Aaron Lun
| Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023) |
| git_url: https://git.bioconductor.org/packages/basilisk |
| git_branch: RELEASE_3_16 |
| git_last_commit: 9c9ad75 |
| git_last_commit_date: 2022-11-08 11:29:13 -0400 (Tue, 08 Nov 2022) |
| Back to Multiple platform build/check report for BioC 3.16: simplified long |
|
This page was generated on 2023-04-12 11:04:58 -0400 (Wed, 12 Apr 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
| palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
| lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
|
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 121/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| basilisk 1.10.2 (landing page) Aaron Lun
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | TIMEOUT | OK | |||||||||
| lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| Package: basilisk |
| Version: 1.10.2 |
| Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:basilisk.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings basilisk_1.10.2.tar.gz |
| StartedAt: 2023-04-10 19:08:08 -0400 (Mon, 10 Apr 2023) |
| EndedAt: 2023-04-10 19:34:39 -0400 (Mon, 10 Apr 2023) |
| EllapsedTime: 1590.6 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: basilisk.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:basilisk.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings basilisk_1.10.2.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.16-bioc/meat/basilisk.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘basilisk/DESCRIPTION’ ... OK
* this is package ‘basilisk’ version ‘1.10.2’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
inst/example/.BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘basilisk’ can be installed ... NOTE
Found the following notes/warnings:
Non-staged installation was used
See ‘/home/biocbuild/bbs-3.16-bioc/meat/basilisk.Rcheck/00install.out’ for details.
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking 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 242.800 23.168 276.774
createLocalBasiliskEnv 93.132 10.188 107.125
* 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-3.16-bioc/meat/basilisk.Rcheck/00check.log’
for details.
basilisk.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL basilisk ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.16-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)
basilisk.Rcheck/tests/testthat.Rout
R version 4.2.3 (2023-03-15) -- "Shortstop Beagle"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: x86_64-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following packages will be UPDATED:
ca-certificates conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- pandas=1.4.3
- python-dateutil=2.8.2
- python=3.8.13
- pytz=2022.2.1
The following NEW packages will be INSTALLED:
libblas conda-forge/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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following packages will be UPDATED:
ca-certificates conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- pandas=1.4.2
- python-dateutil=2.8.1
- python=3.8.13
- pytz=2022.1
The following NEW packages will be INSTALLED:
libblas conda-forge/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-3.16-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=2.7
The following packages will be UPDATED:
ca-certificates conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python[version='2.7.*,2.7.*']
The following packages will be SUPERSEDED by a higher-priority channel:
ca-certificates pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following packages will be UPDATED:
ca-certificates conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python-dateutil=2.8.1
- python=3.8.13
- pytz=2022.1
The following NEW packages will be INSTALLED:
python-dateutil conda-forge/noarch::python-dateutil-2.8.1-py_0
pytz conda-forge/noarch::pytz-2022.1-pyhd8ed1ab_0
six conda-forge/noarch::six-1.16.0-pyh6c4a22f_0
The following packages will be SUPERSEDED by a higher-priority channel:
ca-certificates pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following packages will be UPDATED:
ca-certificates conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following packages will be SUPERSEDED by a higher-priority channel:
ca-certificates pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-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-3.16-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=625818757ce236bd894b127c786275f27fa374879146c8af88377029c5b5fe77
Stored in directory: /tmp/pip-ephem-wheel-cache-r7496xio/wheels/11/89/bb/51511bf0d95fcf551774d1b7b2ebe8a84af71bdccec326e699
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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/thingo
added / updated specs:
- python=3.8.13
The following packages will be UPDATED:
ca-certificates conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-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/Rtmpb4juWk/file20dad92234a771/1.10.2/0
Unpacking payload ...
