Pariksheet Nanda
| Snapshot Date: 2026-03-31 13:40 -0400 (Tue, 31 Mar 2026) |
| git_url: https://git.bioconductor.org/packages/toppgene |
| git_branch: devel |
| git_last_commit: fd4063d |
| git_last_commit_date: 2026-02-16 14:28:01 -0400 (Mon, 16 Feb 2026) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-04-01 13:06 -0400 (Wed, 01 Apr 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.6.0 alpha (2026-03-30 r89742) | 4816 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.6.0 alpha (2026-03-28 r89739) | 4539 |
| 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 2253/2374 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| toppgene 0.99.1 (landing page) Pariksheet Nanda
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
| See other builds for toppgene in R Universe. | ||||||||||||||
|
To the developers/maintainers of the toppgene package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/toppgene.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: toppgene |
| Version: 0.99.1 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data toppgene |
| StartedAt: 2026-03-31 20:24:48 -0400 (Tue, 31 Mar 2026) |
| EndedAt: 2026-03-31 20:25:07 -0400 (Tue, 31 Mar 2026) |
| EllapsedTime: 19.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data toppgene
###
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* checking for file ‘toppgene/DESCRIPTION’ ... OK
* preparing ‘toppgene’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘toppgene.Rmd’ using rmarkdown
Quitting from toppgene.Rmd:108-131 [toppgene-compare]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! subscript contains out-of-bounds indices
---
Backtrace:
▆
1. └─global top_results(filter(enrich_chd, any(GenesSymbol %in% CharacterList("HAND2"))))
2. ├─dplyr::select(...)
3. ├─dplyr::mutate(...)
4. ├─dplyr::ungroup(slice(group_by(df, Category), 1))
5. ├─dplyr::slice(group_by(df, Category), 1)
6. └─DFplyr:::slice.DataFrame(group_by(df, Category), 1)
7. ├─.data[..., ]
8. └─.data[..., ]
9. ├─ungroup(x)[i, ]
10. └─ungroup(x)[i, ]
11. ├─S4Vectors::extractROWS(x, i)
12. └─S4Vectors::extractROWS(x, i)
13. └─S4Vectors::normalizeSingleBracketSubscript(...)
14. ├─S4Vectors::NSBS(...)
15. └─S4Vectors::NSBS(...)
16. └─S4Vectors:::.subscript_error("subscript contains out-of-bounds indices")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'toppgene.Rmd' failed with diagnostics:
subscript contains out-of-bounds indices
--- failed re-building ‘toppgene.Rmd’
SUMMARY: processing the following file failed:
‘toppgene.Rmd’
Error: Vignette re-building failed.
Execution halted