[ome-users] help
frank.dullweber at boehringer-ingelheim.com
frank.dullweber at boehringer-ingelheim.com
Tue Sep 30 18:57:22 BST 2014
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Subject: ome-users Digest, Vol 114, Issue 37
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Today's Topics:
1. Re: OMERO.web installation under Ubuntu 14 (Simon Li)
2. Re: Problem with 5.0.5 (Simon Li)
----------------------------------------------------------------------
Message: 1
Date: Tue, 30 Sep 2014 13:26:10 +0000
From: Simon Li <s.p.li at dundee.ac.uk>
To: "unai_lorenzo at ehu.es" <unai_lorenzo at ehu.es>
Cc: "ome-users at lists.openmicroscopy.org.uk"
<ome-users at lists.openmicroscopy.org.uk>
Subject: Re: [ome-users] OMERO.web installation under Ubuntu 14
Message-ID: <D0506CF7.68EE%spli at dundee.ac.uk>
Content-Type: text/plain; charset="utf-8"
Hi Unai
Could you try unsetting all of your omero.web.* configuration options,
regenerate your nginx or apache configuration files, restart OMERO and
OMERO.web, and seeing if that works?
Thanks
Simon
On 30/09/2014 08:34, "unai_lorenzo at ehu.es" <unai_lorenzo at ehu.es> wrote:
>Dear Simon,
>
>I'm using nginx/apache.
>I've also tried to access OMERO.web on the ports you suggested but it
>didn't work either.
>This is the output of `bin/omero config get':
>
>omero.data.dir=/home/jribecarios/OMERO
>omero.db.name=omero_database
>omero.db.pass=db_password
>omero.db.user=db_user
>omero.web.application_server=fastcgi
>omero.web.application_server.host=localhost
>omero.web.application_server.port=4080
>omero.web.force_script_name=/omero
>omero.web.static_url=/omero/static/
>jribecarios at jribecarios:~/omero/OMERO.server-5.0.4-ice35-b43$
>
>
>I hope it helps.
>
>Many thanks,
>Unai
>
>
>Simon Li <s.p.li at dundee.ac.uk> escribi?:
>
>> Hi Unai
>>
>> Are you using the development web server, or nginx/apache? If it?s the
>> latter then OMERO.web should be accessible on either port 80 or 8080
>> depending on your configuration, port 4080 is used for internal
>> communication.
>>
>> If this doesn?t solve your problem could you paste the output of
>> `bin/omero config get`?
>>
>> Thanks
>>
>> Simon
>>
>> On 29/09/2014 16:58, "unai_lorenzo at ehu.es" <unai_lorenzo at ehu.es> wrote:
>>
>>> Dear OME users,
>>>
>>> I am trying to install OMERO.web under Ubuntu 14. I've been following
>>> all the instructions included in the web page, and everything seems to
>>> be OK: I could start the server, and the OMERO.web client.
>>>
>>> $ bin/omero web start
>>>
>>> 0 static files copied, 816 unmodified.
>>> Starting OMERO.web... [OK]
>>>
>>>
>>> But I can't access OMERO.webadmin on the following address
>>> http://localhost:4080.
>>>
>>> Any guess about what's wrong? Could it be the something related to the
>>> the firewall and the TCP ports?
>>>
>>>
>>> Here you will find the diagnostics:
>>>
>>>
>>>========================================================================
>>>==
>>> ======
>>> OMERO Diagnostics 5.0.4-ice35-b43
>>>
>>>========================================================================
>>>==
>>> ======
>>>
>>> WARNING:omero.util.UpgradeCheck:UPGRADE AVAILABLE:Please upgrade to
>>> 5.0.5 See http://trac.openmicroscopy.org.uk/omero for the latest
>>>version
>>>
>>> Commands: java -version 1.7.0 (/usr/bin/java)
>>> Commands: python -V 2.7.6 (/usr/bin/python)
>>> Commands: icegridnode --version 3.5.1
>>> (/usr/bin/icegridnode)
>>> Commands: icegridadmin --version 3.5.1
>>> (/usr/bin/icegridadmin)
>>> Commands: psql --version 9.3.5 (/usr/bin/psql)
>>>
>>> Server: icegridnode running
>>> Server: Blitz-0 active (pid = 4371, enabled)
>>> Server: DropBox active (pid = 4403, enabled)
>>> Server: FileServer active (pid = 4404, enabled)
>>> Server: Indexer-0 active (pid = 4383, enabled)
>>> Server: MonitorServer active (pid = 4387, enabled)
>>> Server: OMERO.Glacier2 active (pid = 4394, enabled)
