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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data Metab
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* checking for file ‘Metab/DESCRIPTION’ ... OK
* preparing ‘Metab’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MetabPackage.Rnw’ using Sweave
Loading required package: xcms
Loading required package: BiocParallel
Loading required package: MSnbase
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, aperm, 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
Loading required package: Biobase
Welcome to Bioconductor
Vignettes contain introductory material; view with
'browseVignettes()'. To cite Bioconductor, see
'citation("Biobase")', and for packages 'citation("pkgname")'.
Loading required package: mzR
Loading required package: Rcpp
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: ‘S4Vectors’
The following object is masked from ‘package:utils’:
findMatches
The following objects are masked from ‘package:base’:
I, expand.grid, unname
Loading required package: ProtGenerics
Attaching package: ‘ProtGenerics’
The following object is masked from ‘package:stats’:
smooth
This is MSnbase version 2.28.1
Visit https://lgatto.github.io/MSnbase/ to get started.
Attaching package: ‘MSnbase’
The following object is masked from ‘package:base’:
trimws
This is xcms version 4.0.2
Attaching package: ‘xcms’
The following object is masked from ‘package:stats’:
sigma
Loading required package: svDialogs
Warning: Package 'Metab' is deprecated and will be removed from Bioconductor
version 3.19
Error: processing vignette 'MetabPackage.Rnw' failed with diagnostics:
chunk 2 (label = LoadIonLibrary)
Error in xtfrm.data.frame(x) : cannot xtfrm data frames
--- failed re-building 'MetabPackage.Rnw'
SUMMARY: processing the following file failed:
'MetabPackage.Rnw'
Error: Vignette re-building failed.
Execution halted