| Back to Rapid builds (Linux only) of a subset of BioC 3.24 Report updated every 4 hours |
This page was generated on 2026-05-08 14:45 -0400 (Fri, 08 May 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| teran2 | Linux (Ubuntu 24.04.4 LTS) | x86_64 | 4.6.0 (2026-04-24) -- "Because it was There" | 916 |
| 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 211/229 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BIOCCHECK | |||||||
| sva 3.61.0 (landing page) Jeffrey T. Leek
| teran2 | Linux (Ubuntu 24.04.4 LTS) / x86_64 | OK | ERROR | skipped | skipped | |||||||
|
To the developers/maintainers of the sva package: - 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: sva |
| Version: 3.61.0 |
| Command: /home/rapidbuild/bbs-3.24-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data sva |
| StartedAt: 2026-05-08 12:46:37 -0400 (Fri, 08 May 2026) |
| EndedAt: 2026-05-08 12:47:03 -0400 (Fri, 08 May 2026) |
| EllapsedTime: 25.6 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/rapidbuild/bbs-3.24-bioc-rapid/R/bin/R CMD build --keep-empty-dirs --no-resave-data sva
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* checking for file ‘sva/DESCRIPTION’ ... OK
* preparing ‘sva’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘sva.Rnw’ using Sweave
Loading required package: mgcv
Loading required package: nlme
This is mgcv 1.9-4. For overview type '?mgcv'.
Loading required package: genefilter
Loading required package: BiocParallel
Loading required package: Biobase
Loading required package: BiocGenerics
Loading required package: generics
Attaching package: ‘generics’
The following objects are masked from ‘package:base’:
as.difftime, as.factor, as.ordered, intersect, is.element, setdiff,
setequal, union
Attaching package: ‘BiocGenerics’
The following objects are masked from ‘package:stats’:
IQR, mad, sd, var, xtabs
The following objects are masked from ‘package:base’:
Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
as.data.frame, basename, cbind, colnames, dirname, do.call,
duplicated, eval, evalq, get, grep, grepl, is.unsorted, lapply,
mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
rank, rbind, rownames, sapply, saveRDS, table, tapply, unique,
unsplit, which.max, which.min
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Attaching package: ‘limma’
The following object is masked from ‘package:BiocGenerics’:
plotMA
Error: processing vignette 'sva.Rnw' failed with diagnostics:
chunk 14 (label = input)
Error in topTableF(eb, adjust = "BH") :
could not find function "topTableF"
--- failed re-building ‘sva.Rnw’
SUMMARY: processing the following file failed:
‘sva.Rnw’
Error: Vignette re-building failed.
Execution halted