* using log directory ‘/data/gannet/ripley/R/packages/tests-noLD/crestr.Rcheck’
* using R Under development (unstable) (2023-01-06 r83576)
* using platform: x86_64-pc-linux-gnu (64-bit)
* R was compiled by
    gcc (GCC) 12.2.1 20221121 (Red Hat 12.2.1-4)
    GNU Fortran (GCC) 12.2.1 20221121 (Red Hat 12.2.1-4)
* running under: Fedora Linux 36 (Workstation Edition)
* using session charset: UTF-8
* using option ‘--no-stop-on-test-error’
* checking for file ‘crestr/DESCRIPTION’ ... OK
* this is package ‘crestr’ version ‘1.2.1’
* 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 whether package ‘crestr’ can be installed ... [18s/46s] 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 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 ... [33s/68s] 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking R/sysdata.rda ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking re-building of vignette outputs ... [36s/87s] ERROR
Error(s) in re-building vignettes:
--- re-building ‘calibration-data.Rmd’ using rmarkdown
--- finished re-building ‘calibration-data.Rmd’

--- re-building ‘get-started.Rmd’ using rmarkdown
Quitting from lines 170-180 (get-started.Rmd) 
Error: processing vignette 'get-started.Rmd' failed with diagnostics:
'by' must specify a uniquely valid column
--- failed re-building ‘get-started.Rmd’

--- re-building ‘technicalities.Rmd’ using rmarkdown
--- finished re-building ‘technicalities.Rmd’

--- re-building ‘theory.Rmd’ using rmarkdown
--- finished re-building ‘theory.Rmd’

--- re-building ‘using-gbif4crest.Rmd’ using rmarkdown
Quitting from lines 46-56 (using-gbif4crest.Rmd) 
Error: processing vignette 'using-gbif4crest.Rmd' failed with diagnostics:
incorrect number of dimensions
--- failed re-building ‘using-gbif4crest.Rmd’

SUMMARY: processing the following files failed:
  ‘get-started.Rmd’ ‘using-gbif4crest.Rmd’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... [10s/32s] OK
* checking HTML version of manual ... OK
* checking for non-standard things in the check directory ... OK
* checking for detritus in the temp directory ... OK
* DONE

Status: 1 ERROR
See
  ‘/data/gannet/ripley/R/packages/tests-noLD/crestr.Rcheck/00check.log’
for details.

Command exited with non-zero status 1
Time 6:01.67, 140.06 + 12.30