| Back to Build/check report for BioC 3.23: simplified long |
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This page was generated on 2025-10-31 08:34 -0400 (Fri, 31 Oct 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" | 4428 |
| 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 558/2321 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| derfinder 1.45.0 (landing page) Leonardo Collado-Torres
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
|
To the developers/maintainers of the derfinder package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/derfinder.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: derfinder |
| Version: 1.45.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data derfinder |
| StartedAt: 2025-10-30 16:52:25 -0400 (Thu, 30 Oct 2025) |
| EndedAt: 2025-10-30 16:56:36 -0400 (Thu, 30 Oct 2025) |
| EllapsedTime: 251.2 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data derfinder
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* checking for file ‘derfinder/DESCRIPTION’ ... OK
* preparing ‘derfinder’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘derfinder-quickstart.Rmd’ using rmarkdown
Quitting from derfinder-quickstart.Rmd:299-308 [vennRegions]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! package or namespace load failed for 'derfinderPlot':
object 'microRNAs' is not exported by 'namespace:GenomicFeatures'
---
Backtrace:
▆
1. └─base::library("derfinderPlot")
2. └─base::tryCatch(...)
3. └─base (local) tryCatchList(expr, classes, parentenv, handlers)
4. └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
5. └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'derfinder-quickstart.Rmd' failed with diagnostics:
package or namespace load failed for 'derfinderPlot':
object 'microRNAs' is not exported by 'namespace:GenomicFeatures'
--- failed re-building ‘derfinder-quickstart.Rmd’
--- re-building ‘derfinder-users-guide.Rmd’ using rmarkdown
Warning in in_dir(input_dir(), expr) :
You changed the working directory to /tmp/Rtmpth2IUX/Rbuild11cb1922b57d72/derfinder/vignettes/analysisResults (probably via setwd()). It will be restored to /tmp/Rtmpth2IUX/Rbuild11cb1922b57d72/derfinder/vignettes. See the Note section in ?knitr::knit
--- finished re-building ‘derfinder-users-guide.Rmd’
SUMMARY: processing the following file failed:
‘derfinder-quickstart.Rmd’
Error: Vignette re-building failed.
Execution halted