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BUILD report for BioQC on celaya2

This page was generated on 2019-10-16 12:56:49 -0400 (Wed, 16 Oct 2019).

Package 166/1741HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BioQC 1.12.0
Jitao David Zhang
Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019)
URL: https://git.bioconductor.org/packages/BioQC
Branch: RELEASE_3_9
Last Commit: 54cb13d
Last Changed Date: 2019-05-02 11:53:59 -0400 (Thu, 02 May 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64  OK  ERROR  skipped 
tokay2 Windows Server 2012 R2 Standard / x64  OK  ERROR  skipped  skipped 
celaya2 OS X 10.11.6 El Capitan / x86_64  OK [ ERROR ] skipped  skipped 

Summary

Package: BioQC
Version: 1.12.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data BioQC
StartedAt: 2019-10-15 22:02:37 -0400 (Tue, 15 Oct 2019)
EndedAt: 2019-10-15 22:03:18 -0400 (Tue, 15 Oct 2019)
EllapsedTime: 40.6 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/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data BioQC
###
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* checking for file ‘BioQC/DESCRIPTION’ ... OK
* preparing ‘BioQC’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘bioqc-efficiency.Rmd’ using rmarkdown
Loading required package: Rcpp
Loading required package: Biobase
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,
    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:base':

    expand.grid

Loading required package: org.Hs.eg.db


Loading required package: RColorBrewer

Attaching package: 'gridExtra'

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

    combine

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

    combine


Attaching package: 'gplots'

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

    space

The following object is masked from 'package:S4Vectors':

    space

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

    lowess

File bioqc-efficiency_files/wmw-speedup.svg not found in resource path
Error: processing vignette 'bioqc-efficiency.Rmd' failed with diagnostics:
pandoc document conversion failed with error 99
--- failed re-building ‘bioqc-efficiency.Rmd’

--- re-building ‘bioqc-signedGenesets.Rmd’ using rmarkdown
--- finished re-building ‘bioqc-signedGenesets.Rmd’

--- re-building ‘bioqc.Rmd’ using rmarkdown
--- finished re-building ‘bioqc.Rmd’

SUMMARY: processing the following file failed:
  ‘bioqc-efficiency.Rmd’

Error: Vignette re-building failed.
Execution halted