Repo to test datajoint functionality with lab pipeline

New

• Added simple streamlit app to import data into the pipeline (work in progress)

Installation

pip install -r requirements.txt

Setup of database

For standard setup, follow the instructions on the datajoint website. Set up the mysql database using docker. Then run the following commands after starting the container:

import datajoint as dj

dj.config['database.host'] = '127.0.0.1'
dj.config['database.user'] = 'root'
dj.config['database.password'] = 'simple'

Streamlit app for data import

To run the streamlit app, run the following command in the terminal:

cd Datajoint_test

then:

streamlit run app.py

Datajoint pipeline

The datajoint schema and tables are defined in the file tables.py. The pipeline is based on the tutorial and datajoint tutorials.

• tables.py: contains the schema and tables
• utils\load_data.py: contains functions to load data into the pipeline
• utils\analysis.py: contains functions to analyze data in the pipeline

Data

The data is stored locally, but the pipeline can be adapted to use data from different sources.

License

This project is licensed under the terms of the MIT license.