[Bioperl-l] warning: Bio::Index::Fastq;

[Peter Cock]

On Tue, Mar 11, 2014 at 4:01 PM, EpiMAN <eh_mcb at yahoo.com> wrote:
> test <http://bioperl.996286.n3.nabble.com/file/n17374/test>
>
> grep -C 10 "^@@DDDDDFFFFFIIIDCBBBB"

Very helpful - it does look like it came from a valid FASTQ
(the -- lines are where grep cuts each snippet).

I think I can explain this, see:
https://github.com/bioperl/bioperl-live/commit/b45e2d33984cf283b846d7c146ec9e0e9ebae67f

Chris' hack handled quality lines starting with a single '@'
sign, but multiple '@' signs like your examples which start
'@@' instead.

Peter