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BUILD report for HDCytoData on malbec2

This page was generated on 2021-01-18 15:58:36 -0500 (Mon, 18 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE HDCytoData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 164/385HostnameOS / ArchINSTALLBUILDCHECK
HDCytoData 1.11.0
Lukas M. Weber
Snapshot Date: 2021-01-18 09:00:15 -0500 (Mon, 18 Jan 2021)
URL: https://git.bioconductor.org/packages/HDCytoData
Branch: master
Last Commit: 58d130f
Last Changed Date: 2020-10-27 10:26:33 -0500 (Tue, 27 Oct 2020)
malbec2 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK [ ERROR ] skipped 
riesling1 Windows Server 2019 Standard / x64  OK  ERROR  skipped 

Summary

Package: HDCytoData
Version: 1.11.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data HDCytoData
StartedAt: 2021-01-18 10:56:59 -0500 (Mon, 18 Jan 2021)
EndedAt: 2021-01-18 10:59:45 -0500 (Mon, 18 Jan 2021)
EllapsedTime: 165.2 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data HDCytoData
###
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* checking for file ‘HDCytoData/DESCRIPTION’ ... OK
* preparing ‘HDCytoData’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘Contribution_guidelines.Rmd’ using rmarkdown
Loading required package: ExperimentHub
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: AnnotationHub
Loading required package: BiocFileCache
Loading required package: dbplyr
Loading required package: SummarizedExperiment
Loading required package: MatrixGenerics
Loading required package: matrixStats

Attaching package: 'MatrixGenerics'

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

    colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
    colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
    colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
    colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
    colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
    colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
    colWeightedMeans, colWeightedMedians, colWeightedSds,
    colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
    rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
    rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
    rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
    rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
    rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
    rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
    rowWeightedSds, rowWeightedVars

Loading required package: GenomicRanges
Loading required package: stats4
Loading required package: S4Vectors

Attaching package: 'S4Vectors'

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

    I, expand.grid, unname

Loading required package: IRanges
Loading required package: GenomeInfoDb
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")'.


Attaching package: 'Biobase'

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

    rowMedians

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

    anyMissing, rowMedians

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

    cache

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

    cache

Loading required package: flowCore

Attaching package: 'flowCore'

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

    normalize

snapshotDate(): 2021-01-15
snapshotDate(): 2021-01-15
see ?HDCytoData and browseVignettes('HDCytoData') for documentation
loading from cache
snapshotDate(): 2021-01-15
see ?HDCytoData and browseVignettes('HDCytoData') for documentation
loading from cache
--- finished re-building ‘Contribution_guidelines.Rmd’

--- re-building ‘Examples_and_use_cases.Rmd’ using rmarkdown
Quitting from lines 434-462 (Examples_and_use_cases.Rmd) 
Error: processing vignette 'Examples_and_use_cases.Rmd' failed with diagnostics:
Marker ^\QFALSE\E$ could not be found
--- failed re-building ‘Examples_and_use_cases.Rmd’

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

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

Error: Vignette re-building failed.
Execution halted