Back to Multiple platform build/check report for BioC 3.13
ABCDEFGHIJKLMNOPQRS[T]UVWXYZ

This page was generated on 2021-10-15 15:06:56 -0400 (Fri, 15 Oct 2021).

BUILD results for trena on machv2

To the developers/maintainers of the trena package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/trena.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here 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 1959/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
trena 1.14.0  (landing page)
Paul Shannon
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/trena
git_branch: RELEASE_3_13
git_last_commit: c848203
git_last_commit_date: 2021-05-19 12:27:55 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    ERROR  skipped
tokay2Windows Server 2012 R2 Standard / x64  OK    ERROR  skippedskipped
machv2macOS 10.14.6 Mojave / x86_64  OK    ERROR  skippedskipped

Summary

Package: trena
Version: 1.14.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data trena
StartedAt: 2021-10-14 15:25:59 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 15:28:14 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 135.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data trena
###
##############################################################################
##############################################################################


* checking for file ‘trena/DESCRIPTION’ ... OK
* preparing ‘trena’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘TReNA_Vignette.Rmd’ using knitr
Loading required package: glmnet
Loading required package: Matrix
Loaded glmnet 4.1-2
Loading required package: MotifDb
Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

The following objects are masked from 'package:parallel':

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

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

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: 'S4Vectors'

The following objects are masked from 'package:Matrix':

    expand, unname

The following objects are masked from 'package:base':

    I, expand.grid, unname

Loading required package: IRanges
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
Loading required package: Biostrings
Loading required package: XVector

Attaching package: 'Biostrings'

The following object is masked from 'package:base':

    strsplit

See system.file("LICENSE", package="MotifDb") for use restrictions.

--- finished re-building ‘TReNA_Vignette.Rmd’

--- re-building ‘caseStudyFour.Rmd’ using knitr
--- finished re-building ‘caseStudyFour.Rmd’

--- re-building ‘caseStudyOne.Rmd’ using knitr
--- finished re-building ‘caseStudyOne.Rmd’

--- re-building ‘caseStudyThree.Rmd’ using knitr
--- finished re-building ‘caseStudyThree.Rmd’

--- re-building ‘caseStudyTwo.Rmd’ using knitr
--- finished re-building ‘caseStudyTwo.Rmd’

--- re-building ‘overview.Rmd’ using knitr
Quitting from lines 187-192 (overview.Rmd) 
Error: processing vignette 'overview.Rmd' failed with diagnostics:
attempt to use zero-length variable name
--- failed re-building ‘overview.Rmd’

--- re-building ‘simple.Rmd’ using knitr

Attaching package: 'limma'

The following object is masked from 'package:BiocGenerics':

    plotMA

--- finished re-building ‘simple.Rmd’

--- re-building ‘tiny.Rmd’ using knitr
--- finished re-building ‘tiny.Rmd’

SUMMARY: processing the following file failed:
  ‘overview.Rmd’

Error: Vignette re-building failed.
Execution halted