[ome-users] BlitzGateway: keep connection alive to write large ROIs

[Josh Moore]

Hi Paul,


On Tue, May 9, 2017 at 4:39 PM, Paul Korir <pkorir at ebi.ac.uk> wrote:
> Hi Will,
>
> It turns out the problem had to do with a mismatch in the client and server
> versions. I was using a 5.2.5 client with a 5.1.4 server. The actual problem
> was a memory exception (when I match client and server version) which is
> proving harder to resolve than I thought. I've asked this question before on
> this mailing list and I think I resolved that case.
>
> But right now setting Ice.MessageSizeMax does note seem to have any effect.
>
> I've used:
>
> bin/omero config edit (then added Ice.MessageSizeMax=131072; I've also done
> this using bin/omero config set Ice.MessageSizeMax 131072)
>
> and edited both etc/ice.config and etc/grid/templates.xml files for both
> client and server with no effect. All I keep getting is a data dump and:

Can you also add "omero.dump=1" to your etc/ice.config setting and
make sure you are seeing the expected MessageSizeMax?


> Traceback (most recent call last):
>   File
> "/Users/pkorir/omero/OMERO.py-5.1.4-ice35-b55/lib/python/omero/gateway/__init__.py",
> line 4160, in __call__
>     return self.f(*args, **kwargs)
>   File
> "/Users/pkorir/omero/OMERO.py-5.1.4-ice35-b55/lib/python/omero_api_IUpdate_ice.py",
> line 107, in saveObject
>     return _M_omero.api.IUpdate._op_saveObject.invoke(self, ((obj, ), _ctx))
> MemoryLimitException: exception ::Ice::MemoryLimitException
> {
>     reason = requested 83930389 bytes, maximum allowed is 67108864 bytes
> (see Ice.MessageSizeMax)
> }

What are you trying to save that's 84 MB? Is this code available
somewhere? Would it be possible to save parts of the object graph
instead?
~Josh



> Any help will be gratefully received.
>
> Paul
>
>
>
> On 01/05/2017 13:15, William Moore (Staff) wrote:
>
> Hi Paul,
>
> I used the tiny script below to test what you’re seeing….
>
> First I set the session timeout to 10 seconds:
>
> $ bin/omero config set omero.sessions.timeout 10000
>
> Then I ran the script to see if the  conn.c.enableKeepAlive(5)  would allow
> me to
> perform other calls that lasted longer than 10 seconds, such as
> time.sleep(15).
>
> This seems to work.
> I think you may have your keepAlive interval longer than the session
> timeout?
> This is confusing since the session timeout is in milliseconds but the
> keepAlive interval is in seconds, so it’s easy to accidentally set the
> keepAlive
> to be too long (longer than the session timeout).
>
> In the example below, if I use conn.c.enableKeepAlive(50)
> then I see the same as you "warning: Proxy keep alive failed.”
> because this is longer than 10 seconds (omero.sessions.timeout 10000)
>
> Hopefully that was the problem?
> If not, you’ll need to show us more of your code, or a sample script that
> replicates the problem, and say what your session timeout is.
>
>  Regards,
>
>    Will.
>
>
>
> from omero.gateway import BlitzGateway
>
> conn = BlitzGateway(“username", “password", host="localhost", port=4064)
> conn.connect()
>
> # Ping interval in SECONDS - KeepAlive Interval must be shorter than
> # omero config set omero.sessions.timeout 10000
> # which is in MILLISECONDS
> conn.c.enableKeepAlive(5)
>
> print "start..."
> time.sleep(15)
>
> print conn.c.sf.getAdminService().getEventContext().userName
>
> conn.close()
>
>
>
> On 27 Apr 2017, at 14:04, Paul Korir <pkorir at ebi.ac.uk> wrote:
>
> By the way, the keepalive gave the following:
>
> -! 04/27/17 12:07:15.006 warning: Proxy keep alive failed.
>
>
> On 26/04/2017 11:16, William Moore (Staff) wrote:
>
> Hi Paul,
>
>  You can enable the keepAlive on the client object with
> conn.c.enableKeepAlive(300)
> See 5.2 docs:
> https://downloads.openmicroscopy.org/omero/5.2.0/api/omero/client.html#enableKeepAlive-int-
>
> Also you can set this in the etc/omero.properties file.
> See discussion at
> https://www.openmicroscopy.org/community/viewtopic.php?f=6&t=495
>
> Hope that helps,
>
>   Will.
>
>
> --
> Paul K. Korir, PhD
> Scientific Programmer
> EMBL-EBI
> 01223494422
>
>
>
> The University of Dundee is a registered Scottish Charity, No: SC015096
>
>
> --
> Paul K. Korir, PhD
> Scientific Programmer
> EMBL-EBI
> 01223494422
>
>
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