-h53f4e23_0
  pip                conda-forge/noarch::pip-23.3-pyhd8ed1ab_0
  python             conda-forge/osx-arm64::python-3.8.13-hd3575e6_0_cpython
  readline           conda-forge/osx-arm64::readline-8.2-h92ec313_1
  setuptools         conda-forge/noarch::setuptools-68.2.2-pyhd8ed1ab_0
  sqlite             conda-forge/osx-arm64::sqlite-3.43.2-hf2abe2d_0
  tk                 conda-forge/osx-arm64::tk-8.6.13-hb31c410_0
  wheel              conda-forge/noarch::wheel-0.41.2-pyhd8ed1ab_0
  xz                 conda-forge/osx-arm64::xz-5.2.6-h57fd34a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /private/tmp/RtmpqQxMWr/file138c22a4836d8/1.12.1/basilisk.utils/1.12.1/test

  added / updated specs:
    - python=3.8.13


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    ca-certificates-2023.08.22 |       hca03da5_0         124 KB
    openssl-3.0.11             |       h1a28f6b_2         4.2 MB
    ------------------------------------------------------------
                                           Total:         4.4 MB

The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2023.7.2~ --> pkgs/main::ca-certificates-2023.08.22-hca03da5_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl             conda-forge::openssl-3.1.3-h53f4e23_0 --> pkgs/main::openssl-3.0.11-h1a28f6b_2



Downloading and Extracting Packages

openssl-3.0.11       | 4.2 MB    |            |   0% 
openssl-3.0.11       | 4.2 MB    | ##         |  21% 
openssl-3.0.11       | 4.2 MB    | ########## | 100% 
openssl-3.0.11       | 4.2 MB    | ########## | 100% 

ca-certificates-2023 | 124 KB    |            |   0% 
ca-certificates-2023 | 124 KB    | ########## | 100% 
ca-certificates-2023 | 124 KB    | ########## | 100% 
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /private/tmp/RtmpqQxMWr/file138c22a4836d8/1.12.1/basilisk.utils/1.12.1/test

  added / updated specs:
    - pandas=1.4.3
    - python=3.8.13


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    libblas-3.9.0              |19_osxarm64_openblas          14 KB  conda-forge
    libcblas-3.9.0             |19_osxarm64_openblas          14 KB  conda-forge
    libcxx-16.0.6              |       h4653b0c_0         1.1 MB  conda-forge
    libgfortran-5.0.0          |13_2_0_hd922786_1         108 KB  conda-forge
    libgfortran5-13.2.0        |       hf226fd6_1         972 KB  conda-forge
    liblapack-3.9.0            |19_osxarm64_openblas          14 KB  conda-forge
    libopenblas-0.3.24         |openmp_hd76b1f2_0         2.7 MB  conda-forge
    llvm-openmp-17.0.2         |       h1c12783_0         269 KB  conda-forge
    numpy-1.24.4               |   py38ha84db1f_0         5.3 MB  conda-forge
    pandas-1.4.3               |   py38h6724fcd_0        11.5 MB  conda-forge
    python-dateutil-2.8.2      |     pyhd8ed1ab_0         240 KB  conda-forge
    python_abi-3.8             |           4_cp38           6 KB  conda-forge
    pytz-2023.3.post1          |     pyhd8ed1ab_0         183 KB  conda-forge
    six-1.16.0                 |     pyh6c4a22f_0          14 KB  conda-forge
    ------------------------------------------------------------
                                           Total:        22.5 MB

