Question: TopHat waiting to run issues
0
gravatar for Imotael
8 months ago by
Imotael0
Imotael0 wrote:

Hello.

I've been trying to run TopHat analysis on a dataset for over a week, it keeps getting stuck on waiting to run, I've tried to rerun the dataset, re-upload it just to be sure, and the other tools seem fine but the TopHat steps seems to struggle.

Regards Fredrik

rna-seq tophat • 217 views
ADD COMMENTlink modified 8 months ago • written 8 months ago by Imotael0
0
gravatar for Jennifer Hillman Jackson
8 months ago by
United States
Jennifer Hillman Jackson23k wrote:

Hello,

My guess is that you are not allowing the jobs to stay in the queue long enough to move to the execution stage. Deleting gray jobs and restarting them almost always results in additional delays, because the original job's placement in the queue is lost, and the new job (like all new jobs) enters the queue at the end.

Try leaving the jobs queued. If they are gray for longer than a day or so, write back and we can take a closer look on Monday. Please make sure the history and gray jobs are not deleted if you decide to ask for review/feedback.

Related help topics that explain how jobs process in more detail are in this area of the Galaxy Hub https://galaxyproject.org/support/#datasets-and-histories. Specifically, see:

Cheers! Jen, Galaxy team

ADD COMMENTlink written 8 months ago by Jennifer Hillman Jackson23k

I accidentally commented on my own post before which might not have given you a update for my comment, the jobs are still marked as a grey !

ADD REPLYlink written 8 months ago by Imotael0
0
gravatar for Imotael
8 months ago by
Imotael0
Imotael0 wrote:

Hi Jen, i read your reply and waited over the weekend, the jobs are still marked as a grey !, maybe you could take a look at my history?

Regards Fredrik

ADD COMMENTlink modified 8 months ago • written 8 months ago by Imotael0
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