Back to Multiple platform build/check report for BioC 3.16:   simplified   long
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2023-04-12 11:05:59 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4282
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4310
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

CHECK results for basilisk on lconway


To the developers/maintainers of the basilisk package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/basilisk.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 121/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
basilisk 1.10.2  (landing page)
Aaron Lun
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/basilisk
git_branch: RELEASE_3_16
git_last_commit: 9c9ad75
git_last_commit_date: 2022-11-08 11:29:13 -0400 (Tue, 08 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    TIMEOUT    OK  
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: basilisk
Version: 1.10.2
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_1.10.2.tar.gz
StartedAt: 2023-04-10 18:54:27 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 19:26:06 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 1899.0 seconds
RetCode: 0
Status:   OK  
CheckDir: basilisk.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:basilisk.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings basilisk_1.10.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/basilisk.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘basilisk/DESCRIPTION’ ... OK
* this is package ‘basilisk’ version ‘1.10.2’
* 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-3.16-bioc/meat/basilisk.Rcheck/00install.out’ for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking 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 ... 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 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          220.476 35.040 293.384
createLocalBasiliskEnv  72.420 14.442 101.853
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/Users/biocbuild/bbs-3.16-bioc/meat/basilisk.Rcheck/00check.log’
for details.

Installation output

basilisk.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/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 4.2.3 (2023-03-15) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (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-3.16-bioc/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-64::bzip2-1.0.8-h0d85af4_4
  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  libffi             conda-forge/osx-64::libffi-3.4.2-h0d85af4_5
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-3.1.0-hfd90126_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/osx-64::python-3.8.13-h66c20e1_0_cpython
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/osx-64::sqlite-3.40.0-h9ae0607_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/osx-64::xz-5.2.6-h775f41a_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-3.16-bioc/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-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_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: 23.3.1

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-3.16-bioc/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-64::libblas-3.9.0-16_osx64_openblas
  libcblas           conda-forge/osx-64::libcblas-3.9.0-16_osx64_openblas
  libcxx             conda-forge/osx-64::libcxx-16.0.1-h71dddab_0
  libgfortran        conda-forge/osx-64::libgfortran-5.0.0-11_3_0_h97931a8_31
  libgfortran5       conda-forge/osx-64::libgfortran5-12.2.0-he409387_31
  liblapack          conda-forge/osx-64::liblapack-3.9.0-16_osx64_openblas
  libopenblas        conda-forge/osx-64::libopenblas-0.3.21-openmp_h429af6e_3
  llvm-openmp        conda-forge/osx-64::llvm-openmp-16.0.1-h61d9ccf_0
  numpy              conda-forge/osx-64::numpy-1.24.2-py38h5a2dcdf_0
  pandas             conda-forge/osx-64::pandas-1.4.3-py38h2b30649_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/osx-64::python_abi-3.8-3_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 SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-h033912b_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: 23.3.1

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-3.16-bioc/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-64::bzip2-1.0.8-h0d85af4_4
  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  libffi             conda-forge/osx-64::libffi-3.4.2-h0d85af4_5
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-3.1.0-hfd90126_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/osx-64::python-3.8.13-h66c20e1_0_cpython
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/osx-64::sqlite-3.40.0-h9ae0607_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/osx-64::xz-5.2.6-h775f41a_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-3.16-bioc/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-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_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: 23.3.1

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-3.16-bioc/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-64::libblas-3.9.0-16_osx64_openblas
  libcblas           conda-forge/osx-64::libcblas-3.9.0-16_osx64_openblas
  libcxx             conda-forge/osx-64::libcxx-16.0.1-h71dddab_0
  libgfortran        conda-forge/osx-64::libgfortran-5.0.0-11_3_0_h97931a8_31
  libgfortran5       conda-forge/osx-64::libgfortran5-12.2.0-he409387_31
  liblapack          conda-forge/osx-64::liblapack-3.9.0-16_osx64_openblas
  libopenblas        conda-forge/osx-64::libopenblas-0.3.21-openmp_h429af6e_3
  llvm-openmp        conda-forge/osx-64::llvm-openmp-16.0.1-h61d9ccf_0
  numpy              conda-forge/osx-64::numpy-1.24.2-py38h5a2dcdf_0
  pandas             conda-forge/osx-64::pandas-1.4.2-py38h2b30649_2
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.1-py_0
  python_abi         conda-forge/osx-64::python_abi-3.8-3_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 SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-h033912b_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: 23.3.1

