Sequenza extract error using WGS

[wonkyung kim]

Hi, 

I have run sequenza for Whole genome sequencing data. 

All WGS data generated error message.

Below is the error message.

test = sequenza.extract(data.file, verbose=FALSE, assembly = "hg19")

Warning: 8 parsing failures.

row col expected actual file

  1 position an integer position '12NB.seqz.edit.gz'

  1 depth.normal an integer depth.normal '12NB.seqz.edit.gz'

  1 depth.tumor an integer depth.tumor '12NB.seqz.edit.gz'

  1 depth.ratio a double depth.ratio '12NB.seqz.edit.gz'

  1 Af a double Af '12NB.seqz.edit.gz'

... ............ .......... ............ ...................

See problems(...) for more details.

Error in seq.int(range.pos[1], range.pos[2], by = window.offset) :

  'to' must be a finite number

In addition: Warning messages:

1: In read_tokens_(data, tokenizer, col_specs, col_names, locale_,  :

  NAs introduced by coercion to integer range

2: In min(x) : no non-missing arguments to min; returning Inf

3: In max(x) : no non-missing arguments to max; returning -Inf

Please let me know how to fix the error.

Thank you.