Back to Multiple platform build/check report for BioC 3.12
ABCDEFGHIJKLMNO[P]QRSTUVWXYZ

BUILD report for POMA on merida1

This page was generated on 2021-05-06 12:36:09 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the POMA package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 1368/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
POMA 1.0.0  (landing page)
Pol Castellano-Escuder
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/POMA
Branch: RELEASE_3_12
Last Commit: 801ae7b
Last Changed Date: 2020-10-27 11:59:20 -0400 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    ERROR  skipped
tokay1Windows Server 2012 R2 Standard / x64  OK    ERROR  skippedskipped
merida1macOS 10.14.6 Mojave / x86_64  OK    ERROR  skippedskipped

Summary

Package: POMA
Version: 1.0.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data POMA
StartedAt: 2021-05-05 21:20:06 -0400 (Wed, 05 May 2021)
EndedAt: 2021-05-05 21:21:43 -0400 (Wed, 05 May 2021)
EllapsedTime: 96.3 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data POMA
###
##############################################################################
##############################################################################


* checking for file ‘POMA/DESCRIPTION’ ... OK
* preparing ‘POMA’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘POMA-demo.Rmd’ using rmarkdown
Welcome to POMA!
✔ 1.0.0 version
✔ POMA Shiny version: https://github.com/pcastellanoescuder/POMAShiny
ℹ For more detailed package information please visit https://pcastellanoescuder.github.io/POMA/
Using ID, Group as id variables
Using ID, Group as id variables
Using Group as id variables
Using Group as id variables
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.381, DMD005.1.U02 = -0.358,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.725, DMD005.1.U02 = -0.407,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.297, DMD005.1.U02 = -0.296,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = 0.405, DMD005.1.U02 = 0.303,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.519, DMD005.1.U02 = -0.469,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.594, DMD005.1.U02 = -0.603,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.403, DMD005.1.U02 = 0.046,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.463, DMD005.1.U02 = -0.443,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.432, DMD005.1.U02 = -0.259,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.558, DMD005.1.U02 = -0.348,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.552, DMD005.1.U02 = -0.484,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.358, DMD005.1.U02 = -0.368,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.287, DMD005.1.U02 = -0.118,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.38, DMD005.1.U02 = -0.04,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.801, DMD005.1.U02 = -0.719,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.67, DMD005.1.U02 = -0.641,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.484, DMD005.1.U02 = -0.477,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.723, DMD005.1.U02 = -0.986,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.701, DMD005.1.U02 = -0.579,  :
  cannot compute exact p-value with ties
Warning in wilcox.test.default(x = c(DMD004.1.U02 = -0.357, DMD005.1.U02 = -0.651,  :
  cannot compute exact p-value with ties
Quitting from lines 203-204 (POMA-demo.Rmd) 
Error: processing vignette 'POMA-demo.Rmd' failed with diagnostics:
arguments imply differing number of rows: 0, 50
--- failed re-building ‘POMA-demo.Rmd’

--- re-building ‘POMA-eda.Rmd’ using rmarkdown

Attaching package: 'dplyr'

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

    filter, lag

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

    intersect, setdiff, setequal, union

Loading required package: BiocGenerics
Loading required package: parallel

Attaching package: 'BiocGenerics'

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

    clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
    clusterExport, clusterMap, parApply, parCapply, parLapply,
    parLapplyLB, parRapply, parSapply, parSapplyLB

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

    combine, intersect, setdiff, union

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

Welcome to Bioconductor

    Vignettes contain introductory material; view with
    'browseVignettes()'. To cite Bioconductor, see
    'citation("Biobase")', and for packages 'citation("pkgname")'.

Using ID, Group as id variables
Using ID, Group as id variables
Warning in PomaDensity(imputed) :
  group argument is empty! samples will be used
Using ID, Group as id variables
Warning in PomaDensity(pre_processed) :
  group argument is empty! samples will be used
Using ID, Group as id variables
Quitting from lines 239-240 (POMA-eda.Rmd) 
Error: processing vignette 'POMA-eda.Rmd' failed with diagnostics:
arguments imply differing number of rows: 0, 50
--- failed re-building ‘POMA-eda.Rmd’

--- re-building ‘POMA-normalization.Rmd’ using rmarkdown
Warning in PomaImpute(.) : method argument is empty! KNN will be used
Using ID, Group as id variables
Using ID, Group as id variables
Using ID, Group as id variables
Using ID, Group as id variables
Using ID, Group as id variables
Using ID, Group as id variables
Using ID, Group as id variables
Using Group as id variables
Using Group as id variables
Using Group as id variables
Using Group as id variables
Using Group as id variables
Using Group as id variables
Using Group as id variables
--- finished re-building ‘POMA-normalization.Rmd’

SUMMARY: processing the following files failed:
  ‘POMA-demo.Rmd’ ‘POMA-eda.Rmd’

Error: Vignette re-building failed.
Execution halted