| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2025-12-16 11:35 -0500 (Tue, 16 Dec 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" | 4875 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4583 |
| 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 1111/2332 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| knowYourCG 1.7.3 (landing page) Goldberg David
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
|
To the developers/maintainers of the knowYourCG package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/knowYourCG.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: knowYourCG |
| Version: 1.7.3 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data knowYourCG |
| StartedAt: 2025-12-15 16:45:10 -0500 (Mon, 15 Dec 2025) |
| EndedAt: 2025-12-15 16:46:28 -0500 (Mon, 15 Dec 2025) |
| EllapsedTime: 77.9 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data knowYourCG
###
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* checking for file ‘knowYourCG/DESCRIPTION’ ... OK
* preparing ‘knowYourCG’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘Array.Rmd’ using rmarkdown
--- finished re-building ‘Array.Rmd’
--- re-building ‘Continuous.Rmd’ using rmarkdown
--- finished re-building ‘Continuous.Rmd’
--- re-building ‘Sequencing.Rmd’ using rmarkdown
trying URL 'https://github.com/zhou-lab/KYCGKB_mm10/raw/refs/heads/main/ChromHMM.20220414.cm'
Content type 'application/octet-stream' length 877986 bytes (857 KB)
==================================================
downloaded 857 KB
trying URL 'https://github.com/zhou-lab/YAME/raw/refs/heads/main/test/input/single_cell_10_samples.cg'
Quitting from Sequencing.Rmd:38-54 [seq1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `download.file()`:
! cannot open URL 'https://github.com/zhou-lab/YAME/raw/refs/heads/main/test/input/single_cell_10_samples.cg'
---
Backtrace:
▆
1. └─utils::download.file(query_url, destfile = query)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'Sequencing.Rmd' failed with diagnostics:
cannot open URL 'https://github.com/zhou-lab/YAME/raw/refs/heads/main/test/input/single_cell_10_samples.cg'
--- failed re-building ‘Sequencing.Rmd’
--- re-building ‘visualization.Rmd’ using rmarkdown
2025-12-15 16:46:05.325 R[57413:405244343] XType: Using static font registry.
--- finished re-building ‘visualization.Rmd’
SUMMARY: processing the following file failed:
‘Sequencing.Rmd’
Error: Vignette re-building failed.
Execution halted