| Back to Build/check report for BioC 3.22: simplified long |
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This page was generated on 2026-02-25 11:57 -0500 (Wed, 25 Feb 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.2 (2025-10-31) -- "[Not] Part in a Rumble" | 4891 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 1038/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| igblastr 1.0.16 (landing page) Hervé Pagès
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| See other builds for igblastr in R Universe. | ||||||||||||||
|
To the developers/maintainers of the igblastr package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/igblastr.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: igblastr |
| Version: 1.0.16 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 igblastr |
| StartedAt: 2026-02-24 18:20:13 -0500 (Tue, 24 Feb 2026) |
| EndedAt: 2026-02-24 18:20:35 -0500 (Tue, 24 Feb 2026) |
| EllapsedTime: 22.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 igblastr
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* checking for file ‘igblastr/DESCRIPTION’ ... OK
* preparing ‘igblastr’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘igblastr_overview.Rmd’ using rmarkdown
Quitting from igblastr_overview.Rmd:171-173 [unnamed-chunk-6]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `h()`:
! error in evaluating the argument 'x' in selecting a method for function 'head': error in evaluating the argument 'x' in selecting a method for function 'tolower': subscript out of bounds
---
Backtrace:
▆
1. ├─utils::head(list_IMGT_releases())
2. ├─igblastr::list_IMGT_releases()
3. │ └─igblastr:::list_archived_IMGT_zips(recache = recache)
4. │ └─igblastr:::.fetch_list_of_archived_IMGT_zips()
5. │ └─igblastr:::scrape_html_dir_index(...)
6. │ └─igblastr:::.make_df_from_matrix_of_tds(mat, suffix = suffix)
7. │ ├─base::tolower(trimws(mat[1L, 1L]))
8. │ └─base::trimws(mat[1L, 1L])
9. │ ├─base (local) mysub(...)
10. │ │ └─base::sub(re, "", x, perl = TRUE)
11. │ │ └─base::is.factor(x)
12. │ └─base (local) mysub(paste0("^", whitespace, "+"), x)
13. │ └─base::sub(re, "", x, perl = TRUE)
14. │ └─base::is.factor(x)
15. ├─base (local) `<fn>`(`<sbscOOBE>`)
16. └─base::.handleSimpleError(...)
17. └─base (local) h(simpleError(msg, call))
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'igblastr_overview.Rmd' failed with diagnostics:
error in evaluating the argument 'x' in selecting a method for function 'head': error in evaluating the argument 'x' in selecting a method for function 'tolower': subscript out of bounds
--- failed re-building ‘igblastr_overview.Rmd’
SUMMARY: processing the following file failed:
‘igblastr_overview.Rmd’
Error: Vignette re-building failed.
Execution halted