CRATE
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Contents:

  • 1. Overview
  • 2. Package elements in brief
  • 3. Reference publications
  • 4. Installing CRATE
  • 5. Preprocessing tools
  • 6. Anonymisation
  • 7. Natural language processing (NLP)
  • 8. Configuring the CRATE web interface
  • 9. Using the CRATE web interface
  • 10. Ancillary tools
  • 11. FAQs and troubleshooting
  • 12. Linkage tools
  • 13. Additional notes
    • 13.1. Technical notes
    • 13.2. Common relevant TCP/IP ports
    • 13.3. External dependencies
    • 13.4. Calling Python from SQL Server
    • 13.5. Using SemEHR
  • 14. Automatic documentation of source code
  • 15. Index of CRATE commands
  • 16. Licences
  • 17. Change log/history
  • 18. Things to do
  • 19. Abbreviations
  • 20. Glossary
CRATE
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  • 13. Additional notes
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13. Additional notes

  • 13.1. Technical notes
    • 13.1.1. Resolved bugs elsewhere, previously affecting CRATE
    • 13.1.2. Cross-platform hosting
    • 13.1.3. Converting to SQLAlchemy
    • 13.1.4. Installing Python 3.4 on Ubuntu 16.04
    • 13.1.5. Transaction count always >0 for SQL Server, prohibiting CREATE FULLTEXT INDEX
    • 13.1.6. Celery: test_email_rdbm_task() missing 1 required positional argument: ‘self’
    • 13.1.7. SQL comments
    • 13.1.8. webnotes.txt
    • 13.1.9. notes_on_database_schemas.txt
    • 13.1.10. old notes.txt
    • 13.1.11. Old pipeline notes
  • 13.2. Common relevant TCP/IP ports
  • 13.3. External dependencies
  • 13.4. Calling Python from SQL Server
    • 13.4.1. Prerequisites
    • 13.4.2. Basic communication with Python
    • 13.4.3. Install some external Python code
    • 13.4.4. See what packages are installed locally
    • 13.4.5. Structured data flow
    • 13.4.6. Example to find two antidepressants “episodes”
  • 13.5. Using SemEHR
    • 13.5.1. Background on Docker
    • 13.5.2. SemEHR tutorial via Docker on Ubuntu
    • 13.5.3. Notes on Docker
    • 13.5.4. Notes on the SemEHR Docker setup
    • 13.5.5. Troubleshooting SemEHR
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© Copyright 2015, University of Cambridge, Department of Psychiatry. Revision ba82709a.

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