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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=2.7


The following NEW packages will be INSTALLED:

  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  certifi            conda-forge/osx-64::certifi-2019.11.28-py27h8c360ce_1
  libcxx             conda-forge/osx-64::libcxx-16.0.1-h71dddab_0
  libffi             conda-forge/osx-64::libffi-3.2.1-hb1e8313_1007
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-1.1.1t-hfd90126_0
  pip                conda-forge/noarch::pip-20.1.1-pyh9f0ad1d_0
  python             conda-forge/osx-64::python-2.7.15-h8e446fc_1011_cpython
  python_abi         conda-forge/osx-64::python_abi-2.7-1_cp27m
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/osx-64::setuptools-44.0.0-py27_0
  sqlite             conda-forge/osx-64::sqlite-3.40.0-h9ae0607_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  wheel              conda-forge/noarch::wheel-0.37.1-pyhd8ed1ab_0
  zlib               conda-forge/osx-64::zlib-1.2.13-hfd90126_4


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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=2.7


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_0
  certifi            conda-forge/osx-64::certifi-2019.11.2~ --> pkgs/main/noarch::certifi-2020.6.20-pyhd3eb1b0_3
  python             conda-forge::python-2.7.15-h8e446fc_1~ --> pkgs/main::python-2.7.18-hc817775_0

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

  openssl            conda-forge::openssl-1.1.1t-hfd90126_0 --> pkgs/main::openssl-1.1.1t-hca72f7f_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: 23.3.1

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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python[version='2.7.*,2.7.*']


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

  ca-certificates    pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-h033912b_0
  certifi            pkgs/main/noarch::certifi-2020.6.20-p~ --> conda-forge/osx-64::certifi-2016.9.26-py27_0
  openssl              pkgs/main::openssl-1.1.1t-hca72f7f_0 --> conda-forge::openssl-1.1.1t-hfd90126_0
  python                pkgs/main::python-2.7.18-hc817775_0 --> conda-forge::python-2.7.15-h8e446fc_1011_cpython


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: 23.3.1

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-3.16-bioc/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-64::bzip2-1.0.8-h0d85af4_4
  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  libffi             conda-forge/osx-64::libffi-3.4.2-h0d85af4_5
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-3.1.0-hfd90126_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/osx-64::python-3.8.13-h66c20e1_0_cpython
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/osx-64::sqlite-3.40.0-h9ae0607_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/osx-64::xz-5.2.6-h775f41a_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-3.16-bioc/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-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_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: 23.3.1

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-3.16-bioc/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 SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-h033912b_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: 23.3.1

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting pandas==1.4.2
  Using cached pandas-1.4.2-cp38-cp38-macosx_10_9_x86_64.whl (11.0 MB)
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)
Collecting numpy>=1.18.5
  Using cached numpy-1.24.2-cp38-cp38-macosx_10_9_x86_64.whl (19.8 MB)
Requirement already satisfied: pytz>=2020.1 in ./install-test-client/thingo/lib/python3.8/site-packages (from pandas==1.4.2) (2022.1)
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)
Installing collected packages: numpy, pandas
Successfully installed numpy-1.24.2 pandas-1.4.2
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-3.16-bioc/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-64::bzip2-1.0.8-h0d85af4_4
  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  libffi             conda-forge/osx-64::libffi-3.4.2-h0d85af4_5
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-3.1.0-hfd90126_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/osx-64::python-3.8.13-h66c20e1_0_cpython
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/osx-64::sqlite-3.40.0-h9ae0607_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/osx-64::xz-5.2.6-h775f41a_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-3.16-bioc/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-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_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: 23.3.1

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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


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

  ca-certificates    pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-h033912b_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: 23.3.1

Please update conda by running

    $ conda update -n base -c defaults conda


Processing /Library/Frameworks/R.framework/Versions/4.2/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=4c137b89715b965a95858891f6afac2264c1bc0fe76169c3fd5c6e2574ea1c65
  Stored in directory: /private/tmp/pip-ephem-wheel-cache-0b3u0_sm/wheels/0b/44/c3/88772cbe914e22a46ac2d2befcb280cb1ef9479ab0dcafc448
Successfully built test-dummy
Installing collected packages: test-dummy
Successfully installed test-dummy-0.1
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-3.16-bioc/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-64::bzip2-1.0.8-h0d85af4_4
  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  libffi             conda-forge/osx-64::libffi-3.4.2-h0d85af4_5
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-3.1.0-hfd90126_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/osx-64::python-3.8.13-h66c20e1_0_cpython
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/osx-64::sqlite-3.40.0-h9ae0607_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/osx-64::xz-5.2.6-h775f41a_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-3.16-bioc/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-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_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: 23.3.1

