Back to Multiple platform build/check report for BioC 3.17
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This page was generated on 2023-04-12 10:55:21 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.1 LTS)x86_644.3.0 alpha (2023-04-03 r84154) 4547
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_64R Under development (unstable) (2023-02-14 r83833) -- "Unsuffered Consequences" 4333
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 nebbiolo1


To the developers/maintainers of the basilisk package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/basilisk.git to reflect on this report. See Troubleshooting Build Report for more information.

- Use the following Renviron settings to reproduce errors and warnings.

Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details.

raw results

Package 133/2207HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
basilisk 1.11.3  (landing page)
Aaron Lun
Snapshot Date: 2023-04-11 14:00:16 -0400 (Tue, 11 Apr 2023)
git_url: https://git.bioconductor.org/packages/basilisk
git_branch: devel
git_last_commit: 6b6ba9f
git_last_commit_date: 2023-03-15 15:43:26 -0400 (Wed, 15 Mar 2023)
nebbiolo1Linux (Ubuntu 22.04.1 LTS) / x86_64  OK    OK    OK  
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  

Summary

Package: basilisk
Version: 1.11.3
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:basilisk.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings basilisk_1.11.3.tar.gz
StartedAt: 2023-04-11 18:43:31 -0400 (Tue, 11 Apr 2023)
EndedAt: 2023-04-11 19:10:09 -0400 (Tue, 11 Apr 2023)
EllapsedTime: 1597.4 seconds
RetCode: 0
Status:   OK  
CheckDir: basilisk.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:basilisk.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings basilisk_1.11.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck’
* using R version 4.3.0 alpha (2023-04-03 r84154)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
    GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘basilisk/DESCRIPTION’ ... OK
* this is package ‘basilisk’ version ‘1.11.3’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
  inst/example/.BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘basilisk’ can be installed ... NOTE
Found the following notes/warnings:
  Non-staged installation was used
See ‘/home/biocbuild/bbs-3.17-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 loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking 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          243.854 31.220 284.573
createLocalBasiliskEnv  83.829 11.585  99.235
* 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 ...
  ‘motivation.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/00check.log’
for details.

Installation output

basilisk.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL basilisk
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.17-bioc/R/site-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 4.3.0 alpha (2023-04-03 r84154)
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (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: /home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  _libgcc_mutex      conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
  _openmp_mutex      conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
  bzip2              conda-forge/linux-64::bzip2-1.0.8-h7f98852_4
  ca-certificates    conda-forge/linux-64::ca-certificates-2022.12.7-ha878542_0
  ld_impl_linux-64   conda-forge/linux-64::ld_impl_linux-64-2.40-h41732ed_0
  libffi             conda-forge/linux-64::libffi-3.4.2-h7f98852_5
  libgcc-ng          conda-forge/linux-64::libgcc-ng-12.2.0-h65d4601_19
  libgomp            conda-forge/linux-64::libgomp-12.2.0-h65d4601_19
  libnsl             conda-forge/linux-64::libnsl-2.0.0-h7f98852_0
  libsqlite          conda-forge/linux-64::libsqlite-3.40.0-h753d276_0
  libuuid            conda-forge/linux-64::libuuid-2.38.1-h0b41bf4_0
  libzlib            conda-forge/linux-64::libzlib-1.2.13-h166bdaf_4
  ncurses            conda-forge/linux-64::ncurses-6.3-h27087fc_1
  openssl            conda-forge/linux-64::openssl-3.1.0-h0b41bf4_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/linux-64::python-3.8.13-ha86cf86_0_cpython
  readline           conda-forge/linux-64::readline-8.2-h8228510_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/linux-64::sqlite-3.40.0-h4ff8645_0
  tk                 conda-forge/linux-64::tk-8.6.12-h27826a3_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/linux-64::xz-5.2.6-h166bdaf_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: /home/biocbuild/bbs-3.17-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-h06a4308_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: /home/biocbuild/bbs-3.17-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/linux-64::libblas-3.9.0-16_linux64_openblas
  libcblas           conda-forge/linux-64::libcblas-3.9.0-16_linux64_openblas
  libgfortran-ng     conda-forge/linux-64::libgfortran-ng-12.2.0-h69a702a_19
  libgfortran5       conda-forge/linux-64::libgfortran5-12.2.0-h337968e_19
  liblapack          conda-forge/linux-64::liblapack-3.9.0-16_linux64_openblas
  libopenblas        conda-forge/linux-64::libopenblas-0.3.21-pthreads_h78a6416_3
  libstdcxx-ng       conda-forge/linux-64::libstdcxx-ng-12.2.0-h46fd767_19
  numpy              conda-forge/linux-64::numpy-1.24.2-py38h10c12cc_0
  pandas             conda-forge/linux-64::pandas-1.4.3-py38h47df419_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/linux-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-ha878542_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: /home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  _libgcc_mutex      conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
  _openmp_mutex      conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
  bzip2              conda-forge/linux-64::bzip2-1.0.8-h7f98852_4
  ca-certificates    conda-forge/linux-64::ca-certificates-2022.12.7-ha878542_0
  ld_impl_linux-64   conda-forge/linux-64::ld_impl_linux-64-2.40-h41732ed_0
  libffi             conda-forge/linux-64::libffi-3.4.2-h7f98852_5
  libgcc-ng          conda-forge/linux-64::libgcc-ng-12.2.0-h65d4601_19
  libgomp            conda-forge/linux-64::libgomp-12.2.0-h65d4601_19
  libnsl             conda-forge/linux-64::libnsl-2.0.0-h7f98852_0
  libsqlite          conda-forge/linux-64::libsqlite-3.40.0-h753d276_0
  libuuid            conda-forge/linux-64::libuuid-2.38.1-h0b41bf4_0
  libzlib            conda-forge/linux-64::libzlib-1.2.13-h166bdaf_4
  ncurses            conda-forge/linux-64::ncurses-6.3-h27087fc_1
  openssl            conda-forge/linux-64::openssl-3.1.0-h0b41bf4_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/linux-64::python-3.8.13-ha86cf86_0_cpython
  readline           conda-forge/linux-64::readline-8.2-h8228510_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/linux-64::sqlite-3.40.0-h4ff8645_0
  tk                 conda-forge/linux-64::tk-8.6.12-h27826a3_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/linux-64::xz-5.2.6-h166bdaf_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: /home/biocbuild/bbs-3.17-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-h06a4308_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: /home/biocbuild/bbs-3.17-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/linux-64::libblas-3.9.0-16_linux64_openblas
  libcblas           conda-forge/linux-64::libcblas-3.9.0-16_linux64_openblas
  libgfortran-ng     conda-forge/linux-64::libgfortran-ng-12.2.0-h69a702a_19
  libgfortran5       conda-forge/linux-64::libgfortran5-12.2.0-h337968e_19
  liblapack          conda-forge/linux-64::liblapack-3.9.0-16_linux64_openblas
  libopenblas        conda-forge/linux-64::libopenblas-0.3.21-pthreads_h78a6416_3
  libstdcxx-ng       conda-forge/linux-64::libstdcxx-ng-12.2.0-h46fd767_19
  numpy              conda-forge/linux-64::numpy-1.24.2-py38h10c12cc_0
  pandas             conda-forge/linux-64::pandas-1.4.2-py38h47df419_2
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.1-py_0
  python_abi         conda-forge/linux-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-ha878542_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: /home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=2.7


