CODEWITHSUNDEEP
rdata.table
Vasily A
Vasily A

Reputation: 8646

fread does not skip empty line when it's the last line of region-to-be-skipped

In my tab-delimited data file (small sample can be downloaded here), first 2 lines are header lines which I need to skip, third line is empty and therefore should also be skipped, and actual data starts from line 4. When I try to read it via fread with skip=3 argument:

dtRM3 <- fread("hg19.fa.out2.head.tsv", skip=3, sep="\t", header=F)

it gives a warning: Stopped reading at empty line 3, but text exists afterwards (discarded): - then the warning shows the text of line 4. I don't understand why it's reading empty line 3 while I indicated to skip first 3 lines. If I make line 3 non-empty by putting any characters there, it is skipped correctly. Alternatively, if I tell to skip one more line -

dtRM4 <- fread("hg19.fa.out2.head.tsv", skip=4, sep="\t", header=F)

it skips correctly first 4 lines and starts from line 5.

Upvotes: 1

Views: 884

Answers (1)

djhurio
djhurio

Reputation: 5536

The data reads in correctly (7 records, 15 variables with out header) if you run just fread("hg19.fa.out2.head.tsv") with out any extra arguments. I can not explain it.

Upvotes: 2

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