0%| | 0/39 [00:00<?, ?it/s]
Extracting : zlib-1.2.12-h7f8727e_1.conda: 0%| | 0/39 [00:00<?, ?it/s]
Extracting : zlib-1.2.12-h7f8727e_1.conda: 3%|▎ | 1/39 [00:00<00:04, 8.62it/s]
Extracting : yaml-0.2.5-h7b6447c_0.conda: 3%|▎ | 1/39 [00:00<00:04, 8.62it/s]
Extracting : urllib3-1.26.8-pyhd3eb1b0_0.conda: 5%|▌ | 2/39 [00:00<00:04, 8.62it/s]
Extracting : ruamel_yaml-0.15.100-py38h27cfd23_0.conda: 8%|▊ | 3/39 [00:00<00:04, 8.62it/s]
Extracting : colorama-0.4.4-pyhd3eb1b0_0.conda: 10%|█ | 4/39 [00:00<00:04, 8.62it/s]
Extracting : libgomp-9.3.0-h5101ec6_17.conda: 13%|█▎ | 5/39 [00:00<00:03, 8.62it/s]
Extracting : cryptography-36.0.0-py38h9ce1e76_0.conda: 15%|█▌ | 6/39 [00:00<00:03, 8.62it/s]
Extracting : cryptography-36.0.0-py38h9ce1e76_0.conda: 18%|█▊ | 7/39 [00:00<00:01, 26.20it/s]
Extracting : wheel-0.37.1-pyhd3eb1b0_0.conda: 18%|█▊ | 7/39 [00:00<00:01, 26.20it/s]
Extracting : six-1.16.0-pyhd3eb1b0_1.conda: 21%|██ | 8/39 [00:00<00:01, 26.20it/s]
Extracting : setuptools-61.2.0-py38h06a4308_0.conda: 23%|██▎ | 9/39 [00:00<00:01, 26.20it/s]
Extracting : pysocks-1.7.1-py38h06a4308_0.conda: 26%|██▌ | 10/39 [00:00<00:01, 26.20it/s]
Extracting : ca-certificates-2022.3.29-h06a4308_1.conda: 28%|██▊ | 11/39 [00:00<00:01, 26.20it/s]
Extracting : certifi-2021.10.8-py38h06a4308_2.conda: 31%|███ | 12/39 [00:00<00:01, 26.20it/s]
Extracting : pyopenssl-22.0.0-pyhd3eb1b0_0.conda: 33%|███▎ | 13/39 [00:00<00:00, 26.20it/s]
Extracting : ld_impl_linux-64-2.35.1-h7274673_9.conda: 36%|███▌ | 14/39 [00:00<00:00, 26.20it/s]
Extracting : sqlite-3.38.2-hc218d9a_0.conda: 38%|███▊ | 15/39 [00:00<00:00, 26.20it/s]
Extracting : charset-normalizer-2.0.4-pyhd3eb1b0_0.conda: 41%|████ | 16/39 [00:00<00:00, 26.20it/s]
Extracting : libstdcxx-ng-9.3.0-hd4cf53a_17.conda: 44%|████▎ | 17/39 [00:00<00:00, 26.20it/s]
Extracting : cffi-1.15.0-py38hd667e15_1.conda: 46%|████▌ | 18/39 [00:00<00:00, 26.20it/s]
Extracting : _libgcc_mutex-0.1-main.conda: 49%|████▊ | 19/39 [00:00<00:00, 26.20it/s]
Extracting : tk-8.6.11-h1ccaba5_0.conda: 51%|█████▏ | 20/39 [00:00<00:00, 26.20it/s]
Extracting : conda-content-trust-0.1.1-pyhd3eb1b0_0.conda: 54%|█████▍ | 21/39 [00:00<00:00, 26.20it/s]
Extracting : idna-3.3-pyhd3eb1b0_0.conda: 56%|█████▋ | 22/39 [00:00<00:00, 26.20it/s]
Extracting : xz-5.2.5-h7b6447c_0.conda: 59%|█████▉ | 23/39 [00:00<00:00, 26.20it/s]
Extracting : readline-8.1.2-h7f8727e_1.conda: 62%|██████▏ | 24/39 [00:00<00:00, 26.20it/s]
Extracting : requests-2.27.1-pyhd3eb1b0_0.conda: 64%|██████▍ | 25/39 [00:00<00:00, 26.20it/s]
Extracting : brotlipy-0.7.0-py38h27cfd23_1003.conda: 67%|██████▋ | 26/39 [00:00<00:00, 26.20it/s]
Extracting : pip-21.2.4-py38h06a4308_0.conda: 69%|██████▉ | 27/39 [00:00<00:00, 26.20it/s]
Extracting : pycosat-0.6.3-py38h7b6447c_1.conda: 72%|███████▏ | 28/39 [00:00<00:00, 26.20it/s]
Extracting : libgcc-ng-9.3.0-h5101ec6_17.conda: 74%|███████▍ | 29/39 [00:00<00:00, 26.20it/s]
Extracting : python-3.8.13-h12debd9_0.conda: 77%|███████▋ | 30/39 [00:00<00:00, 26.20it/s]
Extracting : python-3.8.13-h12debd9_0.conda: 79%|███████▉ | 31/39 [00:00<00:00, 64.33it/s]
