[R] how to find end of a FASTA file

[Martin Morgan]

On 09/13/2012 04:19 AM, mail me wrote:
> Hi:
>
> I am trying to find end of a FASTA file:
>
> library(ShortRead)
> fastadata <- readFasta("fastafolder", "fa$")
> file <- tempfile()
> writeFasta(fastadata, file)
> var1 <- readLines(file)
> while(countlength(tmp <- readLines(file, n = -1)) > 0)  {
> #do something
> }
>
> I want the while loop to run till the end of file is reached, but the
> while statement dosent work. Thanks for help.

see the answer to your question on the Bioconductor mailing list.

https://stat.ethz.ch/pipermail/bioconductor/2012-September/048053.html

Martin

>
> Regards
> Jac
>
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