Hi Personally, I avoid having to split SRA data by using the EBI site which mirrors the same SRA data as NCBI but also given the option of already split files (the ID numbers are the same on both). Also by using the 'getdata>EBI SRA' tool which It think is on all galaxy instances you also have the option to download directly into galaxy. However using the tool 'fastq_paired_end_splitter' should give the same result. Cheers Guy
I know that Guy, the problem i am facing during uploading the data to galaxy main directly through EBI, is that the files which gets uploaded are of .gz format, and i am unable to extract it. Due to which i am unable to process the data any further. Yeah, another problem about the fastq paired end splitter is that it's not working upon my data as it is too large.