[ome-users] OME.insight not working after upgrade
unai_lorenzo at ehu.es
unai_lorenzo at ehu.es
Fri Dec 5 14:57:35 GMT 2014
Hi Douglas,
That's exactly the output:
netstat -l -n --program
tcp6 0 0 :::4064 :::*
ESCUCHAR 5310/glacier2router
Thanks for the tip!
Best regards,
Unai
Douglas Russell <douglas.russell at bioch.ox.ac.uk> escribió:
> If you are sure the server is running you could also run something like
> this on the sever:
>
> netstat -l -n --program
>
> This will display the ports that various processes are running on. You'll
> have to sift the results, but on a working server (on port 4064) you will
> see something like this among them:
>
> tcp6 0 0 :::4064 :::* LISTEN
> 27482/glacier2route
>
> If that is there, then you likely have the firewall issue that Kenny
> suggested.
>
> Hope that (or your IT) helps.
>
> Douglas
>
>
>
>
> On 5 December 2014 at 11:06, <unai_lorenzo at ehu.es> wrote:
>
>> Hi Douglas,
>>
>> Unfortunately it failed (I'm sorry, the code is in Spanish...)
>>
>> telnet 158.227.41.112 4064
>> Conectándose a 158.227.41.112...No se puede abrir la conexión al host, en
>> puerto 4064: Error en la conexión
>>
>> As Kenny suggested, I will contact the IT department and see if we can fix
>> it.
>>
>> Kind regards,
>> Unai
>>
>>
>> Douglas Russell <douglas.russell at bioch.ox.ac.uk> escribió:
>>
>>
>> Easiest way to tell if you can connect to a port on a server, regardless
>>> of
>>> protocol:
>>>
>>> telnet servername port_number
>>>
>>> e.g. Success:
>>>
>>> $ telnet omero1.bioch.ox.ac.uk 4064
>>> Trying 129.67.75.47...
>>> Connected to omero1.bioch.ox.ac.uk.
>>> Escape character is '^]'.
>>>
>>> Fail:
>>>
>>> $ telnet omero1.bioch.ox.ac.uk 9999
>>> Trying 129.67.75.47...
>>> telnet: connect to address 129.67.75.47: Connection refused
>>> telnet: Unable to connect to remote host
>>>
>>>
>>>
>>> On 5 December 2014 at 09:38, Kenneth Gillen (Staff) <
>>> k.h.gillen at dundee.ac.uk
>>>
>>>> wrote:
>>>>
>>>
>>> HI Unai,
>>>>
>>>> This sounds like the an issue connecting on the OMERO ports.
>>>>
>>>> I’d check that the Insight connection dialogue has the correct server
>>>> ports which correspond to the setup of your server.
>>>>
>>>> If you can’t access that server from your workstations, then you’ll
>>>> probably need to interact with your local network management team to work
>>>> out why. Changes are, the changed a policy, and the ports are blocked.
>>>>
>>>> Best,
>>>>
>>>> Kenny
>>>>
>>>> --
>>>>
>>>> Kenneth Gillen
>>>>
>>>>
>>>> OME System Administrator
>>>>
>>>> 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
>>>>
>>>> Tel: +44 (0) 1382 386364
>>>> Skype: kennethgillen
>>>>
>>>> http://www.twitter.com/openmicroscopy
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> On 05/12/2014 09:19, "unai_lorenzo at ehu.es" <unai_lorenzo at ehu.es> wrote:
>>>>
>>>> >Hi Josh,
>>>> >
>>>> >I can login using bin\omero login localhost (both as root and as a
>>>> >"normal" user).
>>>> >I can also ping successfully the server IP address from the client PC.
>>>> >
>>>> >Many thanks,
>>>> >Unai
>>>> >
>>>> >Josh Moore <josh at glencoesoftware.com> escribió:
>>>> >
>>>> >> Hi Unai,
>>>> >>
>>>> >> from the log it most looks like insight cannot reach the server at
>>>> all,
>>>> >>as
>>>> >> if the port were not available. I assume you have access to the server
>>>> >>and
>>>> >> could attempt trying to login with:
>>>> >>
>>>> >> bin\omero login localhost
>>>> >>
>>>> >> Cheers,
>>>> >> ~Josh.
