| Back to Build/check report for BioC 3.24: simplified long |
|
This page was generated on 2026-05-05 11:33 -0400 (Tue, 05 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" | 4844 |
| 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 1888/2366 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| satuRn 1.21.0 (landing page) Jeroen Gilis
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| See other builds for satuRn in R Universe. | ||||||||||||||
|
To the developers/maintainers of the satuRn package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/satuRn.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: satuRn |
| Version: 1.21.0 |
| Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 satuRn |
| StartedAt: 2026-05-04 19:53:18 -0400 (Mon, 04 May 2026) |
| EndedAt: 2026-05-04 19:54:04 -0400 (Mon, 04 May 2026) |
| EllapsedTime: 46.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 satuRn
###
##############################################################################
##############################################################################
* checking for file ‘satuRn/DESCRIPTION’ ... OK
* preparing ‘satuRn’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘Vignette.Rmd’ using rmarkdown
Quitting from Vignette.Rmd:99-104 [unnamed-chunk-6]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! unable to open database file
---
Backtrace:
▆
1. ├─GenomicFeatures::transcripts(ahEdb)
2. └─ensembldb::transcripts(ahEdb)
3. └─ensembldb (local) .local(x, ...)
4. ├─ensembldb:::getWhat(...)
5. └─ensembldb:::getWhat(...)
6. └─ensembldb (local) .local(x, ...)
7. └─ensembldb:::.getWhat(...)
8. ├─DBI::dbGetQuery(dbconn(x), Q)
9. └─DBI::dbGetQuery(dbconn(x), Q)
10. └─DBI (local) .local(conn, statement, ...)
11. ├─DBI::dbSendQuery(conn, statement, ...)
12. └─RSQLite::dbSendQuery(conn, statement, ...)
13. └─RSQLite (local) .local(conn, statement, ...)
14. ├─methods::new(...)
15. │ ├─methods::initialize(value, ...)
16. │ └─methods::initialize(value, ...)
17. └─RSQLite:::result_create(conn@ptr, statement)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'Vignette.Rmd' failed with diagnostics:
unable to open database file
--- failed re-building ‘Vignette.Rmd’
SUMMARY: processing the following file failed:
‘Vignette.Rmd’
Error: Vignette re-building failed.
Execution halted