Extracting : conda-4.12.0-py38h06a4308_0.conda: 79%|███████▉ | 31/39 [00:00<00:00, 64.33it/s]
Extracting : libffi-3.3-he6710b0_2.conda: 82%|████████▏ | 32/39 [00:00<00:00, 64.33it/s]
Extracting : openssl-1.1.1n-h7f8727e_0.conda: 85%|████████▍ | 33/39 [00:00<00:00, 64.33it/s]
Extracting : conda-package-handling-1.8.1-py38h7f8727e_0.conda: 87%|████████▋ | 34/39 [00:00<00:00, 64.33it/s]
Extracting : pycparser-2.21-pyhd3eb1b0_0.conda: 90%|████████▉ | 35/39 [00:00<00:00, 64.33it/s]
Extracting : tqdm-4.63.0-pyhd3eb1b0_0.conda: 92%|█████████▏| 36/39 [00:00<00:00, 64.33it/s]
Extracting : ncurses-6.3-h7f8727e_2.conda: 95%|█████████▍| 37/39 [00:00<00:00, 64.33it/s]
Extracting : _openmp_mutex-4.5-1_gnu.tar.bz2: 97%|█████████▋| 38/39 [00:00<00:00, 64.33it/s]
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /tmp/Rtmpb4juWk/file20dad92234a771/1.10.2/0
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/Rtmpb4juWk/file20dad92234a771/1.10.2/basilisk.utils/1.10.0/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/Rtmpb4juWk/file20dad92234a771/1.10.2/basilisk.utils/1.10.0/test
added / updated specs:
- python=3.8.13
The following packages will be downloaded:
package | build
---------------------------|-----------------
ca-certificates-2023.01.10 | 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/Rtmpb4juWk/file20dad92234a771/1.10.2/basilisk.utils/1.10.0/test
added / updated specs:
- pandas=1.4.3
- python=3.8.13
The following packages will be downloaded:
package | build
---------------------------|-----------------
libblas-3.9.0 |16_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
six-1.16.0 | 14 KB | | 0%
six-1.16.0 | 14 KB | ########## | 100%
pandas-1.4.3 | 12.7 MB | | 0%
pandas-1.4.3 | 12.7 MB | # | 11%
pandas-1.4.3 | 12.7 MB | ####9 | 49%
pandas-1.4.3 | 12.7 MB | ########9 | 89%
pandas-1.4.3 | 12.7 MB | ########## | 100%
python_abi-3.8 | 6 KB | | 0%
python_abi-3.8 | 6 KB | ########## | 100%
python_abi-3.8 | 6 KB | ########## | 100%
liblapack-3.9.0 | 13 KB | | 0%
liblapack-3.9.0 | 13 KB | ########## | 100%
libopenblas-0.3.21 | 10.1 MB | | 0%
libopenblas-0.3.21 | 10.1 MB | 9 | 10%
libopenblas-0.3.21 | 10.1 MB | ######1 | 61%
libopenblas-0.3.21 | 10.1 MB | ########## | 100%
libopenblas-0.3.21 | 10.1 MB | ########## | 100%
pytz-2023.3 | 182 KB | | 0%
pytz-2023.3 | 182 KB | ########## | 100%
pytz-2023.3 | 182 KB | ########## | 100%
libgfortran-ng-12.2. | 22 KB | | 0%
libgfortran-ng-12.2. | 22 KB | ########## | 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%
numpy-1.24.2 | 6.3 MB | | 0%
numpy-1.24.2 | 6.3 MB | #6 | 16%
numpy-1.24.2 | 6.3 MB | #######4 | 74%
numpy-1.24.2 | 6.3 MB | ########## | 100%
python-dateutil-2.8. | 240 KB | | 0%
python-dateutil-2.8. | 240 KB | ########## | 100%
libstdcxx-ng-12.2.0 | 4.3 MB | | 0%
libstdcxx-ng-12.2.0 | 4.3 MB | #####5 | 55%
libstdcxx-ng-12.2.0 | 4.3 MB | ########## | 100%
libgfortran5-12.2.0 | 1.8 MB | | 0%
libgfortran5-12.2.0 | 1.8 MB | #####3 | 53%
libgfortran5-12.2.0 | 1.8 MB | ########## | 100%
Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
==> WARNING: A newer version of conda exists. <==
current version: 4.12.0
latest version: 23.3.1
Please update conda by running