The following NEW packages will be INSTALLED:

  _libgcc_mutex      conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
  _openmp_mutex      conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
  ca-certificates    conda-forge/linux-64::ca-certificates-2022.12.7-ha878542_0
  certifi            conda-forge/linux-64::certifi-2019.11.28-py27h8c360ce_1
  ld_impl_linux-64   conda-forge/linux-64::ld_impl_linux-64-2.40-h41732ed_0
  libffi             conda-forge/linux-64::libffi-3.2.1-he1b5a44_1007
  libgcc-ng          conda-forge/linux-64::libgcc-ng-12.2.0-h65d4601_19
  libgomp            conda-forge/linux-64::libgomp-12.2.0-h65d4601_19
  libsqlite          conda-forge/linux-64::libsqlite-3.40.0-h753d276_0
  libstdcxx-ng       conda-forge/linux-64::libstdcxx-ng-12.2.0-h46fd767_19
  libzlib            conda-forge/linux-64::libzlib-1.2.13-h166bdaf_4
  ncurses            conda-forge/linux-64::ncurses-6.3-h27087fc_1
  openssl            conda-forge/linux-64::openssl-1.1.1t-h0b41bf4_0
  pip                conda-forge/noarch::pip-20.1.1-pyh9f0ad1d_0
  python             conda-forge/linux-64::python-2.7.15-h5a48372_1011_cpython
  python_abi         conda-forge/linux-64::python_abi-2.7-1_cp27mu
  readline           conda-forge/linux-64::readline-8.2-h8228510_1
  setuptools         conda-forge/linux-64::setuptools-44.0.0-py27_0
  sqlite             conda-forge/linux-64::sqlite-3.40.0-h4ff8645_0
  tk                 conda-forge/linux-64::tk-8.6.12-h27826a3_0
  wheel              conda-forge/noarch::wheel-0.37.1-pyhd8ed1ab_0
  zlib               conda-forge/linux-64::zlib-1.2.13-h166bdaf_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: /home/biocbuild/bbs-3.17-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-h06a4308_0
  certifi            conda-forge/linux-64::certifi-2019.11~ --> pkgs/main/noarch::certifi-2020.6.20-pyhd3eb1b0_3
  python             conda-forge::python-2.7.15-h5a48372_1~ --> pkgs/main::python-2.7.18-h02575d3_0

