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combining TIFF and CSV file with metadata

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You should find answers to any basic questions about using the clients there.

Re: combining TIFF and CSV file with metadata

Postby cxallan » Fri May 04, 2012 9:11 am

The problem is that OMERO.tables hasn't started properly. Hence the following output from bin/omero admin diagnostics:

Code: Select all
...
Server:     Tables-0                       inactive (disabled)
...


We'd need to see the contents of var/log/Tables-0.log to know what's up.
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Re: combining TIFF and CSV file with metadata

Postby Thorondor » Fri May 04, 2012 9:20 am

there is no Tables-0.log
can I start the OMERO.tables separatly or should it be started by omero admin start?

edit: or how I check is OMERO.tables is running and working correctly?
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Re: combining TIFF and CSV file with metadata

Postby jmoore » Mon May 07, 2012 8:26 am

OMERO.tables should definitely be started by `bin/omero admin start`. The probably is probably similar to the previous issue in that "import tables" is not working in Python. Can you show us the contents of master.err?

~Josh
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Re: combining TIFF and CSV file with metadata

Postby Thorondor » Mon May 07, 2012 8:39 am

sure, here it is:

Code: Select all
Traceback (most recent call last):
  File "lib/python/runTables.py", line 15, in ?
    import omero.tables
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/tables.py", line 11, in ?
    import numpy
ImportError: No module named numpy
03/21/12 15:56:35.428 OMERO.Glacier2: warning: unable to contact permissions verifier `BlitzVerifier@BlitzAdapters'
Reference.cpp:1546: Ice::NoEndpointException:
no suitable endpoint available for proxy `BlitzVerifier -t @ BlitzAdapters'
03/21/12 15:56:35.429 OMERO.Glacier2: warning: unable to contact session manager `BlitzManager@BlitzAdapters'
Reference.cpp:1546: Ice::NoEndpointException:
no suitable endpoint available for proxy `BlitzManager -t @ BlitzAdapters'
Traceback (most recent call last):
  File "lib/python/runTables.py", line 15, in ?
    import omero.tables
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/tables.py", line 11, in ?
    import numpy
ImportError: No module named numpy
03/21/12 16:02:23.121 OMERO.Glacier2: warning: unable to contact permissions verifier `BlitzVerifier@BlitzAdapters'
Reference.cpp:1546: Ice::NoEndpointException:
no suitable endpoint available for proxy `BlitzVerifier -t @ BlitzAdapters'
03/21/12 16:02:23.123 OMERO.Glacier2: warning: unable to contact session manager `BlitzManager@BlitzAdapters'
Reference.cpp:1546: Ice::NoEndpointException:
no suitable endpoint available for proxy `BlitzManager -t @ BlitzAdapters'
Traceback (most recent call last):
  File "lib/python/runTables.py", line 15, in ?
    import omero.tables
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/tables.py", line 11, in ?
    import numpy
ImportError: No module named numpy
03/22/12 16:41:33.071 OMERO.Glacier2: warning: unable to contact permissions verifier `BlitzVerifier@BlitzAdapters'
Reference.cpp:1546: Ice::NoEndpointException:
no suitable endpoint available for proxy `BlitzVerifier -t @ BlitzAdapters'
03/22/12 16:41:33.078 OMERO.Glacier2: warning: unable to contact session manager `BlitzManager@BlitzAdapters'
Reference.cpp:1546: Ice::NoEndpointException:
no suitable endpoint available for proxy `BlitzManager -t @ BlitzAdapters'
Traceback (most recent call last):
  File "lib/python/runTables.py", line 15, in ?
    import omero.tables
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/tables.py", line 11, in ?
    import numpy
ImportError: No module named numpy
3/22/12 17:05:26:627 warning: Blitz-0-Ice.ThreadPool.Server-3: dispatch exception:
identity: session-952364e2-fe7f-42c1-bb4a-6b8b94ef6caf/063660a7-2e31-4994-9ff0-96a0ab043e97
facet:
operation: destroy
Ice.ObjectAdapterDeactivatedException
    name = "BlitzAdapter"
        at Ice.ObjectAdapterI.checkForDeactivation(ObjectAdapterI.java:1028)
        at Ice.ObjectAdapterI.findFacet(ObjectAdapterI.java:459)
        at Ice.ObjectAdapterI.find(ObjectAdapterI.java:453)
        at ome.services.blitz.impl.ServiceFactoryI.unregisterServant(ServiceFactoryI.java:1005)
        at ome.services.blitz.impl.ServiceFactoryI.doDestroy(ServiceFactoryI.java:801)
        at ome.services.blitz.impl.ServiceFactoryI.destroy(ServiceFactoryI.java:703)
        at Glacier2._SessionDisp.___destroy(_SessionDisp.java:82)
        at omero.api._ServiceFactoryDisp.__dispatch(_ServiceFactoryDisp.java:1263)
        at IceInternal.Incoming.invoke(Incoming.java:159)
        at Ice.ConnectionI.invokeAll(ConnectionI.java:2037)
        at Ice.ConnectionI.message(ConnectionI.java:972)
        at IceInternal.ThreadPool.run(ThreadPool.java:577)
        at IceInternal.ThreadPool.access$100(ThreadPool.java:12)
        at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971)

