Question: Galaxy Tophat for Illumina cannot be run, how to set parameters for Tophat for Illumina
0
gravatar for janicectkwok
4.5 years ago by
United Kingdom
janicectkwok0 wrote:

Tophat for Illumina cannot be run and is always 'This job is waiting to run' for three days, is it normal? 

How do you set the different parameters to check alternative splicing genes and align with mm10 (mouse genome)? 

tophat galaxy • 976 views
ADD COMMENTlink modified 4.5 years ago by Jennifer Hillman Jackson25k • written 4.5 years ago by janicectkwok0
0
gravatar for Jennifer Hillman Jackson
4.5 years ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Both tools map sequences containing splice sites, even at default parameters, but the queue for both is very busy at this time at http://usegalaxy.org. We are aware of the delays this is causing and our administrator is watching progress.

The best strategy at this time is to allow queued jobs to stay queued and allow them to execute. If you stop and restart, this will place the new job at the end of the queue, extending the wait time.

https://wiki.galaxyproject.org/Support#Dataset_status_and_how_jobs_execute

If your work is very urgent, this peak usage time is when some begin to consider a cloud Galaxy: http://usegalaxy.org/cloud

Best, Jen, Galaxy team

ADD COMMENTlink written 4.5 years ago by Jennifer Hillman Jackson25k
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