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CMC (Chemistry, Manufacturing and Control) Knowledge Graph is an exemplary setup of data and ontologies for knowledge graph infrastructure including dockerized frontend and backend solution based on open source software.

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Bayer-Group/cmc-knowledge-graph-setup

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Easy setup of the whole environment

The Setup is part of the CMC Knowledge Graph Application. This repository helps settings up a local environment based on Docker Compose.

Installation instructions

  1. Install Docker Desktop for Windows from Docker Hub (latest test with Docker Desktop v2.2.0.3)
  2. Clone this repository locally
    git clone --recursive [URL to this Git repo]
  3. Pull all changes in all submodules
    git pull --recurse-submodules
  4. Create a file .env in parallel to the file docker-compose.yml and insert the following variables (example values are shown):
    GRAPHDATABASE_USERNAME=admin
    GRAPHDATABASE_PASSWORD=admin
    
  5. Run docker-compose up to download and build all Docker images and startup the environment
  6. Wait for docker-compose to start up
  7. Open the KGE Frontend (see URL below).

Known problems

  • While building the frontend the following error could occur. In the Dockerfiles of the frontend applications node is used with an increased heap size while building the applications node --max_old_space_size=8000. Try to increase this, if the error occurs.

    FATAL ERROR: Ineffective mark-compacts near heap limit Allocation failed - JavaScript heap out of memory
    
  • After starting the application a second time, the fuseki database could throw exceptions. Delete the Docker container of the fuseki database with docker container rm fuseki. ATTENTION: This will remove all your created data and reload the database with the initial data.

  • fuseki-loader/loader.sh could contain Carriage Return characters, remove them.

Application URLs

Component URL for Docker environment URL for local environment Username Password
Apache Jena Fuseki Database Webinterface http://localhost:3030/ - admin admin
KGE-Editor-Frontend http://localhost:4400/ http://localhost:4400/ - -
KGE-Web-Service http://localhost:8080/swagger http://localhost:8080/swagger - -

Quick Tips

Some quick tips and advices to work faster.

Docker

To purge all unused or dangling images, containers, volumes, and networks run the following command:

docker system prune -a

To remove all containers:

docker container rm $(docker container ls -aq)

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CMC (Chemistry, Manufacturing and Control) Knowledge Graph is an exemplary setup of data and ontologies for knowledge graph infrastructure including dockerized frontend and backend solution based on open source software.

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