| Back to Multiple platform build/check report for BioC 3.21: simplified long |
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This page was generated on 2025-09-18 11:40 -0400 (Thu, 18 Sep 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 (2025-06-13) -- "Great Square Root" | 4827 |
| merida1 | macOS 12.7.5 Monterey | x86_64 | 4.5.1 RC (2025-06-05 r88288) -- "Great Square Root" | 4608 |
| kjohnson1 | macOS 13.6.6 Ventura | arm64 | 4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" | 4549 |
| kunpeng2 | Linux (openEuler 24.03 LTS) | aarch64 | R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" | 4581 |
| 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 1435/2341 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
Shraddha Pai
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| merida1 | macOS 12.7.5 Monterey / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| kjohnson1 | macOS 13.6.6 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
| kunpeng2 | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
|
To the developers/maintainers of the netDx package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/netDx.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: netDx |
| Version: 1.20.0 |
| Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data netDx |
| StartedAt: 2025-09-16 10:04:46 -0000 (Tue, 16 Sep 2025) |
| EndedAt: 2025-09-16 10:40:48 -0000 (Tue, 16 Sep 2025) |
| EllapsedTime: 2161.7 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data netDx
###
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* checking for file ‘netDx/DESCRIPTION’ ... OK
* preparing ‘netDx’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘ThreeWayClassifier.Rmd’ using rmarkdown
Quitting from ThreeWayClassifier.Rmd:86-91 [unnamed-chunk-6]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! failed to load resource
name: EH2122
title: BRCA_Methylation_methyl27-20160128_assays
reason: 1 resources failed to download
---
Backtrace:
▆
1. ├─base::suppressMessages(...)
2. │ └─base::withCallingHandlers(...)
3. └─curatedTCGAData::curatedTCGAData(...)
4. └─curatedTCGAData:::.getResources(...)
5. └─curatedTCGAData:::.loadMethyl(...)
6. └─base::lapply(...)
7. └─curatedTCGAData (local) FUN(X[[i]], ...)
8. ├─query(ehub, methfile[1L])[[1L]]
9. └─query(ehub, methfile[1L])[[1L]]
10. └─ExperimentHub (local) .local(x, i, j = j, ...)
11. ├─methods::callNextMethod(x, i, j, ..., force = force, verbose = verbose)
12. │ └─base::eval(call, callEnv)
13. │ └─base::eval(call, callEnv)
14. └─AnnotationHub (local) .nextMethod(x, i, j, ..., force = force, verbose = verbose)
15. └─AnnotationHub (local) .local(x, i, j = j, ...)
16. └─AnnotationHub:::.Hub_get1(x[i], force = force, verbose = verbose)
17. └─base::tryCatch(...)
18. └─base (local) tryCatchList(expr, classes, parentenv, handlers)
19. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
20. └─value[[3L]](cond)
21. └─base::tryCatch(...)
22. └─base (local) tryCatchList(expr, classes, parentenv, handlers)
23. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
24. └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'ThreeWayClassifier.Rmd' failed with diagnostics:
failed to load resource
name: EH2122
title: BRCA_Methylation_methyl27-20160128_assays
reason: 1 resources failed to download
--- failed re-building ‘ThreeWayClassifier.Rmd’
SUMMARY: processing the following file failed:
‘ThreeWayClassifier.Rmd’
Error: Vignette re-building failed.
Execution halted