Back to Build/check report for BioC 3.14 experimental data
ABCDEFGHIJKLMNOPQRS[T]UVWXYZ

This page was generated on 2021-10-19 15:52:18 -0400 (Tue, 19 Oct 2021).

CHECK results for tcgaWGBSData.hg19 on nebbiolo2

To the developers/maintainers of the tcgaWGBSData.hg19 package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 377/404HostnameOS / ArchINSTALLBUILDCHECK
tcgaWGBSData.hg19 1.11.1  (landing page)
Divy Kangeyan
Snapshot Date: 2021-10-19 09:30:02 -0400 (Tue, 19 Oct 2021)
git_url: https://git.bioconductor.org/packages/tcgaWGBSData.hg19
git_branch: master
git_last_commit: 4d5f0e4
git_last_commit_date: 2021-08-11 10:46:51 -0400 (Wed, 11 Aug 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published

Summary

Package: tcgaWGBSData.hg19
Version: 1.11.1
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:tcgaWGBSData.hg19.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings tcgaWGBSData.hg19_1.11.1.tar.gz
StartedAt: 2021-10-19 12:41:15 -0400 (Tue, 19 Oct 2021)
EndedAt: 2021-10-19 12:44:21 -0400 (Tue, 19 Oct 2021)
EllapsedTime: 185.9 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: tcgaWGBSData.hg19.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:tcgaWGBSData.hg19.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings tcgaWGBSData.hg19_1.11.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.14-data-experiment/meat/tcgaWGBSData.hg19.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 ‘tcgaWGBSData.hg19/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘tcgaWGBSData.hg19’ version ‘1.11.1’
* 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 ‘tcgaWGBSData.hg19’ can be installed ... WARNING
Found the following significant warnings:
  Warning: Package 'tcgaWGBSData.hg19' is deprecated and will be removed from
See ‘/home/biocbuild/bbs-3.14-data-experiment/meat/tcgaWGBSData.hg19.Rcheck/00install.out’ for details.
* 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 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 files in ‘vignettes’ ... OK
* checking examples ... OK
* 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
See
  ‘/home/biocbuild/bbs-3.14-data-experiment/meat/tcgaWGBSData.hg19.Rcheck/00check.log’
for details.



Installation output

tcgaWGBSData.hg19.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL tcgaWGBSData.hg19
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘tcgaWGBSData.hg19’ ...
** 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
Warning: Package 'tcgaWGBSData.hg19' is deprecated and will be removed from
  Bioconductor version 3.15
** testing if installed package can be loaded from final location
Warning: Package 'tcgaWGBSData.hg19' is deprecated and will be removed from
  Bioconductor version 3.15
** testing if installed package keeps a record of temporary installation path
* DONE (tcgaWGBSData.hg19)

Tests output


Example timings

tcgaWGBSData.hg19.Rcheck/tcgaWGBSData.hg19-Ex.timings

nameusersystemelapsed
tcgaWGBSData.hg19-package2.0640.1682.674