| Back to Build/check report for BioC 3.24: simplified long |
|
This page was generated on 2026-05-09 15:11 -0400 (Sat, 09 May 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 RC (2026-04-17 r89917) -- "Because it was There" | 4890 |
| 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 876/2374 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BIOCCHECK | BUILD BIN | ||||||||
| getDEE2 1.23.0 (landing page) Mark 0000-0002-7688-6974 Ziemann
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | ERROR | skipped | skipped | |||||||||
| See other builds for getDEE2 in R Universe. | |||||||||||||||
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To the developers/maintainers of the getDEE2 package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/getDEE2.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: getDEE2 |
| Version: 1.23.0 |
| Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 getDEE2 |
| StartedAt: 2026-05-08 17:52:54 -0400 (Fri, 08 May 2026) |
| EndedAt: 2026-05-08 17:53:23 -0400 (Fri, 08 May 2026) |
| EllapsedTime: 29.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 getDEE2
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* checking for file ‘getDEE2/DESCRIPTION’ ... OK
* preparing ‘getDEE2’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘getDEE2.Rmd’ using rmarkdown
trying URL 'http://dee2.io/metadata/celegans_metadata.tsv.cut'
Content type 'text/tab-separated-values' length 3732 bytes
==================================================
downloaded 3732 bytes
Quitting from getDEE2.Rmd:118-126 [example1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! unable to find an inherited method for function 'colData' for signature 'x = "NULL"'
---
Backtrace:
▆
1. └─SummarizedExperiment::colData(x)
2. └─methods (local) `<fn>`(`<list>`, `<stndrdGn>`, `<env>`)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'getDEE2.Rmd' failed with diagnostics:
unable to find an inherited method for function 'colData' for signature 'x = "NULL"'
--- failed re-building ‘getDEE2.Rmd’
SUMMARY: processing the following file failed:
‘getDEE2.Rmd’
Error: Vignette re-building failed.
Execution halted