Latest Version: 2.2.0

• ✅ For Users: See Docker for how to install and run the application as a container.
• 🧑‍💻 For Developers: See Building from Source if you want to build and run Bigellor locally.

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Bigellor

Bigellor is a web-based modelling tool to graphically create and visualize bigraphs.

The underlying web development framework of Bigellor is a combination of Spring framework and Thymeleaf,
and Cytoscape.js for the visualization of bigraphs in the browser.

Screenshots

Getting Started

Docker Container

Build the image:

shell $ docker build -t bigellor-app .

Run the container:

shell $ docker run -p 8080:8080 bigellor-app

Then, just open the web browser and navigate to - http://localhost:8080.

Optional: Change App Port

If you want the app to run on a different port (e.g. 9090), you need execute:

shell $ docker run -p 9090:9090 \ -e "SPRING_APPLICATION_JSON={\"server.port\":9090}" \ bigellor-app

Building from Source

Requirements

• Java == 17
• Maven >= 3.8.3

Building the App

The following command must be executed from the root directory of this project: shell $ mvn clean package -DskipTests

After the command successfully finishes, the executable application can be found in the directory dist/ from the root of this project.

Starting Bigellor

Note: Ensure that there is read/write permission on the directory, where Bigellor is started.

After the build process is successfully finished, you can start Bigellor.

Therefore, execute the following commands: ```shell $ cd ./dist/ $ java -jar bigellor-starter-*-exec.jar

```

Then, just open the web browser and navigate to http://localhost:8080.

The correct server name and port will be displayed in the console if defaults were changed.

Arguments to Configure

Properties can be configured when starting Bigellor in the following way: shell $ java -jar bigellor-starter-VERSION-exec.jar --PROPERTY=VALUE --PROPERTY2=VALUE2 ...

| Property | Description | |-----------------------------------|-----------------------------------------------------------------------------------------------------------------------------------------------------------| | bigellor.gen-test-data | (Optional) true or false. If true then a demo signature will be provided in data/signatures/ and available in the IDE. | | bigellor.model.storage.location | (Optional) A relative folder path. It denotes the storage directory for all user-uploaded model files in Bigellor. | | server.port | (Optional) A port number. This determines the server port of Bigellor. Default is 8080. | | bigellor.cdo.config | (Optional) A relative folder path to the Eclipse CDO database configuration file (usually located at config/cdo-server.xml). A default one is provided. |

Database Configuration

Eclipse CDO is used as database for all bigraphical model files. (Note that the model files are currently also persisted on the filesystem.) The server boots in the background when Bigellor is started; the database uses the folder data/ relative to the application for persistence. To access Eclipse CDO in Bigellor conveniently the Spring-way (via repositories), the framework Spring Data CDO is used.

An example of the default database configuration properties can be found here: src/main/resources/config/cdo-server.xml. When Bigellor is build from source, the application can be found in the dist/ folder from the root of this project. Included is also the config/cdo-server.xml, which can be configured afterward.

Use Eclipse CDO Explorer to view and modify the bigraphs directly in the database. You can download the CDO Explorer via the Eclipse Installer. Use Eclipse Version 2022-12 (4.26.0), which supports CDO protocol version 48.

Build Problems and Solutions

In case you are getting an error while building the project similar to Fatal error compiling: error: invalid target release: 17 check the JDK for Maven with mvn --version: shell $ mvn --version Apache Maven 3.9.5 Maven home: /opt/maven Java version: 11.0.20.1

In this example, Maven version 3.9.5 uses the JDK 11. However, JDK 17 is required for this project (see Requirements). It helps to correct the JAVA_HOME environment variable.

Acknowledgement

Thanks to Simon Tobies for his contributions to the visualization and modeling backend of Bigellor.

License

Bigellor is Open Source software released under the Apache 2.0 license.

```text Copyright 2023-present Bigraph Toolkit Developers

Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at

https://www.apache.org/licenses/LICENSE-2.0

Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License. ```