| Back to Build/check report for BioC 3.17: simplified long |
|
This page was generated on 2023-03-27 05:50:29 -0000 (Mon, 27 Mar 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences" | 6083 |
| 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 | ||||
|
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. |
| Package 132/2195 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| basilisk 1.11.3 (landing page) Aaron Lun
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | ERROR | |||||||||
| 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: 2023-03-24 21:17:48 -0000 (Fri, 24 Mar 2023) |
| EndedAt: 2023-03-24 21:47:58 -0000 (Fri, 24 Mar 2023) |
| EllapsedTime: 1810.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| CheckDir: basilisk.Rcheck |
| Warnings: NA |
##############################################################################
##############################################################################
###
### 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 Under development (unstable) (2023-03-12 r83975)
* using platform: aarch64-unknown-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 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 214.825 22.917 261.608
createLocalBasiliskEnv 77.734 12.836 99.629
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-lazy.R:40:5'): obtainEnvironmentPath works as expected ─────────
Error: Error creating conda environment '/tmp/Rtmp8mbSLh/file32fca02ffb327f/1.11.3/basilisk.utils/1.11.2/test' [exit code 137]
Backtrace:
▆
1. └─basilisk::obtainEnvironmentPath(env) at test-lazy.R:40:4
2. └─basilisk::setupBasiliskEnv(...)
3. └─reticulate::conda_install(...)
4. └─reticulate::conda_create(...)
5. └─reticulate:::stopf(fmt, envname, result, call. = FALSE)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 63 ]
Error: Test failures
Execution halted
* 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: 1 ERROR, 2 NOTEs
See
‘/home/biocbuild/bbs-3.17-bioc/meat/basilisk.Rcheck/00check.log’
for details.
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-devel_2023-03-12_r83975-bin/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)
basilisk.Rcheck/tests/testthat.Rout.fail
R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-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:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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-aarch64::libblas-3.9.0-16_linuxaarch64_openblas
libcblas conda-forge/linux-aarch64::libcblas-3.9.0-16_linuxaarch64_openblas
libgfortran-ng conda-forge/linux-aarch64::libgfortran-ng-12.2.0-he9431aa_19
libgfortran5 conda-forge/linux-aarch64::libgfortran5-12.2.0-hf695500_19
liblapack conda-forge/linux-aarch64::liblapack-3.9.0-16_linuxaarch64_openblas
libopenblas conda-forge/linux-aarch64::libopenblas-0.3.21-pthreads_h6cb6f83_3
libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-12.2.0-hc13a102_19
numpy conda-forge/linux-aarch64::numpy-1.24.2-py38h39f6eef_0
pandas conda-forge/linux-aarch64::pandas-1.4.3-py38h2fe58aa_0
python-dateutil conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
python_abi conda-forge/linux-aarch64::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-h4fd8a4c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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-aarch64::libblas-3.9.0-16_linuxaarch64_openblas
