Bug: OME-tiff export: handle Pyramids

[jamoore]

I tried to export a bad pyramid while testing #9904. The green check showed up despite the failure.

WARNING:omero.gateway:ApiUsageException on <class 'omero.gateway.OmeroGatewaySafeCallWrapper'> to <86:24:41:e4:5664dc63:13b07a76d02:-7eeaomero.api.Exporter> generateTiff((<ServiceOptsDict: {'omero.session.uuid': '31c96118-5809-4e6c-9065-1f5d30b94be0', 'omero.client.uuid': '430bd574-d6b7-40e7-acfb-c2ad16239aac'}>,), {})
Traceback (most recent call last):
  File "/home/hudson/hudson/workspace/OMERO-merge-4.4/src/dist/lib/python/omero/gateway/__init__.py", line 3335, in __call__
    return self.f(*args, **kwargs)
  File "/home/hudson/hudson/workspace/OMERO-merge-4.4/src/dist/lib/python/omero_api_Exporter_ice.py", line 93, in generateTiff
    return _M_omero.api.Exporter._op_generateTiff.invoke(self, ((), _ctx))
ApiUsageException: exception ::omero::ApiUsageException
{
    serverStackTrace = ome.conditions.ApiUsageException: Cannot load image: 4449
	at ome.services.blitz.impl.OmeroMetadata.initialize(OmeroMetadata.java:247)
	at ome.services.blitz.impl.ExporterI$2.doWork(ExporterI.java:347)
...
	at IceInternal.ThreadPool$EventHandlerThread.run(ThreadPool.java:971)

    serverExceptionClass = ome.conditions.ApiUsageException
    message = Cannot load image: 4449
}
Traceback (most recent call last):
  File "./script", line 513, in <module>
    runScript()
  File "./script", line 499, in runScript
    fileAnnotation, message = batchImageExport(conn, scriptParams)
  File "./script", line 346, in batchImageExport
    saveAsOmeTiff(conn, img, folder_name)
  File "./script", line 165, in saveAsOmeTiff
    fileSize, block_gen = image.exportOmeTiff(bufsize=65536)
  File "/home/hudson/hudson/workspace/OMERO-merge-4.4/src/dist/lib/python/omero/gateway/__init__.py", line 6572, in exportOmeTiff
    size = e.generateTiff(self._conn.SERVICE_OPTS)
  File "/home/hudson/hudson/workspace/OMERO-merge-4.4/src/dist/lib/python/omero/gateway/__init__.py", line 3338, in __call__
    return self.handle_exception(e, *args, **kwargs)
  File "/home/hudson/hudson/workspace/OMERO-merge-4.4/src/dist/lib/python/omero/gateway/__init__.py", line 3335, in __call__
    return self.f(*args, **kwargs)
  File "/home/hudson/hudson/workspace/OMERO-merge-4.4/src/dist/lib/python/omero_api_Exporter_ice.py", line 93, in generateTiff
    return _M_omero.api.Exporter._op_generateTiff.invoke(self, ((), _ctx))
omero.ApiUsageException: exception ::omero::ApiUsageException
{
    serverStackTrace = ome.conditions.ApiUsageException: Cannot load image: 4449
	at ome.services.blitz.impl.OmeroMetadata.initialize(OmeroMetadata.java:247)
	at ome.services.blitz.impl.ExporterI$2.doWork(ExporterI.java:347)
	at sun.reflect.GeneratedMethodAccessor259.invoke(Unknown Source)
	at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:25)
...
	at $Proxy105.generateTiff_async(Unknown Source)
	at omero.api._ExporterTie.generateTiff_async(_ExporterTie.java:71)
	at omero.api._ExporterDisp.___generateTiff(_ExporterDisp.java:175)
	at omero.api._ExporterDisp.__dispatch(_ExporterDisp.java:248)
	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.ApiUsageException
    message = Cannot load image: 4449
}

[wmoore]

Hmmm - the green 'tick' in the activities window tells you that there was no error in the scripting service. The OME-TIFF export script "Batch_Image_Export.py" could check if the ome-tiff was created, and if not, then return an appropriate message, but the scripting service doesn't provide a way to return "Script Failed" status, right? This is what we'd need if we want the scripts to display their status in this way (or I guess we could decide on a convention between the clients, in the same way as we've done with the "Message" return parameter.

[jmoore]

Will, it seems like no exception is being thrown by the script. If one is, or the exit code is otherwise not 0, then the script should be marked as failed.

[wmoore]

We should add a check to see if the image is a Pyramid, and if so return a suitable 'message'. Not sure if Batch Image Export will work with any Pyramids, even for rendering planes??

[jburel]

Moving to 5.1.3 for review

[wmoore]

Improved handling of Big images by Batch Image Export script

[wmoore]

Seems we have improved handling of Big Images by Batch_Image_Export script now ​https://trac.openmicroscopy.org/ome/attachment/ticket/9919/Screen%20Shot%202015-06-16%20at%2012.54.07.png