Sounds like you have Fasta files which do not contain newlines, use the
linux command 'fold'
to fix this.

fold [malformedFile] > [newFile]

>From memory, read.DNAStringSet() will fail if the file is larger than
20,000 characters
and contains no newline feeds.

Marcus


On Tue, Apr 10, 2012 at 12:50 AM, wang peter <wng.peter@gmail.com> wrote:

> hi all
> sorry to disturb you
>
> i forgot how to deal with too long fasta sequences ？
> i remembered a person told me to use linux command line?
>
> thank you in advances
>
> --
> shan gao
> Room 231(Dr.Fei lab)
> Boyce Thompson Institute
> Cornell University
> Tower Road, Ithaca, NY 14853-1801
> Office phone: 1-607-254-1267(day)
> Official email:sg839@cornell.edu
> Facebook:http://www.facebook.com/profile.php?id=100001986532253too long
>
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