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

  openssl            conda-forge::openssl-1.1.1t-h0b41bf4_0 --> pkgs/main::openssl-1.1.1t-h7f8727e_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: /home/biocbuild/bbs-3.17-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-ha878542_0
  certifi            pkgs/main/noarch::certifi-2020.6.20-p~ --> conda-forge/linux-64::certifi-2016.9.26-py27_0
  openssl              pkgs/main::openssl-1.1.1t-h7f8727e_0 --> conda-forge::openssl-1.1.1t-h0b41bf4_0
  python                pkgs/main::python-2.7.18-h02575d3_0 --> conda-forge::python-2.7.15-h5a48372_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: /home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  _libgcc_mutex      conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
  _openmp_mutex      conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
  bzip2              conda-forge/linux-64::bzip2-1.0.8-h7f98852_4
  ca-certificates    conda-forge/linux-64::ca-certificates-2022.12.7-ha878542_0
  ld_impl_linux-64   conda-forge/linux-64::ld_impl_linux-64-2.40-h41732ed_0
  libffi             conda-forge/linux-64::libffi-3.4.2-h7f98852_5
  libgcc-ng          conda-forge/linux-64::libgcc-ng-12.2.0-h65d4601_19
  libgomp            conda-forge/linux-64::libgomp-12.2.0-h65d4601_19
  libnsl             conda-forge/linux-64::libnsl-2.0.0-h7f98852_0
  libsqlite          conda-forge/linux-64::libsqlite-3.40.0-h753d276_0
  libuuid            conda-forge/linux-64::libuuid-2.38.1-h0b41bf4_0
  libzlib            conda-forge/linux-64::libzlib-1.2.13-h166bdaf_4
  ncurses            conda-forge/linux-64::ncurses-6.3-h27087fc_1
  openssl            conda-forge/linux-64::openssl-3.1.0-h0b41bf4_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/linux-64::python-3.8.13-ha86cf86_0_cpython
  readline           conda-forge/linux-64::readline-8.2-h8228510_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/linux-64::sqlite-3.40.0-h4ff8645_0
  tk                 conda-forge/linux-64::tk-8.6.12-h27826a3_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/linux-64::xz-5.2.6-h166bdaf_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: /home/biocbuild/bbs-3.17-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-h06a4308_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: /home/biocbuild/bbs-3.17-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-ha878542_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-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (11.7 MB)
Collecting numpy>=1.18.5
  Using cached numpy-1.24.2-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (17.3 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: 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: 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: /home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  _libgcc_mutex      conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
  _openmp_mutex      conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
  bzip2              conda-forge/linux-64::bzip2-1.0.8-h7f98852_4
  ca-certificates    conda-forge/linux-64::ca-certificates-2022.12.7-ha878542_0
  ld_impl_linux-64   conda-forge/linux-64::ld_impl_linux-64-2.40-h41732ed_0
  libffi             conda-forge/linux-64::libffi-3.4.2-h7f98852_5
  libgcc-ng          conda-forge/linux-64::libgcc-ng-12.2.0-h65d4601_19
  libgomp            conda-forge/linux-64::libgomp-12.2.0-h65d4601_19
  libnsl             conda-forge/linux-64::libnsl-2.0.0-h7f98852_0
  libsqlite          conda-forge/linux-64::libsqlite-3.40.0-h753d276_0
  libuuid            conda-forge/linux-64::libuuid-2.38.1-h0b41bf4_0
  libzlib            conda-forge/linux-64::libzlib-1.2.13-h166bdaf_4
  ncurses            conda-forge/linux-64::ncurses-6.3-h27087fc_1
  openssl            conda-forge/linux-64::openssl-3.1.0-h0b41bf4_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/linux-64::python-3.8.13-ha86cf86_0_cpython
  readline           conda-forge/linux-64::readline-8.2-h8228510_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/linux-64::sqlite-3.40.0-h4ff8645_0
  tk                 conda-forge/linux-64::tk-8.6.12-h27826a3_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/linux-64::xz-5.2.6-h166bdaf_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: /home/biocbuild/bbs-3.17-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-h06a4308_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: /home/biocbuild/bbs-3.17-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-ha878542_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 /home/biocbuild/bbs-3.17-bioc/R/site-library/basilisk/example/inst/test_dummy
  Preparing metadata (setup.py): started
  Preparing metadata (setup.py): finished with status 'done'
Building wheels for collected packages: test-dummy
  Building wheel for test-dummy (setup.py): started
  Building wheel for test-dummy (setup.py): finished with status 'done'
  Created wheel for test-dummy: filename=test_dummy-0.1-py3-none-any.whl size=1279 sha256=6ae5118c336e5db7174c600769a6e10fee91141e64c3bec5697fe7985d7c7a2a
  Stored in directory: /tmp/pip-ephem-wheel-cache-5bbuuboe/wheels/b1/fd/98/45662bcba3bac88ba5da2734a21541ef2739caf3b5127ba5aa
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: /home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  _libgcc_mutex      conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
  _openmp_mutex      conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
  bzip2              conda-forge/linux-64::bzip2-1.0.8-h7f98852_4
  ca-certificates    conda-forge/linux-64::ca-certificates-2022.12.7-ha878542_0
  ld_impl_linux-64   conda-forge/linux-64::ld_impl_linux-64-2.40-h41732ed_0
  libffi             conda-forge/linux-64::libffi-3.4.2-h7f98852_5
  libgcc-ng          conda-forge/linux-64::libgcc-ng-12.2.0-h65d4601_19
  libgomp            conda-forge/linux-64::libgomp-12.2.0-h65d4601_19
  libnsl             conda-forge/linux-64::libnsl-2.0.0-h7f98852_0
  libsqlite          conda-forge/linux-64::libsqlite-3.40.0-h753d276_0
  libuuid            conda-forge/linux-64::libuuid-2.38.1-h0b41bf4_0
  libzlib            conda-forge/linux-64::libzlib-1.2.13-h166bdaf_4
  ncurses            conda-forge/linux-64::ncurses-6.3-h27087fc_1
  openssl            conda-forge/linux-64::openssl-3.1.0-h0b41bf4_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/linux-64::python-3.8.13-ha86cf86_0_cpython
  readline           conda-forge/linux-64::readline-8.2-h8228510_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/linux-64::sqlite-3.40.0-h4ff8645_0
  tk                 conda-forge/linux-64::tk-8.6.12-h27826a3_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/linux-64::xz-5.2.6-h166bdaf_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: /home/biocbuild/bbs-3.17-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-h06a4308_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/linux-64
  - https://conda.anaconda.org/conda-forge/noarch
  - https://repo.anaconda.com/pkgs/main/linux-64
  - https://repo.anaconda.com/pkgs/main/noarch
  - https://repo.anaconda.com/pkgs/r/linux-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-Linux-x86_64.sh'
Content type 'application/x-sh' length 76120962 bytes (72.6 MB)
==================================================
downloaded 72.6 MB

PREFIX=/tmp/RtmpdmPIh5/filec0ecf9efd972/1.11.3/0
Unpacking payload ...