libcblas conda-forge/linux-aarch64::libcblas-3.9.0-16_linuxaarch64_openblas
libgfortran-ng conda-forge/linux-aarch64::libgfortran-ng-12.2.0-he9431aa_19
libgfortran5 conda-forge/linux-aarch64::libgfortran5-12.2.0-hf695500_19
liblapack conda-forge/linux-aarch64::liblapack-3.9.0-16_linuxaarch64_openblas
libopenblas conda-forge/linux-aarch64::libopenblas-0.3.21-pthreads_h6cb6f83_3
libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-12.2.0-hc13a102_19
numpy conda-forge/linux-aarch64::numpy-1.24.2-py38h39f6eef_0
pandas conda-forge/linux-aarch64::pandas-1.4.2-py38h2fe58aa_2
python-dateutil conda-forge/noarch::python-dateutil-2.8.1-py_0
python_abi conda-forge/linux-aarch64::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-h4fd8a4c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
certifi conda-forge/linux-aarch64::certifi-2019.9.11-py27_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.2.1-h4c5d2ac_1007
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-12.2.0-hc13a102_19
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-1.1.1t-hb4cce97_0
pip conda-forge/noarch::pip-20.1.1-pyh9f0ad1d_0
python conda-forge/linux-aarch64::python-2.7.15-h5a48372_1011_cpython
python_abi conda-forge/linux-aarch64::python_abi-2.7-1_cp27mu
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/linux-aarch64::setuptools-41.4.0-py27_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.37.1-pyhd8ed1ab_0
zlib conda-forge/linux-aarch64::zlib-1.2.13-h4e544f5_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-hd43f75c_0
certifi conda-forge/linux-aarch64::certifi-20~ --> pkgs/main/noarch::certifi-2020.6.20-pyhd3eb1b0_3
The following packages will be SUPERSEDED by a higher-priority channel:
openssl conda-forge::openssl-1.1.1t-hb4cce97_0 --> pkgs/main::openssl-1.1.1t-h2f4d8fa_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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-h4fd8a4c_0
openssl pkgs/main::openssl-1.1.1t-h2f4d8fa_0 --> conda-forge::openssl-1.1.1t-hb4cce97_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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-h4fd8a4c_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: 23.1.0
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_aarch64.manylinux2014_aarch64.whl (11.0 MB)
Collecting numpy>=1.19.2
Using cached numpy-1.24.2-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl (14.0 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:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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-h4fd8a4c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Processing /home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/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=3186d83bf3a15d5bf195ac775b0556fe0723f6a9195fec425e0a9b7093c9ad1f
Stored in directory: /tmp/pip-ephem-wheel-cache-b1rqk1vc/wheels/2a/89/56/b554c7863ce8715b9eac1fdee60304f62f1a61bf4618253ba8
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:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
PackagesNotFoundError: The following packages are not available from current channels:
- whheeeeeeeeeeeeeeeeee=0.0.1
Current channels:
- https://conda.anaconda.org/conda-forge/linux-aarch64
- https://conda.anaconda.org/conda-forge/noarch
