Error(s) in re-building vignettes:
  ...
--- re-building ‘my-vignette.Rmd’ using rmarkdown
Loading required package: GenomicRanges
Loading required package: stats4
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,
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Loading required package: S4Vectors

Attaching package: 'S4Vectors'

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

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Loading required package: IRanges
Loading required package: GenomeInfoDb
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Loading regions
30 LD blocks intersect with DHS
16 LD blocks intersect with H3K27ac
5 LD blocks intersect with H3K27me3
9 LD blocks intersect with H3K36me3
10 LD blocks intersect with H3K4me1
6 LD blocks intersect with H3K4me3
Tallying MRVS 
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Killed