Traceback (most recent call last):
  File "lib/python/runTables.py", line 15, in ?
    import omero.tables
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/tables.py", line 11, in ?
    import numpy
ImportError: No module named numpy
Traceback (most recent call last):
  File "lib/python/runTables.py", line 15, in ?
    import omero.tables
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/tables.py", line 35, in ?
    tables = __import__("tables") # Pytables
  File "/usr/lib64/python2.4/site-packages/tables/__init__.py", line 59, in ?
    from tables.utilsExtension import getPyTablesVersion, getHDF5Version
ImportError: libhdf5.so.7: cannot open shared object file: No such file or directory
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Re: combining TIFF and CSV file with metadata

Postby jmoore » Mon May 07, 2012 8:48 am

Code: Select all
Traceback (most recent call last):
  File "lib/python/runTables.py", line 15, in ?
    import omero.tables
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/tables.py", line 11, in ?
    import numpy
ImportError: No module named numpy
Traceback (most recent call last):
  File "lib/python/runTables.py", line 15, in ?
    import omero.tables
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/tables.py", line 35, in ?
    tables = __import__("tables") # Pytables
  File "/usr/lib64/python2.4/site-packages/tables/__init__.py", line 59, in ?
    from tables.utilsExtension import getPyTablesVersion, getHDF5Version
ImportError: libhdf5.so.7: cannot open shared object file: No such file or directory


How have you installed pytables et al (incl. numpy and hdf5)?
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Re: combining TIFF and CSV file with metadata

Postby Thorondor » Mon May 07, 2012 9:24 am

I used yum when it was possible or I used downloaded rpm files.

as omero user I can import numpy and omero, but when I try import tables I get this:

Code: Select all
>>> import tables
Traceback (most recent call last):
  File "<stdin>", line 1, in ?
  File "/usr/lib64/python2.4/site-packages/tables/__init__.py", line 59, in ?
    from tables.utilsExtension import getPyTablesVersion, getHDF5Version
ImportError: libhdf5.so.7: cannot open shared object file: No such file or directory


edit: I try to reinstall hdf5 or something after lunch.
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Re: combining TIFF and CSV file with metadata

Postby Thorondor » Mon May 07, 2012 11:05 am

when I try import tables in python I get the following:

Code: Select all
>>> import tables
Traceback (most recent call last):
  File "<stdin>", line 1, in ?
  File "/usr/lib64/python2.4/site-packages/tables/__init__.py", line 59, in ?
    from tables.utilsExtension import getPyTablesVersion, getHDF5Version
ImportError: libhdf5.so.7: cannot open shared object file: No such file or directory


ok, needed to add some paths, works now.
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Re: combining TIFF and CSV file with metadata