- https://repo.anaconda.com/pkgs/main/linux-aarch64
- https://repo.anaconda.com/pkgs/main/noarch
- https://repo.anaconda.com/pkgs/r/linux-aarch64
- 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-aarch64.sh'
Content type 'application/x-sh' length 67565893 bytes (64.4 MB)
==================================================
downloaded 64.4 MB
PREFIX=/tmp/Rtmp8mbSLh/file32fca02ffb327f/1.11.3/0
Unpacking payload ...
0%| | 0/39 [00:00<?, ?it/s]
Extracting : certifi-2021.10.8-py38hd43f75c_2.conda: 0%| | 0/39 [00:00<?, ?it/s]
Extracting : certifi-2021.10.8-py38hd43f75c_2.conda: 3%|▎ | 1/39 [00:00<00:08, 4.43it/s]
Extracting : wheel-0.37.1-pyhd3eb1b0_0.conda: 3%|▎ | 1/39 [00:00<00:08, 4.43it/s]
Extracting : requests-2.27.1-pyhd3eb1b0_0.conda: 5%|▌ | 2/39 [00:00<00:08, 4.43it/s]
Extracting : openssl-1.1.1n-h2f4d8fa_0.conda: 8%|▊ | 3/39 [00:00<00:08, 4.43it/s]
Extracting : tqdm-4.63.0-pyhd3eb1b0_0.conda: 10%|█ | 4/39 [00:00<00:07, 4.43it/s]
Extracting : colorama-0.4.4-pyhd3eb1b0_0.conda: 13%|█▎ | 5/39 [00:00<00:07, 4.43it/s]
Extracting : sqlite-3.38.2-h6632b73_0.conda: 15%|█▌ | 6/39 [00:00<00:07, 4.43it/s]
Extracting : ncurses-6.3-h2f4d8fa_2.conda: 18%|█▊ | 7/39 [00:00<00:07, 4.43it/s]
Extracting : ncurses-6.3-h2f4d8fa_2.conda: 21%|██ | 8/39 [00:00<00:01, 28.18it/s]
Extracting : pyopenssl-22.0.0-pyhd3eb1b0_0.conda: 21%|██ | 8/39 [00:00<00:01, 28.18it/s]
Extracting : setuptools-61.2.0-py38hd43f75c_0.conda: 23%|██▎ | 9/39 [00:00<00:01, 28.18it/s]
Extracting : yaml-0.2.5-hfd63f10_0.conda: 26%|██▌ | 10/39 [00:00<00:01, 28.18it/s]
Extracting : ca-certificates-2022.3.29-hd43f75c_1.conda: 28%|██▊ | 11/39 [00:00<00:00, 28.18it/s]
Extracting : zlib-1.2.12-h2f4d8fa_1.conda: 31%|███ | 12/39 [00:00<00:00, 28.18it/s]
Extracting : _openmp_mutex-5.1-51_gnu.conda: 33%|███▎ | 13/39 [00:00<00:00, 28.18it/s]
Extracting : conda-4.12.0-py38hd43f75c_0.conda: 36%|███▌ | 14/39 [00:00<00:00, 28.18it/s]
Extracting : conda-4.12.0-py38hd43f75c_0.conda: 38%|███▊ | 15/39 [00:00<00:01, 22.07it/s]
Extracting : conda-package-handling-1.8.1-py38h2f4d8fa_0.conda: 38%|███▊ | 15/39 [00:00<00:01, 22.07it/s]
Extracting : urllib3-1.26.8-pyhd3eb1b0_0.conda: 41%|████ | 16/39 [00:00<00:01, 22.07it/s]
Extracting : _libgcc_mutex-0.1-main.conda: 44%|████▎ | 17/39 [00:00<00:00, 22.07it/s]
Extracting : six-1.16.0-pyhd3eb1b0_1.conda: 46%|████▌ | 18/39 [00:00<00:00, 22.07it/s]
Extracting : ruamel_yaml-0.15.100-py38h2f4d8fa_0.conda: 49%|████▊ | 19/39 [00:00<00:00, 22.07it/s]
Extracting : libstdcxx-ng-10.2.0-h1234567_51.conda: 51%|█████▏ | 20/39 [00:00<00:00, 22.07it/s]
Extracting : pycparser-2.21-pyhd3eb1b0_0.conda: 54%|█████▍ | 21/39 [00:00<00:00, 22.07it/s]
Extracting : tk-8.6.11-h241ca14_0.conda: 56%|█████▋ | 22/39 [00:00<00:00, 22.07it/s]
Extracting : cryptography-36.0.0-py38h3d58568_0.conda: 59%|█████▉ | 23/39 [00:00<00:00, 22.07it/s]
Extracting : idna-3.3-pyhd3eb1b0_0.conda: 62%|██████▏ | 24/39 [00:00<00:00, 22.07it/s]
Extracting : ld_impl_linux-aarch64-2.36.1-h0ab8de2_3.conda: 64%|██████▍ | 25/39 [00:00<00:00, 22.07it/s]
Extracting : python-3.8.13-hc137634_0.conda: 67%|██████▋ | 26/39 [00:00<00:00, 22.07it/s]
Extracting : conda-content-trust-0.1.1-pyhd3eb1b0_0.conda: 69%|██████▉ | 27/39 [00:00<00:00, 22.07it/s]
Extracting : brotlipy-0.7.0-py38hfd63f10_1002.conda: 72%|███████▏ | 28/39 [00:00<00:00, 22.07it/s]
