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This page was generated on 2023-01-02 09:00:43 -0500 (Mon, 02 Jan 2023).

HostnameOSArch (*)R versionInstalled pkgs
palomino5Windows Server 2022 Datacenterx64R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" 4165
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 PharmacoGx on palomino5


To the developers/maintainers of the PharmacoGx package:
Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1454/2158HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
PharmacoGx 3.3.2  (landing page)
Benjamin Haibe-Kains
Snapshot Date: 2022-12-28 11:00:06 -0500 (Wed, 28 Dec 2022)
git_url: https://git.bioconductor.org/packages/PharmacoGx
git_branch: master
git_last_commit: e90c241
git_last_commit_date: 2022-12-12 18:11:42 -0500 (Mon, 12 Dec 2022)
palomino5Windows Server 2022 Datacenter / x64  OK    ERROR  skippedskipped

Summary

Package: PharmacoGx
Version: 3.3.2
Command: chmod a+r PharmacoGx -R && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data PharmacoGx
StartedAt: 2022-12-28 19:43:50 -0500 (Wed, 28 Dec 2022)
EndedAt: 2022-12-28 19:46:11 -0500 (Wed, 28 Dec 2022)
EllapsedTime: 140.5 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

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### Running command:
###
###   chmod a+r PharmacoGx -R && F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data PharmacoGx
###
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* checking for file 'PharmacoGx/DESCRIPTION' ... OK
* preparing 'PharmacoGx':
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'CreatingPharmacoSet.Rmd' using rmarkdown
--- finished re-building 'CreatingPharmacoSet.Rmd'

--- re-building 'DetectingDrugSynergyAndAntagonism.Rmd' using rmarkdown
Quitting from lines 348-374 (DetectingDrugSynergyAndAntagonism.Rmd) 
Error: processing vignette 'DetectingDrugSynergyAndAntagonism.Rmd' failed with diagnostics:
BiocParallel errors
  2 remote errors, element index: 1, 2
  0 unevaluated and other errors
  first remote error:
Error in logLogisticRegression(treatment1dose, mean_viability, viability_as_pct = FALSE): could not find function "logLogisticRegression"

--- failed re-building 'DetectingDrugSynergyAndAntagonism.Rmd'

--- re-building 'PharmacoGx.Rmd' using rmarkdown
--- finished re-building 'PharmacoGx.Rmd'

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

Error: Vignette re-building failed.
Execution halted