Question: what is AB SOLiD System 2.0 in sequencing ?
This solution will work for you case.
fastcssanger.gz. Do this for all datasets loaded from this source that are in color-space. The assigned datatype can be modified on the Edit Attribute forms under the "Datatype" tab (reach these forms by clicking on the pencil icon, per-dataset). Be sure to save after each change. NOTE:
fastqsanger.gzis different than
fastqcssanger.gz, so double check for the "cs" in the naming when making the change.
fastqcssanger.gzdatasets, and set the option Input FASTQ quality scores type to Color Space Sanger. Leave the remaining options at default. The result will be data converted to and assigned to either the
fastqsanger.gzformat/datatype. Both can be used as inputs with most, but not all, tools (some older tools still require uncompressed inputs, example: Tophat won't accept compressed fastq data when in a dataset collection).
Thanks for your patience during testing. I wanted to make sure this would actually still work, and with your exact given data.
Jen, Galaxy team