Extracting : cffi-1.15.0-py38h9a3cfec_1.conda: 74%|███████▍ | 29/39 [00:00<00:00, 22.07it/s]
Extracting : charset-normalizer-2.0.4-pyhd3eb1b0_0.conda: 77%|███████▋ | 30/39 [00:00<00:00, 22.07it/s]
Extracting : libgomp-10.2.0-h1234567_51.conda: 79%|███████▉ | 31/39 [00:00<00:00, 22.07it/s]
Extracting : pycosat-0.6.3-py38hfd63f10_2.conda: 82%|████████▏ | 32/39 [00:00<00:00, 22.07it/s]
Extracting : pip-21.2.4-py38hd43f75c_0.conda: 85%|████████▍ | 33/39 [00:00<00:00, 22.07it/s]
Extracting : readline-8.1.2-h2f4d8fa_1.conda: 87%|████████▋ | 34/39 [00:00<00:00, 22.07it/s]
Extracting : pysocks-1.7.1-py38hd43f75c_0.conda: 90%|████████▉ | 35/39 [00:00<00:00, 22.07it/s]
Extracting : libffi-3.3-h7c1a80f_2.conda: 92%|█████████▏| 36/39 [00:00<00:00, 22.07it/s]
Extracting : libgcc-ng-10.2.0-h1234567_51.conda: 95%|█████████▍| 37/39 [00:00<00:00, 22.07it/s]
Extracting : xz-5.2.5-hfd63f10_1.conda: 97%|█████████▋| 38/39 [00:00<00:00, 22.07it/s]
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /tmp/Rtmp8mbSLh/file32fca02ffb327f/1.11.3/0
added / updated specs:
- _libgcc_mutex==0.1=main
- _openmp_mutex==5.1=51_gnu
- brotlipy==0.7.0=py38hfd63f10_1002
- ca-certificates==2022.3.29=hd43f75c_1
- certifi==2021.10.8=py38hd43f75c_2
- cffi==1.15.0=py38h9a3cfec_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=py38h2f4d8fa_0
- conda==4.12.0=py38hd43f75c_0
- cryptography==36.0.0=py38h3d58568_0
- idna==3.3=pyhd3eb1b0_0
- ld_impl_linux-aarch64==2.36.1=h0ab8de2_3
- libffi==3.3=h7c1a80f_2
- libgcc-ng==10.2.0=h1234567_51
- libgomp==10.2.0=h1234567_51
- libstdcxx-ng==10.2.0=h1234567_51
- ncurses==6.3=h2f4d8fa_2
- openssl==1.1.1n=h2f4d8fa_0
- pip==21.2.4=py38hd43f75c_0
- pycosat==0.6.3=py38hfd63f10_2
- pycparser==2.21=pyhd3eb1b0_0
- pyopenssl==22.0.0=pyhd3eb1b0_0
- pysocks==1.7.1=py38hd43f75c_0
- python==3.8.13=hc137634_0
- readline==8.1.2=h2f4d8fa_1
- requests==2.27.1=pyhd3eb1b0_0
- ruamel_yaml==0.15.100=py38h2f4d8fa_0
- setuptools==61.2.0=py38hd43f75c_0
- six==1.16.0=pyhd3eb1b0_1
- sqlite==3.38.2=h6632b73_0
- tk==8.6.11=h241ca14_0
- tqdm==4.63.0=pyhd3eb1b0_0
- urllib3==1.26.8=pyhd3eb1b0_0
- wheel==0.37.1=pyhd3eb1b0_0
- xz==5.2.5=hfd63f10_1
- yaml==0.2.5=hfd63f10_0
- zlib==1.2.12=h2f4d8fa_1
The following NEW packages will be INSTALLED:
_libgcc_mutex pkgs/main/linux-aarch64::_libgcc_mutex-0.1-main
_openmp_mutex pkgs/main/linux-aarch64::_openmp_mutex-5.1-51_gnu
brotlipy pkgs/main/linux-aarch64::brotlipy-0.7.0-py38hfd63f10_1002
ca-certificates pkgs/main/linux-aarch64::ca-certificates-2022.3.29-hd43f75c_1
certifi pkgs/main/linux-aarch64::certifi-2021.10.8-py38hd43f75c_2
cffi pkgs/main/linux-aarch64::cffi-1.15.0-py38h9a3cfec_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-aarch64::conda-4.12.0-py38hd43f75c_0
conda-content-tru~ pkgs/main/noarch::conda-content-trust-0.1.1-pyhd3eb1b0_0
conda-package-han~ pkgs/main/linux-aarch64::conda-package-handling-1.8.1-py38h2f4d8fa_0
cryptography pkgs/main/linux-aarch64::cryptography-36.0.0-py38h3d58568_0
idna pkgs/main/noarch::idna-3.3-pyhd3eb1b0_0
ld_impl_linux-aar~ pkgs/main/linux-aarch64::ld_impl_linux-aarch64-2.36.1-h0ab8de2_3
libffi pkgs/main/linux-aarch64::libffi-3.3-h7c1a80f_2
libgcc-ng pkgs/main/linux-aarch64::libgcc-ng-10.2.0-h1234567_51
libgomp pkgs/main/linux-aarch64::libgomp-10.2.0-h1234567_51
