| 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 1204/2366 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| MAST 1.39.0 (landing page) Andrew McDavid
| nebbiolo2 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| See other builds for MAST in R Universe. | ||||||||||||||
|
To the developers/maintainers of the MAST package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MAST.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: MAST |
| Version: 1.39.0 |
| Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 MAST |
| StartedAt: 2026-05-04 18:37:24 -0400 (Mon, 04 May 2026) |
| EndedAt: 2026-05-04 18:40:05 -0400 (Mon, 04 May 2026) |
| EllapsedTime: 161.1 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 MAST
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* checking for file ‘MAST/DESCRIPTION’ ... OK
* preparing ‘MAST’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘MAITAnalysis.Rmd’ using rmarkdown
Warning: code chunks must not depend on the uncached chunk "data"
Quitting from MAITAnalysis.Rmd:112-119 [filter_outlying_cell]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! unable to open database file
---
Backtrace:
▆
1. ├─AnnotationDbi::select(...)
2. └─GenomicFeatures (local) select(...)
3. └─GenomicFeatures:::.select(x, keys, columns, keytype, ...)
4. └─AnnotationDbi:::dbQuery(dbconn(x), sql)
5. ├─DBI::dbGetQuery(conn, SQL)
6. └─DBI::dbGetQuery(conn, SQL)
7. └─DBI (local) .local(conn, statement, ...)
8. ├─DBI::dbFetch(rs, n = n, ...)
9. └─RSQLite::dbFetch(rs, n = n, ...)
10. └─RSQLite (local) .local(res, n, ...)
11. └─RSQLite:::result_fetch(res@ptr, n = n)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'MAITAnalysis.Rmd' failed with diagnostics:
unable to open database file
--- failed re-building ‘MAITAnalysis.Rmd’
--- re-building ‘MAST-Intro.Rmd’ using rmarkdown
--- finished re-building ‘MAST-Intro.Rmd’
--- re-building ‘MAST-interoperability.Rmd’ using rmarkdown
--- finished re-building ‘MAST-interoperability.Rmd’
SUMMARY: processing the following file failed:
‘MAITAnalysis.Rmd’
Error: Vignette re-building failed.
Execution halted