The following NEW packages will be INSTALLED:

  libblas            conda-forge/osx-arm64::libblas-3.9.0-19_osxarm64_openblas
  libcblas           conda-forge/osx-arm64::libcblas-3.9.0-19_osxarm64_openblas
  libcxx             conda-forge/osx-arm64::libcxx-16.0.6-h4653b0c_0
  libgfortran        conda-forge/osx-arm64::libgfortran-5.0.0-13_2_0_hd922786_1
  libgfortran5       conda-forge/osx-arm64::libgfortran5-13.2.0-hf226fd6_1
  liblapack          conda-forge/osx-arm64::liblapack-3.9.0-19_osxarm64_openblas
  libopenblas        conda-forge/osx-arm64::libopenblas-0.3.24-openmp_hd76b1f2_0
  llvm-openmp        conda-forge/osx-arm64::llvm-openmp-17.0.2-h1c12783_0
  numpy              conda-forge/osx-arm64::numpy-1.24.4-py38ha84db1f_0
  pandas             conda-forge/osx-arm64::pandas-1.4.3-py38h6724fcd_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/osx-arm64::python_abi-3.8-4_cp38
  pytz               conda-forge/noarch::pytz-2023.3.post1-pyhd8ed1ab_0
  six                conda-forge/noarch::six-1.16.0-pyh6c4a22f_0

The following packages will be UPDATED:

  openssl              pkgs/main::openssl-3.0.11-h1a28f6b_2 --> conda-forge::openssl-3.1.3-h53f4e23_0

The following packages will be SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.08.22~ --> conda-forge::ca-certificates-2023.7.22-hf0a4a13_0



Downloading and Extracting Packages

pandas-1.4.3         | 11.5 MB   |            |   0% 
pandas-1.4.3         | 11.5 MB   |            |   0% 
pandas-1.4.3         | 11.5 MB   | ##6        |  27% 
pandas-1.4.3         | 11.5 MB   | ###8       |  38% 
pandas-1.4.3         | 11.5 MB   | #####9     |  60% 
pandas-1.4.3         | 11.5 MB   | ########## | 100% 
pandas-1.4.3         | 11.5 MB   | ########## | 100% 

libgfortran5-13.2.0  | 972 KB    |            |   0% 
libgfortran5-13.2.0  | 972 KB    | 1          |   2% 
libgfortran5-13.2.0  | 972 KB    | ####6      |  46% 
libgfortran5-13.2.0  | 972 KB    | ########## | 100% 
libgfortran5-13.2.0  | 972 KB    | ########## | 100% 

python_abi-3.8       | 6 KB      |            |   0% 
python_abi-3.8       | 6 KB      | ########## | 100% 
python_abi-3.8       | 6 KB      | ########## | 100% 

libgfortran-5.0.0    | 108 KB    |            |   0% 
libgfortran-5.0.0    | 108 KB    | ########## | 100% 
libgfortran-5.0.0    | 108 KB    | ########## | 100% 

libcblas-3.9.0       | 14 KB     |            |   0% 
libcblas-3.9.0       | 14 KB     | ########## | 100% 
libcblas-3.9.0       | 14 KB     | ########## | 100% 

liblapack-3.9.0      | 14 KB     |            |   0% 
liblapack-3.9.0      | 14 KB     | ########## | 100% 
liblapack-3.9.0      | 14 KB     | ########## | 100% 

libblas-3.9.0        | 14 KB     |            |   0% 
libblas-3.9.0        | 14 KB     | ########## | 100% 
libblas-3.9.0        | 14 KB     | ########## | 100% 

six-1.16.0           | 14 KB     |            |   0% 
six-1.16.0           | 14 KB     | ########## | 100% 

python-dateutil-2.8. | 240 KB    |            |   0% 
python-dateutil-2.8. | 240 KB    | ########## | 100% 
python-dateutil-2.8. | 240 KB    | ########## | 100% 

pytz-2023.3.post1    | 183 KB    |            |   0% 
pytz-2023.3.post1    | 183 KB    | ########## | 100% 
pytz-2023.3.post1    | 183 KB    | ########## | 100% 

numpy-1.24.4         | 5.3 MB    |            |   0% 
numpy-1.24.4         | 5.3 MB    |            |   0% 
numpy-1.24.4         | 5.3 MB    | #4         |  14% 
numpy-1.24.4         | 5.3 MB    | ######8    |  69% 
numpy-1.24.4         | 5.3 MB    | ########## | 100% 
numpy-1.24.4         | 5.3 MB    | ########## | 100% 