libstdcxx-ng pkgs/main/linux-aarch64::libstdcxx-ng-10.2.0-h1234567_51
ncurses pkgs/main/linux-aarch64::ncurses-6.3-h2f4d8fa_2
openssl pkgs/main/linux-aarch64::openssl-1.1.1n-h2f4d8fa_0
pip pkgs/main/linux-aarch64::pip-21.2.4-py38hd43f75c_0
pycosat pkgs/main/linux-aarch64::pycosat-0.6.3-py38hfd63f10_2
pycparser pkgs/main/noarch::pycparser-2.21-pyhd3eb1b0_0
pyopenssl pkgs/main/noarch::pyopenssl-22.0.0-pyhd3eb1b0_0
pysocks pkgs/main/linux-aarch64::pysocks-1.7.1-py38hd43f75c_0
python pkgs/main/linux-aarch64::python-3.8.13-hc137634_0
readline pkgs/main/linux-aarch64::readline-8.1.2-h2f4d8fa_1
requests pkgs/main/noarch::requests-2.27.1-pyhd3eb1b0_0
ruamel_yaml pkgs/main/linux-aarch64::ruamel_yaml-0.15.100-py38h2f4d8fa_0
setuptools pkgs/main/linux-aarch64::setuptools-61.2.0-py38hd43f75c_0
six pkgs/main/noarch::six-1.16.0-pyhd3eb1b0_1
sqlite pkgs/main/linux-aarch64::sqlite-3.38.2-h6632b73_0
tk pkgs/main/linux-aarch64::tk-8.6.11-h241ca14_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-aarch64::xz-5.2.5-hfd63f10_1
yaml pkgs/main/linux-aarch64::yaml-0.2.5-hfd63f10_0
zlib pkgs/main/linux-aarch64::zlib-1.2.12-h2f4d8fa_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... Killed
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:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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-aarch64::libblas-3.9.0-16_linuxaarch64_openblas
libcblas conda-forge/linux-aarch64::libcblas-3.9.0-16_linuxaarch64_openblas
libgfortran-ng conda-forge/linux-aarch64::libgfortran-ng-12.2.0-he9431aa_19
libgfortran5 conda-forge/linux-aarch64::libgfortran5-12.2.0-hf695500_19
liblapack conda-forge/linux-aarch64::liblapack-3.9.0-16_linuxaarch64_openblas
libopenblas conda-forge/linux-aarch64::libopenblas-0.3.21-pthreads_h6cb6f83_3
libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-12.2.0-hc13a102_19
numpy conda-forge/linux-aarch64::numpy-1.24.2-py38h39f6eef_0
pandas conda-forge/linux-aarch64::pandas-1.4.3-py38h2fe58aa_0
python-dateutil conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
python_abi conda-forge/linux-aarch64::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-h4fd8a4c_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: 23.1.0
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)
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/.cache/R/basilisk/1.11.3/son.of.basilisk/0.99.0/env1
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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/.cache/R/basilisk/1.11.3/son.of.basilisk/0.99.0/env1
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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/biocbuild/.cache/R/basilisk/1.11.3/son.of.basilisk/0.99.0/env1
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-aarch64::libblas-3.9.0-16_linuxaarch64_openblas
libcblas conda-forge/linux-aarch64::libcblas-3.9.0-16_linuxaarch64_openblas
libgfortran-ng conda-forge/linux-aarch64::libgfortran-ng-12.2.0-he9431aa_19
libgfortran5 conda-forge/linux-aarch64::libgfortran5-12.2.0-hf695500_19
liblapack conda-forge/linux-aarch64::liblapack-3.9.0-16_linuxaarch64_openblas
libopenblas conda-forge/linux-aarch64::libopenblas-0.3.21-pthreads_h6cb6f83_3
libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-12.2.0-hc13a102_19
numpy conda-forge/linux-aarch64::numpy-1.24.2-py38h39f6eef_0
