Multiple platform build/check report for BioC 3.22 - BUILD results for megadepth on taishan

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root"	4898
lconway	macOS 12.7.6 Monterey	x86_64	4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"	4688
kjohnson3	macOS 13.7.7 Ventura	arm64	4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"	4634
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4658
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*

BUILD results for megadepth on taishan

To the developers/maintainers of the megadepth package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/megadepth.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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results

Summary

Package: megadepth

Version: 1.19.0

Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data megadepth

StartedAt: 2025-10-21 01:01:08 -0000 (Tue, 21 Oct 2025)

EndedAt: 2025-10-21 01:01:31 -0000 (Tue, 21 Oct 2025)

EllapsedTime: 23.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data megadepth
###
##############################################################################
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* checking for file ‘megadepth/DESCRIPTION’ ... OK
* preparing ‘megadepth’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘megadepth.Rmd’ using rmarkdown
sh: line 1: /home/biocbuild/tmp/RtmpyTJK65/megadepth: cannot execute binary file: Exec format error

Quitting from megadepth.Rmd:150-158 [example]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! '/home/biocbuild/tmp/RtmpyTJK65/bw.mean.annotation.tsv' does not exist.
---
Backtrace:
    ▆
 1. ├─megadepth::get_coverage(example_bw, op = "mean", annotation = annotation_file)
 2. │ └─megadepth::read_coverage(paste0(prefix, ".annotation.tsv"))
 3. │   └─megadepth::read_coverage_table(tsv_file)
 4. │     └─readr::read_delim(...)
 5. │       └─vroom::vroom(...)
 6. │         └─vroom:::vroom_(...)
 7. └─vroom (local) `<fn>`("/home/biocbuild/tmp/RtmpyTJK65/bw.mean.annotation.tsv")
 8.   └─vroom:::check_path(path)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'megadepth.Rmd' failed with diagnostics:
'/home/biocbuild/tmp/RtmpyTJK65/bw.mean.annotation.tsv' does not exist.
--- failed re-building ‘megadepth.Rmd’

SUMMARY: processing the following file failed:
  ‘megadepth.Rmd’

Error: Vignette re-building failed.
Execution halted