Back to Multiple platform build/check report for BioC 3.20:   simplified   long
ABCDEFGHIJKL[M]NOPQRSTUVWXYZ

This page was generated on 2025-03-20 12:12 -0400 (Thu, 20 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.3 (2025-02-28) -- "Trophy Case" 4756
palomino8Windows Server 2022 Datacenterx644.4.3 (2025-02-28 ucrt) -- "Trophy Case" 4487
merida1macOS 12.7.5 Montereyx86_644.4.3 (2025-02-28) -- "Trophy Case" 4514
kjohnson1macOS 13.6.6 Venturaarm644.4.3 (2025-02-28) -- "Trophy Case" 4441
taishanLinux (openEuler 24.03 LTS)aarch644.4.3 (2025-02-28) -- "Trophy Case" 4406
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 1187/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
megadepth 1.16.0  (landing page)
David Zhang
Snapshot Date: 2025-03-17 13:00 -0400 (Mon, 17 Mar 2025)
git_url: https://git.bioconductor.org/packages/megadepth
git_branch: RELEASE_3_20
git_last_commit: d7f5e2d
git_last_commit_date: 2024-10-29 10:52:25 -0400 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    ERROR  skippedskipped
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

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: 1.16.0
Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data megadepth
StartedAt: 2025-03-18 02:04:30 -0000 (Tue, 18 Mar 2025)
EndedAt: 2025-03-18 02:04:55 -0000 (Tue, 18 Mar 2025)
EllapsedTime: 25.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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


* 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/RtmpcSlH1X/megadepth: cannot execute binary file: Exec format error

Quitting from megadepth.Rmd:150-158 [example]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! '/home/biocbuild/tmp/RtmpcSlH1X/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/RtmpcSlH1X/bw.mean.annotation.tsv")
 8.   └─vroom:::check_path(path)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'megadepth.Rmd' failed with diagnostics:
'/home/biocbuild/tmp/RtmpcSlH1X/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