Postby Thorondor » Mon May 07, 2012 11:14 am

ok, back to the problem running the exmaple tables.py:

Code: Select all
python tables.py
No handlers could be found for logger "blitz_gateway"
True
Traceback (most recent call last):
  File "tables.py", line 55, in ?
    table.initialize(columns)
AttributeError: 'NoneType' object has no attribute 'initialize'



edit: tables is now running and I get something new. :-)

Code: Select all
python tables.py
No handlers could be found for logger "blitz_gateway"
True
WARNING:blitz_gateway:ValidationException on <class 'omero.gateway.OmeroGatewaySafeCallWrapper'> to <d1d99b2f-2541-4eef-9977-40fabef4a998omero.api.IUpdate> saveAndReturnObject((object #0 (::omero::model::DatasetAnnotationLink)
{
    _id = <nil>
    _details = object #1 (::omero::model::Details)
    {
        _owner = <nil>
        _group = <nil>
        _creationEvent = <nil>
        _updateEvent = <nil>
        _permissions = <nil>
        _externalInfo = <nil>
    }
    _loaded = True
    _version = <nil>
    _parent = object #2 (::omero::model::Dataset)
    {
        _id = object #3 (::omero::RLong)
        {
            _val = 33
        }
        _details = <nil>
        _loaded = False
        _version = <nil>
        _projectLinksSeq = {}
        _projectLinksLoaded = False
        _projectLinksCountPerOwner = {}
        _imageLinksSeq = {}
        _imageLinksLoaded = False
        _imageLinksCountPerOwner = {}
        _annotationLinksSeq = {}
        _annotationLinksLoaded = False
        _annotationLinksCountPerOwner = {}
        _name = <nil>
        _description = <nil>
    }
    _child = object #4 (::omero::model::FileAnnotation)
    {
        _id = object #5 (::omero::RLong)
        {
            _val = 51
        }
        _details = <nil>
        _loaded = False
        _version = <nil>
        _ns = <nil>
        _description = <nil>
        _annotationLinksSeq = {}
        _annotationLinksLoaded = False
        _annotationLinksCountPerOwner = {}
        _file = <nil>
    }
},), {})
Traceback (most recent call last):
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/gateway/__init__.py", line 2956, in __call__
    return self.f(*args, **kwargs)
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero_api_IUpdate_ice.py", line 97, in saveAndReturnObject
    return _M_omero.api.IUpdate._op_saveAndReturnObject.invoke(self, ((obj, ), _ctx))
ValidationException: exception ::omero::ValidationException
{
    serverStackTrace = ome.conditions.ValidationException: No row with the given identifier exists: [ome.model.containers.Dataset#33]; nested exception is org.hibernate.ObjectNotFoundException: No row with the given identifier exists: [ome.model.containers.Dataset#33]
        at org.springframework.orm.hibernate3.SessionFactoryUtils.convertHibernateAccessException(SessionFactoryUtils.java:663)
        at org.springframework.orm.hibernate3.HibernateAccessor.convertHibernateAccessException(HibernateAccessor.java:412)
        at org.springframework.orm.hibernate3.HibernateInterceptor.invoke(HibernateInterceptor.java:117)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:108)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at ome.tools.hibernate.ProxyCleanupFilter$Interceptor.invoke(ProxyCleanupFilter.java:231)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at ome.services.util.ServiceHandler.invoke(ServiceHandler.java:116)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202)
        at $Proxy77.saveAndReturnObject(Unknown Source)
        at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
        at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
        at java.lang.reflect.Method.invoke(Method.java:597)
        at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:307)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:183)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:150)
        at ome.security.basic.BasicSecurityWiring.invoke(BasicSecurityWiring.java:83)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at ome.services.blitz.fire.AopContextInitializer.invoke(AopContextInitializer.java:43)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202)
        at $Proxy77.saveAndReturnObject(Unknown Source)
        at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
        at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
        at java.lang.reflect.Method.invoke(Method.java:597)
        at ome.services.blitz.util.IceMethodInvoker.invoke(IceMethodInvoker.java:179)
        at ome.services.throttling.Callback.run(Callback.java:56)
        at ome.services.throttling.InThreadThrottlingStrategy.callInvokerOnRawArgs(InThreadThrottlingStrategy.java:56)
        at ome.services.blitz.impl.AbstractAmdServant.callInvokerOnRawArgs(AbstractAmdServant.java:136)
        at ome.services.blitz.impl.UpdateI.saveAndReturnObject_async(UpdateI.java:64)
        at omero.api._IUpdateTie.saveAndReturnObject_async(_IUpdateTie.java:92)
        at omero.api._IUpdateDisp.___saveAndReturnObject(_IUpdateDisp.java:185)
        at omero.api._IUpdateDisp.__dispatch(_IUpdateDisp.java:365)
        at IceInternal.Incoming.invoke(Incoming.java:159)
        at Ice.ConnectionI.invokeAll(ConnectionI.java:2037)
        at Ice.ConnectionI.message(ConnectionI.java:972)
        at IceInternal.ThreadPool.run(ThreadPool.java:577)
        at IceInternal.ThreadPool.access$100(ThreadPool.java:12)
        at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971)

