Opened 10 years ago
Closed 10 years ago
#1930 closed defect (fixed)
Can't run batch importers in 'create' mode when using multiple lines per item
Reported by: | Nicklas Nordborg | Owned by: | everyone |
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Priority: | major | Milestone: | BASE 3.4.2 |
Component: | coreplugins | Version: | |
Keywords: | Cc: |
Description
That batch importers have support for using multiple lines to import data to a single item. This is for example needed when connecting a child pooled biomaterial with all of it's parent biomaterials, or when adding multiple data files to a raw bioassay.
But this feature doesn't work in 'create' mode. The batch importer will choke as soon as it finds the second line of data for a new item. The stacktrace below is from the test code that has been modified to run the importer in 'create' mode instead of 'create+update' mode.
net.sf.basedb.core.BaseException: Item already exists: Sample[Name=Pooled sample] on line 6 in file 'data_test.batchimport.samples.txt2578': Pooled sample at TestJob.test_execute(TestJob.java:113) at TestItemImporter.test_all(TestItemImporter.java:125) at TestItemImporter.main(TestItemImporter.java:58) Caused by: net.sf.basedb.core.BaseException: Item already exists: Sample[Name=Pooled sample] on line 6 in file 'data_test.batchimport.samples.txt2578': Pooled sample at net.sf.basedb.plugins.AbstractFlatFileImporter.doImport(AbstractFlatFileImporter.java:716) at net.sf.basedb.plugins.AbstractFlatFileImporter.run(AbstractFlatFileImporter.java:450) at net.sf.basedb.core.PluginExecutionRequest.invoke(PluginExecutionRequest.java:116) at TestJob.test_execute(TestJob.java:97) ... 2 more Caused by: net.sf.basedb.core.ItemAlreadyExistsException: Item already exists: Sample[Name=Pooled sample] at net.sf.basedb.plugins.batchimport.AbstractItemImporter.handleData(AbstractItemImporter.java:755) at net.sf.basedb.plugins.AbstractFlatFileImporter.doImport(AbstractFlatFileImporter.java:684) ... 5 more
Change History (2)
comment:1 by , 10 years ago
comment:2 by , 10 years ago
Resolution: | → fixed |
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Status: | new → closed |
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(In [6778]) References #1930: Can't run batch importers in 'create' mode when using multiple lines per item
Updated batch importer test code to use 'create' mode when importing raw bioassays. This current fails
Item already exists: Raw bioassay[Name=Raw data 2] on line 4 in file...