Error(s) in re-building vignettes:
--- re-building 'sequenza.Rnw' using Sweave
Loading required package: copynumber
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, colMeans, colSums, 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, rowMeans, rowSums,
    rownames, sapply, setdiff, sort, table, tapply,
    union, unique, unsplit, which, which.max,
    which.min

Loading required package: squash
Processing 1: 63 variant calls; 4389 heterozygous positions; 1428 homozygous positions.
Processing 2: 25 variant calls; 2496 heterozygous positions; 881 homozygous positions.
Processing 3: 16 variant calls; 2239 heterozygous positions; 718 homozygous positions.
Processing 4: 11 variant calls; 1636 heterozygous positions; 543 homozygous positions.
Processing 5: 11 variant calls; 1470 heterozygous positions; 506 homozygous positions.
Processing 6: 43 variant calls; 2124 heterozygous positions; 632 homozygous positions.
Processing 7: 28 variant calls; 2004 heterozygous positions; 761 homozygous positions.
Processing 8: 12 variant calls; 1382 heterozygous positions; 455 homozygous positions.
Processing 9: 26 variant calls; 1878 heterozygous positions; 610 homozygous positions.
Processing 10: 26 variant calls; 2043 heterozygous positions; 630 homozygous positions.
Processing 11: 30 variant calls; 2169 heterozygous positions; 690 homozygous positions.
Processing 12: Warning in read.table(file = file, header = header, sep = sep, quote = quote,  :
  line 1 appears to contain embedded nulls
Warning in read.table(file = file, header = header, sep = sep, quote = quote,  :
  line 2 appears to contain embedded nulls
Warning in read.table(file = file, header = header, sep = sep, quote = quote,  :
  line 3 appears to contain embedded nulls
Warning in read.table(file = file, header = header, sep = sep, quote = quote,  :
  line 4 appears to contain embedded nulls
Warning in read.table(file = file, header = header, sep = sep, quote = quote,  :
  line 5 appears to contain embedded nulls
Warning in scan(file = file, what = what, sep = sep, quote = quote, dec = dec,  :
  embedded nul(s) found in input
Warning in read.table(file = file, header = header, sep = sep, quote = quote,  :
  cols = 1 != length(data) = 14
Warning in min(x) : no non-missing arguments to min; returning Inf
Warning in max(x) : no non-missing arguments to max; returning -Inf

Error: processing vignette 'sequenza.Rnw' failed with diagnostics:
 chunk 16 (label = sequenzaExtract) 
Error in seq.int(range.pos[1], range.pos[2], by = window.offset) : 
  'to' must be a finite number

--- failed re-building 'sequenza.Rnw'

SUMMARY: processing the following file failed:
  'sequenza.Rnw'

Error: Vignette re-building failed.
Execution halted