2 RNAseq files in Main queue 1 week to map w/Top hat
Greetings, I have had two RNAseq files in queue to map with Top hat in Galaxy Main since last Thursday (History began Sept 19). I got word that NGS was stalled, my jobs were mistakenly believed to be moving afterwards when they weren't- but are now under review again. It has been a week now and the 2 mapping jobs are still waiting to run. Can you tell me whether I should delete the jobs and re-run them as new? Is there a problem with my trimmed dataset? My concern is that these jobs are still "believed to be moving" as was indicated by one of your galaxy stewards, but are actually still stalled in space. One week is a long tme to wait for local jobs, no? thank you very much for your help https://main.g2.bx.psu.edu/u/trstueve/h/rnaseqjegcsc3wkrun130924-1 <https://main.g2.bx.psu.edu/history/sharing#> Theresa Ryan Stueve 510-225-8894 (text better than voicemail for quick response) -- Theresa Ryan Stueve 510-225-8894 (text better than voicemail for quick response)
Hi Theresa, The clusters have been on and off for most of the last few weeks. The updated server is now up and much faster! We are actively seeking feedback. If a job did end up failing due to a cluster or fileserver issue during the move, then please just re-run it. There could be many contributing factors and that system is no longer in use. If jobs started now fail, from about two hours ago forward, then please submit as a bug report. New jobs are on the new cluster/server site and we definitely need to work out any issues. Help doing that is very much appreciated! This is still relevant advice: http://wiki.galaxyproject.org/Support#Dataset_status_and_how_jobs_execute But, if you have grey jobs that are really two weeks old still, that would be very strange and we would want to fix it. Would you please share a history with me? http://wiki.galaxyproject.org/Learn/Share Thanks for your patience during this transition! Jen Galaxy team On 10/2/13 6:46 PM, Theresa Stueve wrote:
Greetings, I have had two RNAseq files in queue to map with Top hat in Galaxy Main since last Thursday (History began Sept 19). I got word that NGS was stalled, my jobs were mistakenly believed to be moving afterwards when they weren't- but are now under review again. It has been a week now and the 2 mapping jobs are still waiting to run. Can you tell me whether I should delete the jobs and re-run them as new? Is there a problem with my trimmed dataset? My concern is that these jobs are still "believed to be moving" as was indicated by one of your galaxy stewards, but are actually still stalled in space.
One week is a long tme to wait for local jobs, no? thank you very much for your help https://main.g2.bx.psu.edu/u/trstueve/h/rnaseqjegcsc3wkrun130924-1<https://main.g2.bx.psu.edu/history/sharing#>
Theresa Ryan Stueve 510-225-8894 <tel:510-225-8894> (text better than voicemail for quick response)
-- Theresa Ryan Stueve 510-225-8894 (text better than voicemail for quick response)
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participants (2)
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Jennifer Jackson -
Theresa Stueve