* using log directory ‘/Users/ripley/R/packages/tests-devel/annotaR.Rcheck’
* using R Under development (unstable) (2026-02-13 r89414)
* using platform: aarch64-apple-darwin25.2.0
* R was compiled by
    Apple clang version 17.0.0 (clang-1700.6.4.2)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Tahoe 26.3
* using session charset: UTF-8
* current time: 2026-02-13 18:31:50 UTC
* using option ‘--no-stop-on-test-error’
* checking for file ‘annotaR/DESCRIPTION’ ... OK
* this is package ‘annotaR’ version ‘0.1.1’
* 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 ‘annotaR’ can be installed ... OK
* 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 code 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 ... 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... [7s/26s] ERROR
Error(s) in re-building vignettes:
--- re-building ‘annotaR-workflow.Rmd’ using rmarkdown

Quitting from annotaR-workflow.Rmd:45-56 [annotation]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/httr2_failure>
Error in `req_perform()`:
! Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Timeout was reached [www.ensembl.org]:
Operation timed out after 10002 milliseconds with 0 bytes received
---
Backtrace:
     ▆
  1. ├─... %>% add_drug_links()
  2. ├─annotaR::add_drug_links(.)
  3. │ └─"gene" %in% names(annotaR_object)
  4. └─annotaR::add_disease_links(.)
  5.   ├─biomaRt::getBM(...)
  6.   │ └─biomaRt:::martCheck(mart)
  7.   └─biomaRt::useEnsembl("genes", "hsapiens_gene_ensembl")
  8.     └─biomaRt:::.listEnsembl(version = version, GRCh = GRCh, mirror = mirror)
  9.       └─biomaRt:::.currentEnsemblVersion()
 10.         └─biomaRt::listEnsemblArchives()
 11.           └─biomaRt:::.listEnsemblArchives(http_config = list())
 12.             └─biomaRt:::.checkArchiveList(http_config)
 13.               └─biomaRt:::.getArchiveList(http_config = http_config)
 14.                 └─httr2::req_perform(html_request)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'annotaR-workflow.Rmd' failed with diagnostics:
Failed to perform HTTP request.
Caused by error in `curl::curl_fetch_memory()`:
! Timeout was reached [www.ensembl.org]:
Operation timed out after 10002 milliseconds with 0 bytes received
--- failed re-building ‘annotaR-workflow.Rmd’

SUMMARY: processing the following file failed:
  ‘annotaR-workflow.Rmd’

Error: Vignette re-building failed.
Execution halted

* checking PDF version of manual ... OK
* checking HTML version of manual ... OK
* checking for detritus in the temp directory ... OK
* DONE

Status: 1 ERROR
See
  ‘/Users/ripley/R/packages/tests-devel/annotaR.Rcheck/00check.log’
for details.

       94.47 real        65.36 user         9.00 sys