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This page was generated on 2022-07-07 11:11:39 -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 OncoSimulR on kjohnson


To the developers/maintainers of the OncoSimulR package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/OncoSimulR.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 1361/2124HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
OncoSimulR 3.99.4  (landing page)
Ramon Diaz-Uriarte
Snapshot Date: 2022-07-06 14:00:06 -0400 (Wed, 06 Jul 2022)
git_url: https://git.bioconductor.org/packages/OncoSimulR
git_branch: master
git_last_commit: add8cdf
git_last_commit_date: 2022-07-04 17:06:23 -0400 (Mon, 04 Jul 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  YES
lconwaymacOS 12.2.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnsonmacOS 12.4 Monterey / arm64  OK    ERROR  skippedskipped

Summary

Package: OncoSimulR
Version: 3.99.4
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data OncoSimulR
StartedAt: 2022-07-07 01:29:52 -0400 (Thu, 07 Jul 2022)
EndedAt: 2022-07-07 01:37:40 -0400 (Thu, 07 Jul 2022)
EllapsedTime: 468.0 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 OncoSimulR
###
##############################################################################
##############################################################################


* checking for file ‘OncoSimulR/DESCRIPTION’ ... OK
* preparing ‘OncoSimulR’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘OncoSimulR.Rmd’ using rmarkdown
Warning: ggrepel: 12 unlabeled data points (too many overlaps). Consider increasing max.overlaps
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


Attaching package: 'igraph'

The following objects are masked from 'package:graph':

    degree, edges, intersection, union

The following objects are masked from 'package:BiocGenerics':

    normalize, path, union

The following objects are masked from 'package:stats':

    decompose, spectrum

The following object is masked from 'package:base':

    union

Warning: ggrepel: 103 unlabeled data points (too many overlaps). Consider increasing max.overlaps
Warning: ggrepel: 7 unlabeled data points (too many overlaps). Consider increasing max.overlaps
Warning: ggrepel: 20 unlabeled data points (too many overlaps). Consider increasing max.overlaps
frequencyType set to 'auto'
All single-gene genotypes as input to to_genotFitness_std
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
frequencyType set to 'auto'
All single-gene genotypes as input to to_genotFitness_std
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
frequencyType set to 'auto'
All single-gene genotypes as input to to_genotFitness_std
frequencyType set to 'auto'
All single-gene genotypes as input to to_genotFitness_std
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
frequencyType set to 'auto'
All single-gene genotypes as input to to_genotFitness_std
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
All single-gene genotypes as input to to_genotFitness_std
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
frequencyType set to 'auto'
All single-gene genotypes as input to to_genotFitness_std
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
All single-gene genotypes as input to to_genotFitness_std
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
All single-gene genotypes as input to to_genotFitness_std
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
All single-gene genotypes as input to to_genotFitness_std
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Using old version of fitnessEffects. Transforming fitnessEffects
            to last version.
Quitting from lines 9785-9825 (OncoSimulR.Rmd) 
Error: processing vignette 'OncoSimulR.Rmd' failed with diagnostics:
'length.out' must be a non-negative number
--- failed re-building ‘OncoSimulR.Rmd’

SUMMARY: processing the following file failed:
  ‘OncoSimulR.Rmd’

Error: Vignette re-building failed.
Execution halted