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##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data fobitools
###
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* checking for file ‘fobitools/DESCRIPTION’ ... OK
* preparing ‘fobitools’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘Dietary_data_annotation.Rmd’ using rmarkdown
2025-11-20 17:04:07.578 R[80327:52784095] XType: Using static font registry.
Warning: ggrepel: 104 unlabeled data points (too many overlaps). Consider increasing max.overlaps
--- finished re-building ‘Dietary_data_annotation.Rmd’

--- re-building ‘MW_ST000291_enrichment.Rmd’ using rmarkdown

Quitting from MW_ST000291_enrichment.Rmd:79-91 [unnamed-chunk-5]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `curl::curl_fetch_memory()`:
! Timeout was reached [www.metabolomicsworkbench.org]:
Connection timed out after 10000 milliseconds
---
Backtrace:
     ▆
  1. ├─metabolomicsWorkbenchR::do_query(...)
  2. ├─metabolomicsWorkbenchR::do_query(...)
  3. │ ├─metabolomicsWorkbenchR::do_query(...)
  4. │ └─metabolomicsWorkbenchR::do_query(...)
  5. │   ├─metabolomicsWorkbenchR::do_query(...)
  6. │   └─metabolomicsWorkbenchR::do_query(...)
  7. │     ├─metabolomicsWorkbenchR::do_query(...)
  8. │     └─metabolomicsWorkbenchR::do_query(...)
  9. │       └─metabolomicsWorkbenchR:::use_api(str, output_item, input_value)
 10. │         └─httr::GET(url = str)
 11. │           └─httr:::request_perform(req, hu$handle$handle)
 12. │             ├─httr:::request_fetch(req$output, req$url, handle)
 13. │             └─httr:::request_fetch.write_memory(req$output, req$url, handle)
 14. │               └─curl::curl_fetch_memory(url, handle = handle)
 15. └─curl:::raise_libcurl_error(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'MW_ST000291_enrichment.Rmd' failed with diagnostics:
Timeout was reached [www.metabolomicsworkbench.org]:
Connection timed out after 10000 milliseconds
--- failed re-building ‘MW_ST000291_enrichment.Rmd’

--- re-building ‘MW_ST000629_enrichment.Rmd’ using rmarkdown
Warning: ggrepel: 7 unlabeled data points (too many overlaps). Consider increasing max.overlaps
Warning: ggrepel: 2 unlabeled data points (too many overlaps). Consider increasing max.overlaps
--- finished re-building ‘MW_ST000629_enrichment.Rmd’

--- re-building ‘food_enrichment_analysis.Rmd’ using rmarkdown
Warning: ggrepel: 101 unlabeled data points (too many overlaps). Consider increasing max.overlaps
--- finished re-building ‘food_enrichment_analysis.Rmd’

SUMMARY: processing the following file failed:
  ‘MW_ST000291_enrichment.Rmd’

Error: Vignette re-building failed.
Execution halted