Open Microscopy Environment

Hey there,
I'm trying to search images but i got no results. It doesn't matter if I use OMERO.insight or OMERO.web.
Here is the Blitz-log:

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2012-08-08 19:43:34,706 INFO  [        ome.services.util.ServiceHandler] (l.Server-6)  Meth:   interface ome.api.IAdmin.getEventContext
2012-08-08 19:43:34,706 INFO  [        ome.services.util.ServiceHandler] (l.Server-6)  Args:   ()
2012-08-08 19:43:34,707 INFO  [         ome.security.basic.EventHandler] (l.Server-6)  Auth:   user=2,group=35,event=null(User),sess=fbdbe521-87e9-417c-95e8-ab436347c8fd
2012-08-08 19:43:34,708 INFO  [        ome.services.util.ServiceHandler] (-thread-91)  Executor.doWork -- ome.services.sessions.SessionManagerImpl.reload(fbdbe521-87e9-417c-95e8-ab436347c8fd)
2012-08-08 19:43:34,708 INFO  [        ome.services.util.ServiceHandler] (-thread-91)  Args:   [null, InternalSF@2286508]
2012-08-08 19:43:34,709 INFO  [         ome.security.basic.EventHandler] (-thread-91)  Auth:   user=0,group=0,event=null(Sessions),sess=82d3cef6-7554-4775-a5a7-e017231c8da3
2012-08-08 19:43:34,714 INFO  [                 org.perf4j.TimingLogger] (-thread-91) start[1344447814708] time[6] tag[omero.call.success.ome.services.sessions.SessionManagerImpl$6.doWork]
2012-08-08 19:43:34,714 INFO  [        ome.services.util.ServiceHandler] (-thread-91)  Rslt:   (ome.model.meta.Experimenter:Id_2, ome.model.meta.ExperimenterGroup:Id_35, [1, 35, 185, 135, 85], ... 4 more)
2012-08-08 19:43:34,715 INFO  [                 org.perf4j.TimingLogger] (l.Server-6) start[1344447814706] time[9] tag[omero.call.success.ome.logic.AdminImpl.getEventContext]
2012-08-08 19:43:34,715 INFO  [        ome.services.util.ServiceHandler] (l.Server-6)  Rslt:   ome.system.SimpleEventContext@19bfd77
2012-08-08 19:43:34,718 INFO  [ ome.services.blitz.impl.ServiceFactoryI] (l.Server-3) Added servant to adapter: fbdbe521-87e9-417c-95e8-ab436347c8fd/7f:0:1:1:6540f962:138dc4fc623:-7a39omero.api.Search(omero.api._SearchTie@60e456)
2012-08-08 19:43:34,720 INFO  [        ome.services.util.ServiceHandler] (l.Server-9)  Meth:   interface ome.api.Search.setAllowLeadingWildcard
2012-08-08 19:43:34,720 INFO  [        ome.services.util.ServiceHandler] (l.Server-9)  Args:   [true]
2012-08-08 19:43:34,720 INFO  [                 org.perf4j.TimingLogger] (l.Server-9) start[1344447814720] time[0] tag[omero.call.success.ome.services.SearchBean.setAllowLeadingWildcard]
2012-08-08 19:43:34,720 INFO  [        ome.services.util.ServiceHandler] (l.Server-9)  Rslt:   null
2012-08-08 19:43:34,721 INFO  [        ome.services.util.ServiceHandler] (l.Server-0)  Meth:   interface ome.api.Search.setCaseSentivice
2012-08-08 19:43:34,722 INFO  [        ome.services.util.ServiceHandler] (l.Server-0)  Args:   [false]
2012-08-08 19:43:34,722 INFO  [                 org.perf4j.TimingLogger] (l.Server-0) start[1344447814722] time[0] tag[omero.call.success.ome.services.SearchBean.setCaseSentivice]
2012-08-08 19:43:34,722 INFO  [        ome.services.util.ServiceHandler] (l.Server-0)  Rslt:   null
2012-08-08 19:43:34,723 INFO  [        ome.services.util.ServiceHandler] (l.Server-4)  Meth:   interface ome.api.Search.onlyType
2012-08-08 19:43:34,723 INFO  [        ome.services.util.ServiceHandler] (l.Server-4)  Args:   [class ome.model.core.Image]