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-64
  - https://conda.anaconda.org/conda-forge/noarch
  - https://repo.anaconda.com/pkgs/main/osx-64
  - https://repo.anaconda.com/pkgs/main/noarch
  - https://repo.anaconda.com/pkgs/r/osx-64
  - 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-x86_64.sh'
Content type 'application/x-sh' length 59150526 bytes (56.4 MB)
==================================================
downloaded 56.4 MB

PREFIX=/tmp/RtmpDOug8k/file14b7a5086c171/1.10.2/0
Unpacking payload ...

  0%|          | 0/35 [00:00<?, ?it/s]
Extracting : openssl-1.1.1n-hca72f7f_0.conda:   0%|          | 0/35 [00:01<?, ?it/s]
Extracting : openssl-1.1.1n-hca72f7f_0.conda:   3%|▎         | 1/35 [00:01<00:59,  1.75s/it]
Extracting : libffi-3.3-hb1e8313_2.conda:   3%|▎         | 1/35 [00:01<00:59,  1.75s/it]    
Extracting : pysocks-1.7.1-py38_1.conda:   6%|▌         | 2/35 [00:01<00:57,  1.75s/it] 
Extracting : requests-2.27.1-pyhd3eb1b0_0.conda:   9%|▊         | 3/35 [00:01<00:56,  1.75s/it]
Extracting : ca-certificates-2022.3.29-hecd8cb5_1.conda:  11%|█▏        | 4/35 [00:01<00:54,  1.75s/it]
Extracting : zlib-1.2.12-h4dc903c_1.conda:  14%|█▍        | 5/35 [00:01<00:52,  1.75s/it]              
Extracting : six-1.16.0-pyhd3eb1b0_1.conda:  17%|█▋        | 6/35 [00:01<00:50,  1.75s/it]
Extracting : cffi-1.15.0-py38hc55c11b_1.conda:  20%|██        | 7/35 [00:01<00:49,  1.75s/it]
Extracting : certifi-2021.10.8-py38hecd8cb5_2.conda:  23%|██▎       | 8/35 [00:01<00:47,  1.75s/it]
Extracting : ncurses-6.3-hca72f7f_2.conda:  26%|██▌       | 9/35 [00:06<00:45,  1.75s/it]          
Extracting : ncurses-6.3-hca72f7f_2.conda:  29%|██▊       | 10/35 [00:06<00:16,  1.54it/s]
Extracting : pycosat-0.6.3-py38h1de35cc_1.conda:  29%|██▊       | 10/35 [00:06<00:16,  1.54it/s]
Extracting : colorama-0.4.4-pyhd3eb1b0_0.conda:  31%|███▏      | 11/35 [00:06<00:15,  1.54it/s] 
Extracting : conda-package-handling-1.8.1-py38hca72f7f_0.conda:  34%|███▍      | 12/35 [00:06<00:14,  1.54it/s]
Extracting : wheel-0.37.1-pyhd3eb1b0_0.conda:  37%|███▋      | 13/35 [00:06<00:14,  1.54it/s]                  
Extracting : charset-normalizer-2.0.4-pyhd3eb1b0_0.conda:  40%|████      | 14/35 [00:06<00:13,  1.54it/s]
Extracting : tk-8.6.11-h7bc2e8c_0.conda:  43%|████▎     | 15/35 [00:06<00:12,  1.54it/s]                 
Extracting : ruamel_yaml-0.15.100-py38h9ed2024_0.conda:  46%|████▌     | 16/35 [00:06<00:12,  1.54it/s]
Extracting : setuptools-61.2.0-py38hecd8cb5_0.conda:  49%|████▊     | 17/35 [00:06<00:11,  1.54it/s]   
Extracting : sqlite-3.38.2-h707629a_0.conda:  51%|█████▏    | 18/35 [00:06<00:11,  1.54it/s]        
Extracting : readline-8.1.2-hca72f7f_1.conda:  54%|█████▍    | 19/35 [00:06<00:10,  1.54it/s]
Extracting : brotlipy-0.7.0-py38h9ed2024_1003.conda:  57%|█████▋    | 20/35 [00:06<00:09,  1.54it/s]
Extracting : pycparser-2.21-pyhd3eb1b0_0.conda:  60%|██████    | 21/35 [00:06<00:09,  1.54it/s]     
Extracting : cryptography-36.0.0-py38hf6deb26_0.conda:  63%|██████▎   | 22/35 [00:06<00:08,  1.54it/s]
Extracting : pyopenssl-22.0.0-pyhd3eb1b0_0.conda:  66%|██████▌   | 23/35 [00:06<00:07,  1.54it/s]     
Extracting : python.app-3-py38hca72f7f_0.conda:  69%|██████▊   | 24/35 [00:06<00:07,  1.54it/s]  
Extracting : urllib3-1.26.8-pyhd3eb1b0_0.conda:  71%|███████▏  | 25/35 [00:06<00:06,  1.54it/s]
Extracting : pip-21.2.4-py38hecd8cb5_0.conda:  74%|███████▍  | 26/35 [00:06<00:05,  1.54it/s]  
Extracting : conda-4.12.0-py38hecd8cb5_0.conda:  77%|███████▋  | 27/35 [00:08<00:05,  1.54it/s]
Extracting : conda-4.12.0-py38hecd8cb5_0.conda:  80%|████████  | 28/35 [00:08<00:01,  4.35it/s]
Extracting : conda-content-trust-0.1.1-pyhd3eb1b0_0.conda:  80%|████████  | 28/35 [00:08<00:01,  4.35it/s]
Extracting : idna-3.3-pyhd3eb1b0_0.conda:  83%|████████▎ | 29/35 [00:08<00:01,  4.35it/s]                 
Extracting : python-3.8.13-hdfd78df_0.conda:  86%|████████▌ | 30/35 [00:08<00:01,  4.35it/s]
Extracting : xz-5.2.5-h1de35cc_0.conda:  89%|████████▊ | 31/35 [00:08<00:00,  4.35it/s]     
Extracting : libcxx-12.0.0-h2f01273_0.conda:  91%|█████████▏| 32/35 [00:08<00:00,  4.35it/s]
Extracting : yaml-0.2.5-haf1e3a3_0.conda:  94%|█████████▍| 33/35 [00:08<00:00,  4.35it/s]   
Extracting : tqdm-4.63.0-pyhd3eb1b0_0.conda:  97%|█████████▋| 34/35 [00:08<00:00,  4.35it/s]
                                                                                            