  0%|          | 0/39 [00:00<?, ?it/s]
Extracting : charset-normalizer-2.0.4-pyhd3eb1b0_0.conda:   0%|          | 0/39 [00:00<?, ?it/s]
Extracting : charset-normalizer-2.0.4-pyhd3eb1b0_0.conda:   3%|▎         | 1/39 [00:00<00:05,  6.84it/s]
Extracting : certifi-2021.10.8-py38h06a4308_2.conda:   3%|▎         | 1/39 [00:00<00:05,  6.84it/s]     
Extracting : pysocks-1.7.1-py38h06a4308_0.conda:   5%|▌         | 2/39 [00:00<00:05,  6.84it/s]    
Extracting : libffi-3.3-he6710b0_2.conda:   8%|▊         | 3/39 [00:00<00:05,  6.84it/s]       
Extracting : pycparser-2.21-pyhd3eb1b0_0.conda:  10%|█         | 4/39 [00:00<00:05,  6.84it/s]
Extracting : libstdcxx-ng-9.3.0-hd4cf53a_17.conda:  13%|█▎        | 5/39 [00:00<00:04,  6.84it/s]
Extracting : ruamel_yaml-0.15.100-py38h27cfd23_0.conda:  15%|█▌        | 6/39 [00:00<00:04,  6.84it/s]
Extracting : ld_impl_linux-64-2.35.1-h7274673_9.conda:  18%|█▊        | 7/39 [00:00<00:04,  6.84it/s] 
Extracting : idna-3.3-pyhd3eb1b0_0.conda:  21%|██        | 8/39 [00:00<00:04,  6.84it/s]             
Extracting : tk-8.6.11-h1ccaba5_0.conda:  23%|██▎       | 9/39 [00:00<00:04,  6.84it/s] 
Extracting : cffi-1.15.0-py38hd667e15_1.conda:  26%|██▌       | 10/39 [00:00<00:04,  6.84it/s]
Extracting : colorama-0.4.4-pyhd3eb1b0_0.conda:  28%|██▊       | 11/39 [00:00<00:04,  6.84it/s]
Extracting : pyopenssl-22.0.0-pyhd3eb1b0_0.conda:  31%|███       | 12/39 [00:00<00:03,  6.84it/s]
Extracting : wheel-0.37.1-pyhd3eb1b0_0.conda:  33%|███▎      | 13/39 [00:00<00:03,  6.84it/s]    
Extracting : ncurses-6.3-h7f8727e_2.conda:  36%|███▌      | 14/39 [00:00<00:03,  6.84it/s]   
Extracting : ncurses-6.3-h7f8727e_2.conda:  38%|███▊      | 15/39 [00:00<00:00, 69.58it/s]
Extracting : requests-2.27.1-pyhd3eb1b0_0.conda:  38%|███▊      | 15/39 [00:00<00:00, 69.58it/s]
Extracting : conda-content-trust-0.1.1-pyhd3eb1b0_0.conda:  41%|████      | 16/39 [00:00<00:00, 69.58it/s]
Extracting : libgomp-9.3.0-h5101ec6_17.conda:  44%|████▎     | 17/39 [00:00<00:00, 69.58it/s]             
Extracting : ca-certificates-2022.3.29-h06a4308_1.conda:  46%|████▌     | 18/39 [00:00<00:00, 69.58it/s]
Extracting : tqdm-4.63.0-pyhd3eb1b0_0.conda:  49%|████▊     | 19/39 [00:00<00:00, 69.58it/s]            
Extracting : pip-21.2.4-py38h06a4308_0.conda:  51%|█████▏    | 20/39 [00:00<00:00, 69.58it/s]
Extracting : cryptography-36.0.0-py38h9ce1e76_0.conda:  54%|█████▍    | 21/39 [00:00<00:00, 69.58it/s]
Extracting : openssl-1.1.1n-h7f8727e_0.conda:  56%|█████▋    | 22/39 [00:00<00:00, 69.58it/s]         
Extracting : conda-4.12.0-py38h06a4308_0.conda:  59%|█████▉    | 23/39 [00:00<00:00, 69.58it/s]
Extracting : conda-4.12.0-py38h06a4308_0.conda:  62%|██████▏   | 24/39 [00:00<00:00, 47.88it/s]
Extracting : pycosat-0.6.3-py38h7b6447c_1.conda:  62%|██████▏   | 24/39 [00:00<00:00, 47.88it/s]
Extracting : readline-8.1.2-h7f8727e_1.conda:  64%|██████▍   | 25/39 [00:00<00:00, 47.88it/s]   
Extracting : xz-5.2.5-h7b6447c_0.conda:  67%|██████▋   | 26/39 [00:00<00:00, 47.88it/s]      
Extracting : brotlipy-0.7.0-py38h27cfd23_1003.conda:  69%|██████▉   | 27/39 [00:00<00:00, 47.88it/s]
Extracting : _libgcc_mutex-0.1-main.conda:  72%|███████▏  | 28/39 [00:00<00:00, 47.88it/s]          
Extracting : setuptools-61.2.0-py38h06a4308_0.conda:  74%|███████▍  | 29/39 [00:00<00:00, 47.88it/s]
Extracting : zlib-1.2.12-h7f8727e_1.conda:  77%|███████▋  | 30/39 [00:00<00:00, 47.88it/s]          
Extracting : sqlite-3.38.2-hc218d9a_0.conda:  79%|███████▉  | 31/39 [00:00<00:00, 47.88it/s]
Extracting : yaml-0.2.5-h7b6447c_0.conda:  82%|████████▏ | 32/39 [00:00<00:00, 47.88it/s]   
Extracting : python-3.8.13-h12debd9_0.conda:  85%|████████▍ | 33/39 [00:00<00:00, 47.88it/s]
Extracting : python-3.8.13-h12debd9_0.conda:  87%|████████▋ | 34/39 [00:00<00:00, 60.85it/s]
Extracting : libgcc-ng-9.3.0-h5101ec6_17.conda:  87%|████████▋ | 34/39 [00:00<00:00, 60.85it/s]
Extracting : conda-package-handling-1.8.1-py38h7f8727e_0.conda:  90%|████████▉ | 35/39 [00:00<00:00, 60.85it/s]
Extracting : urllib3-1.26.8-pyhd3eb1b0_0.conda:  92%|█████████▏| 36/39 [00:00<00:00, 60.85it/s]                
Extracting : six-1.16.0-pyhd3eb1b0_1.conda:  95%|█████████▍| 37/39 [00:00<00:00, 60.85it/s]    
Extracting : _openmp_mutex-4.5-1_gnu.tar.bz2:  97%|█████████▋| 38/39 [00:00<00:00, 60.85it/s]
                                                                                             
