Marcel Ramos
| Snapshot Date: 2025-10-13 13:40 -0400 (Mon, 13 Oct 2025) |
| git_url: https://git.bioconductor.org/packages/BiocBaseUtils |
| git_branch: RELEASE_3_21 |
| git_last_commit: af524da |
| git_last_commit_date: 2025-04-15 12:51:45 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.21: simplified long |
|
This page was generated on 2025-10-16 11:41 -0400 (Thu, 16 Oct 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4833 |
| merida1 | macOS 12.7.6 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4614 |
| kjohnson1 | macOS 13.7.5 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4555 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4586 |
| 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 181/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| BiocBaseUtils 1.10.0 (landing page) Marcel Ramos
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| merida1 | macOS 12.7.6 Monterey / x86_64 | OK | OK | OK | OK | | ||||||||
| kjohnson1 | macOS 13.7.5 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the BiocBaseUtils package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BiocBaseUtils.git to reflect on this report. See Troubleshooting Build Report for more information. - 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. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: BiocBaseUtils |
| Version: 1.10.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:BiocBaseUtils.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings BiocBaseUtils_1.10.0.tar.gz |
| StartedAt: 2025-10-14 06:40:07 -0000 (Tue, 14 Oct 2025) |
| EndedAt: 2025-10-14 06:40:46 -0000 (Tue, 14 Oct 2025) |
| EllapsedTime: 39.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: BiocBaseUtils.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:BiocBaseUtils.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings BiocBaseUtils_1.10.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/BiocBaseUtils.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘BiocBaseUtils/DESCRIPTION’ ... OK
* this is package ‘BiocBaseUtils’ version ‘1.10.0’
* 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 ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘BiocBaseUtils’ can be installed ... OK
* 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 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 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 files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘tinytest.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
BiocBaseUtils.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL BiocBaseUtils ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’ * installing *source* package ‘BiocBaseUtils’ ... ** this is package ‘BiocBaseUtils’ version ‘1.10.0’ ** using staged installation ** 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 from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (BiocBaseUtils)
BiocBaseUtils.Rcheck/tests/tinytest.Rout
R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu
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.
> if (requireNamespace("tinytest", quietly = TRUE))
+ tinytest::test_package("BiocBaseUtils")
test_assertions.R............. 1 tests [0;32mOK[0m
test_assertions.R............. 2 tests [0;32mOK[0m
test_assertions.R............. 3 tests [0;32mOK[0m
test_assertions.R............. 4 tests [0;32mOK[0m
test_assertions.R............. 5 tests [0;32mOK[0m
test_assertions.R............. 6 tests [0;32mOK[0m
test_assertions.R............. 7 tests [0;32mOK[0m
test_assertions.R............. 8 tests [0;32mOK[0m
test_assertions.R............. 9 tests [0;32mOK[0m
test_assertions.R............. 10 tests [0;32mOK[0m
test_assertions.R............. 11 tests [0;32mOK[0m
test_assertions.R............. 12 tests [0;32mOK[0m
test_assertions.R............. 13 tests [0;32mOK[0m [0;36m54ms[0m
You are using 'tinytest::' to express test expectations.
The results from these tests are not collected. Found the following occurrences:
> test_checkInstalled.R#006: tinytest::expect_match
Remove the 'tinytest::' prefix to register the test results.FALSE
The following package(s) are required for this function:
BiocManager::install("abc123xyzjfk")
test_checkInstalled.R......... 1 tests [0;32mOK[0m
test_checkInstalled.R......... 1 tests [0;32mOK[0m
test_checkInstalled.R......... 2 tests [0;32mOK[0m [0;36m6ms[0m
test_internals.R.............. 0 tests
test_internals.R.............. 0 tests
test_internals.R.............. 0 tests
test_internals.R.............. 1 tests [0;32mOK[0m
test_internals.R.............. 1 tests [0;32mOK[0m
test_internals.R.............. 2 tests [0;32mOK[0m
test_internals.R.............. 3 tests [0;32mOK[0m [0;36m16ms[0m
test_lifeCycle.R.............. 0 tests
test_lifeCycle.R.............. 1 tests [0;32mOK[0m
test_lifeCycle.R.............. 2 tests [0;32mOK[0m
test_lifeCycle.R.............. 3 tests [0;32mOK[0m
test_lifeCycle.R.............. 3 tests [0;32mOK[0m
test_lifeCycle.R.............. 4 tests [0;32mOK[0m
test_lifeCycle.R.............. 5 tests [0;32mOK[0m
test_lifeCycle.R.............. 6 tests [0;32mOK[0m [0;36m16ms[0m
test_showUtils.R.............. 1 tests [0;32mOK[0m
test_showUtils.R.............. 2 tests [0;32mOK[0m
test_showUtils.R.............. 3 tests [0;32mOK[0m
test_showUtils.R.............. 4 tests [0;32mOK[0m
test_showUtils.R.............. 5 tests [0;32mOK[0m
test_showUtils.R.............. 6 tests [0;32mOK[0m [0;36m4ms[0m
All ok, 30 results (0.1s)
>
> proc.time()
user system elapsed
0.281 0.053 0.327
BiocBaseUtils.Rcheck/BiocBaseUtils-Ex.timings
| name | user | system | elapsed | |
| Assertions | 0.001 | 0.000 | 0.001 | |
| askUserYesNo | 0 | 0 | 0 | |
| checkInstalled | 0.000 | 0.000 | 0.001 | |
| lifeCycle | 0.002 | 0.000 | 0.002 | |
| selectSome | 0.000 | 0.000 | 0.001 | |
| setSlots | 0.013 | 0.000 | 0.014 | |