libcxx-16.0.6        | 1.1 MB    |            |   0% 
libcxx-16.0.6        | 1.1 MB    | ########## | 100% 
libcxx-16.0.6        | 1.1 MB    | ########## | 100% 

llvm-openmp-17.0.2   | 269 KB    |            |   0% 
llvm-openmp-17.0.2   | 269 KB    | ########## | 100% 
llvm-openmp-17.0.2   | 269 KB    | ########## | 100% 

libopenblas-0.3.24   | 2.7 MB    |            |   0% 
libopenblas-0.3.24   | 2.7 MB    | ########## | 100% 
libopenblas-0.3.24   | 2.7 MB    | ########## | 100% 
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.12.1

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-arm64::bzip2-1.0.8-h3422bc3_4
  ca-certificates    conda-forge/osx-arm64::ca-certificates-2023.7.22-hf0a4a13_0
  libffi             conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
  libsqlite          conda-forge/osx-arm64::libsqlite-3.43.2-h091b4b1_0
  libzlib            conda-forge/osx-arm64::libzlib-1.2.13-h53f4e23_5
  ncurses            conda-forge/osx-arm64::ncurses-6.4-h7ea286d_0
  openssl            conda-forge/osx-arm64::openssl-3.1.3-h53f4e23_0
  pip                conda-forge/noarch::pip-23.3-pyhd8ed1ab_0
  python             conda-forge/osx-arm64::python-3.8.13-hd3575e6_0_cpython
  readline           conda-forge/osx-arm64::readline-8.2-h92ec313_1
  setuptools         conda-forge/noarch::setuptools-68.2.2-pyhd8ed1ab_0
  sqlite             conda-forge/osx-arm64::sqlite-3.43.2-hf2abe2d_0
  tk                 conda-forge/osx-arm64::tk-8.6.13-hb31c410_0
  wheel              conda-forge/noarch::wheel-0.41.2-pyhd8ed1ab_0
  xz                 conda-forge/osx-arm64::xz-5.2.6-h57fd34a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.12.1

  added / updated specs:
    - python=3.8.13


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2023.7.2~ --> pkgs/main::ca-certificates-2023.08.22-hca03da5_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl             conda-forge::openssl-3.1.3-h53f4e23_0 --> pkgs/main::openssl-3.0.11-h1a28f6b_2


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.12.1

  added / updated specs:
    - pandas=1.4.3
    - python-dateutil=2.8.2
    - python=3.8.13
    - pytz=2022.2.1


The following NEW packages will be INSTALLED:

  libblas            conda-forge/osx-arm64::libblas-3.9.0-19_osxarm64_openblas
  libcblas           conda-forge/osx-arm64::libcblas-3.9.0-19_osxarm64_openblas
  libcxx             conda-forge/osx-arm64::libcxx-16.0.6-h4653b0c_0
  libgfortran        conda-forge/osx-arm64::libgfortran-5.0.0-13_2_0_hd922786_1
  libgfortran5       conda-forge/osx-arm64::libgfortran5-13.2.0-hf226fd6_1
  liblapack          conda-forge/osx-arm64::liblapack-3.9.0-19_osxarm64_openblas
  libopenblas        conda-forge/osx-arm64::libopenblas-0.3.24-openmp_hd76b1f2_0
  llvm-openmp        conda-forge/osx-arm64::llvm-openmp-17.0.2-h1c12783_0
  numpy              conda-forge/osx-arm64::numpy-1.24.4-py38ha84db1f_0
  pandas             conda-forge/osx-arm64::pandas-1.4.3-py38h6724fcd_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/osx-arm64::python_abi-3.8-4_cp38
  pytz               conda-forge/noarch::pytz-2022.2.1-pyhd8ed1ab_0
  six                conda-forge/noarch::six-1.16.0-pyh6c4a22f_0

