Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-14 13:06:13 -0500 (Fri, 14 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4327
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4076
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4137
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 CountClust on tokay2


To the developers/maintainers of the CountClust package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CountClust.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here 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 408/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CountClust 1.22.0  (landing page)
Kushal Dey
Snapshot Date: 2022-01-13 01:55:04 -0500 (Thu, 13 Jan 2022)
git_url: https://git.bioconductor.org/packages/CountClust
git_branch: RELEASE_3_14
git_last_commit: a40f173
git_last_commit_date: 2021-10-26 12:26:27 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    ERROR  skipped
tokay2Windows Server 2012 R2 Standard / x64  OK    ERROR  skippedskipped
machv2macOS 10.14.6 Mojave / x86_64  OK    ERROR  skippedskipped

Summary

Package: CountClust
Version: 1.22.0
Command: chmod a+r CountClust -R && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data CountClust
StartedAt: 2022-01-13 09:31:36 -0500 (Thu, 13 Jan 2022)
EndedAt: 2022-01-13 09:32:28 -0500 (Thu, 13 Jan 2022)
EllapsedTime: 52.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   chmod a+r CountClust -R && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data CountClust
###
##############################################################################
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* checking for file 'CountClust/DESCRIPTION' ... OK
* preparing 'CountClust':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'count-clust.Rmd' using rmarkdown
Loading required package: usethis
Downloading GitHub repo TaddyLab/maptpx@HEAD
Installing package into 'C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpITgAk6/Rinst1e7054c31110'
(as 'lib' is unspecified)
* installing *source* package 'maptpx' ...
** using staged installation
** libs

*** arch - i386
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -DRPRINT    -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c init.c -o init.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -DRPRINT    -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c latools.c -o latools.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -DRPRINT    -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c rhelp.c -o rhelp.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -DRPRINT    -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c topics.c -o topics.o
C:/rtools40/mingw32/bin/gcc -shared -s -static-libgcc -o maptpx.dll tmp.def init.o latools.o rhelp.o topics.o -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpITgAk6/Rinst1e7054c31110/00LOCK-maptpx/00new/maptpx/libs/i386

*** arch - x64
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -DRPRINT    -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c init.c -o init.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -DRPRINT    -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c latools.c -o latools.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -DRPRINT    -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c rhelp.c -o rhelp.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.14-/R/include" -DNDEBUG     -I"C:/extsoft/include"  -DRPRINT    -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign  -c topics.c -o topics.o
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o maptpx.dll tmp.def init.o latools.o rhelp.o topics.o -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.14-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.14-bioc/tmpdir/RtmpITgAk6/Rinst1e7054c31110/00LOCK-maptpx/00new/maptpx/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'maptpx'
    finding HTML links ... done
    counts                                  html  
    predict.topics                          html  
    rdir                                    html  
    topicVar                                html  
    topics                                  html  
** building package indices
** testing if installed package can be loaded from temporary location
*** arch - i386
*** arch - x64
** testing if installed package can be loaded from final location
*** arch - i386
*** arch - x64
** testing if installed package keeps a record of temporary installation path
* DONE (maptpx)
Loading required package: ggplot2
Warning in download.file("https://cdn.rawgit.com/kkdey/GTExV6Brain/master/data/GTExV6Brain.rda",  :
  cannot open URL 'https://cdn.rawgit.com/kkdey/GTExV6Brain/master/data/GTExV6Brain.rda': HTTP status was '403 Forbidden'
Quitting from lines 118-130 (count-clust.Rmd) 
Error: processing vignette 'count-clust.Rmd' failed with diagnostics:
cannot open URL 'https://cdn.rawgit.com/kkdey/GTExV6Brain/master/data/GTExV6Brain.rda'
--- failed re-building 'count-clust.Rmd'

SUMMARY: processing the following file failed:
  'count-clust.Rmd'

Error: Vignette re-building failed.
Execution halted