> Subject: Re: [galaxy-dev] Problem with get data/uploading file
> From: nate@bx.psu.edu
> Date: Wed, 8 Aug 2012 10:08:41 -0400
> CC: galaxy-dev@lists.bx.psu.edu
> To: david_roquis@hotmail.com
>
> Hi David,
>
> We found while creating our VMs for the GCC Training Day that browsers within the VM (Ubuntu 12.04) were not able to consistently upload using the AJAX/Hidden iframe method that Galaxy uses by default. I'm investigating the problem. Are you able to upload using Firefox/Chrome/Safari on other OS's, or is the problem specific to Fedora?
>
> --nate
>
> On Aug 1, 2012, at 9:33 AM, David Roquis wrote:
>
> > Hello again,
> >
> > I've read on the mailing list that some galaxy users are facing the same problem as I do, and that it seems to be related to the internet browser. Indeed, I noticed that I have no problem uploading data while using IE 8 or 9, but that it almost never works with Firefox, Chrome or Safari. I also noticed that when it doesn't work, the script upload.py is not launched at all. Could it be a javascript bug?
> >
> > Thanks again for possible help
> >
> > David
> >
> >
> > From: david_roquis@hotmail.com
> > To: galaxy-dev@lists.bx.psu.edu
> > Date: Mon, 16 Jul 2012 09:50:34 -0400
> > Subject: [galaxy-dev] Problem with get data/uploading file
> >
> > Dear Galaxy community,
> >
> > I have a problem with uploading data on Galaxy, using the get data/upload file tool, and I can't figure out where the trouble comes from.
> >
> > Basically, when I try to upload files (size ranging from less than 1 Mo up to 600 Mo), sometimes it works, sometimes it doesn't (keep uploading forever), and I don't get any error message when it doesn't work. I can't find a pattern on when it works or not, it seems pretty random. It don't think it is related to the files I use, because I tried with different files, of different types and format, and the exact same file can sometimes be uploaded, sometimes not. One thing I have noticed is that when the upload is successful, a file is created in /tmp/, and when the upload runs forever, no new file appears in /tmp/.
> >
> > I have tried a couple of basic things to solve the problem: emptying the /tmp/, restarting galaxy, deleting permanently my history, etc. Sometimes I can upload 4-5 files in a row, then it stops working, and some other time I can't even upload one. When one upload keep running forever, even if I cancel it, no further uploads will work. I have to stop the uploads and restart galaxy, but it doesn't work 100% of the time (sometimes I have to try 2-3 times before I can upload again).
> >
> > I am facing this problem on two different instances of galaxy. A development one that I simply installed on my /home/ using mercurial and didn't modified at all, and a production one that I just set up following the Galaxy Team recommendations (using PostgreSQL and nginx with the upload module, and working on a dedicated Galaxy user account). I am a beginner in informatics, and since I get no error message, I don't know where to look for a way to solve this annoying problem.
> >
> > Uploading files using data libraries under the admin menu seems to be working perfectly all the time.
> >
> > Thank you very much for your help and advice.
> >
> > Sincerely
> >
> > David Roquis
> > Ph.D. student
> > University of Perpignan
> >
> >
> > additional info:
> > - I am using the latest version of galaxy, and my OS is Fedora 16
> > - I tried working with and without virtualenv (made no difference).
> > - I don't know if this is related or not, but it seems quite strange to me. Whenever I try to access "manage jobs" in the admin section (on both instances), I get the following error message: "This Galaxy instance is not the job manager. If using multiple servers, please directly access the job manager instance to manage jobs." How is that possible since I am not using multiple servers (especially for the development instance, which I haven't modified at all)?
> > - debug = False is causing me a server error in the history frame (so I use True instead).
> >
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