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This page was generated on 2022-10-19 13:20:49 -0400 (Wed, 19 Oct 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.5 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4386
palomino3Windows Server 2022 Datacenterx644.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" 4138
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4205
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

BUILD results for RTopper on nebbiolo1


To the developers/maintainers of the RTopper package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RTopper.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 1720/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RTopper 1.42.0  (landing page)
Luigi Marchionni
Snapshot Date: 2022-10-18 13:55:19 -0400 (Tue, 18 Oct 2022)
git_url: https://git.bioconductor.org/packages/RTopper
git_branch: RELEASE_3_15
git_last_commit: 2c803bf
git_last_commit_date: 2022-04-26 11:08:51 -0400 (Tue, 26 Apr 2022)
nebbiolo1Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    ERROR  skipped
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: RTopper
Version: 1.42.0
Command: /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data RTopper
StartedAt: 2022-10-18 17:55:22 -0400 (Tue, 18 Oct 2022)
EndedAt: 2022-10-18 17:56:10 -0400 (Tue, 18 Oct 2022)
EllapsedTime: 47.8 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data RTopper
###
##############################################################################
##############################################################################


* checking for file ‘RTopper/DESCRIPTION’ ... OK
* preparing ‘RTopper’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘RTopper.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, 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 objects are masked from ‘package:base’:

    I, expand.grid, unname




Attaching package: ‘limma’

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

    plotMA


Error: processing vignette 'RTopper.Rnw' failed with diagnostics:
 chunk 21 (label = runBatchGSE.format3) 
Error in data.frame(fisher = na.omit(gseUP.int.3$integrated$kegg), wilcoxon = na.omit(gseUP.int$integrated$kegg),  : 
  row names contain missing values

--- failed re-building ‘RTopper.Rnw’

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

Error: Vignette re-building failed.
Execution halted