    serverExceptionClass = ome.conditions.ValidationException
    message = No row with the given identifier exists: [ome.model.containers.Dataset#33]; nested exception is org.hibernate.ObjectNotFoundException: No row with the given identifier exists: [ome.model.containers.Dataset#33]
}
Traceback (most recent call last):
  File "tables.py", line 82, in ?
    conn.getUpdateService().saveAndReturnObject(link)
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/gateway/__init__.py", line 2959, in __call__
    return self.handle_exception(e, *args, **kwargs)
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero/gateway/__init__.py", line 2956, in __call__
    return self.f(*args, **kwargs)
  File "/data/applications/OMERO.server-Beta-4.3.4/lib/python/omero_api_IUpdate_ice.py", line 97, in saveAndReturnObject
    return _M_omero.api.IUpdate._op_saveAndReturnObject.invoke(self, ((obj, ), _ctx))
omero.ValidationException: exception ::omero::ValidationException
{
    serverStackTrace = ome.conditions.ValidationException: No row with the given identifier exists: [ome.model.containers.Dataset#33]; nested exception is org.hibernate.ObjectNotFoundException: No row with the given identifier exists: [ome.model.containers.Dataset#33]
        at org.springframework.orm.hibernate3.SessionFactoryUtils.convertHibernateAccessException(SessionFactoryUtils.java:663)
        at org.springframework.orm.hibernate3.HibernateAccessor.convertHibernateAccessException(HibernateAccessor.java:412)
        at org.springframework.orm.hibernate3.HibernateInterceptor.invoke(HibernateInterceptor.java:117)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at org.springframework.transaction.interceptor.TransactionInterceptor.invoke(TransactionInterceptor.java:108)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at ome.tools.hibernate.ProxyCleanupFilter$Interceptor.invoke(ProxyCleanupFilter.java:231)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at ome.services.util.ServiceHandler.invoke(ServiceHandler.java:116)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202)
        at $Proxy77.saveAndReturnObject(Unknown Source)
        at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
        at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
        at java.lang.reflect.Method.invoke(Method.java:597)
        at org.springframework.aop.support.AopUtils.invokeJoinpointUsingReflection(AopUtils.java:307)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.invokeJoinpoint(ReflectiveMethodInvocation.java:183)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:150)
        at ome.security.basic.BasicSecurityWiring.invoke(BasicSecurityWiring.java:83)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at ome.services.blitz.fire.AopContextInitializer.invoke(AopContextInitializer.java:43)
        at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172)
        at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202)
        at $Proxy77.saveAndReturnObject(Unknown Source)
        at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
        at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:39)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
        at java.lang.reflect.Method.invoke(Method.java:597)
        at ome.services.blitz.util.IceMethodInvoker.invoke(IceMethodInvoker.java:179)
        at ome.services.throttling.Callback.run(Callback.java:56)
        at ome.services.throttling.InThreadThrottlingStrategy.callInvokerOnRawArgs(InThreadThrottlingStrategy.java:56)
        at ome.services.blitz.impl.AbstractAmdServant.callInvokerOnRawArgs(AbstractAmdServant.java:136)
        at ome.services.blitz.impl.UpdateI.saveAndReturnObject_async(UpdateI.java:64)
        at omero.api._IUpdateTie.saveAndReturnObject_async(_IUpdateTie.java:92)
        at omero.api._IUpdateDisp.___saveAndReturnObject(_IUpdateDisp.java:185)
        at omero.api._IUpdateDisp.__dispatch(_IUpdateDisp.java:365)
        at IceInternal.Incoming.invoke(Incoming.java:159)
        at Ice.ConnectionI.invokeAll(ConnectionI.java:2037)
        at Ice.ConnectionI.message(ConnectionI.java:972)
        at IceInternal.ThreadPool.run(ThreadPool.java:577)
        at IceInternal.ThreadPool.access$100(ThreadPool.java:12)
        at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971)

