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This page was generated on 2022-07-07 11:12:11 -0400 (Thu, 07 Jul 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.2.0 Patched (2022-06-02 r82447) -- "Vigorous Calisthenics" 4343
palomino4Windows Server 2022 Datacenterx644.2.0 Patched (2022-06-02 r82447 ucrt) -- "Vigorous Calisthenics" 4148
lconwaymacOS 12.2.1 Montereyx86_644.2.0 Patched (2022-05-29 r82424) -- "Vigorous Calisthenics" 4160
kjohnsonmacOS 12.4 Montereyarm644.2.0 Patched (2022-06-09 r82473) -- "Vigorous Calisthenics" 3115
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

BUILD results for twilight on kjohnson


To the developers/maintainers of the twilight package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/twilight.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 2057/2124HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
twilight 1.73.0  (landing page)
Stefanie Scheid
Snapshot Date: 2022-07-06 14:00:06 -0400 (Wed, 06 Jul 2022)
git_url: https://git.bioconductor.org/packages/twilight
git_branch: master
git_last_commit: 57d4d18
git_last_commit_date: 2022-04-26 10:56:19 -0400 (Tue, 26 Apr 2022)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.2.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnsonmacOS 12.4 Monterey / arm64  OK    ERROR  skippedskipped

Summary

Package: twilight
Version: 1.73.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data twilight
StartedAt: 2022-07-07 07:03:20 -0400 (Thu, 07 Jul 2022)
EndedAt: 2022-07-07 07:03:30 -0400 (Thu, 07 Jul 2022)
EllapsedTime: 9.7 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data twilight
###
##############################################################################
##############################################################################


* checking for file ‘twilight/DESCRIPTION’ ... OK
* preparing ‘twilight’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘tr_2004_01.Rnw’ using Sweave
Loading required package: Biobase
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

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.


Error: processing vignette 'tr_2004_01.Rnw' failed with diagnostics:
 chunk 2 
Error in library(vsn) : there is no package called ‘vsn’

--- failed re-building ‘tr_2004_01.Rnw’

pdflatex tr_2004_01
This is pdfTeX, Version 3.141592653-2.6-1.40.24 (TeX Live 2022) (preloaded format=pdflatex)
 restricted \write18 enabled.
entering extended mode
(./tr_2004_01.tex
LaTeX2e <2021-11-15> patch level 1
L3 programming layer <2022-02-24>
(/usr/local/texlive/2022/texmf-dist/tex/latex/base/report.cls
Document Class: report 2021/10/04 v1.4n Standard LaTeX document class
(/usr/local/texlive/2022/texmf-dist/tex/latex/base/fleqn.clo)
(/usr/local/texlive/2022/texmf-dist/tex/latex/base/size11.clo)) (./compdiag.sty
(/usr/local/texlive/2022/texmf-dist/tex/generic/iftex/ifpdf.sty
(/usr/local/texlive/2022/texmf-dist/tex/generic/iftex/iftex.sty))
(/usr/local/texlive/2022/texmf-dist/tex/latex/graphics/graphicx.sty
(/usr/local/texlive/2022/texmf-dist/tex/latex/graphics/keyval.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/graphics/graphics.sty
(/usr/local/texlive/2022/texmf-dist/tex/latex/graphics/trig.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/graphics-cfg/graphics.cfg)
(/usr/local/texlive/2022/texmf-dist/tex/latex/graphics-def/pdftex.def)))
(/usr/local/texlive/2022/texmf-dist/tex/latex/graphics/color.sty
(/usr/local/texlive/2022/texmf-dist/tex/latex/graphics-cfg/color.cfg))
(/usr/local/texlive/2022/texmf-dist/tex/latex/hyperref/hyperref.sty
(/usr/local/texlive/2022/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty)
(/usr/local/texlive/2022/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty
(/usr/local/texlive/2022/texmf-dist/tex/generic/infwarerr/infwarerr.sty))
(/usr/local/texlive/2022/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty)
(/usr/local/texlive/2022/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty)
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(/usr/local/texlive/2022/texmf-dist/tex/latex/hycolor/hycolor.sty)
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(/usr/local/texlive/2022/texmf-dist/tex/latex/auxhook/auxhook.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/kvoptions/kvoptions.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/hyperref/pd1enc.def)
(/usr/local/texlive/2022/texmf-dist/tex/generic/intcalc/intcalc.sty)
(/usr/local/texlive/2022/texmf-dist/tex/generic/etexcmds/etexcmds.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/hyperref/puenc.def)
(/usr/local/texlive/2022/texmf-dist/tex/latex/url/url.sty)
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(/usr/local/texlive/2022/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty))
(/usr/local/texlive/2022/texmf-dist/tex/latex/base/atbegshi-ltx.sty))
(/usr/local/texlive/2022/texmf-dist/tex/latex/hyperref/hpdftex.def
(/usr/local/texlive/2022/texmf-dist/tex/latex/base/atveryend-ltx.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty

