Hello Amandin, The job queue for NGS jobs on the public main Galaxy instance has been very busy since last Friday. We have been tracking the queue carefully all week and this afternoon took additional action to ensure fair access to the public resource. I didn't find any of your jobs in the queue - which likely means that you have already benefited from the changes and your jobs have processed. Thank you for your patience. Just so you know (Galaxy does get busy at times), a job that is in a "grey" waiting-to-run state is in the active queue. You always want to leave these jobs alone and not stop and restart them - or you will lose your place in the order and be moved back to the end of the queue. Also, queue wait times can vary, from a few minutes up to a day if there is a very large usage demand. But, if you intend to run the job on the public instance, leaving the job as-is is the best strategy. If your work is urgent, a local or cloud instance is always another option: http://getgalaxy.org Next time, you may want to send usage questions about the main public instance (like this one) to the galaxy-user@bx.psu.edu mailing list instead: http://wiki.g2.bx.psu.edu/Support#Mailing_Lists Best, Jen Galaxy team On 7/11/12 2:42 AM, Amandin Talbot wrote:

Dear Galaxy Dev Team-

I try to run a job with Tophat for Illumina (version 1.5.0) but in my history job always stay at "Job is waiting to run".

I use the following parameters : RNA-Seq FASTQ file: FASTQ Groomer on upload dataset

Reference Genome : build-in index : Chicken (Gallus gallus): galGal3 Full

Mate-paired : Single-end

TopHat settings : Defaults

How should i do to make this job running ?

Thanks in advance.

________________________

Amandin Talbot

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