    serverExceptionClass = ome.conditions.ValidationException
    message = No row with the given identifier exists: [ome.model.containers.Dataset#33]; nested exception is org.hibernate.ObjectNotFoundException: No row with the given identifier exists: [ome.model.containers.Dataset#33]
}

Last edited by Thorondor on Mon May 07, 2012 11:23 am, edited 1 time in total.
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Re: combining TIFF and CSV file with metadata

Postby jmoore » Mon May 07, 2012 11:18 am

Did you restart the server?

Code: Select all
bin/omero admin restart


What does diagnostics show now?

~Josh
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Posts: 1591
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Re: combining TIFF and CSV file with metadata

Postby Thorondor » Mon May 07, 2012 11:25 am

diagnostics show:

Code: Select all
/omero admin diagnostics

================================================================================
OMERO Diagnostics 4.3.4-dbcbce5a-b4
================================================================================
       
Commands:   java -version                  1.6.0     (/data/applications/jdk1.6.0_31/bin/java -- 2 others)
Commands:   python -V                      2.4.3     (/usr/bin/python)
Commands:   icegridnode --version          3.3.1     (/usr/bin/icegridnode)
Commands:   icegridadmin --version         3.3.1     (/usr/bin/icegridadmin)
Commands:   psql --version                 9.1.3     (/usr/bin/psql)

Server:     icegridnode                    running
Server:     Blitz-0                        active (pid = 13382, enabled)
Server:     DropBox                        active (pid = 13408, enabled)
Server:     FileServer                     active (pid = 13410, enabled)
Server:     Indexer-0                      active (pid = 13415, enabled)
Server:     MonitorServer                  active (pid = 13432, enabled)
Server:     OMERO.Glacier2                 active (pid = 13417, enabled)
Server:     OMERO.IceStorm                 active (pid = 13419, enabled)
Server:     PixelData-0                    active (pid = 13424, enabled)
Server:     Processor-0                    active (pid = 13420, enabled)
Server:     Tables-0                       active (pid = 13446, enabled)
Server:     TestDropBox                    inactive (enabled)

