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This page was generated on 2023-04-12 11:05:05 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4282
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4310
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 gaia on nebbiolo2


To the developers/maintainers of the gaia package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/gaia.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 731/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
gaia 2.42.0  (landing page)
S. Morganella
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/gaia
git_branch: RELEASE_3_16
git_last_commit: e6dd28f
git_last_commit_date: 2022-11-01 11:05:27 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    ERROR  skipped
palomino4Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped
lconwaymacOS 12.5.1 Monterey / x86_64  OK    ERROR  skippedskipped

Summary

Package: gaia
Version: 2.42.0
Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data gaia
StartedAt: 2023-04-10 16:48:04 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 16:48:10 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 6.3 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data gaia
###
##############################################################################
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* checking for file ‘gaia/DESCRIPTION’ ... OK
* preparing ‘gaia’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘gaia.Rnw’ using Sweave
Warning: Package 'gaia' is deprecated and will be removed from Bioconductor
  version 3.17
Loading Marker Informations
........................
Done
Loading Copy Number Data
........................................................................
Done

Performing Data Preprocessing

Homogeneous cannot be applied on the data (data must contain exactly two different kinds of aberrations)


Done
Computing Probability Distribution
................................................................................................................................................
Done
Assessing the Significance of Observed Data
........................................................................
Done
Running Standard peel-off Algorithm With Significance Threshold of 0.25
........................................................................
Done

Writing Output File 'CompleteResults.txt' Containing the Significant Regions

File 'CompleteResults.txt' Saved


Performing Data Preprocessing

Error: processing vignette 'gaia.Rnw' failed with diagnostics:
 chunk 8 (label = runGAIA_notDefault) 
Error in if (chromosomes == -1) { : the condition has length > 1

--- failed re-building ‘gaia.Rnw’

SUMMARY: processing the following file failed:
  ‘gaia.Rnw’

Error: Vignette re-building failed.
Execution halted