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Configure Data Sources

Update data lookup tables

Update Properties file

Step 3: Configure the build properties

The third step in the i2b2 on OMOP configuration process is to edit the build.properties file for edu.harvard.i2b2.pm. During this step you need to set the jboss.home and axis2.war.name properties.

 

Steps to update build.properties

 

1. At the command prompt type the following:
Linux Command
open build.properties
Windows Command
build.properties
2. The build.properties file will open. Set the following properties to reflect your environment:
Build Properties File
queryprocessormultifacttable=true
3. Save the changes and close the file.

Update crc.properties

CRC Properties Configuration

The crc.properties file contains a number of properties that define how the CRC cell will behave during certain operations. For the i2b2 on OMOP project there is only one property in this file that needs to be modified. 

 

Property Name:  queryprocessor.multifacttable

ValueBehavior
falseThe CRC will continue to work as it does in the classic i2b2. Only one fact table (observation_fact) will be queried
trueThe CRC will query multiple fact tables as defined in the OMOP CDM version 5

 

Update crc.properties file

Assumptions:

  • You are logged into the command line application for your environment. (Linux: Terminal or Shell and Windows: Command Prompt)
  • You have already changed your working directory to the one that is appropriate for this installation.

1. At the command prompt type the following:

Linux Command

open YOUR_I2B2_SRC_DIR/edu.harvard.i2b2.crc/etc/spring/crc.properties

Windows Command

YOUR_I2B2_SRC_DIR\i2b2\edu.harvard.i2b2.crc\etc\spring\crc.properties



EXAMPLES:

Linux Command:  open /opt/i2b2/edu.harvard.i2b2.crc/etc/spring/crc.properties
Windows Command:  C:\opt\i2b2\edu.harvard.i2b2.crc\etc\spring\crc.properties
2. The crc.properties file will open.
3. Scroll to the section called Derived/Multi fact table parameter.
4. Edit the queryprocessor.multifacttable property to turn on the i2b2 on OMOP feature.

Project Management Cell

# Derived/Multi fact table parameter
queryprocessor.multifacttable=true

4. Save your changes and close the file if you do not need to edit any more properties.

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