Task #9074 (closed)
Bug: LIFF Import
Reported by: | wmoore | Owned by: | mlinkert |
---|---|---|---|
Priority: | critical | Milestone: | OMERO-4.4 |
Component: | Bio-Formats | Version: | n.a. |
Keywords: | n.a. | Cc: | jburel, cxallan |
Resources: | n.a. | Referenced By: | n.a. |
References: | n.a. | Remaining Time: | n.a. |
Sprint: | 2012-06-19 (17) |
Description
I just tried importing a LIFF file, using a new Insight, server & DB from develop (right after sprint16 merge).
File is LIF/chris/free edge 6.liff
java.lang.NullPointerException at ome.formats.model.ChannelData.fromObjectContainerStore(ChannelData.java:265) at ome.formats.model.ChannelProcessor.process(ChannelProcessor.java:455) at ome.formats.OMEROMetadataStoreClient.postProcess(OMEROMetadataStoreClient.java:2098) at ome.formats.importer.ImportLibrary.importMetadata(ImportLibrary.java:349) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:537) at org.openmicroscopy.shoola.env.data.OMEROGateway.importImage(OMEROGateway.java:6253) at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1247) at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.importFile(ImagesImporter.java:86) at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.access$000(ImagesImporter.java:55) at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter$1.doCall(ImagesImporter.java:113) at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144) at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226) at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276) at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91) at java.lang.Thread.run(Thread.java:680) at org.openmicroscopy.shoola.env.data.OMEROGateway.importImage(OMEROGateway.java:6301) at org.openmicroscopy.shoola.env.data.OmeroImageServiceImpl.importFile(OmeroImageServiceImpl.java:1247) at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.importFile(ImagesImporter.java:86) at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter.access$000(ImagesImporter.java:55) at org.openmicroscopy.shoola.env.data.views.calls.ImagesImporter$1.doCall(ImagesImporter.java:113) at org.openmicroscopy.shoola.env.data.views.BatchCall.doStep(BatchCall.java:144) at org.openmicroscopy.shoola.util.concur.tasks.CompositeTask.doStep(CompositeTask.java:226) at org.openmicroscopy.shoola.env.data.views.CompositeBatchCall.doStep(CompositeBatchCall.java:126) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.exec(ExecCommand.java:165) at org.openmicroscopy.shoola.util.concur.tasks.ExecCommand.run(ExecCommand.java:276) at org.openmicroscopy.shoola.util.concur.tasks.AsyncProcessor$Runner.run(AsyncProcessor.java:91) at java.lang.Thread.run(Thread.java:680) Caused by: java.lang.NullPointerException at ome.formats.model.ChannelData.fromObjectContainerStore(ChannelData.java:265) at ome.formats.model.ChannelProcessor.process(ChannelProcessor.java:455) at ome.formats.OMEROMetadataStoreClient.postProcess(OMEROMetadataStoreClient.java:2098) at ome.formats.importer.ImportLibrary.importMetadata(ImportLibrary.java:349) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:537) at org.openmicroscopy.shoola.env.data.OMEROGateway.importImage(OMEROGateway.java:6253) ... 11 more
Change History (2)
comment:1 Changed 12 years ago by mlinkert
- Resolution set to fixed
- Status changed from new to closed
comment:2 Changed 12 years ago by wmoore
Working fine now. ;)
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You may also have a look at Agilo extensions to the ticket.
Fixed with this commit: https://github.com/melissalinkert/bioformats/commit/f74fdee384247c3fd71632409279696550fed35a