Build/check report for BioC 3.21 - BUILD results for Risa on nebbiolo1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 22.04.3 LTS)	x86_64	R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences"	3656
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BUILD results for Risa on nebbiolo1

To the developers/maintainers of the Risa package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Risa.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.

raw results

Summary

Package: Risa

Version: 1.47.1

Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data Risa

StartedAt: 2024-10-24 05:27:27 -0400 (Thu, 24 Oct 2024)

EndedAt: 2024-10-24 05:28:20 -0400 (Thu, 24 Oct 2024)

EllapsedTime: 53.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data Risa
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* checking for file ‘Risa/DESCRIPTION’ ... OK
* preparing ‘Risa’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘Risa.Rnw’ using Sweave
Loading required package: Biobase
Loading required package: BiocGenerics

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, intersect, is.unsorted,
    lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
    pmin.int, rank, rbind, rownames, sapply, saveRDS, setdiff, table,
    tapply, union, 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")'.

Loading required package: Rcpp
Loading required package: biocViews
Loading required package: affy
Warning in fun(libname, pkgname) :
  Package 'Risa' is deprecated and will be removed from Bioconductor
  version 3.21
Loading required package: faahKO
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called ‘faahKO’

Error: processing vignette 'Risa.Rnw' failed with diagnostics:
 chunk 2 (label = Risa-readISAtab) 
Error in find.package("faahKO") : there is no package called ‘faahKO’

--- failed re-building ‘Risa.Rnw’

SUMMARY: processing the following file failed:
  ‘Risa.Rnw’

Error: Vignette re-building failed.
Execution halted