>>>> >>
>>>> >>
>>>> >> On Thu, Dec 4, 2014 at 12:11 PM, <unai_lorenzo at ehu.es> wrote:
>>>> >>
>>>> >>> Hi Kenny,
>>>> >>>
>>>> >>> I'm currently using OMERO.clients-5.0.6-ice35-b53.win pltaform.
>>>> Before
>>>> >>> the upgrade I was using OMERO.clients-5.0.5-ice35-b47.win, and this
>>>> one
>>>> >>> doesn't work after the upgrade either.
>>>> >>>
>>>> >>> Please find attached the client log file. I hope it helps!
>>>> >>>
>>>> >>> Best regards,
>>>> >>> Unai
>>>> >>>
>>>> >>>
>>>> >>> "Kenneth Gillen (Staff)" <k.h.gillen at dundee.ac.uk> escribió:
>>>> >>>
>>>> >>> Hi Unai,
>>>> >>>>
>>>> >>>> Could you please send us your insight client log file, as well as
>>>> >>>>letting
>>>> >>>> us know which platform client you are using?
>>>> >>>>
>>>> >>>> See ŒClient logs¹ at
>>>> >>>> http://www.openmicroscopy.org/site/support/faq/omero/how-do-
>>>> >>>> i-send-log-file
>>>> >>>> s
>>>> >>>>
>>>> >>>> I would doubt that there is anything sensitive in that log file, but
>>>> >>>>worth
>>>> >>>> a quick scan before sending to the list.
>>>> >>>>
>>>> >>>> Many thanks,
>>>> >>>>
>>>> >>>> Kenny
>>>> >>>>
>>>> >>>> --
>>>> >>>>
>>>> >>>> Kenneth Gillen
>>>> >>>>
>>>> >>>>
>>>> >>>> OME System Administrator
>>>> >>>>
>>>> >>>> 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
>>>> >>>>
>>>> >>>> Tel: +44 (0) 1382 386364
>>>> >>>> Skype: kennethgillen
>>>> >>>>
>>>> >>>> http://www.twitter.com/openmicroscopy
>>>> >>>>
>>>> >>>>
>>>> >>>>
>>>> >>>>
>>>> >>>>
>>>> >>>>
>>>> >>>> On 03/12/2014 16:06, "unai_lorenzo at ehu.es" <unai_lorenzo at ehu.es>
>>>> >>>>wrote:
>>>> >>>>
>>>> >>>>
>>>> >>>>> Dear OME users,
>>>> >>>>>
>>>> >>>>> I have just upgraded OMERO server from version 5.0.5 to 5.0.6.
>>>> >>>>> OMERO.web seems to be working fine.
>>>> >>>>> I could log in as root and check the data:
>>>> >>>>>
>>>> >>>>> ============================================================
>>>> >>>>> ==============
>>>> >>>>> ======
>>>> >>>>> OMERO Diagnostics 5.0.6-ice35-b53
>>>> >>>>> ============================================================
>>>> >>>>> ==============
>>>> >>>>> ======
>>>> >>>>>
>>>> >>>>> 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 = 2779,
>>>> >>>>>enabled)
>>>> >>>>> Server: DropBox active (pid = 2791,
>>>> >>>>>enabled)
>>>> >>>>> Server: FileServer active (pid = 2795,
>>>> >>>>>enabled)
>>>> >>>>> Server: Indexer-0 active (pid = 2803,
>>>> >>>>>enabled)
>>>> >>>>> Server: MonitorServer active (pid = 2814,
>>>> >>>>>enabled)
>>>> >>>>> Server: OMERO.Glacier2 active (pid = 2801,
>>>> >>>>>enabled)
>>>> >>>>> Server: OMERO.IceStorm active (pid = 2826,
>>>> >>>>>enabled)
>>>> >>>>> Server: PixelData-0 active (pid = 2802,
>>>> >>>>>enabled)
>>>> >>>>> Server: Processor-0 active (pid = 2820,
>>>> >>>>>enabled)
>>>> >>>>> Server: Tables-0 active (pid = 2823,
>>>> >>>>>enabled)
>>>> >>>>> Server: TestDropBox inactive (enabled)
>>>> >>>>>
>>>> >>>>> OMERO: SSL port 4064
>>>> >>>>> OMERO: TCP port 4063
>>>> >>>>>
>>>> >>>>> Log dir: /home/omero/OMERO.server-5.0.6-ice35-b53/var/log
>>>> exists
>>>> >>>>>
>>>> >>>>> Log files: Blitz-0.log 1.0 MB errors=5
>>>> >>>>> warnings=49
>>>> >>>>> Log files: DropBox.log 6.0 KB errors=1
>>>> >>>>> warnings=1
