I´m having problems in running Cufflinks. Yesterday morning I used the Tophat accepted hits of my 6 samples, to run cufflinks. Untill today just one cufflinks worked, the rest of the jobs are still grey"This is a new dataset and not all of its data are available yet". All the Tophat run in parallel and with the same reference genome.
How can I solve this problem? What does it mean when it get stuck like this?
Thanks a lot,