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /tmp/RtmpDOug8k/file14b7a5086c171/1.10.2/0

  added / updated specs:
    - brotlipy==0.7.0=py38h9ed2024_1003
    - ca-certificates==2022.3.29=hecd8cb5_1
    - certifi==2021.10.8=py38hecd8cb5_2
    - cffi==1.15.0=py38hc55c11b_1
    - charset-normalizer==2.0.4=pyhd3eb1b0_0
    - colorama==0.4.4=pyhd3eb1b0_0
    - conda-content-trust==0.1.1=pyhd3eb1b0_0
    - conda-package-handling==1.8.1=py38hca72f7f_0
    - conda==4.12.0=py38hecd8cb5_0
    - cryptography==36.0.0=py38hf6deb26_0
    - idna==3.3=pyhd3eb1b0_0
    - libcxx==12.0.0=h2f01273_0
    - libffi==3.3=hb1e8313_2
    - ncurses==6.3=hca72f7f_2
    - openssl==1.1.1n=hca72f7f_0
    - pip==21.2.4=py38hecd8cb5_0
    - pycosat==0.6.3=py38h1de35cc_1
    - pycparser==2.21=pyhd3eb1b0_0
    - pyopenssl==22.0.0=pyhd3eb1b0_0
    - pysocks==1.7.1=py38_1
    - python.app==3=py38hca72f7f_0
    - python==3.8.13=hdfd78df_0
    - readline==8.1.2=hca72f7f_1
    - requests==2.27.1=pyhd3eb1b0_0
    - ruamel_yaml==0.15.100=py38h9ed2024_0
    - setuptools==61.2.0=py38hecd8cb5_0
    - six==1.16.0=pyhd3eb1b0_1
    - sqlite==3.38.2=h707629a_0
    - tk==8.6.11=h7bc2e8c_0
    - tqdm==4.63.0=pyhd3eb1b0_0
    - urllib3==1.26.8=pyhd3eb1b0_0
    - wheel==0.37.1=pyhd3eb1b0_0
    - xz==5.2.5=h1de35cc_0
    - yaml==0.2.5=haf1e3a3_0
    - zlib==1.2.12=h4dc903c_1


