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Protégé NCI Thesaurus Admin Guide Cheatsheet v1.0
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Servers
Name | Description |
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cbiows501 | Production (protegeqa user) |
cbvapp-s1005 | Stage (protegeadm user) |
cbapp-q1001 | QA (protegeadm user) |
cbvapp-d1012 | Dev (protegeadm user) |
Related Programs/Services
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- Configure project (see below, include Save, but don't Exit).
- Exit Protégé without saving (the Save gets done automatically during the conversion)
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Database reload into an existing project
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- Thesaurus tables exist
- ChaO tables exist
- Metaproject exists
- Prompt.properties exists and configured
- Ncitab.xml exists and configured
- Shell scripts all exist and configured
- Prompt complete (if needed)
- File exported
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Steps
- Stop protégé server.
- Stop explanation server.
- Start Protégé, New Project->Check Create from Exisitng Sources, select OWL/RDF Files->Find file->OWL DL->Finish
- Save to temp project Thesaurus_Temp.pprj
- Change to database project File->Convert Project to Format-> Select Clark-Parsia Protégé OWL/RDF Database->Enter the JDBC URL using the database ->Table (Thesaurus)-> Username (********)->Password(*******)
- Overwrite existing database tables.
- File->Save Project to the temp project
- Close client. Reopen Thesaurus.pprj
- Check that everything is configured correctly and the database can be reached.
- Close client
- Start explanation server and monitor
- Start protégé server
- Start client pointed at server
- Reindex
- Verify it works and returns queries
- Classify
Configuring a New Project
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Q: After building the database, why am I getting this weird warning and Java RuntimeException?
A: You accidentally selected the 'Clark & Parsia Database' option. Start over and select the 'Clark & Parsia OWL/RDF Database' instead.
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A: This is due to a hard-coding where the application will attempt to find a project file named annotation_PROJECTNAME.pprj. Rename this project file if it exists so Protege can create a new one and is no longer trying to reference the old file.
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