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This page was generated on 2021-10-16 15:58:41 -0400 (Sat, 16 Oct 2021).

CHECK results for methylclockData on malbec2

To the developers/maintainers of the methylclockData package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 230/406HostnameOS / ArchINSTALLBUILDCHECK
methylclockData 1.0.9  (landing page)
Dolors Pelegri-Siso
Snapshot Date: 2021-10-16 09:30:07 -0400 (Sat, 16 Oct 2021)
git_url: https://git.bioconductor.org/packages/methylclockData
git_branch: RELEASE_3_13
git_last_commit: 736ea9c
git_last_commit_date: 2021-06-30 03:27:08 -0400 (Wed, 30 Jun 2021)
malbec2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published

Summary

Package: methylclockData
Version: 1.0.9
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:methylclockData.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings methylclockData_1.0.9.tar.gz
StartedAt: 2021-10-16 13:31:21 -0400 (Sat, 16 Oct 2021)
EndedAt: 2021-10-16 13:35:41 -0400 (Sat, 16 Oct 2021)
EllapsedTime: 260.4 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: methylclockData.Rcheck
Warnings: 1

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:methylclockData.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings methylclockData_1.0.9.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-data-experiment/meat/methylclockData.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘methylclockData/DESCRIPTION’ ... OK
* this is package ‘methylclockData’ version ‘1.0.9’
* 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.
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R 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 ... NOTE
prepare_Rd: references.Rd:40-42: Dropping empty section \details
prepare_Rd: references.Rd:43-45: Dropping empty section \source
prepare_Rd: references.Rd:46-48: Dropping empty section \references
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... WARNING
Data with usage in documentation object 'references.rda' but not in code:
  ‘references’

* 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
get_MethylationDataExample 4.936  0.128   6.305
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 WARNING, 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.13-data-experiment/meat/methylclockData.Rcheck/00check.log’
for details.



Installation output

methylclockData.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL methylclockData
###
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* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘methylclockData’ ...
** 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 (methylclockData)

Tests output


Example timings

methylclockData.Rcheck/methylclockData-Ex.timings

nameusersystemelapsed
get_MethylationDataExample4.9360.1286.305
get_TestDataset3.9650.0284.697
get_coefBohlin3.3230.0163.896
get_coefHannum3.2700.0283.898
get_coefHorvath3.1820.0243.914
get_coefKnightGA3.0980.0283.687
get_coefLeeGA3.2680.0363.897
get_coefLevine3.3500.0604.061
get_coefMayneGA3.2400.0563.851
get_coefPedBE3.2630.0323.875
get_coefSkin3.1750.0243.796
get_coefTL3.3630.0444.094
get_coefWu3.1840.0483.987
get_cpgs_bn3.1790.0283.902
get_probeAnnotation21kdatMethUsed3.3780.0443.975
get_references3.2330.0403.877
references0.0000.0030.064