The following NEW packages will be INSTALLED:

  brotlipy           pkgs/main/osx-64::brotlipy-0.7.0-py38h9ed2024_1003
  ca-certificates    pkgs/main/osx-64::ca-certificates-2022.3.29-hecd8cb5_1
  certifi            pkgs/main/osx-64::certifi-2021.10.8-py38hecd8cb5_2
  cffi               pkgs/main/osx-64::cffi-1.15.0-py38hc55c11b_1
  charset-normalizer pkgs/main/noarch::charset-normalizer-2.0.4-pyhd3eb1b0_0
  colorama           pkgs/main/noarch::colorama-0.4.4-pyhd3eb1b0_0
  conda              pkgs/main/osx-64::conda-4.12.0-py38hecd8cb5_0
  conda-content-tru~ pkgs/main/noarch::conda-content-trust-0.1.1-pyhd3eb1b0_0
  conda-package-han~ pkgs/main/osx-64::conda-package-handling-1.8.1-py38hca72f7f_0
  cryptography       pkgs/main/osx-64::cryptography-36.0.0-py38hf6deb26_0
  idna               pkgs/main/noarch::idna-3.3-pyhd3eb1b0_0
  libcxx             pkgs/main/osx-64::libcxx-12.0.0-h2f01273_0
  libffi             pkgs/main/osx-64::libffi-3.3-hb1e8313_2
  ncurses            pkgs/main/osx-64::ncurses-6.3-hca72f7f_2
  openssl            pkgs/main/osx-64::openssl-1.1.1n-hca72f7f_0
  pip                pkgs/main/osx-64::pip-21.2.4-py38hecd8cb5_0
  pycosat            pkgs/main/osx-64::pycosat-0.6.3-py38h1de35cc_1
  pycparser          pkgs/main/noarch::pycparser-2.21-pyhd3eb1b0_0
  pyopenssl          pkgs/main/noarch::pyopenssl-22.0.0-pyhd3eb1b0_0
  pysocks            pkgs/main/osx-64::pysocks-1.7.1-py38_1
  python             pkgs/main/osx-64::python-3.8.13-hdfd78df_0
  python.app         pkgs/main/osx-64::python.app-3-py38hca72f7f_0
  readline           pkgs/main/osx-64::readline-8.1.2-hca72f7f_1
  requests           pkgs/main/noarch::requests-2.27.1-pyhd3eb1b0_0
  ruamel_yaml        pkgs/main/osx-64::ruamel_yaml-0.15.100-py38h9ed2024_0
  setuptools         pkgs/main/osx-64::setuptools-61.2.0-py38hecd8cb5_0
  six                pkgs/main/noarch::six-1.16.0-pyhd3eb1b0_1
  sqlite             pkgs/main/osx-64::sqlite-3.38.2-h707629a_0
  tk                 pkgs/main/osx-64::tk-8.6.11-h7bc2e8c_0
  tqdm               pkgs/main/noarch::tqdm-4.63.0-pyhd3eb1b0_0
  urllib3            pkgs/main/noarch::urllib3-1.26.8-pyhd3eb1b0_0
  wheel              pkgs/main/noarch::wheel-0.37.1-pyhd3eb1b0_0
  xz                 pkgs/main/osx-64::xz-5.2.5-h1de35cc_0
  yaml               pkgs/main/osx-64::yaml-0.2.5-haf1e3a3_0
  zlib               pkgs/main/osx-64::zlib-1.2.12-h4dc903c_1


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/RtmpDOug8k/file14b7a5086c171/1.10.2/basilisk.utils/1.10.0/test

