[ome-users] OMERO.web not starting

Tue Jul 5 22:42:59 BST 2011

We are using Python 2.4

Here is the path info:
PATH=/usr/lib64/qt-3.3/bin:/usr/kerberos/bin:/usr/local/bin:/bin:/usr/bin:/usr/lib64/python2.3/site-packages/Ice/:/home/omerouser/bin
PYTHONPATH=:/usr/lib64/python2.3/site-packages/Ice/:/OMERO/OMERO.server/lib/python

(I am not sure why this points to python 2.3)
Chris
From: Aleksandra Tarkowska [mailto:aleksandrat at lifesci.dundee.ac.uk]
Sent: Tuesday, July 05, 2011 4:04 PM
To: Wood, Christopher
Cc: ome-users at lists.openmicroscopy.org.uk
Subject: Re: [ome-users] OMERO.web not starting

Hi Chris

According to the docs (https://docs.djangoproject.com/en/1.1/intro/install/) Python 2.5 or later includes a py-sqlite database drivers.

Could you please give your PYTHONPATH?
I got an impression you are using python 2.3

Environment:PATH=/usr/lib64/qt-3.3/bin:/usr/kerberos/bin:/usr/local/bin:/bin:/usr/bin:/usr/lib64/python2.3/site-packages/Ice/:/home/omerouser/bin

Chris could you please confirm it with me?

Thanks
Ola

On 5 Jul 2011, at 20:54, Will Moore wrote:

Hi Ola, Chris,

The same issue has been reported on our forums...
http://www.openmicroscopy.org/community/viewtopic.php?f=5&t=735&sid=224d4bf2d40c3af6c8583187bb06c6f6&p=2674

 Will.

On 5 Jul 2011, at 17:15, Wood, Christopher wrote:

It could also be an issue with the PYTHONPATH, we are checking on that also.
Thanks
Chris

-----Original Message-----
From: Aleksandra Tarkowska [mailto:aleksandrat at lifesci.dundee.ac.uk]
Sent: Tuesday, July 05, 2011 11:09 AM
To: Wood, Christopher
Subject: Re: [ome-users] OMERO.web not starting

Dear Chris

I am glade it works. That is interesting. Definitely web does not use py-sqlite2 at all. There is DATABASE_ENGINE = 'sqlite3' set up because of unitetests, but I have never noticed any issues with that. I will look at that closer.

Thank you very much for you feedback.

Thanks
Ola

On 5 Jul 2011, at 16:59, Wood, Christopher wrote:

Hi Ola,

We have it working now. The devel web server required us to upgrade to py-sqlite2. After this upgrade, the apache/fastcgi omero.web works. Does OMERO.web/django require py-sqlite2? I couldn't find it in the documentation if that is the case.

Thanks for your help.
Chris

-----Original Message-----
From: Aleksandra Tarkowska [mailto:aleksandrat at lifesci.dundee.ac.uk]
Sent: Tuesday, July 05, 2011 2:17 AM
To: Wood, Christopher
Subject: Re: [ome-users] OMERO.web not starting

Hi Chris

Sorry about delay in answer to you.
Based on the diagnostics information

            OMERO.web status... [NOT STARTED]

web hasn't started, obviously apache cant find preforked server then (omero.fcgi file does not exist).

1) Double check if there are no processes run behind

Please run 'ps auxwf' and check if you see anything like this:

omero     9991  0.0  0.2  99836 36040 ?        S    07:54   0:00 python manage.py runfcgi workdir=./ method=prefork host=0.0.0.0 port=4080 pidfile=/home/omero/OMERO.server-4
omero     9992  0.0  0.2  99836 35524 ?        S    07:54   0:00  \_ python manage.py runfcgi workdir=./ method=prefork host=0.0.0.0 port=4080 pidfile=/home/omero/OMERO.serv
omero     9993  0.0  0.2  99836 35524 ?        S    07:54   0:00  \_ python manage.py runfcgi workdir=./ method=prefork host=0.0.0.0 port=4080 pidfile=/home/omero/OMERO.serv
omero     9994  0.0  0.2  99836 35524 ?        S    07:54   0:00  \_ python manage.py runfcgi workdir=./ method=prefork host=0.0.0.0 port=4080 pidfile=/home/omero/OMERO.serv
omero     9995  0.0  0.2  99836 35524 ?        S    07:54   0:00  \_ python manage.py runfcgi workdir=./ method=prefork host=0.0.0.0 port=4080 pidfile=/home/omero/OMERO.serv
omero     9996  0.0  0.2  99836 35524 ?        S    07:54   0:00  \_ python manage.py runfcgi workdir=./ method=prefork host=0.0.0.0 port=4080 pidfile=/home/omero/OMERO.serv

If so, please kill the main one (in this case 9991) then try to start web again. Killing the main process should automatically destroy the workers.

If this is not the issue lets try something else.
2) Running webclient by hand with the development server.

cd /OMERO/OMERO.server-Beta-4.3.0/lib/python/omeroweb
PYTHONPATH=$PYTHONPATH: /OMERO/OMERO.server-Beta-4.3.0/lib/python/
python manage.py runserver 0.0.0.0:8000

If there is any issue with the application you will immediately see it on the output. Please send me the errors I will try to help with them then.

Once server started successfully you should see:

            Validating models...
            0 errors found

            Django version 1.1.1, using settings 'omeroweb.settings'
            Development server is running at http://0.0.0.0:8000/
            Quit the server with CONTROL-C.

Now, you can go to http://your_domain:8000/webadmin and you should see the login page.

Let me know how this was going. I hope the problem would be solved.

Thanks
Ola

On 2 Jul 2011, at 16:13, Wood, Christopher wrote:

Hi Ola,

Everything is attached in the gzipped tar file.

Thanks
Chris
________________________________________
From: Aleksandra Tarkowska [aleksandrat at lifesci.dundee.ac.uk]
Sent: Saturday, July 02, 2011 12:39 AM
To: Wood, Christopher
Cc: ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>
Subject: Re: [ome-users] OMERO.web not starting

Hi Chris

Could you please send me the output from:

bin/omero config get (this is stored in omero/etc/grid/config.xml)
bin/omero diagnostics

apache and nginx config supporting OMERO.

Thanks
Ola

On 1 Jul 2011, at 20:58, "Wood, Christopher" <CJW at stowers.org<mailto:CJW at stowers.org>> wrote:

Hi,
We upgraded our server today to 4.3. OMERO.web is not starting (it worked for 4.2.2).

the error.log from apache is listed below:

[Fri Jul 01 14:06:35 2011] [error] [client 10.2.20.65]
(111)Connection
refused: FastCGI: failed to connect to server "/OMERO/OMERO.server-Beta-4.3.0/var/omero.fcgi": connect() failed [Fri Jul 01 14:06:35 2011] [error] [client 10.2.20.65] FastCGI: incomplete headers (0 bytes) received from server "/OMERO/OMERO.server-Beta-4.3.0/var/omero.fcgi"

We don't receive any error on bin/omero web  start or in the OMERO.web log files.

linux (centos),  apache httpd, mod_ fastcgi python 2.4, postgres 8.4

I tried this on my VM and have the same problems.

Any ideas?

Thanks
Chris
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William Moore
Wellcome Trust Centre for Gene Regulation & Expression
College of Life Sciences
MSI/WTB/JBC Complex
University of Dundee
Dow Street
Dundee  DD1 5EH
United Kingdom

Phone 01382 386364
http://openmicroscopy.org

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