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This page was generated on 2025-07-08 15:41 -0400 (Tue, 08 Jul 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4779
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 239/429HostnameOS / ArchINSTALLBUILDCHECK
methylclockData 1.17.0  (landing page)
Dolors Pelegri-Siso
Snapshot Date: 2025-07-08 07:30 -0400 (Tue, 08 Jul 2025)
git_url: https://git.bioconductor.org/packages/methylclockData
git_branch: devel
git_last_commit: a867a3d
git_last_commit_date: 2025-04-15 10:16:06 -0400 (Tue, 15 Apr 2025)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published


CHECK results for methylclockData on nebbiolo2

To the developers/maintainers of the methylclockData 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: methylclockData
Version: 1.17.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:methylclockData.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings methylclockData_1.17.0.tar.gz
StartedAt: 2025-07-08 12:38:20 -0400 (Tue, 08 Jul 2025)
EndedAt: 2025-07-08 12:43:40 -0400 (Tue, 08 Jul 2025)
EllapsedTime: 319.6 seconds
RetCode: 0
Status:   OK  
CheckDir: methylclockData.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:methylclockData.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings methylclockData_1.17.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.22-data-experiment/meat/methylclockData.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 24.04.2 LTS
* using session charset: UTF-8
* checking for file ‘methylclockData/DESCRIPTION’ ... OK
* this is package ‘methylclockData’ version ‘1.17.0’
* 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 ‘methylclockData’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
License stub is invalid DCF.
* 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 vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.22-data-experiment/meat/methylclockData.Rcheck/00check.log’
for details.


Installation output

methylclockData.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL methylclockData
###
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* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’
* installing *source* package ‘methylclockData’ ...
** this is package ‘methylclockData’ version ‘1.17.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘ExperimentHubData’
No methods found in package ‘rtracklayer’ for request: ‘trackName<-’ when loading ‘AnnotationHubData’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘ExperimentHubData’
No methods found in package ‘rtracklayer’ for request: ‘trackName<-’ when loading ‘AnnotationHubData’
** testing if installed package can be loaded from final location
Warning: replacing previous import ‘utils::findMatches’ by ‘S4Vectors::findMatches’ when loading ‘ExperimentHubData’
No methods found in package ‘rtracklayer’ for request: ‘trackName<-’ when loading ‘AnnotationHubData’
** testing if installed package keeps a record of temporary installation path
* DONE (methylclockData)

Tests output


Example timings

methylclockData.Rcheck/methylclockData-Ex.timings

nameusersystemelapsed
get_MethylationDataExample1.8390.1972.278
get_TestDataset1.3440.1661.738
get_coefBLUP2.0920.2462.588
get_coefBohlin1.3510.2251.799
get_coefEN1.2190.0981.539
get_coefEPIC2.1550.3712.751
get_coefHannum1.2240.1661.613
get_coefHorvath1.2960.2231.742
get_coefKnightGA1.1850.1381.547
get_coefLeeGA1.3440.1591.734
get_coefLevine1.1910.0881.503
get_coefMayneGA1.3100.0991.632
get_coefPedBE1.2300.1431.595
get_coefSkin1.2670.1071.599
get_coefTL1.2460.1341.607
get_coefWu1.2540.0971.575
get_cpgs_bn2.1120.4722.810
get_probeAnnotation21kdatMethUsed1.2050.1421.568
get_references1.3250.1331.764