Log dir:    /data/applications/OMERO.server-Beta-4.3.4/var/log exists

Log files:  Blitz-0.log                    241.0 MB      errors=30   warnings=25 
Log files:  DropBox.log                    15.0 KB       errors=8    warnings=6   
Log files:  FileServer.log                 2.0 KB       
Log files:  Indexer-0.log                  230.0 KB      errors=6    warnings=9   
Log files:  MonitorServer.log              9.0 KB        errors=5    warnings=1   
Log files:  OMEROweb.log                   176.0 KB      errors=348  warnings=0   
Log files:  PixelData-0.log                154.0 KB      errors=6    warnings=9   
Log files:  Processor-0.log                1.0 MB        errors=0    warnings=3   
Log files:  Processor-0.log.1              4.0 MB       
Log files:  Processor-0.log.2              4.0 MB       
Log files:  Processor-0.log.3              4.0 MB       
Log files:  Processor-0.log.4              4.0 MB       
Log files:  Processor-0.log.5              4.0 MB       
Log files:  Processor-0.log.6              4.0 MB       
Log files:  Processor-0.log.7              4.0 MB       
Log files:  Processor-0.log.8              4.0 MB        errors=1467 warnings=8805
Log files:  Tables-0.log                   3.0 KB       
Log files:  TestDropBox.log                n/a
Log files:  master.err                     7.0 KB       
Log files:  master.out                     0.0 KB       
Log files:  Total size                     283.62 MB

Parsing Blitz-0.log:[line:863] => Server restarted <=
Parsing Blitz-0.log:[line:2047] => Server restarted <=
Parsing Blitz-0.log:[line:1534950] => Server restarted <=
Parsing Blitz-0.log:[line:1568218] => Server restarted <=
Parsing Blitz-0.log:[line:1569073] => Server restarted <=
Parsing Blitz-0.log:[line:1571086] => Server restarted <=

Environment:OMERO_HOME=/data/applications/OMERO.server-Beta-4.3.4
Environment:OMERO_NODE=(unset)             
Environment:OMERO_MASTER=(unset)           
Environment:PATH=/data/applications/jdk1.6.0_31/bin:/usr/share/Ice-3.3.1/bin:/data/oracle/product/11g/db_1/bin:/usr/sbin:/data/applications/jdk1.6.0_31/bin:/usr/share/Ice-3.3.1/bin:/data/oracle/product/11g/db_1/bin:/usr/sbin:/data/applications/jdk1.6.0_31/bin:/usr/share/Ice-3.3.1/bin:/data/oracle/product/11g/db_1/bin:/usr/sbin:/data/applications/jdk1.6.0_31/bin:/usr/share/Ice-3.3.1/bin:/data/oracle/product/11g/db_1/bin:/usr/sbin:/data/applications/jdk1.6.0_31/bin:/usr/share/Ice-3.3.1/bin:/data/oracle/product/11g/db_1/bin:/usr/sbin:/data/applications/jdk1.6.0_31/bin:/usr/share/Ice-3.3.1/bin:/data/oracle/product/11g/db_1/bin:/usr/sbin:/data/oracle/product/11g/db_1/bin:/usr/sbin:/usr/kerberos/sbin:/usr/kerberos/bin:/usr/local/sbin:/usr/local/bin:/sbin:/bin:/usr/sbin:/usr/bin:/data/applications/apache-ant-1.8.3/bin:/data/applications/jdk1.6.0_31/bin:/root/bin:/data/applications/hdf5-1.8.8/bin:/data/applications/hdf5-1.8.8/bin:/data/applications/hdf5-1.8.8/bin:/data/applications/hdf5-1.8.8/bin:/data/applications/hdf5-1.8.8/bin:/data/applications/hdf5-1.8.8/bin
Environment:ICE_HOME=/usr/share/Ice-3.3.1 
Environment:LD_LIBRARY_PATH=/usr/share/java:/usr/lib:/usr/local/lib:/usr/local/hdf5/lib/
Environment:DYLD_LIBRARY_PATH=/usr/share/java:/usr/lib/:/usr/share/java:/usr/lib/:/usr/share/java:/usr/lib/:/usr/share/java:/usr/lib/:/usr/share/java:/usr/lib/:

OMERO data dir: '/OMERO'        Exists? True    Is writable? True
OMERO.web status... [RUNNING] (PID 27118)


kind of good new. new problem see post before.
Thorondor
 
Posts: 58
Joined: Thu Apr 12, 2012 8:10 am

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