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This page was generated on 2023-01-29 16:34:12 -0000 (Sun, 29 Jan 2023).

HostnameOSArch (*)R versionInstalled pkgs
kunpeng1Linux (Ubuntu 22.04.1 LTS)aarch64R Under development (unstable) (2023-01-14 r83615) -- "Unsuffered Consequences" 4021
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BUILD results for safe on kunpeng1


To the developers/maintainers of the safe package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/safe.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1744/2162HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
safe 3.39.0  (landing page)
Ludwig Geistlinger
Snapshot Date: 2023-01-27 13:09:27 -0000 (Fri, 27 Jan 2023)
git_url: https://git.bioconductor.org/packages/safe
git_branch: master
git_last_commit: 2dceaa0
git_last_commit_date: 2022-11-01 14:38:50 -0000 (Tue, 01 Nov 2022)
kunpeng1Linux (Ubuntu 22.04.1 LTS) / aarch64  OK    ERROR  skipped

Summary

Package: safe
Version: 3.39.0
Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data safe
StartedAt: 2023-01-28 14:17:28 -0000 (Sat, 28 Jan 2023)
EndedAt: 2023-01-28 14:17:58 -0000 (Sat, 28 Jan 2023)
EllapsedTime: 30.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data safe
###
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* checking for file ‘safe/DESCRIPTION’ ... OK
* preparing ‘safe’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘SAFEmanual3.Rnw’ using Sweave
Loading required package: AnnotationDbi
Loading required package: stats4
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")'.

Loading required package: IRanges
Loading required package: S4Vectors

Attaching package: ‘S4Vectors’

The following objects are masked from ‘package:base’:

    I, expand.grid, unname

Loading required package: org.Hs.eg.db


Loading required package: SparseM

Attaching package: ‘SparseM’

The following object is masked from ‘package:base’:

    backsolve

Loading required package: reactome.db
Warning in library(package, lib.loc = lib.loc, character.only = TRUE, logical.return = TRUE,  :
  there is no package called ‘reactome.db’

Error: processing vignette 'SAFEmanual3.Rnw' failed with diagnostics:
 chunk 5 
Error in h(simpleError(msg, call)) : 
  error in evaluating the argument 'x' in selecting a method for function 'as.list': object 'reactomeEXTID2PATHID' not found

--- failed re-building ‘SAFEmanual3.Rnw’

SUMMARY: processing the following file failed:
  ‘SAFEmanual3.Rnw’

Error: Vignette re-building failed.
Execution halted