Back to Multiple platform build/check report for BioC 3.22:   simplified   long
ABCDEFGHIJKLMNOPQRST[U]VWXYZ

This page was generated on 2025-06-23 12:14 -0400 (Mon, 23 Jun 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.2 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4565
palomino8Windows Server 2022 Datacenterx644.5.1 (2025-06-13 ucrt) -- "Great Square Root" 4506
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4544
kjohnson3macOS 13.7.1 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4492
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4496
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 2243/2310HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
UniProt.ws 2.49.3  (landing page)
Marcel Ramos
Snapshot Date: 2025-06-22 13:25 -0400 (Sun, 22 Jun 2025)
git_url: https://git.bioconductor.org/packages/UniProt.ws
git_branch: devel
git_last_commit: 2b026b3
git_last_commit_date: 2025-05-27 15:29:25 -0400 (Tue, 27 May 2025)
nebbiolo2Linux (Ubuntu 24.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  

CHECK results for UniProt.ws on lconway

To the developers/maintainers of the UniProt.ws package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/UniProt.ws.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.

raw results


Summary

Package: UniProt.ws
Version: 2.49.3
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:UniProt.ws.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings UniProt.ws_2.49.3.tar.gz
StartedAt: 2025-06-22 23:43:12 -0400 (Sun, 22 Jun 2025)
EndedAt: 2025-06-22 23:46:03 -0400 (Sun, 22 Jun 2025)
EllapsedTime: 170.6 seconds
RetCode: 0
Status:   OK  
CheckDir: UniProt.ws.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:UniProt.ws.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings UniProt.ws_2.49.3.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/UniProt.ws.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-apple-darwin20
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Monterey 12.7.6
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘UniProt.ws/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘UniProt.ws’ version ‘2.49.3’
* 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 ‘UniProt.ws’ 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 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
Examples with CPU (user + system) or elapsed time > 5s
                    user system elapsed
UniProt.ws-class   0.936  0.051   8.907
mapUniProt         0.368  0.030   8.025
UniProt.ws-methods 0.188  0.010   5.072
* 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

Installation output

UniProt.ws.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL UniProt.ws
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-x86_64/Resources/library’
* installing *source* package ‘UniProt.ws’ ...
** this is package ‘UniProt.ws’ version ‘2.49.3’
** 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 (UniProt.ws)

Tests output

UniProt.ws.Rcheck/tests/tinytest.Rout


R version 4.5.1 (2025-06-13) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20

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("UniProt.ws")

test_mapUniProt.R.............    0 tests    
test_mapUniProt.R.............    0 tests    
test_mapUniProt.R.............    1 tests OK 
test_mapUniProt.R.............    2 tests OK 
test_mapUniProt.R.............    3 tests OK 
test_mapUniProt.R.............    3 tests OK 
test_mapUniProt.R.............    3 tests OK 
test_mapUniProt.R.............    4 tests OK 
test_mapUniProt.R.............    5 tests OK 
test_mapUniProt.R.............    6 tests OK 
test_mapUniProt.R.............    6 tests OK 
test_mapUniProt.R.............    7 tests OK 
test_mapUniProt.R.............    8 tests OK 
test_mapUniProt.R.............    9 tests OK 
test_mapUniProt.R.............   10 tests OK 
test_mapUniProt.R.............   10 tests OK 
test_mapUniProt.R.............   10 tests OK 
test_mapUniProt.R.............   11 tests OK 
test_mapUniProt.R.............   12 tests OK 
test_mapUniProt.R.............   13 tests OK 4.0s