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /tmp/RtmpdmPIh5/filec0ecf9efd972/1.11.3/0

  added / updated specs:
    - _libgcc_mutex==0.1=main
    - _openmp_mutex==4.5=1_gnu
    - brotlipy==0.7.0=py38h27cfd23_1003
    - ca-certificates==2022.3.29=h06a4308_1
    - certifi==2021.10.8=py38h06a4308_2
    - cffi==1.15.0=py38hd667e15_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=py38h7f8727e_0
    - conda==4.12.0=py38h06a4308_0
    - cryptography==36.0.0=py38h9ce1e76_0
    - idna==3.3=pyhd3eb1b0_0
    - ld_impl_linux-64==2.35.1=h7274673_9
    - libffi==3.3=he6710b0_2
    - libgcc-ng==9.3.0=h5101ec6_17
    - libgomp==9.3.0=h5101ec6_17
    - libstdcxx-ng==9.3.0=hd4cf53a_17
    - ncurses==6.3=h7f8727e_2
    - openssl==1.1.1n=h7f8727e_0
    - pip==21.2.4=py38h06a4308_0
    - pycosat==0.6.3=py38h7b6447c_1
    - pycparser==2.21=pyhd3eb1b0_0
    - pyopenssl==22.0.0=pyhd3eb1b0_0
    - pysocks==1.7.1=py38h06a4308_0
    - python==3.8.13=h12debd9_0
    - readline==8.1.2=h7f8727e_1
    - requests==2.27.1=pyhd3eb1b0_0
    - ruamel_yaml==0.15.100=py38h27cfd23_0
    - setuptools==61.2.0=py38h06a4308_0
    - six==1.16.0=pyhd3eb1b0_1
    - sqlite==3.38.2=hc218d9a_0
    - tk==8.6.11=h1ccaba5_0
    - tqdm==4.63.0=pyhd3eb1b0_0
    - urllib3==1.26.8=pyhd3eb1b0_0
    - wheel==0.37.1=pyhd3eb1b0_0
    - xz==5.2.5=h7b6447c_0
    - yaml==0.2.5=h7b6447c_0
    - zlib==1.2.12=h7f8727e_1


The following NEW packages will be INSTALLED:

  _libgcc_mutex      pkgs/main/linux-64::_libgcc_mutex-0.1-main
  _openmp_mutex      pkgs/main/linux-64::_openmp_mutex-4.5-1_gnu
  brotlipy           pkgs/main/linux-64::brotlipy-0.7.0-py38h27cfd23_1003
  ca-certificates    pkgs/main/linux-64::ca-certificates-2022.3.29-h06a4308_1
  certifi            pkgs/main/linux-64::certifi-2021.10.8-py38h06a4308_2
  cffi               pkgs/main/linux-64::cffi-1.15.0-py38hd667e15_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/linux-64::conda-4.12.0-py38h06a4308_0
  conda-content-tru~ pkgs/main/noarch::conda-content-trust-0.1.1-pyhd3eb1b0_0
  conda-package-han~ pkgs/main/linux-64::conda-package-handling-1.8.1-py38h7f8727e_0
  cryptography       pkgs/main/linux-64::cryptography-36.0.0-py38h9ce1e76_0
  idna               pkgs/main/noarch::idna-3.3-pyhd3eb1b0_0
  ld_impl_linux-64   pkgs/main/linux-64::ld_impl_linux-64-2.35.1-h7274673_9
  libffi             pkgs/main/linux-64::libffi-3.3-he6710b0_2
  libgcc-ng          pkgs/main/linux-64::libgcc-ng-9.3.0-h5101ec6_17
  libgomp            pkgs/main/linux-64::libgomp-9.3.0-h5101ec6_17
  libstdcxx-ng       pkgs/main/linux-64::libstdcxx-ng-9.3.0-hd4cf53a_17
  ncurses            pkgs/main/linux-64::ncurses-6.3-h7f8727e_2
  openssl            pkgs/main/linux-64::openssl-1.1.1n-h7f8727e_0
  pip                pkgs/main/linux-64::pip-21.2.4-py38h06a4308_0
  pycosat            pkgs/main/linux-64::pycosat-0.6.3-py38h7b6447c_1
  pycparser          pkgs/main/noarch::pycparser-2.21-pyhd3eb1b0_0
  pyopenssl          pkgs/main/noarch::pyopenssl-22.0.0-pyhd3eb1b0_0
  pysocks            pkgs/main/linux-64::pysocks-1.7.1-py38h06a4308_0
  python             pkgs/main/linux-64::python-3.8.13-h12debd9_0
  readline           pkgs/main/linux-64::readline-8.1.2-h7f8727e_1
  requests           pkgs/main/noarch::requests-2.27.1-pyhd3eb1b0_0
  ruamel_yaml        pkgs/main/linux-64::ruamel_yaml-0.15.100-py38h27cfd23_0
  setuptools         pkgs/main/linux-64::setuptools-61.2.0-py38h06a4308_0
  six                pkgs/main/noarch::six-1.16.0-pyhd3eb1b0_1
  sqlite             pkgs/main/linux-64::sqlite-3.38.2-hc218d9a_0
  tk                 pkgs/main/linux-64::tk-8.6.11-h1ccaba5_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/linux-64::xz-5.2.5-h7b6447c_0
  yaml               pkgs/main/linux-64::yaml-0.2.5-h7b6447c_0
  zlib               pkgs/main/linux-64::zlib-1.2.12-h7f8727e_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: /tmp/RtmpdmPIh5/filec0ecf9efd972/1.11.3/basilisk.utils/1.11.2/test

