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This page was generated on 2025-03-17 12:12 -0400 (Mon, 17 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.3 (2025-02-28) -- "Trophy Case" 4756
palomino8Windows Server 2022 Datacenterx644.4.3 (2025-02-28 ucrt) -- "Trophy Case" 4487
merida1macOS 12.7.5 Montereyx86_644.4.3 (2025-02-28) -- "Trophy Case" 4514
kjohnson1macOS 13.6.6 Venturaarm644.4.3 (2025-02-28) -- "Trophy Case" 4441
taishanLinux (openEuler 24.03 LTS)aarch644.4.3 (2025-02-28) -- "Trophy Case" 4399
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 1024/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
IMPCdata 1.42.0  (landing page)
Jeremy Mason
Snapshot Date: 2025-03-13 13:00 -0400 (Thu, 13 Mar 2025)
git_url: https://git.bioconductor.org/packages/IMPCdata
git_branch: RELEASE_3_20
git_last_commit: 077e50f
git_last_commit_date: 2024-10-29 09:56:14 -0400 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 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
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for IMPCdata on taishan

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

raw results


Summary

Package: IMPCdata
Version: 1.42.0
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:IMPCdata.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings IMPCdata_1.42.0.tar.gz
StartedAt: 2025-03-14 07:12:02 -0000 (Fri, 14 Mar 2025)
EndedAt: 2025-03-14 07:13:52 -0000 (Fri, 14 Mar 2025)
EllapsedTime: 110.1 seconds
RetCode: 0
Status:   OK  
CheckDir: IMPCdata.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:IMPCdata.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings IMPCdata_1.42.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.20-bioc/meat/IMPCdata.Rcheck’
* using R version 4.4.3 (2025-02-28)
* 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)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘IMPCdata/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘IMPCdata’ version ‘1.42.0’
* 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 ‘IMPCdata’ 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
Examples with CPU (user + system) or elapsed time > 5s
                  user system elapsed
getPhenCenters   0.382  0.012  17.501
getAlleles       0.187  0.015   5.515
getProcedures    0.164  0.015   6.171
getPipelines     0.167  0.009   6.238
getGenes         0.167  0.008   5.600
getParameters    0.171  0.004   5.306
printAlleles     0.170  0.001   5.072
printGenes       0.159  0.012   5.044
printParameters  0.166  0.004   5.307
printPipelines   0.164  0.006   5.986
printProcedures  0.163  0.007   7.368
printPhenCenters 0.050  0.008   6.327
* 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

IMPCdata.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL IMPCdata
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-4.4.3/site-library’
* installing *source* package ‘IMPCdata’ ...
** 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 (IMPCdata)

Tests output


Example timings

IMPCdata.Rcheck/IMPCdata-Ex.timings

nameusersystemelapsed
getAlleles0.1870.0155.515
getGenes0.1670.0085.600
getIMPCDataset0.0290.0001.412
getIMPCTable0.1100.0053.986
getName0.0280.0001.256
getParameters0.1710.0045.306
getPhenCenters 0.382 0.01217.501
getPipelines0.1670.0096.238
getProcedures0.1640.0156.171
getStrains0.0910.0003.403
getZygosities0.0330.0000.840
printAlleles0.1700.0015.072
printGenes0.1590.0125.044
printParameters0.1660.0045.307
printPhenCenters0.0500.0086.327
printPipelines0.1640.0065.986
printProcedures0.1630.0077.368
printStrains0.0840.0003.104