Hi,
I'm also experiencing what I think is the same problem after upgrading to v18.05 (from 17.09). Some more info on this:
In my case I've tried this with and without the proxy (Apache) and using either uWSGI or Paste as http servers and this changes nothing.
I have 2 servers and in one of them the upload works perfectly fine after the upgrade to v18.05. here are barely any differences in the framework code (just a few custom changes for the private instance) and it also works with Apache as proxy so I really don't understand where is the error coming from.
If i try to upload a file to a data library from a path in the server then it works ok.
I get the same error as Hans-Georg Somme in the upload -> Warning: Internal Server Error (500)
The error I get in the logs is:
galaxy.web.framework.decorators ERROR 2018-06-06 15:17:40,976 [p:17537,w:1,m:0] [uWSGIWorker1Core3] Uncaught exception in exposed API method:
Traceback (most recent call last):
File "lib/galaxy/web/framework/decorators.py", line 154, in decorator
rval = func(self, trans, *args, **kwargs)
File "lib/galaxy/webapps/galaxy/api/uploads.py", line 43, in create
chunk_size = os.fstat(session_chunk.file.fileno()).st_size
AttributeError: 'cStringIO.StringO' object has no attribute 'fileno'
Hope this clarifies a bit.
Ignacio
From: "Hans-Georg Sommer" <hans-georg.sommer@gwdg.de>
To: "galaxy-dev" <galaxy-dev@lists.galaxyproject.org>
Sent: Wednesday, June 6, 2018 11:13:40 AM
Subject: [galaxy-dev] Uploads via Nginx proxy fail after upgrade to current release
Hi,
after updating Galaxy to 18.05 (from 17.05) the file upload doesn't work
anymore, but shows an Internal Server Error (500) in the status column
of the upload form.
We use a nginx proxy also for uploads, configured as described in [1],
galaxy.ini contains the line 'nginx_upload_path = /_upload'.
The nginx access logs show, that the upload requests seem to go to the
wrong location ('/api/uploads' instead of '/_upload'):
0.0.0.0 - - [06/Jun/2018:10:44:43 +0200] "POST /api/uploads HTTP/1.1"
500 193 "https://galaxy.gwdg.de/"
I searched the release notes and the github issues, but wasn't able to
find anything besides [2], which sounds similar but does not give much
information.
Thanks for your help,
Hans-Georg
[1] https://docs.galaxyproject.org/en/latest/admin/nginx.html
[2] https://biostar.usegalaxy.org/p/25870/
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