Task #12278 (new)
Opened 10 years ago
Last modified 10 years ago
Bug: In-place imports and omero.data.dir error — at Initial Version
Reported by: | bpindelski | Owned by: | |
---|---|---|---|
Priority: | blocker | Milestone: | 5.0.3 |
Component: | Services | Version: | 5.0.1 |
Keywords: | n.a. | Cc: | jamoore, spli |
Resources: | n.a. | Referenced By: | n.a. |
References: | n.a. | Remaining Time: | n.a. |
Sprint: | n.a. |
Description
While testing https://github.com/openmicroscopy/openmicroscopy/pull/2242, it has been discovered that using omero.data.dir with an in-place import causes the import to fail. The scenario is following:
- Start the server without setting omero.data.dir - images are assumed to be saved to C:\OMERO
- Conduct an in-place import
- Stop the server, set omero.data.dir to e.g. C:\OMERO.data, rename the binary repo to the new name
- Start the server, try an in-place import. It fails with
2014-05-14 13:45:36,403 10750 [ main] INFO ormats.importer.cli.LoggingImportMonitor - FILE_UPLOAD_STARTED: C:\Users\ome\Desktop\test\dv_single\test11_R3D.dv 2014-05-14 13:45:36,528 10875 [ main] WARN s.importer.transfers.SymlinkFileTransfer - Failed to deleted C:\OMERO\ManagedRepository\root_0\2014-05\14\13-45-33.575\test11_R3D.dv 2014-05-14 13:45:36,543 10890 [ main] ERROR ome.formats.importer.cli.ErrorHandler - FILE_EXCEPTION: C:\Users\ome\Desktop\test\dv_single\test11_R3D.dv java.io.FileNotFoundException: File 'C:\OMERO\ManagedRepository\root_0\2014-05\14\13-45-33.575\test11_R3D.dv' does not exist at org.apache.commons.io.FileUtils.openInputStream(FileUtils.java:137) ~[commons-io.jar:1.4] at org.apache.commons.io.FileUtils.readFileToString(FileUtils.java:1102) ~[commons-io.jar:1.4] at org.apache.commons.io.FileUtils.readFileToString(FileUtils.java:1120) ~[commons-io.jar:1.4] at ome.formats.importer.transfers.AbstractExecFileTransfer.checkLocation(AbstractExecFileTransfer.java:119) ~[blitz.jar:na] at ome.formats.importer.transfers.AbstractExecFileTransfer.transfer(AbstractExecFileTransfer.java:61) ~[blitz.jar:na] at ome.formats.importer.ImportLibrary.uploadFile(ImportLibrary.java:414) [blitz.jar:na] at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:477) [blitz.jar:na] at ome.formats.importer.ImportLibrary.importCandidates(ImportLibrary.java:271) [blitz.jar:na] at ome.formats.importer.cli.CommandLineImporter.start(CommandLineImporter.java:216) [blitz.jar:na] at ome.formats.importer.cli.CommandLineImporter.main(CommandLineImporter.java:721) [blitz.jar:na] 2014-05-14 13:45:36,559 10906 [ main] ERROR ome.formats.importer.ImportLibrary - Error on import java.io.FileNotFoundException: File 'C:\OMERO\ManagedRepository\root_0\2014-05\14\13-45-33.575\test11_R3D.dv' does not exist at org.apache.commons.io.FileUtils.openInputStream(FileUtils.java:137) ~[commons-io.jar:1.4] at org.apache.commons.io.FileUtils.readFileToString(FileUtils.java:1102) ~[commons-io.jar:1.4] at org.apache.commons.io.FileUtils.readFileToString(FileUtils.java:1120) ~[commons-io.jar:1.4] at ome.formats.importer.transfers.AbstractExecFileTransfer.checkLocation(AbstractExecFileTransfer.java:119) ~[blitz.jar:na] at ome.formats.importer.transfers.AbstractExecFileTransfer.transfer(AbstractExecFileTransfer.java:61) ~[blitz.jar:na] at ome.formats.importer.ImportLibrary.uploadFile(ImportLibrary.java:414) ~[blitz.jar:na] at ome.formats.importer.ImportLibrary.importImage(ImportLibrary.java:477) ~[blitz.jar:na] at ome.formats.importer.ImportLibrary.importCandidates(ImportLibrary.java:271) ~[blitz.jar:na] at ome.formats.importer.cli.CommandLineImporter.start(CommandLineImporter.java:216) [blitz.jar:na] at ome.formats.importer.cli.CommandLineImporter.main(CommandLineImporter.java:721) [blitz.jar:na] 2014-05-14 13:45:36,559 10906 [ main] INFO ome.formats.importer.ImportLibrary - Exiting on error
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