[galaxy-dev] Troubleshooting file uploads (to Data Library)
Hi, I am having trouble uploading files to a Data Library, and I'm not sure where to begin troubleshooting. I'm uploading from a URL (but I had a similar issue from the desktop). The symptom is that the datasets in the library have the message This job is queued and never seem to progress. I am one of very few users of this instance (quite likely the only user right this moment). I don't think the server is busy, so I'm not sure why the files uploads don't seem to be proceeding. How can I investigate further? Thanks, Clare -- Clare Sloggett Research Fellow / Bioinformatician Life Sciences Computation Centre Victorian Life Sciences Computation Initiative University of Melbourne, Parkville Campus 187 Grattan Street, Carlton, Melbourne Victoria 3010, Australia Ph: 03 903 53357 M: 0414 854 759 ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] Troubleshooting file uploads (to Data Library)
Sorry, missed some information: there are a handful of files, 35MB (gzipped) each. The issue occurs even if I only try to upload one of them though. The server is a 16-core machine. On 21 August 2013 17:08, Clare Sloggett s...@unimelb.edu.au wrote: Hi, I am having trouble uploading files to a Data Library, and I'm not sure where to begin troubleshooting. I'm uploading from a URL (but I had a similar issue from the desktop). The symptom is that the datasets in the library have the message This job is queued and never seem to progress. I am one of very few users of this instance (quite likely the only user right this moment). I don't think the server is busy, so I'm not sure why the files uploads don't seem to be proceeding. How can I investigate further? Thanks, Clare -- Clare Sloggett Research Fellow / Bioinformatician Life Sciences Computation Centre Victorian Life Sciences Computation Initiative University of Melbourne, Parkville Campus 187 Grattan Street, Carlton, Melbourne Victoria 3010, Australia Ph: 03 903 53357 M: 0414 854 759 -- Clare Sloggett Research Fellow / Bioinformatician Life Sciences Computation Centre Victorian Life Sciences Computation Initiative University of Melbourne, Parkville Campus 187 Grattan Street, Carlton, Melbourne Victoria 3010, Australia Ph: 03 903 53357 M: 0414 854 759 ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] Troubleshooting file uploads (to Data Library)
Hi Clare a few points to start: - do you define the 'File Format'? (don't use 'Auto-detect' for big files) - and similar to a recent question on the list: check your proxy settings Regards, Hans-Rudof On 08/21/2013 09:09 AM, Clare Sloggett wrote: Sorry, missed some information: there are a handful of files, 35MB (gzipped) each. The issue occurs even if I only try to upload one of them though. The server is a 16-core machine. On 21 August 2013 17:08, Clare Sloggett s...@unimelb.edu.au mailto:s...@unimelb.edu.au wrote: Hi, I am having trouble uploading files to a Data Library, and I'm not sure where to begin troubleshooting. I'm uploading from a URL (but I had a similar issue from the desktop). The symptom is that the datasets in the library have the message This job is queued and never seem to progress. I am one of very few users of this instance (quite likely the only user right this moment). I don't think the server is busy, so I'm not sure why the files uploads don't seem to be proceeding. How can I investigate further? Thanks, Clare -- Clare Sloggett Research Fellow / Bioinformatician Life Sciences Computation Centre Victorian Life Sciences Computation Initiative University of Melbourne, Parkville Campus 187 Grattan Street, Carlton, Melbourne Victoria 3010, Australia Ph: 03 903 53357 M: 0414 854 759 -- Clare Sloggett Research Fellow / Bioinformatician Life Sciences Computation Centre Victorian Life Sciences Computation Initiative University of Melbourne, Parkville Campus 187 Grattan Street, Carlton, Melbourne Victoria 3010, Australia Ph: 03 903 53357 M: 0414 854 759 ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/ ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
Re: [galaxy-dev] Troubleshooting file uploads (to Data Library)
Hi Hans and all, The issue turned out to be a more general one with our job runners (it was also stopping non-data-transfer jobs running, if I'd noticed). Yep, I do specify file format when uploading. Thanks for your help! Clare On 21 August 2013 17:38, Hans-Rudolf Hotz h...@fmi.ch wrote: Hi Clare a few points to start: - do you define the 'File Format'? (don't use 'Auto-detect' for big files) - and similar to a recent question on the list: check your proxy settings Regards, Hans-Rudof On 08/21/2013 09:09 AM, Clare Sloggett wrote: Sorry, missed some information: there are a handful of files, 35MB (gzipped) each. The issue occurs even if I only try to upload one of them though. The server is a 16-core machine. On 21 August 2013 17:08, Clare Sloggett s...@unimelb.edu.au mailto:s...@unimelb.edu.au wrote: Hi, I am having trouble uploading files to a Data Library, and I'm not sure where to begin troubleshooting. I'm uploading from a URL (but I had a similar issue from the desktop). The symptom is that the datasets in the library have the message This job is queued and never seem to progress. I am one of very few users of this instance (quite likely the only user right this moment). I don't think the server is busy, so I'm not sure why the files uploads don't seem to be proceeding. How can I investigate further? Thanks, Clare -- Clare Sloggett Research Fellow / Bioinformatician Life Sciences Computation Centre Victorian Life Sciences Computation Initiative University of Melbourne, Parkville Campus 187 Grattan Street, Carlton, Melbourne Victoria 3010, Australia Ph: 03 903 53357 M: 0414 854 759 -- Clare Sloggett Research Fellow / Bioinformatician Life Sciences Computation Centre Victorian Life Sciences Computation Initiative University of Melbourne, Parkville Campus 187 Grattan Street, Carlton, Melbourne Victoria 3010, Australia Ph: 03 903 53357 M: 0414 854 759 __**_ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/**search/mailinglists/http://galaxyproject.org/search/mailinglists/ -- Clare Sloggett Research Fellow / Bioinformatician Life Sciences Computation Centre Victorian Life Sciences Computation Initiative University of Melbourne, Parkville Campus 187 Grattan Street, Carlton, Melbourne Victoria 3010, Australia Ph: 03 903 53357 M: 0414 854 759 ___ Please keep all replies on the list by using reply all in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