  added / updated specs:
    - python=3.8.13


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    bzip2-1.0.8                |       h0d85af4_4         155 KB  conda-forge
    ca-certificates-2022.12.7  |       h033912b_0         142 KB  conda-forge
    libffi-3.4.2               |       h0d85af4_5          50 KB  conda-forge
    libsqlite-3.40.0           |       ha978bb4_0         873 KB  conda-forge
    libzlib-1.2.13             |       hfd90126_4          64 KB  conda-forge
    ncurses-6.3                |       h96cf925_1         915 KB  conda-forge
    openssl-3.1.0              |       hfd90126_0         2.2 MB  conda-forge
    pip-23.0.1                 |     pyhd8ed1ab_0         1.3 MB  conda-forge
    python-3.8.13              |h66c20e1_0_cpython        12.8 MB  conda-forge
    readline-8.2               |       h9e318b2_1         250 KB  conda-forge
    setuptools-67.6.1          |     pyhd8ed1ab_0         567 KB  conda-forge
    sqlite-3.40.0              |       h9ae0607_0         885 KB  conda-forge
    tk-8.6.12                  |       h5dbffcc_0         3.4 MB  conda-forge
    wheel-0.40.0               |     pyhd8ed1ab_0          54 KB  conda-forge
    xz-5.2.6                   |       h775f41a_0         233 KB  conda-forge
    ------------------------------------------------------------
                                           Total:        23.8 MB

The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-64::bzip2-1.0.8-h0d85af4_4
  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  libffi             conda-forge/osx-64::libffi-3.4.2-h0d85af4_5
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-3.1.0-hfd90126_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/osx-64::python-3.8.13-h66c20e1_0_cpython
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/osx-64::sqlite-3.40.0-h9ae0607_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/osx-64::xz-5.2.6-h775f41a_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/RtmpDOug8k/file14b7a5086c171/1.10.2/basilisk.utils/1.10.0/test

  added / updated specs:
    - python=3.8.13


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    ca-certificates-2023.01.10 |       hecd8cb5_0         121 KB
    ------------------------------------------------------------
                                           Total:         121 KB

The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_0



Downloading and Extracting Packages

ca-certificates-2023 | 121 KB    |            |   0% 
ca-certificates-2023 | 121 KB    | ########## | 100% 
ca-certificates-2023 | 121 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: 23.3.1

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/RtmpDOug8k/file14b7a5086c171/1.10.2/basilisk.utils/1.10.0/test

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


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    libblas-3.9.0              |16_osx64_openblas          13 KB  conda-forge
    libcblas-3.9.0             |16_osx64_openblas          13 KB  conda-forge
    libcxx-16.0.1              |       h71dddab_0         1.1 MB  conda-forge
    libgfortran-5.0.0          |11_3_0_h97931a8_31         156 KB  conda-forge
    libgfortran5-12.2.0        |      he409387_31         1.5 MB  conda-forge
    liblapack-3.9.0            |16_osx64_openblas          13 KB  conda-forge
    libopenblas-0.3.21         |openmp_h429af6e_3         9.6 MB  conda-forge
    llvm-openmp-16.0.1         |       h61d9ccf_0         290 KB  conda-forge
    numpy-1.24.2               |   py38h5a2dcdf_0         6.0 MB  conda-forge
    pandas-1.4.3               |   py38h2b30649_0        11.8 MB  conda-forge
    python-dateutil-2.8.2      |     pyhd8ed1ab_0         240 KB  conda-forge
    python_abi-3.8             |           3_cp38           6 KB  conda-forge
    pytz-2023.3                |     pyhd8ed1ab_0         182 KB  conda-forge
    six-1.16.0                 |     pyh6c4a22f_0          14 KB  conda-forge
    ------------------------------------------------------------
                                           Total:        31.0 MB

The following NEW packages will be INSTALLED:

  libblas            conda-forge/osx-64::libblas-3.9.0-16_osx64_openblas
  libcblas           conda-forge/osx-64::libcblas-3.9.0-16_osx64_openblas
  libcxx             conda-forge/osx-64::libcxx-16.0.1-h71dddab_0
  libgfortran        conda-forge/osx-64::libgfortran-5.0.0-11_3_0_h97931a8_31
  libgfortran5       conda-forge/osx-64::libgfortran5-12.2.0-he409387_31
  liblapack          conda-forge/osx-64::liblapack-3.9.0-16_osx64_openblas
  libopenblas        conda-forge/osx-64::libopenblas-0.3.21-openmp_h429af6e_3
  llvm-openmp        conda-forge/osx-64::llvm-openmp-16.0.1-h61d9ccf_0
  numpy              conda-forge/osx-64::numpy-1.24.2-py38h5a2dcdf_0
  pandas             conda-forge/osx-64::pandas-1.4.3-py38h2b30649_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/osx-64::python_abi-3.8-3_cp38
  pytz               conda-forge/noarch::pytz-2023.3-pyhd8ed1ab_0
  six                conda-forge/noarch::six-1.16.0-pyh6c4a22f_0

