[galaxy-user] "Job is waiting to run" forever

For the last two days, nearly every job submitted to Galaxy at "main.g2.bx.psu.eud" has been successfully added to the queue but stuck in the waiting to run mode. A few exceptions have gotten through quickly, but if not, they stay in limbo land. Emptying the cache made no difference. Any ad

[galaxy-user] Problem using Galaxy

Dear Sir/Madam, I am a PhD student working on RNA-Seq as my dissertation. As a matter of fact I want to do analyses of gene expressions for the sequences that I have and for that I have tried to use Galaxy tools as it is one of the best platforms in order to do analysis for RNA-Seq as well as othe

Re: [galaxy-user] Question about extracting information from CEAS run results

Hello, It sounds as if you are using the Cistrome hosted Galaxy instance? If so, it would be best to contact them directly to discuss the tools/wrappers developed by their group. This is the primary web site: http://cistrome.org. A help email is on the Cistrome Galaxy's login page. Good luck

Re: [galaxy-user] cuffmerge loses p_id

Hello Christopher, We did some testing here using your available data and are fairly certain that the problem is with the tool itself and not the Galaxy wrapper. Contacting the author and asking about the issue is probably the best way forward. If you have time, we would be glad to learn about

[galaxy-user] server problem

Dear Galaxy-support, I could not use Galaxy nearly for 2 days, I think there is a problem with the server. If I 'intersect' data sets then it just turned to 'job is wating to run' and never moved on. I have already informed other people working in another city, and they also have the same server p

Re: [galaxy-user] long wait on jobs

Hello Antony, The Galaxy public instance experienced a temporary cluster problem that is now resolved. Your job should now queue. Should it fail with a cluster error, please re-run. Our apologies for the inconvenience, Jen Galaxy team On 5/18/12 7:54 AM, Antony Jose wrote: Hi, I started

Re: [galaxy-user] "Job is waiting to run" forever

Hello Lee, The Galaxy public instance experienced a temporary cluster problem that is now resolved. Your job should now queue. Should it fail with a cluster error, please re-run. Our apologies for the inconvenience, Jen Galaxy team On 5/20/12 8:00 PM, Lee Silver wrote: For the last two day

Re: [galaxy-user] server problem

Hello Elaine, The Galaxy public instance experienced a temporary cluster problem that is now resolved. Your job should now queue. Should it fail with a cluster error, please re-run. Our apologies for the inconvenience, Jen Galaxy team On 5/21/12 7:00 AM, Elaine Wong wrote: Dear Galaxy-supp

[galaxy-user] Examples of quality score boxplots for 5500xl data

Dear All, I am planning to use GALAXY to draw quality score boxplots for 5500xl data and am interested in seeing examples of such boxplots from other users for good / intermediate / bad sequencing runs. Can anybody share? Thanks, Pieter W. Faber, PhD University of Chicago Genomics C