Back to Build/check report for BioC 3.14 experimental data
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2022-04-13 14:50:22 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
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

CHECK results for brgedata on nebbiolo2


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

raw results

Package 43/408HostnameOS / ArchINSTALLBUILDCHECK
brgedata 1.16.0  (landing page)
Dolors Pelegri-Siso
Snapshot Date: 2022-04-13 07:30:01 -0400 (Wed, 13 Apr 2022)
git_url: https://git.bioconductor.org/packages/brgedata
git_branch: RELEASE_3_14
git_last_commit: acfe9a7
git_last_commit_date: 2021-10-26 12:41:36 -0400 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published

Summary

Package: brgedata
Version: 1.16.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:brgedata.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings brgedata_1.16.0.tar.gz
StartedAt: 2022-04-13 11:15:09 -0400 (Wed, 13 Apr 2022)
EndedAt: 2022-04-13 11:18:21 -0400 (Wed, 13 Apr 2022)
EllapsedTime: 191.7 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: brgedata.Rcheck
Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:brgedata.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings brgedata_1.16.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.14-data-experiment/meat/brgedata.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘brgedata/DESCRIPTION’ ... OK
* this is package ‘brgedata’ version ‘1.16.0’
* 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 ‘brgedata’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 638.3Mb
  sub-directories of 1Mb or more:
    data     184.2Mb
    extdata  454.0Mb
* 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 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 ... 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... WARNING
  Warning: found non-ASCII strings
  'Average Brominated THM uptake (<b5>g/day)' in object 'brge_expo'
  'Average Chloroform uptake (<b5>g/day)' in object 'brge_expo'
  'Average total THM uptake (<b5>g/day)' in object 'brge_expo'
  'Benzene levels (<b5>g/m3)' in object 'brge_expo'
  'BPA (<b5>g/g creatine)' in object 'brge_expo'
  'Mercury (<b5>g/l)' in object 'brge_expo'
  'NO2 levels (<b5>g/m3)' in object 'brge_expo'
  'PFBS (<b5>g/l)' in object 'brge_expo'
  'PFHxS (<b5>g/l)' in object 'brge_expo'
  'PFOA (<b5>g/l)' in object 'brge_expo'
  '<b5>g/l' in object 'brge_expo'
* checking LazyData ... WARNING
  LazyData DB of 184.2 MB without LazyDataCompression set
  See §1.1.6 of 'Writing R Extensions'
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
brge_methy 12.673  1.124  13.797
* 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: 2 WARNINGs, 1 NOTE
See
  ‘/home/biocbuild/bbs-3.14-data-experiment/meat/brgedata.Rcheck/00check.log’
for details.



Installation output

brgedata.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL brgedata
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘brgedata’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (brgedata)

Tests output


Example timings

brgedata.Rcheck/brgedata-Ex.timings

nameusersystemelapsed
brge_gexp1.9440.1962.141
brge_methy12.673 1.12413.797
brge_prot0.0020.0000.002