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

  ca-certificates    pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-h033912b_0



Downloading and Extracting Packages

libopenblas-0.3.21   | 9.6 MB    |            |   0% 
libopenblas-0.3.21   | 9.6 MB    |            |   0% 
libopenblas-0.3.21   | 9.6 MB    | ###2       |  32% 
libopenblas-0.3.21   | 9.6 MB    | ########8  |  88% 
libopenblas-0.3.21   | 9.6 MB    | ########## | 100% 

numpy-1.24.2         | 6.0 MB    |            |   0% 
numpy-1.24.2         | 6.0 MB    | ####1      |  42% 
numpy-1.24.2         | 6.0 MB    | ########## | 100% 
numpy-1.24.2         | 6.0 MB    | ########## | 100% 

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

pytz-2023.3          | 182 KB    |            |   0% 
pytz-2023.3          | 182 KB    | ########## | 100% 
pytz-2023.3          | 182 KB    | ########## | 100% 

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

libcxx-16.0.1        | 1.1 MB    |            |   0% 
libcxx-16.0.1        | 1.1 MB    | ########## | 100% 
libcxx-16.0.1        | 1.1 MB    | ########## | 100% 

libcblas-3.9.0       | 13 KB     |            |   0% 
libcblas-3.9.0       | 13 KB     | ########## | 100% 

liblapack-3.9.0      | 13 KB     |            |   0% 
liblapack-3.9.0      | 13 KB     | ########## | 100% 

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

llvm-openmp-16.0.1   | 290 KB    |            |   0% 
llvm-openmp-16.0.1   | 290 KB    | ########## | 100% 
llvm-openmp-16.0.1   | 290 KB    | ########## | 100% 

pandas-1.4.3         | 11.8 MB   |            |   0% 
pandas-1.4.3         | 11.8 MB   | #1         |  12% 
pandas-1.4.3         | 11.8 MB   | #####      |  50% 
pandas-1.4.3         | 11.8 MB   | #########1 |  91% 
pandas-1.4.3         | 11.8 MB   | ########## | 100% 

libgfortran-5.0.0    | 156 KB    |            |   0% 
libgfortran-5.0.0    | 156 KB    | ########## | 100% 
libgfortran-5.0.0    | 156 KB    | ########## | 100% 

libblas-3.9.0        | 13 KB     |            |   0% 
libblas-3.9.0        | 13 KB     | ########## | 100% 

libgfortran5-12.2.0  | 1.5 MB    |            |   0% 
libgfortran5-12.2.0  | 1.5 MB    | ########## | 100% 
libgfortran5-12.2.0  | 1.5 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: 23.3.1

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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.10.2

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-64::bzip2-1.0.8-h0d85af4_4
  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  libffi             conda-forge/osx-64::libffi-3.4.2-h0d85af4_5
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-3.1.0-hfd90126_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/osx-64::python-3.8.13-h66c20e1_0_cpython
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/osx-64::sqlite-3.40.0-h9ae0607_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/osx-64::xz-5.2.6-h775f41a_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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.10.2

  added / updated specs:
    - python=3.8.13


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_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: 23.3.1

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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.10.2

  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-64::libblas-3.9.0-16_osx64_openblas
  libcblas           conda-forge/osx-64::libcblas-3.9.0-16_osx64_openblas
  libcxx             conda-forge/osx-64::libcxx-16.0.1-h71dddab_0
  libgfortran        conda-forge/osx-64::libgfortran-5.0.0-11_3_0_h97931a8_31
  libgfortran5       conda-forge/osx-64::libgfortran5-12.2.0-he409387_31
  liblapack          conda-forge/osx-64::liblapack-3.9.0-16_osx64_openblas
  libopenblas        conda-forge/osx-64::libopenblas-0.3.21-openmp_h429af6e_3
  llvm-openmp        conda-forge/osx-64::llvm-openmp-16.0.1-h61d9ccf_0
  numpy              conda-forge/osx-64::numpy-1.24.2-py38h5a2dcdf_0
  pandas             conda-forge/osx-64::pandas-1.4.3-py38h2b30649_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/osx-64::python_abi-3.8-3_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 SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-h033912b_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: 23.3.1

