Question: Jobs take long time to start running
gravatar for Dottorini, Tania
4.0 years ago by
European Union
Dottorini, Tania20 wrote:


I have set few jobs to run more than 24 hours ago (BWA and Tophat) but they are still flagged as "waiting to run". Is there any way to overcome this delay?




galaxy • 1.1k views
ADD COMMENTlink modified 4.0 years ago by Jennifer Hillman Jackson25k • written 4.0 years ago by Dottorini, Tania20

The main public server is free to use but sometimes there is a cost in terms of time when you have to wait a day or two for work to complete. As pointed out below in the answer, many of us overcome this by running our own private Galaxy instances on dedicated hardware or on rented cloud infrastructure so our users' jobs run as quickly as possible where time is critical to their work. This is definitely the best way to avoid delay associated with heavy load on the free service.

ADD REPLYlink modified 4.0 years ago • written 4.0 years ago by fubar1.1k
gravatar for Jennifer Hillman Jackson
4.0 years ago by
United States
Jennifer Hillman Jackson25k wrote:


The queue that runs mapping jobs is known to be very busy right now. Our administrator is keeping close watch over it.

The best strategy - and this is for all jobs - is to start them and then allow them to run to completion. This preserves the job placement in the queue - and is the most effective strategy for getting work done on the shared public resource at and likely most other Galaxy instances.

If your work is very urgent, a cloud Galaxy may be an alternative. Please see:

Thanks for asking! We are aware that other users are probably also curious about the delay and hopefully this helps to explain that it is known, due to a peak usage period, and how to execute work.

Jen, Galaxy team

ADD COMMENTlink written 4.0 years ago by Jennifer Hillman Jackson25k
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