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### Running command:
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### /home/biocbuild/bbs-3.15-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data OSCA.intro
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* checking for file ‘OSCA.intro/DESCRIPTION’ ... OK
* preparing ‘OSCA.intro’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘stub.Rmd’ using rmarkdown
[WARNING] This document format requires a nonempty <title> element.
Please specify either 'title' or 'pagetitle' in the metadata,
e.g. by using --metadata pagetitle="..." on the command line.
Falling back to 'stub.knit'
--- finished re-building ‘stub.Rmd’
"/home/biocbuild/bbs-3.15-bioc/R/bin/R" -e "work.dir <- rebook::bookCache('OSCA.intro'); handle <- rebook::preCompileBook('../inst/book', work.dir=work.dir, desc='../DESCRIPTION'); old.dir <- setwd(work.dir); bookdown::render_book('index.Rmd'); setwd(old.dir); rebook::postCompileBook(work.dir=work.dir, final.dir='../inst/doc/book', handle=handle)"
R version 4.2.1 (2022-06-23) -- "Funny-Looking Kid"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> work.dir <- rebook::bookCache('OSCA.intro'); handle <- rebook::preCompileBook('../inst/book', work.dir=work.dir, desc='../DESCRIPTION'); old.dir <- setwd(work.dir); bookdown::render_book('index.Rmd'); setwd(old.dir); rebook::postCompileBook(work.dir=work.dir, final.dir='../inst/doc/book', handle=handle)
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# lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin,
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# Welcome to Bioconductor
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# Vignettes contain introductory material; view with
# 'browseVignettes()'. To cite Bioconductor, see
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# adding rname 'https://www.ebi.ac.uk/arrayexpress/files/E-MTAB-5522/E-MTAB-5522.processed.1.zip'
# Quitting from lines 61-66 (sce-class.Rmd)
# Error in bfcrpath(bfc, file.path("https://www.ebi.ac.uk/arrayexpress/files", :
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# Calls: <Anonymous> ... eval_with_user_handlers -> eval -> eval -> bfcrpath -> bfcrpath
# In addition: Warning messages:
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# web resource path: 'https://www.ebi.ac.uk/arrayexpress/files/E-MTAB-5522/E-MTAB-5522.processed.1.zip'
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# reason: download failed
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# trying to add rname 'https://www.ebi.ac.uk/arrayexpress/files/E-MTAB-5522/E-MTAB-5522.processed.1.zip' produced error:
# bfcadd() failed; see warnings()
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# Execution halted
Error in compileChapter(path) :
failed to compile '~/.cache/rebook/OSCA.intro/1.4.1/sce-class.Rmd'
Calls: <Anonymous> ... .precompile_book -> .locked_compile_chapter -> compileChapter
Execution halted
make: *** [Makefile:4: compiled] Error 1
Error in tools::buildVignettes(dir = ".", tangle = TRUE) :
running 'make' failed
Execution halted