pandas conda-forge/linux-aarch64::pandas-1.4.3-py38h2fe58aa_0
python-dateutil conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
python_abi conda-forge/linux-aarch64::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-h4fd8a4c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
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/.cache/R/basilisk/1.11.3/son.of.basilisk/0.99.0/env2
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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/.cache/R/basilisk/1.11.3/son.of.basilisk/0.99.0/env2
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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/biocbuild/.cache/R/basilisk/1.11.3/son.of.basilisk/0.99.0/env2
added / updated specs:
- python-dateutil=2.8.1
- python=3.8.13
- pytz=2022.1
- scikit-learn=1.1.1
The following packages will be downloaded:
package | build
---------------------------|-----------------
pyopenssl-23.1.0 | pyhd8ed1ab_0 125 KB conda-forge
scikit-learn-1.1.1 | py38h419075a_0 5.9 MB
------------------------------------------------------------
Total: 6.1 MB
The following NEW packages will be INSTALLED:
brotlipy conda-forge/linux-aarch64::brotlipy-0.7.0-py38hdacc76a_1005
certifi conda-forge/noarch::certifi-2022.12.7-pyhd8ed1ab_0
cffi conda-forge/linux-aarch64::cffi-1.15.1-py38h6989fa8_3
charset-normalizer conda-forge/noarch::charset-normalizer-2.1.1-pyhd8ed1ab_0
cryptography conda-forge/linux-aarch64::cryptography-39.0.2-py38hd0a2be6_0
idna conda-forge/noarch::idna-3.4-pyhd8ed1ab_0
joblib conda-forge/noarch::joblib-1.2.0-pyhd8ed1ab_0
libblas conda-forge/linux-aarch64::libblas-3.9.0-16_linuxaarch64_openblas
libcblas conda-forge/linux-aarch64::libcblas-3.9.0-16_linuxaarch64_openblas
libgfortran-ng conda-forge/linux-aarch64::libgfortran-ng-12.2.0-he9431aa_19
libgfortran5 conda-forge/linux-aarch64::libgfortran5-12.2.0-hf695500_19
liblapack conda-forge/linux-aarch64::liblapack-3.9.0-16_linuxaarch64_openblas
libopenblas conda-forge/linux-aarch64::libopenblas-0.3.21-pthreads_h6cb6f83_3
libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-12.2.0-hc13a102_19
numpy conda-forge/linux-aarch64::numpy-1.24.2-py38h39f6eef_0
packaging conda-forge/noarch::packaging-23.0-pyhd8ed1ab_0
platformdirs conda-forge/noarch::platformdirs-3.1.1-pyhd8ed1ab_0
pooch conda-forge/noarch::pooch-1.7.0-pyha770c72_3
pycparser conda-forge/noarch::pycparser-2.21-pyhd8ed1ab_0
pyopenssl conda-forge/noarch::pyopenssl-23.1.0-pyhd8ed1ab_0
pysocks conda-forge/noarch::pysocks-1.7.1-pyha2e5f31_6
python-dateutil conda-forge/noarch::python-dateutil-2.8.1-py_0
python_abi conda-forge/linux-aarch64::python_abi-3.8-3_cp38
pytz conda-forge/noarch::pytz-2022.1-pyhd8ed1ab_0
requests conda-forge/noarch::requests-2.28.2-pyhd8ed1ab_0
scikit-learn pkgs/main/linux-aarch64::scikit-learn-1.1.1-py38h419075a_0
scipy conda-forge/linux-aarch64::scipy-1.10.1-py38h39f6eef_0
six conda-forge/noarch::six-1.16.0-pyh6c4a22f_0
threadpoolctl conda-forge/noarch::threadpoolctl-3.1.0-pyh8a188c0_0
typing-extensions conda-forge/noarch::typing-extensions-4.5.0-hd8ed1ab_0
typing_extensions conda-forge/noarch::typing_extensions-4.5.0-pyha770c72_0
urllib3 conda-forge/noarch::urllib3-1.26.15-pyhd8ed1ab_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-h4fd8a4c_0
