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This page was generated on 2025-02-13 12:12 -0500 (Thu, 13 Feb 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4754
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4502
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4525
kjohnson1macOS 13.6.6 Venturaarm644.4.2 (2024-10-31) -- "Pile of Leaves" 4477
taishanLinux (openEuler 24.03 LTS)aarch644.4.2 (2024-10-31) -- "Pile of Leaves" 4414
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: 2025-02-10 13:00 -0500 (Mon, 10 Feb 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 -0500 (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: 2025-02-11 07:16:38 -0000 (Tue, 11 Feb 2025)
EndedAt: 2025-02-11 07:18:50 -0000 (Tue, 11 Feb 2025)
EllapsedTime: 132.1 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 4.4.2 (2024-10-31)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 12.3.1 (openEuler 12.3.1-36.oe2403)
* 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   0.397  0.009  21.468
getAlleles       0.196  0.008   7.164
printAlleles     0.162  0.028   6.100
getGenes         0.181  0.001   6.052
getPipelines     0.181  0.000   7.139
getProcedures    0.177  0.004   9.556
getParameters    0.174  0.004   6.375
printPipelines   0.167  0.004   6.968
printProcedures  0.160  0.011   8.379
printGenes       0.158  0.012   6.116
printParameters  0.165  0.005   6.233
printPhenCenters 0.051  0.008   8.314
* 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-4.4.2/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
getAlleles0.1960.0087.164
getGenes0.1810.0016.052
getIMPCDataset0.0300.0001.324
getIMPCTable0.1100.0084.674
getName0.0290.0001.889
getParameters0.1740.0046.375
getPhenCenters 0.397 0.00921.468
getPipelines0.1810.0007.139
getProcedures0.1770.0049.556
getStrains0.0910.0044.728
getZygosities0.0300.0030.851
printAlleles0.1620.0286.100
printGenes0.1580.0126.116
printParameters0.1650.0056.233
printPhenCenters0.0510.0088.314
printPipelines0.1670.0046.968
printProcedures0.1600.0118.379
printStrains0.0840.0014.562