The following packages will be UPDATED:

  openssl              pkgs/main::openssl-3.0.11-h1a28f6b_2 --> conda-forge::openssl-3.1.3-h53f4e23_0

The following packages will be SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.08.22~ --> conda-forge::ca-certificates-2023.7.22-hf0a4a13_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


WARNING: There was an error checking the latest version of pip.
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_A

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-arm64::bzip2-1.0.8-h3422bc3_4
  ca-certificates    conda-forge/osx-arm64::ca-certificates-2023.7.22-hf0a4a13_0
  libffi             conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
  libsqlite          conda-forge/osx-arm64::libsqlite-3.43.2-h091b4b1_0
  libzlib            conda-forge/osx-arm64::libzlib-1.2.13-h53f4e23_5
  ncurses            conda-forge/osx-arm64::ncurses-6.4-h7ea286d_0
  openssl            conda-forge/osx-arm64::openssl-3.1.3-h53f4e23_0
  pip                conda-forge/noarch::pip-23.3-pyhd8ed1ab_0
  python             conda-forge/osx-arm64::python-3.8.13-hd3575e6_0_cpython
  readline           conda-forge/osx-arm64::readline-8.2-h92ec313_1
  setuptools         conda-forge/noarch::setuptools-68.2.2-pyhd8ed1ab_0
  sqlite             conda-forge/osx-arm64::sqlite-3.43.2-hf2abe2d_0
  tk                 conda-forge/osx-arm64::tk-8.6.13-hb31c410_0
  wheel              conda-forge/noarch::wheel-0.41.2-pyhd8ed1ab_0
  xz                 conda-forge/osx-arm64::xz-5.2.6-h57fd34a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_A

  added / updated specs:
    - python=3.8.13


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2023.7.2~ --> pkgs/main::ca-certificates-2023.08.22-hca03da5_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl             conda-forge::openssl-3.1.3-h53f4e23_0 --> pkgs/main::openssl-3.0.11-h1a28f6b_2


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_A

  added / updated specs:
    - pandas=1.4.3
    - python-dateutil=2.8.2
    - python=3.8.13
    - pytz=2022.2.1


The following NEW packages will be INSTALLED:

  libblas            conda-forge/osx-arm64::libblas-3.9.0-19_osxarm64_openblas
  libcblas           conda-forge/osx-arm64::libcblas-3.9.0-19_osxarm64_openblas
  libcxx             conda-forge/osx-arm64::libcxx-16.0.6-h4653b0c_0
  libgfortran        conda-forge/osx-arm64::libgfortran-5.0.0-13_2_0_hd922786_1
  libgfortran5       conda-forge/osx-arm64::libgfortran5-13.2.0-hf226fd6_1
  liblapack          conda-forge/osx-arm64::liblapack-3.9.0-19_osxarm64_openblas
  libopenblas        conda-forge/osx-arm64::libopenblas-0.3.24-openmp_hd76b1f2_0
  llvm-openmp        conda-forge/osx-arm64::llvm-openmp-17.0.2-h1c12783_0
  numpy              conda-forge/osx-arm64::numpy-1.24.4-py38ha84db1f_0
  pandas             conda-forge/osx-arm64::pandas-1.4.3-py38h6724fcd_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/osx-arm64::python_abi-3.8-4_cp38
  pytz               conda-forge/noarch::pytz-2022.2.1-pyhd8ed1ab_0
  six                conda-forge/noarch::six-1.16.0-pyh6c4a22f_0

The following packages will be UPDATED:

  openssl              pkgs/main::openssl-3.0.11-h1a28f6b_2 --> conda-forge::openssl-3.1.3-h53f4e23_0

The following packages will be SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.08.22~ --> conda-forge::ca-certificates-2023.7.22-hf0a4a13_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_B