  added / updated specs:
    - python=3.8.13


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    _libgcc_mutex-0.1          |      conda_forge           3 KB  conda-forge
    _openmp_mutex-4.5          |            2_gnu          23 KB  conda-forge
    bzip2-1.0.8                |       h7f98852_4         484 KB  conda-forge
    ca-certificates-2022.12.7  |       ha878542_0         143 KB  conda-forge
    ld_impl_linux-64-2.40      |       h41732ed_0         688 KB  conda-forge
    libffi-3.4.2               |       h7f98852_5          57 KB  conda-forge
    libgcc-ng-12.2.0           |      h65d4601_19         931 KB  conda-forge
    libgomp-12.2.0             |      h65d4601_19         455 KB  conda-forge
    libnsl-2.0.0               |       h7f98852_0          31 KB  conda-forge
    libsqlite-3.40.0           |       h753d276_0         791 KB  conda-forge
    libuuid-2.38.1             |       h0b41bf4_0          33 KB  conda-forge
    libzlib-1.2.13             |       h166bdaf_4          64 KB  conda-forge
    ncurses-6.3                |       h27087fc_1        1002 KB  conda-forge
    openssl-3.1.0              |       h0b41bf4_0         2.5 MB  conda-forge
    pip-23.0.1                 |     pyhd8ed1ab_0         1.3 MB  conda-forge
    python-3.8.13              |ha86cf86_0_cpython        25.2 MB  conda-forge
    readline-8.2               |       h8228510_1         275 KB  conda-forge
    setuptools-67.6.1          |     pyhd8ed1ab_0         567 KB  conda-forge
    sqlite-3.40.0              |       h4ff8645_0         801 KB  conda-forge
    tk-8.6.12                  |       h27826a3_0         3.3 MB  conda-forge
    wheel-0.40.0               |     pyhd8ed1ab_0          54 KB  conda-forge
    xz-5.2.6                   |       h166bdaf_0         409 KB  conda-forge
    ------------------------------------------------------------
                                           Total:        38.9 MB

The following NEW packages will be INSTALLED:

  _libgcc_mutex      conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
  _openmp_mutex      conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
  bzip2              conda-forge/linux-64::bzip2-1.0.8-h7f98852_4
  ca-certificates    conda-forge/linux-64::ca-certificates-2022.12.7-ha878542_0
  ld_impl_linux-64   conda-forge/linux-64::ld_impl_linux-64-2.40-h41732ed_0
  libffi             conda-forge/linux-64::libffi-3.4.2-h7f98852_5
  libgcc-ng          conda-forge/linux-64::libgcc-ng-12.2.0-h65d4601_19
  libgomp            conda-forge/linux-64::libgomp-12.2.0-h65d4601_19
  libnsl             conda-forge/linux-64::libnsl-2.0.0-h7f98852_0
  libsqlite          conda-forge/linux-64::libsqlite-3.40.0-h753d276_0
  libuuid            conda-forge/linux-64::libuuid-2.38.1-h0b41bf4_0
  libzlib            conda-forge/linux-64::libzlib-1.2.13-h166bdaf_4
  ncurses            conda-forge/linux-64::ncurses-6.3-h27087fc_1
  openssl            conda-forge/linux-64::openssl-3.1.0-h0b41bf4_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/linux-64::python-3.8.13-ha86cf86_0_cpython
  readline           conda-forge/linux-64::readline-8.2-h8228510_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/linux-64::sqlite-3.40.0-h4ff8645_0
  tk                 conda-forge/linux-64::tk-8.6.12-h27826a3_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/linux-64::xz-5.2.6-h166bdaf_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: /tmp/RtmpdmPIh5/filec0ecf9efd972/1.11.3/basilisk.utils/1.11.2/test

  added / updated specs:
    - python=3.8.13


The following packages will be downloaded:

    package                    |            build
    ---------------------------|-----------------
    ca-certificates-2023.01.10 |       h06a4308_0         120 KB
    ------------------------------------------------------------
                                           Total:         120 KB

The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-h06a4308_0



Downloading and Extracting Packages

ca-certificates-2023 | 120 KB    |            |   0% 
ca-certificates-2023 | 120 KB    | ########## | 100% 
ca-certificates-2023 | 120 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: /tmp/RtmpdmPIh5/filec0ecf9efd972/1.11.3/basilisk.utils/1.11.2/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_linux64_openblas          13 KB  conda-forge
    libcblas-3.9.0             |16_linux64_openblas          13 KB  conda-forge
    libgfortran-ng-12.2.0      |      h69a702a_19          22 KB  conda-forge
    libgfortran5-12.2.0        |      h337968e_19         1.8 MB  conda-forge
    liblapack-3.9.0            |16_linux64_openblas          13 KB  conda-forge
    libopenblas-0.3.21         |pthreads_h78a6416_3        10.1 MB  conda-forge
    libstdcxx-ng-12.2.0        |      h46fd767_19         4.3 MB  conda-forge
    numpy-1.24.2               |   py38h10c12cc_0         6.3 MB  conda-forge
    pandas-1.4.3               |   py38h47df419_0        12.7 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:        35.6 MB

