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This page was generated on 2023-06-01 18:17:19 -0400 (Thu, 01 Jun 2023).

HostnameOSArch (*)R versionInstalled pkgs
xps15Linux (Ubuntu 23.04)x86_644.3.0 Patched (2023-05-23 r84466) -- "Already Tomorrow" 544
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BUILD results for affy on xps15


To the developers/maintainers of the affy package:
Use the following Renviron settings to reproduce errors and warnings.

Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details.

raw results

Package 2/91HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
affy 1.79.0  (landing page)
Rafael A. Irizarry
Snapshot Date: 2023-06-01 15:10:15 -0400 (Thu, 01 Jun 2023)
git_url: https://git.bioconductor.org/packages/affy
git_branch: devel
git_last_commit: 5c8b5d3
git_last_commit_date: 2023-04-25 09:38:42 -0400 (Tue, 25 Apr 2023)
xps15Linux (Ubuntu 23.04) / x86_64  OK    ERROR  skipped

Summary

Package: affy
Version: 1.79.0
Command: /home/hpages/bbs-3.18-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data affy
StartedAt: 2023-06-01 12:35:38 -0700 (Thu, 01 Jun 2023)
EndedAt: 2023-06-01 12:35:55 -0700 (Thu, 01 Jun 2023)
EllapsedTime: 17.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/hpages/bbs-3.18-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data affy
###
##############################################################################
##############################################################################


* checking for file ‘affy/DESCRIPTION’ ... OK
* preparing ‘affy’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running ‘cleanup’
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘affy.Rnw’ using Sweave
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, setdiff, sort, table,
    tapply, union, unique, unsplit, which.max, which.min

Loading required package: Biobase
Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.


Error: processing vignette 'affy.Rnw' failed with diagnostics:
 chunk 3 
Error in library(affydata) : there is no package called ‘affydata’

--- failed re-building ‘affy.Rnw’

--- re-building ‘builtinMethods.Rnw’ using Sweave
--- finished re-building ‘builtinMethods.Rnw’

--- re-building ‘customMethods.Rnw’ using Sweave

Error: processing vignette 'customMethods.Rnw' failed with diagnostics:
 chunk 3 
Error in library(affydata) : there is no package called ‘affydata’

--- failed re-building ‘customMethods.Rnw’

--- re-building ‘vim.Rnw’ using Sweave
--- finished re-building ‘vim.Rnw’

SUMMARY: processing the following files failed:
  ‘affy.Rnw’ ‘customMethods.Rnw’

Error: Vignette re-building failed.
Execution halted