2012-08-08 19:43:34,723 INFO  [                 org.perf4j.TimingLogger] (l.Server-4) start[1344447814723] time[0] tag[omero.call.success.ome.services.SearchBean.onlyType]
2012-08-08 19:43:34,723 INFO  [        ome.services.util.ServiceHandler] (l.Server-4)  Rslt:   null
2012-08-08 19:43:34,725 INFO  [        ome.services.util.ServiceHandler] (l.Server-4)  Meth:   interface ome.api.Search.bySomeMustNone
2012-08-08 19:43:34,725 INFO  [        ome.services.util.ServiceHandler] (l.Server-4)  Args:   [[tag:test], [], []]
2012-08-08 19:43:34,725 INFO  [                 org.perf4j.TimingLogger] (l.Server-4) start[1344447814725] time[0] tag[omero.call.success.ome.services.SearchBean.bySomeMustNone]
2012-08-08 19:43:34,725 INFO  [        ome.services.util.ServiceHandler] (l.Server-4)  Rslt:   null
2012-08-08 19:43:34,727 INFO  [        ome.services.util.ServiceHandler] (l.Server-8)  Meth:   interface ome.api.Search.hasNext
2012-08-08 19:43:34,727 INFO  [        ome.services.util.ServiceHandler] (l.Server-8)  Args:   ()
2012-08-08 19:43:34,728 INFO  [        ome.services.util.ServiceHandler] (l.Server-8)  Executor.doWork -- ome.services.search.SomeMustNone
2012-08-08 19:43:34,728 INFO  [        ome.services.util.ServiceHandler] (l.Server-8)  Args:   [null, InternalSF@2286508]
2012-08-08 19:43:34,729 INFO  [         ome.security.basic.EventHandler] (l.Server-8)  Auth:   user=2,group=35,event=null(User),sess=fbdbe521-87e9-417c-95e8-ab436347c8fd
2012-08-08 19:43:34,730 INFO  [                 org.perf4j.TimingLogger] (l.Server-8) start[1344447814728] time[2] tag[omero.call.success.ome.services.search.SomeMustNone.doWork]
2012-08-08 19:43:34,730 INFO  [        ome.services.util.ServiceHandler] (l.Server-8)  Rslt:   ()
2012-08-08 19:43:34,730 INFO  [                 org.perf4j.TimingLogger] (l.Server-8) start[1344447814727] time[3] tag[omero.call.success.ome.services.SearchBean.hasNext]
2012-08-08 19:43:34,730 INFO  [        ome.services.util.ServiceHandler] (l.Server-8)  Rslt:   false
2012-08-08 19:43:34,732 INFO  [        ome.services.util.ServiceHandler] (l.Server-2)  Meth:   interface ome.api.Search.clearQueries
2012-08-08 19:43:34,732 INFO  [        ome.services.util.ServiceHandler] (l.Server-2)  Args:   ()
2012-08-08 19:43:34,732 INFO  [                 org.perf4j.TimingLogger] (l.Server-2) start[1344447814732] time[0] tag[omero.call.success.ome.services.SearchBean.clearQueries]
2012-08-08 19:43:34,732 INFO  [        ome.services.util.ServiceHandler] (l.Server-2)  Rslt:   null
2012-08-08 19:43:34,733 INFO  [        ome.services.util.ServiceHandler] (l.Server-2)  Meth:   interface ome.api.StatefulServiceInterface.close
2012-08-08 19:43:34,733 INFO  [        ome.services.util.ServiceHandler] (l.Server-2)  Args:   ()
2012-08-08 19:43:34,733 INFO  [                 org.perf4j.TimingLogger] (l.Server-2) start[1344447814733] time[0] tag[omero.call.success.ome.services.SearchBean.close]
2012-08-08 19:43:34,733 INFO  [        ome.services.util.ServiceHandler] (l.Server-2)  Rslt:   null
2012-08-08 19:43:34,733 INFO  [ ome.services.blitz.impl.ServiceFactoryI] (l.Server-2) Unregistered servant:fbdbe521-87e9-417c-95e8-ab436347c8fd/7f:0:1:1:6540f962:138dc4fc623:-7a39omero.api.Search(omero.api._SearchTie@60e456)



What does 'bin/omero admin diagnostics' show? Could you also attach your var/log/Indexer-0.log? Thanks, ~Josh