Please update conda by running

    $ conda update -n base -c defaults conda


* installing *source* package ‘son.of.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
** testing if installed package can be loaded
* DONE (son.of.basilisk)
sys:1: FutureWarning: pandas.Float64Index is deprecated and will be removed from pandas in a future version. Use pandas.Index with the appropriate dtype instead.
sys:1: FutureWarning: pandas.Int64Index is deprecated and will be removed from pandas in a future version. Use pandas.Index with the appropriate dtype instead.
sys:1: FutureWarning: pandas.UInt64Index is deprecated and will be removed from pandas in a future version. Use pandas.Index with the appropriate dtype instead.
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-3.16-bioc/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-64::bzip2-1.0.8-h0d85af4_4
  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  libffi             conda-forge/osx-64::libffi-3.4.2-h0d85af4_5
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-3.1.0-hfd90126_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/osx-64::python-3.8.13-h66c20e1_0_cpython
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/osx-64::sqlite-3.40.0-h9ae0607_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/osx-64::xz-5.2.6-h775f41a_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-3.16-bioc/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-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_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: 23.3.1

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-3.16-bioc/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-64::libblas-3.9.0-16_osx64_openblas
  libcblas           conda-forge/osx-64::libcblas-3.9.0-16_osx64_openblas
  libcxx             conda-forge/osx-64::libcxx-16.0.1-h71dddab_0
  libgfortran        conda-forge/osx-64::libgfortran-5.0.0-11_3_0_h97931a8_31
  libgfortran5       conda-forge/osx-64::libgfortran5-12.2.0-he409387_31
  liblapack          conda-forge/osx-64::liblapack-3.9.0-16_osx64_openblas
  libopenblas        conda-forge/osx-64::libopenblas-0.3.21-openmp_h429af6e_3
  llvm-openmp        conda-forge/osx-64::llvm-openmp-16.0.1-h61d9ccf_0
  numpy              conda-forge/osx-64::numpy-1.24.2-py38h5a2dcdf_0
  pandas             conda-forge/osx-64::pandas-1.4.3-py38h2b30649_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/osx-64::python_abi-3.8-3_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 SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-h033912b_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: 23.3.1

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-3.16-bioc/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-64::bzip2-1.0.8-h0d85af4_4
  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  libffi             conda-forge/osx-64::libffi-3.4.2-h0d85af4_5
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-3.1.0-hfd90126_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/osx-64::python-3.8.13-h66c20e1_0_cpython
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/osx-64::sqlite-3.40.0-h9ae0607_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/osx-64::xz-5.2.6-h775f41a_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-3.16-bioc/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-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_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: 23.3.1

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-3.16-bioc/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-64::libblas-3.9.0-16_osx64_openblas
  libcblas           conda-forge/osx-64::libcblas-3.9.0-16_osx64_openblas
  libcxx             conda-forge/osx-64::libcxx-16.0.1-h71dddab_0
  libgfortran        conda-forge/osx-64::libgfortran-5.0.0-11_3_0_h97931a8_31
  libgfortran5       conda-forge/osx-64::libgfortran5-12.2.0-he409387_31
  liblapack          conda-forge/osx-64::liblapack-3.9.0-16_osx64_openblas
  libopenblas        conda-forge/osx-64::libopenblas-0.3.21-openmp_h429af6e_3
  llvm-openmp        conda-forge/osx-64::llvm-openmp-16.0.1-h61d9ccf_0
  numpy              conda-forge/osx-64::numpy-1.24.2-py38h5a2dcdf_0
  pandas             conda-forge/osx-64::pandas-1.4.2-py38h2b30649_2
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.1-py_0
  python_abi         conda-forge/osx-64::python_abi-3.8-3_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 SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-h033912b_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: 23.3.1

Please update conda by running

    $ conda update -n base -c defaults conda


[ FAIL 0 | WARN 0 | SKIP 0 | PASS 67 ]
> 
> proc.time()
    user   system  elapsed 
 846.751  233.886 1419.214

Example timings

basilisk.Rcheck/basilisk-Ex.timings

nameusersystemelapsed
BasiliskEnvironment-class0.0020.0000.003
PyPiLink0.0000.0000.001
basiliskOptions0.0000.0010.001
basiliskStart220.476 35.040293.384
configureBasiliskEnv0.0000.0000.001
createLocalBasiliskEnv 72.420 14.442101.853
listPackages0.8470.3971.498
obtainEnvironmentPath0.0100.0020.012
setupBasiliskEnv0.0060.0010.008
useBasiliskEnv1.4130.5982.157