I observe the same thing on 16.07. As an example, I'm just opened a data library under Admin->Data->Data Libraries and this took about a minute and a half. It looks like this is related to the quantity of data in this folder. The associated entry in the uwsgi log is as follows: [pid: 357|app: 0|req: 2059/5647] 10.1.6.77 () {44 vars in 1220 bytes} [Thu Mar 2 08:40:19 2017] GET /library_common/browse_library?sort=name&f-description=All&f-name=All&f-deleted=False&cntrller=library_admin&operation=browse&id=355326571f7132ff => generated 21761790 bytes in 108644 msecs (HTTP/1.1 200) 2 headers in 73 bytes (14 switches on core 2) So this library is causing ~21 megs of data to be returned to the browser, which I presume is the source of the issue. As an aside, the old data library API is still in use in the admin section until at least 16.07. Perhaps this has been changed since then, I hadn't planed to update our system until the end of the month. For what it's worth, opening the same library via "shared data" takes ~100 msec. Devon -- Devon Ryan, Ph.D. Email: dpryan@dpryan.com Data Manager/Bioinformatician Max Planck Institute of Immunobiology and Epigenetics Stübeweg 51 79108 Freiburg Germany On Thu, Mar 2, 2017 at 8:30 AM, Hans-Rudolf Hotz <hrh@fmi.ch> wrote:
this sounds more like a browser issue to me which browser do you use? what happens when you use a different browser? and what happens when you just reload the page
Hans-Rudolf
On 03/01/2017 06:17 PM, D K wrote:
Actually, when I click on the Shared Data-> Data Libraries link I get only the Galaxy banner and a blank page, so I'm not even seeing the data libraries themselves.
If I use the Admin link and then click Data libraries, I can see the actual libraries. But when I try to enter one of the libraries with lots of files it hangs.
On Wed, Mar 1, 2017 at 9:03 AM, D K <danielfortin86@gmail.com <mailto:danielfortin86@gmail.com>> wrote:
Hi Hans,
I'm running 16.10. If I'm not mistaken, the old Data Library interface is still accessible in the Admin menu isn't it? I have the same issue when navigating to a Data Library either from the Admin or Shared Data links. I also tried this in 16.07 with the same result. If it makes a difference, I'm using PostgreSQL and Apache.
Dwight
On Tue, Feb 28, 2017 at 11:47 PM, Hans-Rudolf Hotz <hrh@fmi.ch <mailto:hrh@fmi.ch>> wrote:
Hi Daniel
Just double checking which version of galaxy are you running? In other words: are you still using the old Data Library interface? (if I remember correctly, the old UI was deprecated in 15.10) We had similar issues with the old UI.
The new one works fine and is very fast. E.g. we have a 'MISEQ' folder with more than 100 sub folders and a HISEQ folder with more than 600 sub folders. Each containing up to 100plus fastq and text files.
Regards, Hans-Rudolf
On 03/01/2017 12:13 AM, D K wrote:
Hi,
I've noticed that the more files / folders (think hundreds of folders each with 20+ fastq files) I add to a Shared Data Library, the longer and longer it takes to initially navigate the folder structure (after clicking on the specific Shared Data Library). Just opening up the Shared Data Library can take several minutes and often the browser times out. Is there a way to speed this up?
If it's relevant, when I add shared data, it's linked rather than copied into Galaxy. Any suggestions would be greatly appreciated
Thanks!
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