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This page was generated on 2021-09-22 12:05:22 -0400 (Wed, 22 Sep 2021).

BUILD results for RegEnrich on riesling1

To the developers/maintainers of the RegEnrich package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/RegEnrich.git to
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raw results

Package 1534/2029HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
RegEnrich 1.3.1  (landing page)
Weiyang Tao
Snapshot Date: 2021-09-21 14:50:05 -0400 (Tue, 21 Sep 2021)
git_url: https://git.bioconductor.org/packages/RegEnrich
git_branch: master
git_last_commit: 2e41cd7
git_last_commit_date: 2021-07-31 02:42:10 -0400 (Sat, 31 Jul 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    ERROR  skippedskipped
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: RegEnrich
Version: 1.3.1
Command: chmod a+r RegEnrich -R && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data RegEnrich
StartedAt: 2021-09-21 22:32:40 -0400 (Tue, 21 Sep 2021)
EndedAt: 2021-09-21 22:36:36 -0400 (Tue, 21 Sep 2021)
EllapsedTime: 236.6 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   chmod a+r RegEnrich -R && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data RegEnrich
###
##############################################################################
##############################################################################


* checking for file 'RegEnrich/DESCRIPTION' ... OK
* preparing 'RegEnrich':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'RegEnrich.Rmd' using rmarkdown
Loading required package: S4Vectors
Loading required package: stats4
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


Attaching package: 'S4Vectors'

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

    I, expand.grid, unname

Loading required package: dplyr

Attaching package: 'dplyr'

The following objects are masked from 'package:S4Vectors':

    first, intersect, rename, setdiff, setequal, union

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

    combine, intersect, setdiff, union

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

    filter, lag

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

    intersect, setdiff, setequal, union

Loading required package: tibble
Loading required package: BiocSet
Loading required package: SummarizedExperiment
Loading required package: MatrixGenerics
Loading required package: matrixStats

Attaching package: 'matrixStats'

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

    count


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: IRanges

Attaching package: 'IRanges'

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

    collapse, desc, slice

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

    windows

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


Loading required namespace: GEOquery
Setting options('download.file.method.GEOquery'='auto')
Setting options('GEOquery.inmemory.gpl'=FALSE)
Found 1 file(s)
GSE31193_series_matrix.txt.gz
trying URL 'https://ftp.ncbi.nlm.nih.gov/geo/series/GSE31nnn/GSE31193/matrix/GSE31193_series_matrix.txt.gz'
Content type 'application/x-gzip' length 2920962 bytes (2.8 MB)
==================================================
downloaded 2.8 MB

Rows: 54675 Columns: 16
-- Column specification --------------------------------------------------------------------------------------
Delimiter: "\t"
chr  (1): ID_REF
dbl (15): GSM773317, GSM773318, GSM773319, GSM773320, GSM773321, GSM773322, GSM773323, GSM773324, GSM77332...

i Use `spec()` to retrieve the full column specification for this data.
i Specify the column types or set `show_col_types = FALSE` to quiet this message.
File stored at: 
D:\biocbuild\bbs-3.14-bioc\tmpdir\RtmpM5DOsO/GPL570.soft
Quitting from lines 532-537 (RegEnrich.Rmd) 
Error: processing vignette 'RegEnrich.Rmd' failed with diagnostics:
invalid 'row.names' length
--- failed re-building 'RegEnrich.Rmd'

SUMMARY: processing the following file failed:
  'RegEnrich.Rmd'

Error: Vignette re-building failed.
Execution halted