Back to Long Tests report for BioC 3.21 |
This page was generated on 2025-04-19 23:55 -0400 (Sat, 19 Apr 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4831 |
palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" | 4573 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4599 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 3/30 | Hostname | OS / Arch | CHECK | |||||||
basilisk 1.20.0 (landing page) Aaron Lun
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | |||||||
palomino7 | Windows Server 2022 Datacenter / x64 | ERROR | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | ||||||||
To the developers/maintainers of the basilisk package: - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: basilisk |
Version: 1.20.0 |
Command: E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no basilisk_1.20.0.tar.gz |
StartedAt: 2025-04-19 16:03:46 -0400 (Sat, 19 Apr 2025) |
EndedAt: 2025-04-19 16:04:53 -0400 (Sat, 19 Apr 2025) |
EllapsedTime: 66.1 seconds |
RetCode: 1 |
Status: ERROR |
CheckDir: basilisk.Rcheck |
Warnings: NA |
basilisk.Rcheck/tests/testthat.Rout.fail
R version 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" Copyright (C) 2025 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 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) Loading required package: reticulate > test_check("basilisk") * installing *source* package 'son.of.basilisk' ... ** this is package 'son.of.basilisk' version '0.99.0' ** 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) Channels: - conda-forge Platform: win-64 Collecting package metadata (repodata.json): ...working... failed NoSpaceLeftError: No space left on devices. [ FAIL 1 | WARN 2 | SKIP 0 | PASS 0 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-package.R:14:5'): internal test package installs correctly ───── Error: Error creating conda environment 'C:/Users/biocbuild/.basilisk/1.20.0/son.of.basilisk/0.99.0/env1' [exit code 1] Backtrace: ▆ 1. └─son.of.basilisk::test() at test-package.R:14:5 2. └─basilisk::basiliskStart(env1) 3. └─basilisk::obtainEnvironmentPath(env) 4. └─basilisk::setupBasiliskEnv(...) 5. └─reticulate::conda_install(...) 6. └─reticulate::conda_create(...) 7. └─reticulate:::stopf(fmt, envname, result, call. = FALSE) [ FAIL 1 | WARN 2 | SKIP 0 | PASS 0 ] Error: Test failures Execution halted
############################################################################## ############################################################################## ### ### Running command: ### ### E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD check --no-multiarch --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no basilisk_1.20.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'E:/biocbuild/bbs-3.21-bioc-longtests/meat/basilisk.Rcheck' * using R version 4.5.0 RC (2025-04-04 r88126 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 14.2.0 GNU Fortran (GCC) 14.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using options '--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error' * checking for file 'basilisk/DESCRIPTION' ... OK * this is package 'basilisk' version '1.20.0' * package encoding: UTF-8 * 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 whether package 'basilisk' can be installed ... NOTE Found the following notes/warnings: Non-staged installation was used See 'E:/biocbuild/bbs-3.21-bioc-longtests/meat/basilisk.Rcheck/00install.out' for details. * checking installed package size ... OK * checking package 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 code 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 ... NOTE Found the following Rd file(s) with Rd \link{} targets missing package anchors: basiliskStart.Rd: activateEnvironment, getExternalDir listPackages.Rd: installConda useBasiliskEnv.Rd: activateEnvironment Please provide package anchors for all Rd \link{} targets not in the package itself and the base packages. * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... SKIPPED * 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' ... SKIPPED * checking examples ... SKIPPED * checking for unstated dependencies in 'longtests' ... OK * checking tests in 'longtests' ... Running 'testthat.R' ERROR Running the tests in 'longtests/testthat.R' failed. Last 13 lines of output: ── Error ('test-package.R:14:5'): internal test package installs correctly ───── Error: Error creating conda environment 'C:/Users/biocbuild/.basilisk/1.20.0/son.of.basilisk/0.99.0/env1' [exit code 1] Backtrace: ▆ 1. └─son.of.basilisk::test() at test-package.R:14:5 2. └─basilisk::basiliskStart(env1) 3. └─basilisk::obtainEnvironmentPath(env) 4. └─basilisk::setupBasiliskEnv(...) 5. └─reticulate::conda_install(...) 6. └─reticulate::conda_create(...) 7. └─reticulate:::stopf(fmt, envname, result, call. = FALSE) [ FAIL 1 | WARN 2 | SKIP 0 | PASS 0 ] Error: Test failures Execution halted * DONE Status: 1 ERROR, 3 NOTEs See 'E:/biocbuild/bbs-3.21-bioc-longtests/meat/basilisk.Rcheck/00check.log' for details.
basilisk.Rcheck/00install.out
* installing *source* package 'basilisk' ... ** this is package 'basilisk' version '1.20.0' ** 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)