deepchain-apps 0.1.5

Define a personnal app to deploy on DeepChain.bio

Table of contents

• Description
• Installation
• CLI
  • login
  • create
  • deploy
  • apps
• How generate token to login deepchain?
• Getting started with App
• License

deepchain-apps package documentation

This Package provide a cli for creating a personnal app to deploy on the DeepChain platform. More informations on app To leverage the apps capability, take a look at the bio-transformers and bio-datasets package, which provide functionnality to download biological dataset and easily use pre-trained transformers.

1. Installation

It is recommended to work with conda environnements in order to manage the specific dependencies of the package.

  conda create --name deepchain-env python=3.7 -y
  conda activate deepchain-env
  pip install deepchain-apps

2. CLI commands

The CLI provides 4 main commands:

• login : you need to supply the token provide on the plateform (PAT: personnal access token).

  deepchain login
  

• create : create a folder with a template app file

  deepchain create my_application
  

• deploy : the code and checkpoint are deployed on the plateform, you can select your app in the interface on the plateform.

  • with checkpoint upload

    deepchain deploy my_application --checkpoint
    

  • Only the code

    deepchain deploy my_application
    

• apps :

  • Get info on all local/upload apps

    deepchain apps --infos
    

  • Remove all local apps (files & config):

    deepchain apps --reset
    

  • Remove a specific application (files & config):

    deepchain apps --delete my_application
    

How generate token to login deepchain?

If you want to deploy biology app on deepchain, you should first create a personal account on deepchain and go to the user profile section. As you can see below, you will be able to generate a PAT (personal access token) that you can use with the CLI command:

deepchain login

3. Getting started with App

• deepchain-apps template located at: https://github.com/DeepChainBio/deep-chain-apps
• create new folder when using deepchain create myapp
• app structure:

.
├── README.md # explain how to create an app
├── __init__.py # __init__ file to create python module
├── checkpoint
│   ├── __init__.py
│   └── Optionnal : model.pt # optional: model to be used in app must be placed there
├── examples
│   ├── app_with_checkpoint.py # example: app example with checkpoint
│   └── torch_classifier.py # example: show how to train a neural network with pre-trained embeddings
└── src
    ├── DESC.md # Desciption file of the application
    ├── __init__.py
    ├── app.py # main application script. Main class must be named App.
    └── tags.json # file to register the tags on the hub.

License

This source code is licensed under the Apache 2 license found in the LICENSE file in the root directory.