On Mon, May 9, 2011 at 3:30 PM, Nate Coraor <n...@bx.psu.edu> wrote:
> Matthew Conte wrote:
> > Good afternoon,
> > I'm having several problems with my local galaxy install which may or may
> > not be related to one another.
> > The first problem I'm having is with the "Display data in browser"
> > Some files type formats (fastqsanger, fasta) display fine. However,
> > file type formats (png, svg, txt) simply do not display at all. I have
> > debugging turned on, but do not see any error within the browser or
> > the galaxy log or web server log after clicking the "Display data in
> > browser" eyeball icon. It is simply a blank middle panel.
> > The next problem I'm having has to do with downloading files. Firefox
> > Safari will download any file from a history, but will just create an
> > file on the client. Again, neither log file show an error with a clue to
> > the problem. Chrome will download some files, but other files give me an
> > error and won't download:
> > *This webpage is not available*
> > *
> > *
> > *error 100 (net::ERR_CONNECTION_CLOSED): The server unexpectedly closed
> > connection.*
> > In this case, I don't see anything in the log files either.
> Hi Matt,
> Are you using the sendfile/x-accel-redirect configurations of
> Apache/nginx? Are all of these issues the same if you connect directly
> to Galaxy's built-in webserver instead of through a proxy server?
Yep, I'm using mod_xsendfile-0.12 for apache and x-accel-redirect for nginx,
but both webservers are showing the same problems. If I use Galaxy's
built-in webserver, I don't have the above problems, so the problem is
probably related to the proxy server. I just can't seem to pinpoint the
> > Finally, I'm also having a problem logging in from the main welcome page.
> > It seems to authenticate fine (I get an error when I put in the wrong
> > password and don't when I put in the correct password), but it doesn't
> > actually log me in and just takes me back to the main welcome page.
> > For this problem, I do get an error in the galaxy log:
> > *Exception happened during processing of request
> > from---------------------------------------- *
> > * self.wfile.flush()*
> > * File "/raid/galaxy_user/lib/python2.6/socket.py", line 297, in flush*
> > * self._sock.sendall(buffer(data, write_offset, buffer_size))*
> > *error: [Errno 32] Broken pipe*
> I see this occasionally on python 2.6, and it's usually just a harmless
> intentional interrupted connection. As above, can you test login via
> the welcome page without the use of the proxy server and report back
> whether there's any difference?
This also works normal with the built-in webserver but not as a proxy
> > I am able to log in via other routes, such as going to "Options->Saved
> > Histories" which brings up an error "You must be logged in" to work with
> > multiple histories and links to /galaxy/user/login?webapp=galaxy and from
> > there I can log in fine. This happens with both admin and normal users.
> > is not a huge problem since I have a work around, but it would be nice to
> > figure out the problem so I don't have to make my users do the same.
> > I should mention that I'm running galaxy-dist changeset 50e249442c5a on
> > CentOS. The problems seem to be web server independent too as they appear
> > with both Apache and Nginx. I've used the following instructions, but I'm
> > just not seeing where the problem(s) is/are:
> > https://bitbucket.org/galaxy/galaxy-central/wiki/Config/ProductionServer
> > https://bitbucket.org/galaxy/galaxy-central/wiki/Config/ApacheProxy
> > https://bitbucket.org/galaxy/galaxy-central/wiki/Config/nginxProxy
> > Thanks,
> > Matt
> > --
> > Matthew Conte
> > Bioinformatics Scientist
> > Department of Biology
> > University of Maryland
> > mco...@umd.edu
> > ___________________________________________________________
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