Anand Mayakonda
| Snapshot Date: 2025-12-29 13:40 -0500 (Mon, 29 Dec 2025) |
| git_url: https://git.bioconductor.org/packages/maftools |
| git_branch: devel |
| git_last_commit: 5abf2c6 |
| git_last_commit_date: 2025-10-29 10:33:17 -0500 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2025-12-30 11:34 -0500 (Tue, 30 Dec 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-12-22 r89219) -- "Unsuffered Consequences" | 4807 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4593 |
| 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 1164/2332 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| maftools 2.27.0 (landing page) Anand Mayakonda
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | | ||||||||
|
To the developers/maintainers of the maftools package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/maftools.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: maftools |
| Version: 2.27.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data maftools |
| StartedAt: 2025-12-29 18:25:17 -0500 (Mon, 29 Dec 2025) |
| EndedAt: 2025-12-29 18:25:54 -0500 (Mon, 29 Dec 2025) |
| EllapsedTime: 37.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data maftools
###
##############################################################################
##############################################################################
* checking for file ‘maftools/DESCRIPTION’ ... OK
* preparing ‘maftools’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘cancer_hotspots.Rmd’ using rmarkdown
--- finished re-building ‘cancer_hotspots.Rmd’
--- re-building ‘cnv_analysis.Rmd’ using rmarkdown
--- finished re-building ‘cnv_analysis.Rmd’
--- re-building ‘maftools.Rmd’ using rmarkdown
Quitting from maftools.Rmd:207-209 [rainfallPlot2]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `data.table::foverlaps()`:
! attempt access index -1/2 in VECTOR_ELT
---
Backtrace:
▆
1. └─maftools::rainfallPlot(...)
2. ├─...[]
3. └─data.table:::`[.data.table`(...)
4. └─base::tryCatch(...)
5. └─base (local) tryCatchList(expr, classes, parentenv, handlers)
6. └─base (local) tryCatchOne(...)
7. └─value[[3L]](cond)
8. └─data.table:::.checkTypos(e, names_x)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'maftools.Rmd' failed with diagnostics:
attempt access index -1/2 in VECTOR_ELT
--- failed re-building ‘maftools.Rmd’
--- re-building ‘oncoplots.Rmd’ using rmarkdown
--- finished re-building ‘oncoplots.Rmd’
SUMMARY: processing the following file failed:
‘maftools.Rmd’
Error: Vignette re-building failed.
Execution halted