Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-04-13 12:07:34 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 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 XCIR on tokay2


To the developers/maintainers of the XCIR package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/XCIR.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 2069/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
XCIR 1.8.0  (landing page)
Renan Sauteraud
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/XCIR
git_branch: RELEASE_3_14
git_last_commit: 3b59d45
git_last_commit_date: 2021-10-26 12:52:24 -0400 (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: XCIR
Version: 1.8.0
Command: chmod a+r XCIR -R && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data XCIR
StartedAt: 2022-04-12 15:13:28 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 15:14:55 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 87.2 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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


* checking for file 'XCIR/DESCRIPTION' ... OK
* preparing 'XCIR':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'xcir_intro.Rmd' using knitr
Fetching genes for hg38
Fetching genes for hg38
Warning in getGenicDP(annoX, highest_expr = TRUE) :
  There are no 'sex' column in the dataset. If not all subjects
            are female, remove them or add a 'sex' column and run again.
Quitting from lines 146-147 (xcir_intro.Rmd) 
Error: processing vignette 'xcir_intro.Rmd' failed with diagnostics:
object 'pvalue' not found
--- failed re-building 'xcir_intro.Rmd'

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

Error: Vignette re-building failed.
Execution halted