Hello,
I have a seemingly simple problem that a tab-delimited file can't be read in.
> annoTranscripts <- read.table("matched.txt", sep = '\t', stringsAsFactors =
> FALSE)
Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, :
line 5933 did not have 12 elements
However, all lines do have 12 columns.
> lines <- readLines("matched.txt")
> tabsPosns <- gregexpr("\t", lines)
> table(sapply(tabsPosns, length))
11
367274
> system("wc -l matched.txt")
367274 matched.txt
You can obtain the file from
https://dl.dropboxusercontent.com/u/37992150/matched.txt
The line does not contain comment or quote characters. What can you suggest ?
> sessionInfo()
R version 3.0.1 (2013-05-16)
Platform: x86_64-pc-linux-gnu (64-bit)
locale:
[1] LC_CTYPE=en_AU.UTF-8 LC_NUMERIC=C
[3] LC_TIME=en_AU.UTF-8 LC_COLLATE=en_AU.UTF-8
[5] LC_MONETARY=en_AU.UTF-8 LC_MESSAGES=en_AU.UTF-8
[7] LC_PAPER=C LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_AU.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods
[7] base
loaded via a namespace (and not attached):
[1] tools_3.0.1
--------------------------------------
Dario Strbenac
PhD Student
University of Sydney
Camperdown NSW 2050
Australia
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