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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data triform
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* checking for file ‘triform/DESCRIPTION’ ... OK
* preparing ‘triform’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘triform.Rnw’ using Sweave
Loading required package: IRanges
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: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, which.max, which.min

Loading required package: S4Vectors
Loading required package: stats4

Attaching package: ‘S4Vectors’

The following object is masked from ‘package:base’:

    expand.grid

Loading required package: yaml
Warning: Package 'triform' is deprecated and will be removed from Bioconductor
  version 3.12
Using config file /private/tmp/RtmpRudKdl/Rinst21cfcdc5337/triform/extdata/config.yml
Converting BED to RangedData for file /private/tmp/RtmpRudKdl/Rinst21cfcdc5337/triform/extdata/backgr_huds_Gm12878_rep1.bed

Error: processing vignette 'triform.Rnw' failed with diagnostics:
 chunk 2 (label = Preprocessing BED files using configuration file) 
Error : RangedData objects are defunct. Please migrate your code to use GRanges
  or GRangesList objects instead. See IMPORTANT NOTE in ?RangedData

--- failed re-building ‘triform.Rnw’

SUMMARY: processing the following file failed:
  ‘triform.Rnw’

Error: Vignette re-building failed.
Execution halted