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BUILD report for EGSEA123 on malbec2

This page was generated on 2020-10-16 17:00:15 -0400 (Fri, 16 Oct 2020).

TO THE DEVELOPERS/MAINTAINERS OF THE EGSEA123 PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 8/27HostnameOS / ArchINSTALLBUILD
EGSEA123 1.12.0
Matthew Ritchie
Snapshot Date: 2020-10-16 08:00:02 -0400 (Fri, 16 Oct 2020)
URL: https://git.bioconductor.org/packages/EGSEA123
Branch: RELEASE_3_11
Last Commit: 83fced9
Last Changed Date: 2020-04-27 14:03:53 -0400 (Mon, 27 Apr 2020)
malbec2 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK [ ERROR ]

Summary

Package: EGSEA123
Version: 1.12.0
Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data EGSEA123
StartedAt: 2020-10-16 09:04:30 -0400 (Fri, 16 Oct 2020)
EndedAt: 2020-10-16 09:10:18 -0400 (Fri, 16 Oct 2020)
EllapsedTime: 347.5 seconds
RetCode: 1
Status:  ERROR 
PackageFile: None
PackageFileSize: NA

Command output

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###
### Running command:
###
###   /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data EGSEA123
###
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* checking for file ‘EGSEA123/DESCRIPTION’ ... OK
* preparing ‘EGSEA123’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘EGSEAWorkflow.Rmd’ using rmarkdown
trying URL 'http://bioinf.wehi.edu.au/EGSEA/mam.rnaseq.rdata'
Content type 'text/plain; charset=UTF-8' length 1786017 bytes (1.7 MB)
==================================================
downloaded 1.7 MB

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 object is masked from 'package:limma':

    plotMA

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: gage

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: topGO
Loading required package: graph
Loading required package: GO.db
Loading required package: SparseM

Attaching package: 'SparseM'

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

    backsolve


groupGOTerms: 	GOBPTerm, GOMFTerm, GOCCTerm environments built.

Attaching package: 'topGO'

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

    members

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

    geneData

Loading required package: pathview

##############################################################################
Pathview is an open source software package distributed under GNU General
Public License version 3 (GPLv3). Details of GPLv3 is available at
http://www.gnu.org/licenses/gpl-3.0.html. Particullary, users are required to
formally cite the original Pathview paper (not just mention it) in publications
or products. For details, do citation("pathview") within R.

The pathview downloads and uses KEGG data. Non-academic uses may require a KEGG
license agreement (details at http://www.kegg.jp/kegg/legal.html).
##############################################################################




trying URL 'http://bioinf.wehi.edu.au/EGSEA/arraydata.zip'
Content type 'application/zip' length 37406670 bytes (35.7 MB)
============
downloaded 8.8 MB

Quitting from lines 477-488 (EGSEAWorkflow.Rmd) 
Error: processing vignette 'EGSEAWorkflow.Rmd' failed with diagnostics:
download from 'http://bioinf.wehi.edu.au/EGSEA/arraydata.zip' failed
--- failed re-building ‘EGSEAWorkflow.Rmd’

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

Error: Vignette re-building failed.
Execution halted