(/usr/local/texlive/2022/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty
))) (/usr/local/texlive/2022/texmf-dist/tex/latex/ntgclass/a4.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/geometry/geometry.sty
(/usr/local/texlive/2022/texmf-dist/tex/generic/iftex/ifvtex.sty))
(/usr/local/texlive/2022/texmf-dist/tex/latex/tools/theorem.sty
(/usr/local/texlive/2022/texmf-dist/tex/latex/tools/thp.sty))
(/usr/local/texlive/2022/texmf-dist/tex/latex/tools/thb.sty))
(/usr/local/texlive/2022/texmf-dist/tex/latex/amsmath/amsmath.sty
For additional information on amsmath, use the `?' option.
(/usr/local/texlive/2022/texmf-dist/tex/latex/amsmath/amstext.sty
(/usr/local/texlive/2022/texmf-dist/tex/latex/amsmath/amsgen.sty))
(/usr/local/texlive/2022/texmf-dist/tex/latex/amsmath/amsbsy.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/amsmath/amsopn.sty))
(/usr/local/texlive/2022/texmf-dist/tex/latex/caption/caption.sty
(/usr/local/texlive/2022/texmf-dist/tex/latex/caption/caption3.sty))
(/Library/Frameworks/R.framework/Resources/share/texmf/tex/latex/Sweave.sty
(/usr/local/texlive/2022/texmf-dist/tex/latex/base/ifthen.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/fancyvrb/fancyvrb.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/base/textcomp.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/base/fontenc.sty))
(/usr/local/texlive/2022/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def)
No file tr_2004_01.aux.
(/usr/local/texlive/2022/texmf-dist/tex/context/base/mkii/supp-pdf.mkii
[Loading MPS to PDF converter (version 2006.09.02).]
) (/usr/local/texlive/2022/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty
(/usr/local/texlive/2022/texmf-dist/tex/latex/grfext/grfext.sty)
(/usr/local/texlive/2022/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg))
(/usr/local/texlive/2022/texmf-dist/tex/latex/hyperref/nameref.sty
(/usr/local/texlive/2022/texmf-dist/tex/latex/refcount/refcount.sty)
(/usr/local/texlive/2022/texmf-dist/tex/generic/gettitlestring/gettitlestring.s
ty))
*geometry* driver: auto-detecting
*geometry* detected driver: pdftex
(/usr/local/texlive/2022/texmf-dist/tex/latex/base/t1cmss.fd)
(/usr/local/texlive/2022/texmf-dist/tex/latex/base/t1cmtt.fd) [1{/usr/local/tex
live/2022/texmf-var/fonts/map/pdftex/updmap/pdftex.map} <./bcb_logo.pdf> <./MPI
MG_logo.png>])
*
! Emergency stop.
<*> 
    
!  ==> Fatal error occurred, no output PDF file produced!
Transcript written on tr_2004_01.log.
make: *** [vign] Error 1
Error in tools::buildVignettes(dir = ".", tangle = TRUE) : 
  running 'make' failed
Execution halted