This page was generated on 2021-05-06 12:28:38 -0400 (Thu, 06 May 2021).
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### Running command:
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### /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data POMA
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* 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