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-arm64::bzip2-1.0.8-h3422bc3_4
  ca-certificates    conda-forge/osx-arm64::ca-certificates-2023.7.22-hf0a4a13_0
  libffi             conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
  libsqlite          conda-forge/osx-arm64::libsqlite-3.43.2-h091b4b1_0
  libzlib            conda-forge/osx-arm64::libzlib-1.2.13-h53f4e23_5
  ncurses            conda-forge/osx-arm64::ncurses-6.4-h7ea286d_0
  openssl            conda-forge/osx-arm64::openssl-3.1.3-h53f4e23_0
  pip                conda-forge/noarch::pip-23.3-pyhd8ed1ab_0
  python             conda-forge/osx-arm64::python-3.8.13-hd3575e6_0_cpython
  readline           conda-forge/osx-arm64::readline-8.2-h92ec313_1
  setuptools         conda-forge/noarch::setuptools-68.2.2-pyhd8ed1ab_0
  sqlite             conda-forge/osx-arm64::sqlite-3.43.2-hf2abe2d_0
  tk                 conda-forge/osx-arm64::tk-8.6.13-hb31c410_0
  wheel              conda-forge/noarch::wheel-0.41.2-pyhd8ed1ab_0
  xz                 conda-forge/osx-arm64::xz-5.2.6-h57fd34a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_B

  added / updated specs:
    - python=3.8.13


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2023.7.2~ --> pkgs/main::ca-certificates-2023.08.22-hca03da5_0

The following packages will be SUPERSEDED by a higher-priority channel:

  openssl             conda-forge::openssl-3.1.3-h53f4e23_0 --> pkgs/main::openssl-3.0.11-h1a28f6b_2


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/bbs-3.17-bioc-mac-arm64/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_B

  added / updated specs:
    - pandas=1.4.2
    - python-dateutil=2.8.1
    - python=3.8.13
    - pytz=2022.1


The following NEW packages will be INSTALLED:

  libblas            conda-forge/osx-arm64::libblas-3.9.0-19_osxarm64_openblas
  libcblas           conda-forge/osx-arm64::libcblas-3.9.0-19_osxarm64_openblas
  libcxx             conda-forge/osx-arm64::libcxx-16.0.6-h4653b0c_0
  libgfortran        conda-forge/osx-arm64::libgfortran-5.0.0-13_2_0_hd922786_1
  libgfortran5       conda-forge/osx-arm64::libgfortran5-13.2.0-hf226fd6_1
  liblapack          conda-forge/osx-arm64::liblapack-3.9.0-19_osxarm64_openblas
  libopenblas        conda-forge/osx-arm64::libopenblas-0.3.24-openmp_hd76b1f2_0
  llvm-openmp        conda-forge/osx-arm64::llvm-openmp-17.0.2-h1c12783_0
  numpy              conda-forge/osx-arm64::numpy-1.24.4-py38ha84db1f_0
  pandas             conda-forge/osx-arm64::pandas-1.4.2-py38h6724fcd_2
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.1-py_0
  python_abi         conda-forge/osx-arm64::python_abi-3.8-4_cp38
  pytz               conda-forge/noarch::pytz-2022.1-pyhd8ed1ab_0
  six                conda-forge/noarch::six-1.16.0-pyh6c4a22f_0

The following packages will be UPDATED:

  openssl              pkgs/main::openssl-3.0.11-h1a28f6b_2 --> conda-forge::openssl-3.1.3-h53f4e23_0

The following packages will be SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.08.22~ --> conda-forge::ca-certificates-2023.7.22-hf0a4a13_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.9.0

Please update conda by running

    $ conda update -n base -c defaults conda

Example timings

basilisk.Rcheck/basilisk-Ex.timings

nameusersystemelapsed
BasiliskEnvironment-class0.0030.0000.007
PyPiLink000
basiliskOptions0.0000.0010.000
basiliskStart177.331 43.539444.238
configureBasiliskEnv0.0040.0000.007
createLocalBasiliskEnv 60.157 19.701172.328
listPackages1.2340.4163.091
obtainEnvironmentPath0.0210.0020.031
setupBasiliskEnv0.0130.0020.019
useBasiliskEnv1.8880.6344.168