Downloading and Extracting Packages
pyopenssl-23.1.0 | 125 KB | | 0%
pyopenssl-23.1.0 | 125 KB | #2 | 13%
pyopenssl-23.1.0 | 125 KB | ########## | 100%
pyopenssl-23.1.0 | 125 KB | ########## | 100%
scikit-learn-1.1.1 | 5.9 MB | | 0%
scikit-learn-1.1.1 | 5.9 MB | | 0%
scikit-learn-1.1.1 | 5.9 MB | 2 | 3%
scikit-learn-1.1.1 | 5.9 MB | 4 | 4%
scikit-learn-1.1.1 | 5.9 MB | 6 | 7%
scikit-learn-1.1.1 | 5.9 MB | # | 10%
scikit-learn-1.1.1 | 5.9 MB | #4 | 15%
scikit-learn-1.1.1 | 5.9 MB | ## | 20%
scikit-learn-1.1.1 | 5.9 MB | ##5 | 26%
scikit-learn-1.1.1 | 5.9 MB | ###5 | 35%
scikit-learn-1.1.1 | 5.9 MB | ####7 | 48%
scikit-learn-1.1.1 | 5.9 MB | ######1 | 61%
scikit-learn-1.1.1 | 5.9 MB | ####### | 71%
scikit-learn-1.1.1 | 5.9 MB | #######7 | 78%
scikit-learn-1.1.1 | 5.9 MB | ########7 | 87%
scikit-learn-1.1.1 | 5.9 MB | #########4 | 94%
scikit-learn-1.1.1 | 5.9 MB | #########9 | 99%
scikit-learn-1.1.1 | 5.9 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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/biocbuild/.cache/R/basilisk/1.11.3/son.of.basilisk/0.99.0/env3
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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/.cache/R/basilisk/1.11.3/son.of.basilisk/0.99.0/env3
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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/biocbuild/.cache/R/basilisk/1.11.3/son.of.basilisk/0.99.0/env3
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-h4fd8a4c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Processing /tmp/Rtmp8mbSLh/Rlib.32fca07fb3e99a/son.of.basilisk/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=7a0b63727e81819da7cbb944392b8749a06d67179ea131952d46aaf08312fe5a
Stored in directory: /tmp/pip-ephem-wheel-cache-lmegcb3w/wheels/31/08/15/962314fa649873ad66f0e3db8db08a8d5531e7afb87f216f6f
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/my_package_A
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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-aarch64::libblas-3.9.0-16_linuxaarch64_openblas
libcblas conda-forge/linux-aarch64::libcblas-3.9.0-16_linuxaarch64_openblas
libgfortran-ng conda-forge/linux-aarch64::libgfortran-ng-12.2.0-he9431aa_19
libgfortran5 conda-forge/linux-aarch64::libgfortran5-12.2.0-hf695500_19
liblapack conda-forge/linux-aarch64::liblapack-3.9.0-16_linuxaarch64_openblas
libopenblas conda-forge/linux-aarch64::libopenblas-0.3.21-pthreads_h6cb6f83_3
libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-12.2.0-hc13a102_19
numpy conda-forge/linux-aarch64::numpy-1.24.2-py38h39f6eef_0
pandas conda-forge/linux-aarch64::pandas-1.4.3-py38h2fe58aa_0
python-dateutil conda-forge/noarch::python-dateutil-2.8.2-pyhd8ed1ab_0
python_abi conda-forge/linux-aarch64::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-h4fd8a4c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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:
_openmp_mutex conda-forge/linux-aarch64::_openmp_mutex-4.5-2_gnu
bzip2 conda-forge/linux-aarch64::bzip2-1.0.8-hf897c2e_4
ca-certificates conda-forge/linux-aarch64::ca-certificates-2022.12.7-h4fd8a4c_0
ld_impl_linux-aar~ conda-forge/linux-aarch64::ld_impl_linux-aarch64-2.40-h2d8c526_0
libffi conda-forge/linux-aarch64::libffi-3.4.2-h3557bc0_5
libgcc-ng conda-forge/linux-aarch64::libgcc-ng-12.2.0-h607ecd0_19
