Back to Multiple platform build/check report for BioC 3.12
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

BUILD report for biomaRt on malbec1

This page was generated on 2020-08-13 11:12:37 -0400 (Thu, 13 Aug 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE biomaRt PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 167/1885HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biomaRt 2.45.2
Mike Smith
Snapshot Date: 2020-08-12 14:52:00 -0400 (Wed, 12 Aug 2020)
URL: https://git.bioconductor.org/packages/biomaRt
Branch: master
Last Commit: 3994027
Last Changed Date: 2020-07-05 10:28:02 -0400 (Sun, 05 Jul 2020)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK [ ERROR ] skipped 
nebbiolo1 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  ERROR  skipped 
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK  ERROR  OK 
merida1 macOS 10.14.6 Mojave / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: biomaRt
Version: 2.45.2
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data biomaRt
StartedAt: 2020-08-12 18:05:53 -0400 (Wed, 12 Aug 2020)
EndedAt: 2020-08-12 18:07:05 -0400 (Wed, 12 Aug 2020)
EllapsedTime: 72.3 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data biomaRt
###
##############################################################################
##############################################################################


* checking for file ‘biomaRt/DESCRIPTION’ ... OK
* preparing ‘biomaRt’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘accessing_ensembl.Rmd’ using rmarkdown
Quitting from lines 54-55 (accessing_ensembl.Rmd) 
Error: processing vignette 'accessing_ensembl.Rmd' failed with diagnostics:
object 'ensembl' not found
--- failed re-building ‘accessing_ensembl.Rmd’

--- re-building ‘biomaRt.Rmd’ using rmarkdown
Ensembl site unresponsive, trying asia mirror
Quitting from lines 45-47 (biomaRt.Rmd) 
Error: processing vignette 'biomaRt.Rmd' failed with diagnostics:
Timeout was reached: [useast.ensembl.org:8443] Connection timed out after 10485 milliseconds
--- failed re-building ‘biomaRt.Rmd’

SUMMARY: processing the following files failed:
  ‘accessing_ensembl.Rmd’ ‘biomaRt.Rmd’

Error: Vignette re-building failed.
Execution halted