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This page was generated on 2023-10-16 11:36:55 -0400 (Mon, 16 Oct 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 22.04.2 LTS)x86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4626
palomino3Windows Server 2022 Datacenterx644.3.1 (2023-06-16 ucrt) -- "Beagle Scouts" 4379
merida1macOS 12.6.4 Montereyx86_644.3.1 (2023-06-16) -- "Beagle Scouts" 4395
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 356/2230HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
clipper 1.40.0  (landing page)
Paolo Martini
Snapshot Date: 2023-10-15 14:00:13 -0400 (Sun, 15 Oct 2023)
git_url: https://git.bioconductor.org/packages/clipper
git_branch: RELEASE_3_17
git_last_commit: aa281f2
git_last_commit_date: 2023-04-25 10:25:22 -0400 (Tue, 25 Apr 2023)
nebbiolo1Linux (Ubuntu 22.04.2 LTS) / x86_64  OK    ERROR  skipped
palomino3Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
merida1macOS 12.6.4 Monterey / x86_64  OK    ERROR  skippedskipped
kjohnson2macOS 12.6.1 Monterey / arm64see weekly results here

BUILD results for clipper on merida1


To the developers/maintainers of the clipper package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/clipper.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: clipper
Version: 1.40.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data clipper
StartedAt: 2023-10-15 17:27:13 -0400 (Sun, 15 Oct 2023)
EndedAt: 2023-10-15 17:29:24 -0400 (Sun, 15 Oct 2023)
EllapsedTime: 131.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data clipper
###
##############################################################################
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* checking for file ‘clipper/DESCRIPTION’ ... OK
* preparing ‘clipper’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘clipper.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, setdiff,
    sort, 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: AnnotationDbi
Loading required package: stats4
Loading required package: IRanges
Loading required package: S4Vectors

Attaching package: ‘S4Vectors’

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

    findMatches

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

    I, expand.grid, unname

Loading required package: org.Hs.eg.db

Loading required package: Matrix

Attaching package: ‘Matrix’

The following object is masked from ‘package:S4Vectors’:

    expand

Warning: replacing previous import ‘RBGL::maxClique’ by ‘gRbase::maxClique’ when loading ‘clipper’
Warning: replacing previous import ‘graph::addEdge’ by ‘gRbase::addEdge’ when loading ‘clipper’
Warning: replacing previous import ‘KEGGgraph::subGraph’ by ‘gRbase::subGraph’ when loading ‘clipper’
Warning: replacing previous import ‘KEGGgraph::nodes’ by ‘gRbase::nodes’ when loading ‘clipper’
Warning: replacing previous import ‘graph::connComp’ by ‘gRbase::connComp’ when loading ‘clipper’
Warning: replacing previous import ‘KEGGgraph::edges’ by ‘gRbase::edges’ when loading ‘clipper’
Warning: replacing previous import ‘graph::adj’ by ‘gRbase::adj’ when loading ‘clipper’
Warning: replacing previous import ‘graph::removeEdge’ by ‘gRbase::removeEdge’ when loading ‘clipper’

Error: processing vignette 'clipper.Rnw' failed with diagnostics:
 chunk 12 (label = pathQUsage) 
Error in stopifnot_igraph(object) : Not a graph object

--- failed re-building ‘clipper.Rnw’

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

Error: Vignette re-building failed.
Execution halted