>>> Server: OMERO.IceStorm active (pid = 4420, enabled)
>>> Server: PixelData-0 active (pid = 4410, enabled)
>>> Server: Processor-0 active (pid = 4416, enabled)
>>> Server: Tables-0 active (pid = 4412, enabled)
>>> Server: TestDropBox inactive (enabled)
>>>
>>> OMERO: SSL port 4064
>>> OMERO: TCP port 4063
>>>
>>> Log dir:
>>> /home/jribecarios/omero/OMERO.server-5.0.4-ice35-b43/var/log exists
>>>
>>> Log files: Blitz-0.log 672.0 KB errors=12
>>> warnings=6
>>> Log files: DropBox.log 3.0 KB errors=0
>>> warnings=1
>>> Log files: FileServer.log 0.0 KB
>>> Log files: Indexer-0.log 21.0 KB errors=13
>>> warnings=0
>>> Log files: MonitorServer.log 2.0 KB
>>> Log files: OMEROweb.log 0.0 KB
>>> Log files: OMEROweb_request.log 0.0 KB
>>> Log files: PixelData-0.log 25.0 KB errors=18
>>> warnings=1
>>> Log files: Processor-0.log 2.0 KB errors=0
>>> warnings=1
>>> Log files: Tables-0.log 2.0 KB
>>> Log files: TestDropBox.log n/a
>>> Log files: master.err 2.0 KB errors=0
>>> warnings=4
>>> Log files: master.out 0.0 KB
>>> Log files: Total size 0.73 MB
>>>
>>>
>>> Environment:OMERO_HOME=(unset)
>>> Environment:OMERO_NODE=(unset)
>>> Environment:OMERO_MASTER=(unset)
>>> Environment:OMERO_TEMPDIR=(unset)
>>>
>>>Environment:PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin
>>>:/
>>> bin:/usr/games:/usr/local/games
>>> Environment:PYTHONPATH=(unset)
>>> Environment:ICE_HOME=(unset)
>>> Environment:LD_LIBRARY_PATH=(unset)
>>> Environment:DYLD_LIBRARY_PATH=(unset)
>>>
>>> OMERO data dir: '/home/jribecarios/OMERO'Exists? TrueIs writable? True
>>> OMERO temp dir: '/home/jribecarios/omero/tmp'Exists? TrueIs
>>> writable? True (Size: 0)
>>> OMERO.web status... [RUNNING] (PID 11366)
>>>
>>>
>>> Many thanks in advance!!
>>>
>>> Best regards,
>>> Unai
>>>
>>> _______________________________________________
>>> ome-users mailing list
>>> ome-users at lists.openmicroscopy.org.uk
>>> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users
>>
>>
>> The University of Dundee is a registered Scottish Charity, No: SC015096
>
>
>
The University of Dundee is a registered Scottish Charity, No: SC015096
------------------------------
Message: 2
Date: Tue, 30 Sep 2014 13:30:53 +0000
From: Simon Li <s.p.li at dundee.ac.uk>
To: Christophe TREFOIS <christophe.trefois at uni.lu>,
"ome-users at lists.openmicroscopy.org.uk"
<ome-users at lists.openmicroscopy.org.uk>
Subject: Re: [ome-users] Problem with 5.0.5
Message-ID: <D0506E63.68FB%spli at dundee.ac.uk>
Content-Type: text/plain; charset="iso-8859-1"
Hi Christophe
You're right, it's a bug which crept in recently:
http://trac.openmicroscopy.org/ome/ticket/12509
I think removing the rule completely will also fix things. Sorry for the inconvenience.
Simon
On 29/09/2014 22:57, "Christophe TREFOIS" <christophe.trefois at uni.lu<mailto:christophe.trefois at uni.lu>> wrote:
Dear all,
I updated to 5.0.5 and generated a new apache conf.d file and started it as usual.
Now when I go to the root of the webclient, I get a redirect to /omero and then a 404 error.
[cid:image001.png at 01CFDC40.397CC690]
Which makes me wonder, why is the rewrite rule RewriteRule ^/?$ /omero/ [R] and not RewriteRule ^/?$ /webclient/ [R] ?
Thanks for any help,
By changing the rule to the latter, it works again...
Best,
................................................................................
Dr. Christophe TREFOIS, Dipl.-Ing.
Doctor in Biology
Senior Technical Specialist
UNIVERSIT? DU LUXEMBOURG
LUXEMBOURG CENTRE FOR SYSTEMS BIOMEDICINE
Campus Belval | House of Biomedicine
7, avenue des Hauts-Fourneaux
L-4362 Esch-sur-Alzette
T +352 46 66 44 6124
F +352 46 66 44 6949
www.uni.lu/lcsb<http://www.uni.lu/lcsb>
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The University of Dundee is a registered Scottish Charity, No: SC015096
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