libgomp conda-forge/linux-aarch64::libgomp-12.2.0-h607ecd0_19
libnsl conda-forge/linux-aarch64::libnsl-2.0.0-hf897c2e_0
libsqlite conda-forge/linux-aarch64::libsqlite-3.40.0-hf9034f9_0
libuuid conda-forge/linux-aarch64::libuuid-2.32.1-hf897c2e_1000
libzlib conda-forge/linux-aarch64::libzlib-1.2.13-h4e544f5_4
ncurses conda-forge/linux-aarch64::ncurses-6.3-headf329_1
openssl conda-forge/linux-aarch64::openssl-3.1.0-hb4cce97_0
pip conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
python conda-forge/linux-aarch64::python-3.8.13-h92ab765_0_cpython
readline conda-forge/linux-aarch64::readline-8.2-h8fc344f_1
setuptools conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
sqlite conda-forge/linux-aarch64::sqlite-3.40.0-h69ca7e5_0
tk conda-forge/linux-aarch64::tk-8.6.12-hd8af866_0
wheel conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
xz conda-forge/linux-aarch64::xz-5.2.6-h9cdd2b7_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-hd43f75c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with initial frozen solve. Retrying with flexible solve.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /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-aarch64::libblas-3.9.0-16_linuxaarch64_openblas
libcblas conda-forge/linux-aarch64::libcblas-3.9.0-16_linuxaarch64_openblas
libgfortran-ng conda-forge/linux-aarch64::libgfortran-ng-12.2.0-he9431aa_19
libgfortran5 conda-forge/linux-aarch64::libgfortran5-12.2.0-hf695500_19
liblapack conda-forge/linux-aarch64::liblapack-3.9.0-16_linuxaarch64_openblas
libopenblas conda-forge/linux-aarch64::libopenblas-0.3.21-pthreads_h6cb6f83_3
libstdcxx-ng conda-forge/linux-aarch64::libstdcxx-ng-12.2.0-hc13a102_19
numpy conda-forge/linux-aarch64::numpy-1.24.2-py38h39f6eef_0
pandas conda-forge/linux-aarch64::pandas-1.4.2-py38h2fe58aa_2
python-dateutil conda-forge/noarch::python-dateutil-2.8.1-py_0
python_abi conda-forge/linux-aarch64::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-h4fd8a4c_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: 23.1.0
Please update conda by running
$ conda update -n base -c defaults conda
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 63 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-lazy.R:40:5'): obtainEnvironmentPath works as expected ─────────
Error: Error creating conda environment '/tmp/Rtmp8mbSLh/file32fca02ffb327f/1.11.3/basilisk.utils/1.11.2/test' [exit code 137]
Backtrace:
▆
1. └─basilisk::obtainEnvironmentPath(env) at test-lazy.R:40:4
2. └─basilisk::setupBasiliskEnv(...)
3. └─reticulate::conda_install(...)
4. └─reticulate::conda_create(...)
5. └─reticulate:::stopf(fmt, envname, result, call. = FALSE)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 63 ]
Error: Test failures
Execution halted
basilisk.Rcheck/basilisk-Ex.timings
| name | user | system | elapsed | |
| BasiliskEnvironment-class | 0.022 | 0.000 | 0.022 | |
| PyPiLink | 0 | 0 | 0 | |
| basiliskOptions | 0.000 | 0.001 | 0.001 | |
| basiliskStart | 214.825 | 22.917 | 261.608 | |
| configureBasiliskEnv | 0.002 | 0.000 | 0.002 | |
| createLocalBasiliskEnv | 77.734 | 12.836 | 99.629 | |
| listPackages | 1.174 | 0.260 | 1.810 | |
| obtainEnvironmentPath | 0.012 | 0.004 | 0.017 | |
| setupBasiliskEnv | 0.011 | 0.000 | 0.011 | |
| useBasiliskEnv | 1.786 | 0.337 | 2.123 | |