User Story #2941 (closed)
Opened 14 years ago
Closed 12 years ago
Import Errors with ome example files
Reported by: | bwzloranger | Owned by: | mlinkert |
---|---|---|---|
Priority: | major | Milestone: | Unscheduled |
Component: | Import | Keywords: | n.a. |
Cc: | cxallan, jburel, ajpatterson, jamoore | Story Points: | n.a. |
Sprint: | n.a. | Importance: | n.a. |
Total Remaining Time: | 0.0d | Estimated Remaining Time: | n.a. |
Description (last modified by jburel)
Several of the current 'valid' OME example file located in the repo do not import (files located in specification/Documentation/Samples/). These file should import.
- We should have a test to regularly test these files
- Determine the cause of the failures (is this an importer bug or an issue with the stylesheets, for example).
Change History (9)
comment:1 Changed 14 years ago by bwzloranger
comment:2 Changed 14 years ago by bwzloranger
- Cc mlinkert-x jburel ajpatterson added
comment:3 Changed 14 years ago by bwzloranger
- Type changed from Task to User Story
comment:4 Changed 14 years ago by bwzloranger
- Cc jmoore added
comment:5 Changed 14 years ago by jburel
- Description modified (diff)
comment:6 Changed 14 years ago by jburel
Brian: could you create tickets with the error that you have already noticed? thanks
comment:7 Changed 14 years ago by bwzloranger
Two errors here. I've listed the error along with some sample QA feedback numbers associated with them (should you require more details):
http://qa.openmicroscopy.org.uk/qa/feedback/2825/
java.lang.RuntimeException: omero.ValidationException serverStackTrace = "ome.conditions.ValidationException: not-null property references a null or transient value: ome.model.screen.WellSample._wellSamplesBackref; nested exception is org.hibernate.PropertyValueException: not-null property references a null or transient value: ome.model.screen.WellSample._wellSamplesBackref at org.springframework.orm.hibernate3.SessionFactoryUtils.convertHibernateAccessException(SessionFactoryUtils.java:648) 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:222) at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172) at ome.services.util.ServiceHandler.invoke(ServiceHandler.java:111) at org.springframework.aop.framework.ReflectiveMethodInvocation.proceed(ReflectiveMethodInvocation.java:172) at org.springframework.aop.framework.JdkDynamicAopProxy.invoke(JdkDynamicAopProxy.java:202) at $Proxy56.doWork(Unknown Source) at ome.services.util.Executor$Impl.execute(Executor.java:339) at ome.services.throttling.Adapter.run(Adapter.java:51) at ome.services.throttling.InThreadThrottlingStrategy.runnableCall(InThreadThrottlingStrategy.java:89) at ome.services.blitz.impl.AbstractAmdServant.runnableCall(AbstractAmdServant.java:147) at ome.services.blitz.impl.MetadataStoreI.saveToDB_async(MetadataStoreI.java:167) at omero.api._MetadataStoreTie.saveToDB_async(_MetadataStoreTie.java:85) at omero.api._MetadataStoreDisp.___saveToDB(_MetadataStoreDisp.java:211) at omero.api._MetadataStoreDisp.__dispatch(_MetadataStoreDisp.java:333) 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)
http://qa.openmicroscopy.org.uk/qa/feedback/2824/
java.lang.RuntimeException: omero.ApiUsageException serverStackTrace = "" serverExceptionClass = "" message = "omero.model.LightSource does not specify a valid class." at ome.formats.enums.IQueryEnumProvider.getEnumerations(IQueryEnumProvider.java:185) at ome.formats.enums.IQueryEnumProvider.getEnumeration(IQueryEnumProvider.java:132) at ome.formats.OMEROMetadataStoreClient.getEnumeration(OMEROMetadataStoreClient.java:957) at ome.formats.OMEROMetadataStoreClient.setLaserPump(OMEROMetadataStoreClient.java:4528) at loci.formats.meta.MetadataConverter.convertLightSources(MetadataConverter.java:2352) at loci.formats.meta.MetadataConverter.convertMetadata(MetadataConverter.java:1028) at loci.formats.services.OMEXMLServiceImpl.convertMetadata(OMEXMLServiceImpl.java:404) at loci.formats.in.OMEXMLReader.initFile(OMEXMLReader.java:308) at loci.formats.FormatReader.setId(FormatReader.java:1074) at loci.formats.ImageReader.setId(ImageReader.java:650) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelFiller.setId(ChannelFiller.java:244) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:480) at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:255) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:447) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:384) at ome.formats.importer.gui.ImportHandler.importImages(ImportHandler.java:216) at ome.formats.importer.gui.ImportHandler.access$100(ImportHandler.java:59) at ome.formats.importer.gui.ImportHandler$2.run(ImportHandler.java:134) at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:441) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.access$301(ScheduledThreadPoolExecutor.java:98) at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:207) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:886) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:908) at java.lang.Thread.run(Thread.java:637)
comment:8 Changed 12 years ago by mlinkert
- Cc bwzloranger mlinkert-x removed
- Owner set to mlinkert-x
comment:9 Changed 12 years ago by jburel
- Resolution set to fixed
- Status changed from new to closed
Should probably have a chain of tests here. Taking an importable older schema, doing a translation, and testing against both to make sure the translations are ok first, then seeing what imports.