test_select.R.................    0 tests    
test_select.R.................    0 tests    
test_select.R.................    1 tests OK 
test_select.R.................    1 tests OK 
test_select.R.................    2 tests OK 
test_select.R.................    3 tests OK 
test_select.R.................    3 tests OK 
test_select.R.................    4 tests OK 
test_select.R.................    4 tests OK 
test_select.R.................    4 tests OK 
test_select.R.................    5 tests OK 
test_select.R.................    5 tests OK 
test_select.R.................    6 tests OK 
test_select.R.................    6 tests OK 
test_select.R.................    6 tests OK 
test_select.R.................    6 tests OK 
test_select.R.................    6 tests OK 
test_select.R.................    7 tests OK 
test_select.R.................    8 tests OK 
test_select.R.................    9 tests OK 
test_select.R.................   10 tests OK 
test_select.R.................   10 tests OK 
test_select.R.................   10 tests OK 
test_select.R.................   10 tests OK 
test_select.R.................   10 tests OK 
test_select.R.................   11 tests OK 
test_select.R.................   12 tests OK 
test_select.R.................   13 tests OK 
test_select.R.................   13 tests OK 
test_select.R.................   13 tests OK 
test_select.R.................   13 tests OK 
test_select.R.................   13 tests OK 
test_select.R.................   14 tests OK 
test_select.R.................   15 tests OK 
test_select.R.................   16 tests OK 
test_select.R.................   17 tests OK 
test_select.R.................   17 tests OK 
test_select.R.................   17 tests OK 
test_select.R.................   17 tests OK 
test_select.R.................   17 tests OK 
test_select.R.................   18 tests OK 
test_select.R.................   19 tests OK 
test_select.R.................   20 tests OK 
test_select.R.................   20 tests OK 
test_select.R.................   20 tests OK 
test_select.R.................   20 tests OK 
test_select.R.................   20 tests OK 
test_select.R.................   21 tests OK 
test_select.R.................   22 tests OK 
test_select.R.................   23 tests OK 
test_select.R.................   23 tests OK 
test_select.R.................   23 tests OK 
test_select.R.................   23 tests OK 
test_select.R.................   23 tests OK 
test_select.R.................   24 tests OK 
test_select.R.................   25 tests OK 
test_select.R.................   26 tests OK 
test_select.R.................   26 tests OK 
test_select.R.................   27 tests OK 
test_select.R.................   27 tests OK 
test_select.R.................   27 tests OK 
test_select.R.................   27 tests OK 
test_select.R.................   27 tests OK 
test_select.R.................   28 tests OK 
test_select.R.................   28 tests OK 
test_select.R.................   28 tests OK 
test_select.R.................   29 tests OK 
test_select.R.................   29 tests OK 
test_select.R.................   30 tests OK 
test_select.R.................   30 tests OK 
test_select.R.................   31 tests OK 19.9s

test_serviceAccessors.R.......    0 tests    
test_serviceAccessors.R.......    0 tests    
test_serviceAccessors.R.......    1 tests OK 
test_serviceAccessors.R.......    2 tests OK 
test_serviceAccessors.R.......    3 tests OK 
test_serviceAccessors.R.......    3 tests OK 
test_serviceAccessors.R.......    4 tests OK 
test_serviceAccessors.R.......    5 tests OK 
test_serviceAccessors.R.......    6 tests OK 
test_serviceAccessors.R.......    6 tests OK 
test_serviceAccessors.R.......    7 tests OK 
test_serviceAccessors.R.......    8 tests OK 
test_serviceAccessors.R.......    9 tests OK 
test_serviceAccessors.R.......    9 tests OK 
test_serviceAccessors.R.......   10 tests OK 
test_serviceAccessors.R.......   11 tests OK 
test_serviceAccessors.R.......   12 tests OK 
test_serviceAccessors.R.......   13 tests OK 
test_serviceAccessors.R.......   13 tests OK 
test_serviceAccessors.R.......   14 tests OK 
test_serviceAccessors.R.......   15 tests OK 
test_serviceAccessors.R.......   16 tests OK 8.0s

test_utilities.R..............    0 tests    
test_utilities.R..............    1 tests OK 
test_utilities.R..............    1 tests OK 
test_utilities.R..............    1 tests OK 
test_utilities.R..............    2 tests OK 
test_utilities.R..............    2 tests OK 
test_utilities.R..............    3 tests OK 
test_utilities.R..............    3 tests OK 
test_utilities.R..............    3 tests OK 
test_utilities.R..............    4 tests OK 
test_utilities.R..............    4 tests OK 
test_utilities.R..............    5 tests OK 
test_utilities.R..............    5 tests OK 
test_utilities.R..............    5 tests OK 
test_utilities.R..............    6 tests OK 10ms
All ok, 66 results (31.9s)
Warning messages:
1: IDs not mapped: 3 
2: IDs not mapped: 3 
3: IDs not mapped: P20806, Q17192 
4: IDs not mapped: 3 
> 
> proc.time()
   user  system elapsed 
  7.583   0.490  37.006

Example timings

UniProt.ws.Rcheck/UniProt.ws-Ex.timings

nameusersystemelapsed
UniProt.ws-class0.9360.0518.907
UniProt.ws-methods0.1880.0105.072
mapUniProt0.3680.0308.025
utilities0.0070.0010.007