BioDWH2-ArcadeDB-Server

BioDWH2 is an easy-to-use, automated, graph-based data warehouse and mapping tool for bioinformatics and medical informatics. The main repository can be found here.

This repository contains the BioDWH2-ArcadeDB-Server utility which can be used to create and explore an ArcadeDB graph database from any BioDWH2 workspace. There is no need for any ArcadeDB installation. All necessary components are bundled with this tool.

Download

The latest release version of BioDWH2-ArcadeDB-Server can be downloaded here.

Usage

BioDWH2-ArcadeDB-Server requires the Java Runtime Environment 11+. The JRE 11 archive is available here.

Creating a database from any workspace is done using the following command. Every time the workspace is updated or changed, the create command has to be executed again.

> java -jar BioDWH2-ArcadeDB-Server.jar --create /path/to/workspace

Once the database has been created, the database and ArcadeDB Studio can be started as follows:

> java -jar BioDWH2-ArcadeDB-Server.jar --start /path/to/workspace

By default, two users are created for ArcadeDB Studio:

• Username: root, Password: biodwh2-arcadedb
• Username: biodwh2, Password: biodwh2

Help

Usage: BioDWH2-ArcadeDB-Server.jar [-h] [-c <workspacePath>] [-cs <workspacePath>]
                                   [-s <workspacePath>] [-p <port>] [-sp <studioPort>]
  -h, --help                            print this message
  -s, --start <workspacePath>           Start an ArcadeDB server for the workspace
  -c, --create <workspacePath>          Create an ArcadeDB database from the workspace graph
  -cs, --create-start <workspacePath>   Create and start an ArcadeDB database from the workspace graph
  -p, --port <port>                     Specifies the ArcadeDB server port(-range) (default 2480-2489)