Back to Multiple platform build/check report for BioC 3.22: simplified long |
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This page was generated on 2025-08-18 12:07 -0400 (Mon, 18 Aug 2025).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4818 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4596 |
kjohnson3 | macOS 13.7.7 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4538 |
taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4535 |
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 1203/2317 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
megadepth 1.19.0 (landing page) David Zhang
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
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. |
Package: megadepth |
Version: 1.19.0 |
Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data megadepth |
StartedAt: 2025-08-15 00:46:21 -0000 (Fri, 15 Aug 2025) |
EndedAt: 2025-08-15 00:46:43 -0000 (Fri, 15 Aug 2025) |
EllapsedTime: 22.0 seconds |
RetCode: 1 |
Status: ERROR |
PackageFile: None |
PackageFileSize: NA |
############################################################################## ############################################################################## ### ### 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/Rtmphj9IGZ/megadepth: cannot execute binary file: Exec format error Quitting from megadepth.Rmd:150-158 [example] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error: ! '/home/biocbuild/tmp/Rtmphj9IGZ/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/Rtmphj9IGZ/bw.mean.annotation.tsv") 8. └─vroom:::check_path(path) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'megadepth.Rmd' failed with diagnostics: '/home/biocbuild/tmp/Rtmphj9IGZ/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