Back to Build/check report for BioC 3.22 annotations
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This page was generated on 2025-08-13 08:30 -0400 (Wed, 13 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4818
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 37/49HostnameOS / ArchINSTALLBUILDCHECK
org.Hbacteriophora.eg.db 0.99.1  (landing page)
Kabilan S
Snapshot Date: 2025-08-13 06:00 -0400 (Wed, 13 Aug 2025)
git_url: https://git.bioconductor.org/packages/org.Hbacteriophora.eg.db
git_branch: devel
git_last_commit: 36e89ee
git_last_commit_date: 2025-07-03 07:20:26 -0400 (Thu, 03 Jul 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published


CHECK results for org.Hbacteriophora.eg.db on nebbiolo2

To the developers/maintainers of the org.Hbacteriophora.eg.db 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.

raw results


Summary

Package: org.Hbacteriophora.eg.db
Version: 0.99.1
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:org.Hbacteriophora.eg.db.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings org.Hbacteriophora.eg.db_0.99.1.tar.gz
StartedAt: 2025-08-13 06:34:58 -0400 (Wed, 13 Aug 2025)
EndedAt: 2025-08-13 06:36:58 -0400 (Wed, 13 Aug 2025)
EllapsedTime: 119.7 seconds
RetCode: 0
Status:   OK  
CheckDir: org.Hbacteriophora.eg.db.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:org.Hbacteriophora.eg.db.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings org.Hbacteriophora.eg.db_0.99.1.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.22-data-annotation/meat/org.Hbacteriophora.eg.db.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘org.Hbacteriophora.eg.db/DESCRIPTION’ ... OK
* this is package ‘org.Hbacteriophora.eg.db’ version ‘0.99.1’
* 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 ‘org.Hbacteriophora.eg.db’ 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 whether startup messages can be suppressed ... 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 vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

org.Hbacteriophora.eg.db.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL org.Hbacteriophora.eg.db
###
##############################################################################
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* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’
* installing *source* package ‘org.Hbacteriophora.eg.db’ ...
** this is package ‘org.Hbacteriophora.eg.db’ version ‘0.99.1’
** 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 (org.Hbacteriophora.eg.db)

Tests output


Example timings

org.Hbacteriophora.eg.db.Rcheck/org.Hbacteriophora.eg.db-Ex.timings

nameusersystemelapsed
org.Hbacteriophora.egBASE3.2660.2594.317
org.Hbacteriophora.egGENENAME1.7960.4402.711
org.Hbacteriophora.egGID1.9340.2982.710
org.Hbacteriophora.egGO1.7770.1852.391
org.Hbacteriophora.egGOALL1.7670.1412.394
org.Hbacteriophora.egKEGGPATHWAY1.8050.1562.417
org.Hbacteriophora.egONTOLOGY1.7700.1092.354
org.Hbacteriophora.egONTOLOGYALL1.7750.1102.509
org.Hbacteriophora.egORGANISM0.0010.0000.000
org.Hbacteriophora.egSYMBOL1.7610.0903.289
org.Hbacteriophora.eg_dbconn1.6840.1172.269