AoU EHR Submission Validator

Validate submissions for the All of Us data sprints

Requirements

Python 2.7.* or Python 3 (download from here and install)
pip (download get-pip.py and run python get-pip.py)

Installation / Configuration

Install requirements by running
```
 pip install -r requirements.txt
```

Running

Update _settings.py and rename it to settings.py
Create a folder and place all the EHR submission files to be validated into it
Set the "csv_dir" parameter in settings.py to the full path of the folder created above
Execute the following at the command line:
```
 python omop_file_validator.py
```

Validation logic

File names must follow naming convention {table}.csv
- table an OMOP CDM table listed in resources/omop
Files must be in CSV format (comma-delimited) as specified by rfc4180
Column names and types must follow the conventions in resources/omop