On Tue, Oct 4, 2011 at 1:33 AM, Colleen Doherty <cdohe...@ucsd.edu> wrote: > I am trying to set up a local instance. > When running Clip adapter sequences I get the following error: > > fastx_clipper: Invalid quality score value (char 'J' ord 74 quality > value 41) on line 36 > gzip: stdout: Broken pipe > > I'm stuck on where to try to trouble-shoot this.
You need to upgrade to at least FASTX Toolkit v0.0.13, see: http://seqanswers.com/forums/showpost.php?p=49667&postcount=18 Old versions wrongly assumed PHRED quality scores would be at most 40. Peter ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/