The following NEW packages will be INSTALLED:

  libblas            conda-forge/linux-64::libblas-3.9.0-16_linux64_openblas
  libcblas           conda-forge/linux-64::libcblas-3.9.0-16_linux64_openblas
  libgfortran-ng     conda-forge/linux-64::libgfortran-ng-12.2.0-h69a702a_19
  libgfortran5       conda-forge/linux-64::libgfortran5-12.2.0-h337968e_19
  liblapack          conda-forge/linux-64::liblapack-3.9.0-16_linux64_openblas
  libopenblas        conda-forge/linux-64::libopenblas-0.3.21-pthreads_h78a6416_3
  libstdcxx-ng       conda-forge/linux-64::libstdcxx-ng-12.2.0-h46fd767_19
  numpy              conda-forge/linux-64::numpy-1.24.2-py38h10c12cc_0
  pandas             conda-forge/linux-64::pandas-1.4.3-py38h47df419_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/linux-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-ha878542_0



Downloading and Extracting Packages

libstdcxx-ng-12.2.0  | 4.3 MB    |            |   0% 
libstdcxx-ng-12.2.0  | 4.3 MB    |            |   0% 
libstdcxx-ng-12.2.0  | 4.3 MB    | ######9    |  70% 
libstdcxx-ng-12.2.0  | 4.3 MB    | ########## | 100% 

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

numpy-1.24.2         | 6.3 MB    |            |   0% 
numpy-1.24.2         | 6.3 MB    | ####8      |  48% 
numpy-1.24.2         | 6.3 MB    | ########## | 100% 
numpy-1.24.2         | 6.3 MB    | ########## | 100% 

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

libgfortran5-12.2.0  | 1.8 MB    |            |   0% 
libgfortran5-12.2.0  | 1.8 MB    | ########## | 100% 
libgfortran5-12.2.0  | 1.8 MB    | ########## | 100% 

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

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

pandas-1.4.3         | 12.7 MB   |            |   0% 
pandas-1.4.3         | 12.7 MB   | ##4        |  25% 
pandas-1.4.3         | 12.7 MB   | #####4     |  55% 
pandas-1.4.3         | 12.7 MB   | #########9 | 100% 
pandas-1.4.3         | 12.7 MB   | ########## | 100% 

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

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

libgfortran-ng-12.2. | 22 KB     |            |   0% 
libgfortran-ng-12.2. | 22 KB     | ########## | 100% 

libopenblas-0.3.21   | 10.1 MB   |            |   0% 
libopenblas-0.3.21   | 10.1 MB   | ##2        |  22% 
libopenblas-0.3.21   | 10.1 MB   | #######2   |  73% 
libopenblas-0.3.21   | 10.1 MB   | ########## | 100% 

python-dateutil-2.8. | 240 KB    |            |   0% 
python-dateutil-2.8. | 240 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 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: /home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.11.3

  added / updated specs:
    - python=3.8.13


The following NEW packages will be INSTALLED:

  _libgcc_mutex      conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
  _openmp_mutex      conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
  bzip2              conda-forge/linux-64::bzip2-1.0.8-h7f98852_4
  ca-certificates    conda-forge/linux-64::ca-certificates-2022.12.7-ha878542_0
  ld_impl_linux-64   conda-forge/linux-64::ld_impl_linux-64-2.40-h41732ed_0
  libffi             conda-forge/linux-64::libffi-3.4.2-h7f98852_5
  libgcc-ng          conda-forge/linux-64::libgcc-ng-12.2.0-h65d4601_19
  libgomp            conda-forge/linux-64::libgomp-12.2.0-h65d4601_19
  libnsl             conda-forge/linux-64::libnsl-2.0.0-h7f98852_0
  libsqlite          conda-forge/linux-64::libsqlite-3.40.0-h753d276_0
  libuuid            conda-forge/linux-64::libuuid-2.38.1-h0b41bf4_0
  libzlib            conda-forge/linux-64::libzlib-1.2.13-h166bdaf_4
  ncurses            conda-forge/linux-64::ncurses-6.3-h27087fc_1
  openssl            conda-forge/linux-64::openssl-3.1.0-h0b41bf4_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/linux-64::python-3.8.13-ha86cf86_0_cpython
  readline           conda-forge/linux-64::readline-8.2-h8228510_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/linux-64::sqlite-3.40.0-h4ff8645_0
  tk                 conda-forge/linux-64::tk-8.6.12-h27826a3_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/linux-64::xz-5.2.6-h166bdaf_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: /home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.11.3

  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-h06a4308_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: /home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.11.3

  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/linux-64::libblas-3.9.0-16_linux64_openblas
  libcblas           conda-forge/linux-64::libcblas-3.9.0-16_linux64_openblas
  libgfortran-ng     conda-forge/linux-64::libgfortran-ng-12.2.0-h69a702a_19
  libgfortran5       conda-forge/linux-64::libgfortran5-12.2.0-h337968e_19
  liblapack          conda-forge/linux-64::liblapack-3.9.0-16_linux64_openblas
  libopenblas        conda-forge/linux-64::libopenblas-0.3.21-pthreads_h78a6416_3
  libstdcxx-ng       conda-forge/linux-64::libstdcxx-ng-12.2.0-h46fd767_19
  numpy              conda-forge/linux-64::numpy-1.24.2-py38h10c12cc_0
  pandas             conda-forge/linux-64::pandas-1.4.3-py38h47df419_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/linux-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-ha878542_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: /home/biocbuild/bbs-3.17-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:

