White Rabbit

Rabbit in a Hat

Introduction

WhiteRabbit is a small application that can be used to analyse the structure and contents of a database as preparation for designing an ETL. It comes with RabbitInAHat, an application for interactive design of an ETL to the OMOP Common Data Model with the help of the the scan report generated by White Rabbit.

Features

Can scan databases in SQL Server, Oracle, PostgreSQL, MySQL, MS Access, Amazon RedShift, Google BigQuery, SAS files and CSV files
The scan report contains information on tables, fields, and frequency distributions of values
Cutoff on the minimum frequency of values to protect patient privacy
WhiteRabbit can be run with a graphical user interface or from the command prompt
Interactive tool (Rabbit in a Hat) for designing the ETL using the scan report as basis
Rabbit in a Hat generates ETL specification document according to OMOP template

Screenshots


White Rabbit	Rabbit in a Hat

Technology

White Rabbit and Rabbit in a Hat are pure Java applications. Both applications use Apache's POI Java libraries to read and write Word and Excel files. White Rabbit uses JDBC to connect to the respective databases.

System Requirements

Requires Java 1.8 or higher, and read access to the database to be scanned. Java can be downloaded from http://www.java.com.

Dependencies

For the distributable packages, the only requirement is Java 8. For building the package, also Maven is needed.

Getting Started

WhiteRabbit

Under the Releases tab, download WhiteRabbit*.zip
Unzip the download
Double-click on bin/whiteRabbit.bat on Windows to start White Rabbit, and bin/whiteRabbit on macOS and Linux.

(See the documentation for details on how to run from the command prompt instead)

Rabbit-In-A-Hat

Using the files downloaded for WhiteRabbit, double-click on bin/rabbitInAHat.bat to start Rabbit-In-A-Hat on Windows, and bin/rabbitInAHat on macOS and Linux.

Note: on releases earlier than version 0.8.0, open the respective WhiteRabbit.jar or RabbitInAHat.jar files instead.

Example in- and output

The file examples.zip contains a set of input and output examples for White Rabbit and Rabbit in a Hat. These are used for testing of the main White Rabbit and Rabbit in a Hat features. An overview is given in below table.

Folder	Description
`wr_input_csv`	csv files to test scanning on different data types and long table names.
`wr_input_sas`	sas7bdat files to test sas input
`wr_output`	Scan reports created from files in `wr_input_csv`, `wr_input_sas` and native a Synthea database loaded in Postgres. All with default scan options. This folder also includes fake data generated from the csv scan report. The csv scan report is used to test the opening a Scan Report in Rabbit in a Hat.
`riah_input`	An example mapping file used to create the Rabbit in a Hat outputs.
`riah_output`	All export formats created by Rabbit in a Hat: as word, html, markdown, sql skeleton and the R TestFramework. These are all generated from `riah_input/riah_mapping_example.gz`.

Getting Involved

User guide and Help: WhiteRabbit documentation
Developer questions/comments/feedback: OHDSI Forum
We use the GitHub issue tracker for all bugs/issues/enhancements
Historically, all files have CRLF line endings. Please configure your IDE and local git to keep line endings as is. This avoids merge conflicts.

License

WhiteRabbit is licensed under Apache License 2.0

Development

White Rabbit and Rabbit in a Hat are structured as a Maven package and can be developed in Eclipse. Contributions are welcome.

To generate the files ready for distribution, run mvn install.

Development status

Production. This program is being used by many people.

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whiterabbit's Introduction