Opened 11 years ago

Closed 11 years ago

#1610 closed defect (fixed)

Base1PluginExecutor tries to remap raw data associations for file-only platforms

Reported by: Nicklas Nordborg Owned by: everyone
Priority: major Milestone: BASE 2.17.2
Component: coreplugins Version:
Keywords: Cc:

Description

This was discovered when running Merge BioAssay on data originating from Affymetrix platform.

See http://www.mail-archive.com/basedb-users@lists.sourceforge.net/msg02009.html for more information.

The stacktrace:

net.sf.basedb.core.BaseException: Raw data for raw data type: Affymetrix is not stored in the database.
at net.sf.basedb.core.DynamicSpotQuery.joinRawData(DynamicSpotQuery.java:261)
at net.sf.basedb.util.importer.spotdata.BaseFileImporter.createChildRawDataMapping(BaseFileImporter.java:510)
at net.sf.basedb.util.importer.spotdata.BaseFileImporter.doImport(BaseFileImporter.java:346)
at net.sf.basedb.plugins.Base1PluginExecuter.importData(Base1PluginExecuter.java:1471)
at net.sf.basedb.plugins.Base1PluginExecuter.run(Base1PluginExecuter.java:774)
at net.sf.basedb.core.PluginExecutionRequest.invoke(PluginExecutionRequest.java:116)
at net.sf.basedb.core.InternalJobQueue$JobRunner.run(InternalJobQueue.java:510)
at java.lang.Thread.run(Thread.java:636)

Change History (1)

comment:1 Changed 11 years ago by Nicklas Nordborg

Resolution: fixed
Status: newclosed

(In [5639]) Fixes #1610: Base1PluginExecutor tries to remap raw data associations for file-only platforms

I hope this fixes the problem. We don't have the kind of data that allows us to create a test case for this.

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