  _libgcc_mutex      conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
  _openmp_mutex      conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
  bzip2              conda-forge/linux-64::bzip2-1.0.8-h7f98852_4
  ca-certificates    conda-forge/linux-64::ca-certificates-2022.12.7-ha878542_0
  ld_impl_linux-64   conda-forge/linux-64::ld_impl_linux-64-2.40-h41732ed_0
  libffi             conda-forge/linux-64::libffi-3.4.2-h7f98852_5
  libgcc-ng          conda-forge/linux-64::libgcc-ng-12.2.0-h65d4601_19
  libgomp            conda-forge/linux-64::libgomp-12.2.0-h65d4601_19
  libnsl             conda-forge/linux-64::libnsl-2.0.0-h7f98852_0
  libsqlite          conda-forge/linux-64::libsqlite-3.40.0-h753d276_0
  libuuid            conda-forge/linux-64::libuuid-2.38.1-h0b41bf4_0
  libzlib            conda-forge/linux-64::libzlib-1.2.13-h166bdaf_4
  ncurses            conda-forge/linux-64::ncurses-6.3-h27087fc_1
  openssl            conda-forge/linux-64::openssl-3.1.0-h0b41bf4_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/linux-64::python-3.8.13-ha86cf86_0_cpython
  readline           conda-forge/linux-64::readline-8.2-h8228510_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/linux-64::sqlite-3.40.0-h4ff8645_0
  tk                 conda-forge/linux-64::tk-8.6.12-h27826a3_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/linux-64::xz-5.2.6-h166bdaf_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: /home/biocbuild/bbs-3.17-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-h06a4308_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: /home/biocbuild/bbs-3.17-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/linux-64::libblas-3.9.0-16_linux64_openblas
  libcblas           conda-forge/linux-64::libcblas-3.9.0-16_linux64_openblas
  libgfortran-ng     conda-forge/linux-64::libgfortran-ng-12.2.0-h69a702a_19
  libgfortran5       conda-forge/linux-64::libgfortran5-12.2.0-h337968e_19
  liblapack          conda-forge/linux-64::liblapack-3.9.0-16_linux64_openblas
  libopenblas        conda-forge/linux-64::libopenblas-0.3.21-pthreads_h78a6416_3
  libstdcxx-ng       conda-forge/linux-64::libstdcxx-ng-12.2.0-h46fd767_19
  numpy              conda-forge/linux-64::numpy-1.24.2-py38h10c12cc_0
  pandas             conda-forge/linux-64::pandas-1.4.3-py38h47df419_0
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
  python_abi         conda-forge/linux-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-ha878542_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: /home/biocbuild/bbs-3.17-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:

  _libgcc_mutex      conda-forge/linux-64::_libgcc_mutex-0.1-conda_forge
  _openmp_mutex      conda-forge/linux-64::_openmp_mutex-4.5-2_gnu
  bzip2              conda-forge/linux-64::bzip2-1.0.8-h7f98852_4
  ca-certificates    conda-forge/linux-64::ca-certificates-2022.12.7-ha878542_0
  ld_impl_linux-64   conda-forge/linux-64::ld_impl_linux-64-2.40-h41732ed_0
  libffi             conda-forge/linux-64::libffi-3.4.2-h7f98852_5
  libgcc-ng          conda-forge/linux-64::libgcc-ng-12.2.0-h65d4601_19
  libgomp            conda-forge/linux-64::libgomp-12.2.0-h65d4601_19
  libnsl             conda-forge/linux-64::libnsl-2.0.0-h7f98852_0
  libsqlite          conda-forge/linux-64::libsqlite-3.40.0-h753d276_0
  libuuid            conda-forge/linux-64::libuuid-2.38.1-h0b41bf4_0
  libzlib            conda-forge/linux-64::libzlib-1.2.13-h166bdaf_4
  ncurses            conda-forge/linux-64::ncurses-6.3-h27087fc_1
  openssl            conda-forge/linux-64::openssl-3.1.0-h0b41bf4_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/linux-64::python-3.8.13-ha86cf86_0_cpython
  readline           conda-forge/linux-64::readline-8.2-h8228510_1
  setuptools         conda-forge/noarch::setuptools-67.6.1-pyhd8ed1ab_0
  sqlite             conda-forge/linux-64::sqlite-3.40.0-h4ff8645_0
  tk                 conda-forge/linux-64::tk-8.6.12-h27826a3_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/linux-64::xz-5.2.6-h166bdaf_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: /home/biocbuild/bbs-3.17-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-h06a4308_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: /home/biocbuild/bbs-3.17-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/linux-64::libblas-3.9.0-16_linux64_openblas
  libcblas           conda-forge/linux-64::libcblas-3.9.0-16_linux64_openblas
  libgfortran-ng     conda-forge/linux-64::libgfortran-ng-12.2.0-h69a702a_19
  libgfortran5       conda-forge/linux-64::libgfortran5-12.2.0-h337968e_19
  liblapack          conda-forge/linux-64::liblapack-3.9.0-16_linux64_openblas
  libopenblas        conda-forge/linux-64::libopenblas-0.3.21-pthreads_h78a6416_3
  libstdcxx-ng       conda-forge/linux-64::libstdcxx-ng-12.2.0-h46fd767_19
  numpy              conda-forge/linux-64::numpy-1.24.2-py38h10c12cc_0
  pandas             conda-forge/linux-64::pandas-1.4.2-py38h47df419_2
  python-dateutil    conda-forge/noarch::python-dateutil-2.8.1-py_0
  python_abi         conda-forge/linux-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-ha878542_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 
 856.369  106.869 1029.354

Example timings

basilisk.Rcheck/basilisk-Ex.timings

nameusersystemelapsed
BasiliskEnvironment-class0.0000.0030.003
PyPiLink000
basiliskOptions0.0000.0000.001
basiliskStart243.854 31.220284.573
configureBasiliskEnv0.0010.0000.001
createLocalBasiliskEnv83.82911.58599.235
listPackages0.8220.1681.060
obtainEnvironmentPath0.0100.0000.011
setupBasiliskEnv0.0050.0030.007
useBasiliskEnv1.1160.3561.420