Last updated on 2026-04-09 08:50:08 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.1.1 | 23.00 | 218.47 | 241.47 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.1.1 | 17.51 | 150.26 | 167.77 | OK | |
| r-devel-linux-x86_64-fedora-clang | 0.1.1 | 39.00 | 319.04 | 358.04 | ERROR | |
| r-devel-linux-x86_64-fedora-gcc | 0.1.1 | 37.00 | 327.46 | 364.46 | OK | |
| r-devel-macos-arm64 | 0.1.1 | 6.00 | 72.00 | 78.00 | ERROR | |
| r-devel-windows-x86_64 | 0.1.1 | 24.00 | 186.00 | 210.00 | OK | |
| r-patched-linux-x86_64 | 0.1.1 | 21.92 | 196.47 | 218.39 | ERROR | |
| r-release-linux-x86_64 | 0.1.1 | 22.29 | 200.90 | 223.19 | OK | |
| r-release-macos-arm64 | 0.1.1 | 6.00 | 109.00 | 115.00 | OK | |
| r-release-macos-x86_64 | 0.1.1 | 16.00 | 274.00 | 290.00 | OK | |
| r-release-windows-x86_64 | 0.1.1 | 23.00 | 217.00 | 240.00 | OK | |
| r-oldrel-macos-arm64 | 0.1.1 | 6.00 | 89.00 | 95.00 | OK | |
| r-oldrel-macos-x86_64 | 0.1.1 | 17.00 | 251.00 | 268.00 | OK | |
| r-oldrel-windows-x86_64 | 0.1.1 | 33.00 | 266.00 | 299.00 | OK |
Version: 0.1.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘annotaR-workflow.Rmd’ using rmarkdown
Quitting from annotaR-workflow.Rmd:45-56 [annotation]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `.processResults()`:
! Query ERROR: caught BioMart::Exception::Database: Could not connect to mysql database ensembl_mart_115: DBI connect('database=ensembl_mart_115;host=127.0.0.1;port=5316','ensro',...) failed: Can't connect to MySQL server on '127.0.0.1' (111) at /nfs/public/ro/ensweb/live/mart/www_115/biomart-perl/lib/BioMart/Configuration/DBLocation.pm line 98.
---
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:::.processResults(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'annotaR-workflow.Rmd' failed with diagnostics:
Query ERROR: caught BioMart::Exception::Database: Could not connect to mysql database ensembl_mart_115: DBI connect('database=ensembl_mart_115;host=127.0.0.1;port=5316','ensro',...) failed: Can't connect to MySQL server on '127.0.0.1' (111) at /nfs/public/ro/ensweb/live/mart/www_115/biomart-perl/lib/BioMart/Configuration/DBLocation.pm line 98.
--- failed re-building ‘annotaR-workflow.Rmd’
SUMMARY: processing the following file failed:
‘annotaR-workflow.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-macos-arm64
Version: 0.1.1
Check: re-building of vignette outputs
Result: 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:::.createHash(...)
7. └─biomaRt:::.listEnsemblArchives(http_config = martHTTPConfig(mart))
8. └─biomaRt:::.checkArchiveList(http_config)
9. └─biomaRt:::.getArchiveList(http_config = http_config)
10. └─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
Flavor: r-patched-linux-x86_64