$ conda update -n base -c defaults conda
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... failed with repodata from current_repodata.json, will retry with next repodata source.
Collecting package metadata (repodata.json): ...working... done
Solving environment: ...working... done
## Package Plan ##
environment location: /home/biocbuild/bbs-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.10.2
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.10.2
added / updated specs:
- python=3.8.13
The following packages will be UPDATED:
ca-certificates conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/locality/1.10.2
added / updated specs:
- pandas=1.4.3
- python-dateutil=2.8.2
- python=3.8.13
- pytz=2022.2.1
The following NEW packages will be INSTALLED:
libblas conda-forge/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.
Error in checkForRemoteErrors(lapply(cl, recvResult)) :
one node produced an error: ImportError: /usr/lib/x86_64-linux-gnu/libstdc++.so.6: version `GLIBCXX_3.4.30' not found (required by /home/biocbuild/.cache/R/basilisk/1.10.2/son.of.basilisk/0.99.0/env2/lib/python3.8/site-packages/scipy/optimize/_highs/_highs_wrapper.cpython-38-x86_64-linux-gnu.so)
WARNING: ignoring environment value of R_HOME
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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_A
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_A
added / updated specs:
- python=3.8.13
The following packages will be UPDATED:
ca-certificates conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_A
added / updated specs:
- pandas=1.4.3
- python-dateutil=2.8.2
- python=3.8.13
- pytz=2022.2.1
The following NEW packages will be INSTALLED:
libblas conda-forge/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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_B
added / updated specs:
- python=3.8.13
The following NEW packages will be INSTALLED:
_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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_B
added / updated specs:
- python=3.8.13
The following packages will be UPDATED:
ca-certificates conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-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-3.16-bioc/meat/basilisk.Rcheck/tests/testthat/install-test-client/my_package_B
added / updated specs:
- pandas=1.4.2
- python-dateutil=2.8.1
- python=3.8.13
- pytz=2022.1
The following NEW packages will be INSTALLED:
libblas conda-forge/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
857.506 101.717 1025.724
basilisk.Rcheck/basilisk-Ex.timings
| name | user | system | elapsed | |
| BasiliskEnvironment-class | 0.003 | 0.000 | 0.003 | |
| PyPiLink | 0.000 | 0.000 | 0.001 | |
| basiliskOptions | 0.000 | 0.000 | 0.001 | |
| basiliskStart | 242.800 | 23.168 | 276.774 | |
| configureBasiliskEnv | 0.003 | 0.000 | 0.002 | |
| createLocalBasiliskEnv | 93.132 | 10.188 | 107.125 | |
| listPackages | 0.924 | 0.179 | 1.350 | |
| obtainEnvironmentPath | 0.015 | 0.000 | 0.016 | |
| setupBasiliskEnv | 0.011 | 0.000 | 0.012 | |
| useBasiliskEnv | 1.371 | 0.251 | 1.527 | |