• using R Under development (unstable) (2019-12-07 r77541)
• using platform: x86_64-pc-linux-gnu (64-bit)
• using session charset: ISO8859-15
• checking for file 'dataone/DESCRIPTION' ... OK
• this is package 'dataone' version '2.1.2'
• 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 executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking serialization versions ... OK
• checking whether package 'dataone' can be installed ... OK
• checking package directory ... OK
• checking for future file timestamps ... 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 loading without being on the library search path ... OK
• checking use of S3 registration ... 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 ... [16s/18s] OK
• checking Rd files ... OK
• checking Rd metadata ... OK
• checking Rd line widths ... 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 installed files from 'inst/doc' ... OK
• checking files in 'vignettes' ... OK
• checking examples ... ERROR
  Running examples in 'dataone-Ex.R' failed
  The error most likely occurred in:
  
  > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
  > ### Name: listObjects
  > ### Title: Retrieve the list of objects that match the search parameters
  > ### Aliases: listObjects listObjects,D1Node-method
  >
  > ### ** Examples
  >
  > library(dataone)
  > cn <- CNode("STAGING")
  Error in curl::curl_fetch_memory(url, handle = handle) :
    Timeout was reached: [cn-stage.test.dataone.org] Operation timed out after 10001 milliseconds with 0 out of 0 bytes received
  Calls: CNode ... request_fetch -> request_fetch.write_memory -> <Anonymous>
  Execution halted
• checking for unstated dependencies in 'tests' ... OK
• checking tests ... [38s/92s] OK
    Running 'testthat.R' [38s/91s]
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in 'inst/doc' ... OK
• checking re-building of vignette outputs ... [33s/57s] WARNING
  Error(s) in re-building vignettes:
    ...
  --- re-building 'dataone-federation.Rmd' using rmarkdown
  --- finished re-building 'dataone-federation.Rmd'
  
  --- re-building 'dataone-overview.Rmd' using rmarkdown
  Quitting from lines 63-72 (dataone-overview.Rmd)
  Error: processing vignette 'dataone-overview.Rmd' failed with diagnostics:
  Timeout was reached: [cn-stage.test.dataone.org] Operation timed out after 10001 milliseconds with 0 out of 0 bytes received
  --- failed re-building 'dataone-overview.Rmd'
  
  --- re-building 'download-data.Rmd' using rmarkdown
  --- finished re-building 'download-data.Rmd'
  
  --- re-building 'known-issues.Rmd' using rmarkdown
  --- finished re-building 'known-issues.Rmd'
  
  --- re-building 'searching-dataone.Rmd' using rmarkdown
  --- finished re-building 'searching-dataone.Rmd'
  
  --- re-building 'update-package.Rmd' using rmarkdown
  --- finished re-building 'update-package.Rmd'
  
  --- re-building 'upload-data.Rmd' using rmarkdown
  --- finished re-building 'upload-data.Rmd'
  
  SUMMARY: processing the following file failed:
    'dataone-overview.Rmd'
  
  Error: Vignette re-building failed.
  Execution halted
  
• checking PDF version of manual ... OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 1 ERROR, 1 WARNING