Re: [galaxy-user] Job is waiting to run
Hello Yan, These files are technically under the size allowed through browser uploaded, however since you are experiencing issues, I would suggested switching to FTP. Instructions are in this wiki: http://wiki.g2.bx.psu.edu/FTPUpload This will allow you to track progress, restart an interrupted load (network connection issue), and confirm the complete, successful transfer of your data. Best, Jen Galaxy team On 8/7/12 5:12 AM, Yan He wrote: Dear Sir/Madam, I am a registered user of the public Galaxy Server (main). I was trying to upload two files (one is 1.6G and the other is 1.9G) but it was labeled as "Job is waiting to run" forever. Could you please let me know the possible reasons? Sincerely, Yan ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ -- Jennifer Jackson http://galaxyproject.org ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-user] "job is waiting to run" forever
I brought up this issue previously, I guess Galaxy team please look into it your user base is expending the jobs never get fisnished. Fisrt problem of data uplaod and then running jobs. I never had problem but having lot of problem sfrom last 3-4 months so started using other tools too. Thanks On Mon, Jul 9, 2012 at 1:17 AM, Yehoshua Enuka wrote: > Dear Sir/Madam, > > I am a registered user of the public Galaxy Server (main). Any job I > submitted today is labeled as "Job is waiting to run" forever. Could you > please let me know the > possible reasons? > > Sincerely, > > Enuka > > ___ > The Galaxy User list should be used for the discussion of > Galaxy analysis and other features on the public server > at usegalaxy.org. Please keep all replies on the list by > using "reply all" in your mail client. For discussion of > local Galaxy instances and the Galaxy source code, please > use the Galaxy Development list: > > http://lists.bx.psu.edu/listinfo/galaxy-dev > > To manage your subscriptions to this and other Galaxy lists, > please use the interface at: > > http://lists.bx.psu.edu/ > ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-user] "job is waiting to run" forever
Hello Eunuka, A job that is "grey" in color means that it is queued. A job that is "yellow" is running - and actual run time can vary. Generally, jobs will begin to run (move from grey to yellow) within a short time period or if the public instance is very busy, within 24hrs. I found three jobs that appear to be yours in the job queue, which means that they are in line to be run (the account is from a slightly different email address). It is important that these are left queued and not restarted, or your jobs will be moved back to the end of the queue. If your work is urgent, a local or cloud instance is recommended: http://getgalaxy.org Best, Jen Galaxy team On 7/9/12 1:17 AM, Yehoshua Enuka wrote: Dear Sir/Madam, I am a registered user of the public Galaxy Server (main). Any job I submitted today is labeled as "Job is waiting to run" forever. Could you please let me know the possible reasons? Sincerely, Enuka ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ -- Jennifer Jackson http://galaxyproject.org ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-user] Job is waiting to run for two days..
On Jun 25, 2012, at 1:53 PM, Shanshan Pang wrote: > Hi, I am in the step "map with bowtie" with a status of JOB IS WAITING TO RUN > for two days. I tried to re-run it, but did not work. So any suggestions on > it? > Thanks! Hi Shanshan, The cluster used to run mapping and other NGS tools is very busy right now. Canceling and rerunning your job moves it to the bottom of the queue, so I would not suggest doing that. If your work is urgent, a cloud instance is the recommended alternative for large NGS jobs: http://getgalaxy.org/cloud --nate > > Shanshan > ___ > The Galaxy User list should be used for the discussion of > Galaxy analysis and other features on the public server > at usegalaxy.org. Please keep all replies on the list by > using "reply all" in your mail client. For discussion of > local Galaxy instances and the Galaxy source code, please > use the Galaxy Development list: > > http://lists.bx.psu.edu/listinfo/galaxy-dev > > To manage your subscriptions to this and other Galaxy lists, > please use the interface at: > > http://lists.bx.psu.edu/ ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
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 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 advice? ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ -- Jennifer Jackson http://galaxyproject.org ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-user] "Job is waiting to run"
Hi Shisheng and Mónica, I see that jobs weren't dispatching on Galaxy Main, and have gotten them moving again. It'll take a bit to run through the backlog. Sorry for the inconvenience, and thanks for using Galaxy. --nate On Mar 22, 2012, at 5:30 AM, Mónica Pérez Alegre wrote: > Hi Shisheng > > My partner and me have the same problem since yesterday. > > We would be very grateful for any help. > > regards > > -Mensaje original- > De: galaxy-user-boun...@lists.bx.psu.edu > [mailto:galaxy-user-boun...@lists.bx.psu.edu] En nombre de Shisheng Li > Enviado el: miércoles, 21 de marzo de 2012 20:30 > Para: galaxy-user@lists.bx.psu.edu > Asunto: [galaxy-user] "Job is waiting to run" > > Dear Sir/Madam, > > I am a registered user of the public Galaxy Server (main). Any job I > submitted today is labeled as "Job is waiting to run" forever. The total > volume of my files is 249 mb, which is far below the quota limit of 250 gb, > and I am trying to run less than 8 jobs. Could you please let me know the > possible reasons? > > Sincerely, > > Shisheng > > > > ___ > The Galaxy User list should be used for the discussion of > Galaxy analysis and other features on the public server > at usegalaxy.org. Please keep all replies on the list by > using "reply all" in your mail client. For discussion of > local Galaxy instances and the Galaxy source code, please > use the Galaxy Development list: > > http://lists.bx.psu.edu/listinfo/galaxy-dev > > To manage your subscriptions to this and other Galaxy lists, > please use the interface at: > > http://lists.bx.psu.edu/ > > ___ > The Galaxy User list should be used for the discussion of > Galaxy analysis and other features on the public server > at usegalaxy.org. Please keep all replies on the list by > using "reply all" in your mail client. For discussion of > local Galaxy instances and the Galaxy source code, please > use the Galaxy Development list: > > http://lists.bx.psu.edu/listinfo/galaxy-dev > > To manage your subscriptions to this and other Galaxy lists, > please use the interface at: > > http://lists.bx.psu.edu/ > ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
Re: [galaxy-user] "Job is waiting to run"
Hi Shisheng My partner and me have the same problem since yesterday. We would be very grateful for any help. regards -Mensaje original- De: galaxy-user-boun...@lists.bx.psu.edu [mailto:galaxy-user-boun...@lists.bx.psu.edu] En nombre de Shisheng Li Enviado el: miércoles, 21 de marzo de 2012 20:30 Para: galaxy-user@lists.bx.psu.edu Asunto: [galaxy-user] "Job is waiting to run" Dear Sir/Madam, I am a registered user of the public Galaxy Server (main). Any job I submitted today is labeled as "Job is waiting to run" forever. The total volume of my files is 249 mb, which is far below the quota limit of 250 gb, and I am trying to run less than 8 jobs. Could you please let me know the possible reasons? Sincerely, Shisheng ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public server at usegalaxy.org. Please keep all replies on the list by using "reply all" in your mail client. For discussion of local Galaxy instances and the Galaxy source code, please use the Galaxy Development list: http://lists.bx.psu.edu/listinfo/galaxy-dev To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
