Task #2368 (closed)
Opened 9 years ago
Closed 9 years ago
BUG: stk
| Reported by: | jburel | Owned by: | cxallan |
|---|---|---|---|
| Priority: | blocker | Milestone: | OMERO-Beta4.2 |
| Component: | Import | Version: | n.a. |
| Keywords: | n.a. | Cc: | cxallan |
| Resources: | n.a. | Referenced By: | n.a. |
| References: | n.a. | Remaining Time: | 0.0d |
| Sprint: | 2010-05-13 (9) |
Description
23srp..sub.stk
serverExceptionClass = "ome.conditions.InternalException"
message = " Wrapped Exception: (java.lang.NullPointerException):
null"
at ome.formats.OMEROMetadataStoreClient.saveToDB(OMEROMetadataStoreClient.java:1800)
at ome.formats.importer.ImportLibrary.importMetadata(ImportLibrary.java:257)
at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:436)
at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:340)
at ome.formats.importer.gui.ImportHandler.importImages(ImportHandler.java:215)
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:417)
at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:269)
at java.util.concurrent.FutureTask.run(FutureTask.java:123)
at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.access$301(ScheduledThreadPoolExecutor.java:65)
at java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:172)
at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:651)
at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:676)
at java.lang.Thread.run(Thread.java:613)
Caused by: omero.InternalException
serverStackTrace = "ome.conditions.InternalException: Wrapped Exception: (java.lang.NullPointerException):
null
at ome.formats.OMEROMetadataStore.handle(OMEROMetadataStore.java:753)
at ome.formats.OMEROMetadataStore.updateObject(OMEROMetadataStore.java:234)
Change History (11)
comment:1 Changed 9 years ago by cxallan
- Status changed from new to assigned
comment:2 Changed 9 years ago by cxallan
- Status changed from assigned to closed
comment:3 follow-up: ↓ 8 Changed 9 years ago by cxallan
comment:4 Changed 9 years ago by cxallan
- Status changed from closed to reopened
comment:5 Changed 9 years ago by cxallan
- Owner changed from bwzloranger to mlinkert-x
- Status changed from reopened to new
comment:6 follow-up: ↓ 7 Changed 9 years ago by cxallan
Vis-a-vis #2403, the Detector.Zoom also has a mismatch between 4.1.1 (0.0), 4.1.2-latest (100.0) and 4.2.x (100.0) for 23srp5dksub.stk. Is this correct?
comment:7 in reply to: ↑ 6 Changed 9 years ago by mlinkert
comment:8 in reply to: ↑ 3 Changed 9 years ago by mlinkert
Replying to cxallan:
Exception with one file:
2010-05-19 15:22:51,532 1437785 [2-thread-1] ERROR importer.gui.ErrorHandler?$MyErrorHandler? - INTERNAL_EXCEPTION: /Users/callan/testimages/stk/EXPERIMENT38_w1FITC_t1.stk
java.lang.NumberFormatException?: For input string: "16-bit (1 MHz)"
Fixed in bio-formats:r6354.
comment:9 Changed 9 years ago by cxallan
- Status changed from new to assigned
comment:10 Changed 9 years ago by cxallan
- Owner changed from mlinkert-x to cxallan
comment:11 Changed 9 years ago by cxallan
- Remaining Time set to 0
- Resolution set to fixed
- Status changed from assigned to closed
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Exception with one file:
2010-05-19 15:22:51,532 1437785 [2-thread-1] ERROR importer.gui.ErrorHandler$MyErrorHandler - INTERNAL_EXCEPTION: /Users/callan/testimages/stk/EXPERIMENT38_w1FITC_t1.stk java.lang.NumberFormatException: For input string: "16-bit (1 MHz)" at java.lang.NumberFormatException.forInputString(NumberFormatException.java:48) at java.lang.Integer.parseInt(Integer.java:458) at java.lang.Integer.parseInt(Integer.java:499) at loci.formats.in.MetamorphReader.initStandardMetadata(MetamorphReader.java:857) at loci.formats.in.BaseTiffReader.initMetadata(BaseTiffReader.java:73) at loci.formats.in.BaseTiffReader.initFile(BaseTiffReader.java:495) at loci.formats.in.MetamorphReader.initFile(MetamorphReader.java:269) at loci.formats.FormatReader.setId(FormatReader.java:1012) at loci.formats.ImageReader.setId(ImageReader.java:644) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:485) at loci.formats.ChannelFiller.setId(ChannelFiller.java:177) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:485) at loci.formats.ChannelSeparator.setId(ChannelSeparator.java:238) at loci.formats.ReaderWrapper.setId(ReaderWrapper.java:485) at ome.formats.importer.ImportLibrary.open(ImportLibrary.java:213) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:399) at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:340) at ome.formats.importer.gui.ImportHandler.importImages(ImportHandler.java:215) at ome.formats.importer.gui.ImportHandler.access$1(ImportHandler.java:149) 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)