Thanks for your reply.
admin diagnostics says:

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================================================================================
OMERO Diagnostics 4.3.4-dbcbce5a-b4
================================================================================
       
Commands:   java -version                  1.6.0     (/usr/bin/java)
Commands:   python -V                      2.6.6     (/usr/bin/python)
Commands:   icegridnode --version          3.3.1     (/usr/bin/icegridnode)
Commands:   icegridadmin --version         3.3.1     (/usr/bin/icegridadmin)
Commands:   psql --version                 8.4.11    (/usr/bin/psql -- 2 others)

Server:     icegridnode                    running
Server:     Blitz-0                        active (pid = 2625, enabled)
Server:     DropBox                        active (pid = 2842, enabled)
Server:     FileServer                     active (pid = 2627, enabled)
Server:     Indexer-0                      active (pid = 2630, enabled)
Server:     MonitorServer                  active (pid = 2631, enabled)
Server:     OMERO.Glacier2                 active (pid = 2632, enabled)
Server:     OMERO.IceStorm                 active (pid = 2637, enabled)
Server:     PixelData-0                    active (pid = 2638, enabled)
Server:     Processor-0                    active (pid = 2646, enabled)
Server:     Tables-0                       inactive (disabled)
Server:     TestDropBox                    inactive (enabled)

Here are the last entrys of Indexer-0 .. please tell me if this is not enough.

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2012-08-08 19:12:12,012 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-3) Currently running; skipping
2012-08-08 19:12:16,018 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-4) Currently running; skipping
2012-08-08 19:12:20,019 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-1) Currently running; skipping
2012-08-08 19:12:25,607 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-3) Currently running; skipping
2012-08-08 19:12:28,011 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-4) Currently running; skipping
2012-08-08 19:12:32,014 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-2) Currently running; skipping
2012-08-08 19:12:36,017 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-1) Currently running; skipping
2012-08-08 19:12:40,017 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-3) Currently running; skipping
2012-08-08 19:12:44,015 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-4) Currently running; skipping
2012-08-08 19:12:48,019 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-2) Currently running; skipping
2012-08-08 19:12:52,019 INFO  [    ome.services.fulltext.FullTextThread] (3-thread-1) Currently running; skipping
2012-08-08 19:12:55,664 INFO  [   ome.services.fulltext.FullTextIndexer] (3-thread-5) INDEXED 44 objects in 1 batch(es) [47644 ms.]
2012-08-08 19:12:55,670 ERROR [        ome.services.util.ServiceHandler] (3-thread-5) Method interface ome.services.util.Executor$Work.doWork invocation took 47652
2012-08-08 19:34:25,092 INFO  [     ome.services.eventlogs.EventBacklog] (3-thread-1) Added to backlog:ome.model.core.Image:Id_652
2012-08-08 19:34:26,121 INFO  [   ome.services.fulltext.FullTextIndexer] (3-thread-1) INDEXED 2 objects in 1 batch(es) [2102 ms.]
2012-08-08 19:34:29,055 INFO  [   ome.services.fulltext.FullTextIndexer] (3-thread-5) INDEXED 1 objects in 1 batch(es) [1036 ms.]


Both the diagnostics output as well as Indexer-0.log look to be healthy, and currently processing. Is it possible that the search for the tag "test" works now, i.e. has the indexing finished processing now?

The search still does not work.
When I click on "Load existing tags to search by" i get the errormessage "No existing tags to search by." ... but "test" definitely exists.
.. I really don't know what's wrong here :-/

Is it possible that you are logged in as a different user or in a different group from the one where you created the tag?

No, it was the same user and the same group.
Well, today the tag is back again and i can add it the search. But there is still no result.

Can you perhaps bundle up your logs files (var/log/*) and attach them or send them to me via a private message? Thanks, ~Josh

Same problem here... I use omero 4.4.3

In Insight:
If i use the search inside a Dataset, the search works fine. But if i use the search the search tab, i got no results.

In Omero.WEB: No Results at all.

Thorsten

Thanks very much for your posts.

Initial testing by me has failed to duplicate the problems you encountered, but we are continuing to look into it.

It's difficult for us to work out what was happening for you without logs, so if you could send us the your logs for the period this occurred that would be most helpful.

Many thanks.
Gus