>>>> >>>>> Log files: FileServer.log 0.0 KB
>>>> >>>>> Log files: Indexer-0.log 7.0 KB
>>>> >>>>> Log files: MonitorServer.log 4.0 KB
>>>> >>>>> Log files: OMEROweb.log 60.0 KB errors=5
>>>> >>>>> warnings=12
>>>> >>>>> Log files: OMEROweb_request.log 0.0 KB
>>>> >>>>> Log files: PixelData-0.log 9.0 KB
>>>> >>>>> Log files: Processor-0.log 4.0 KB
>>>> >>>>> Log files: Tables-0.log 4.0 KB errors=0
>>>> >>>>> warnings=1
>>>> >>>>> Log files: TestDropBox.log n/a
>>>> >>>>> Log files: master.err 4.0 KB errors=0
>>>> >>>>> warnings=3
>>>> >>>>> Log files: master.out 0.0 KB
>>>> >>>>> Log files: Total size 1.61 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
>>>> >>>>> Environment:PYTHONPATH=(unset)
>>>> >>>>> Environment:ICE_HOME=(unset)
>>>> >>>>> Environment:LD_LIBRARY_PATH=(unset)
>>>> >>>>> Environment:DYLD_LIBRARY_PATH=(unset)
>>>> >>>>>
>>>> >>>>> OMERO data dir: '/home/omero/OMERO'Exists? TrueIs writable? True
>>>> >>>>> OMERO temp dir: '/home/omero/omero/tmp'Exists? TrueIs writable?
>>>> True
>>>> >>>>> (Size: 0)
>>>> >>>>> OMERO.web status... [RUNNING] (PID 3060)
>>>> >>>>>
>>>> >>>>>
>>>> >>>>> Unfortunately OMERO.insight-5.0.6-ice35-b53 doesn't work using the
>>>> >>>>> same settings (server IP address, username and password) I've been
>>>> >>>>> using for OMERO.insight-5.0.5.
>>>> >>>>>
>>>> >>>>> Can anybody help me with this issue?
>>>> >>>>> 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:
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>>>> >> Si tiene alguna duda consulte con el CAU (154400).
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>>>> >>
>>>> >> ERNE!! Mezu honek "contraseña" hitza dauka eta iruzurrezko mezua
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>>>>
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>>> Esta cabecera ha sido añadida automáticamente por la Vicegerencia de las
>>> TIC:
>>> ------------------------------------------------------------
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>>> ATENCION!! Este correo contiene la palabra "contraseña" y puede tratarse
>>> de un fraude.
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>>> Si tiene alguna duda consulte con el CAU (154400).
>>> UPV/EHU, Vicegerencia de las TIC
>>>
>>> ERNE!! Mezu honek "contraseña" hitza dauka eta iruzurrezko mezua izan
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>>> Ez eman inoiz zure pasahitza posta elektronikoaren bidez.
>>> Zalantzarik izanez gero deitu BAZren telefonora (154400)
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>>
>>
>>
>>
>
> Esta cabecera ha sido añadida automáticamente por la Vicegerencia de las TIC:
> --------------------------------------------------------------------------------
> ATENCION!! Este correo contiene la palabra "contraseña" y puede
> tratarse de un fraude.
> No proporcione nunca sus credenciales por correo electrónico.
> Si tiene alguna duda consulte con el CAU (154400).
> UPV/EHU, Vicegerencia de las TIC
>
> ERNE!! Mezu honek "contraseña" hitza dauka eta iruzurrezko mezua
> izan daiteke.
> Ez eman inoiz zure pasahitza posta elektronikoaren bidez.
> Zalantzarik izanez gero deitu BAZren telefonora (154400)
> UPV/EHU, IKT Gerenteordetza
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