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Author Spotlight: Streamlining Visual Dynamics to Simplify Molecular Dynamics Simulations Using Gromacs
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Hypermedia-based software architecture enables Test-Driven Development
Andrew R Post1,2, Nancy Ho1, Erik Rasmussen1
1Huntsman Cancer Institute, University of Utah, Salt Lake City, UT 84112, United States.
JAMIA Open
|October 20, 2023
Summary
This study introduces the Comprehensive Oncology Research Environment (CORE) Browser, an open-source tool for managing cancer sequencing data in the cloud. Its hypermedia architecture and Test-Driven Development (TDD) approach achieved 78% code coverage, enhancing reliable data management.
Area of Science:
- Bioinformatics
- Software Engineering
- Cloud Computing
Background:
- Bioinformatic data management is crucial for cancer research.
- Existing tools often lack user-friendly, reliable cloud-based solutions.
- Integrating agile software development practices can improve informatics tools.
Purpose of the Study:
- To develop and evaluate an architecture for self-service bioinformatic data management in the cloud.
- To create a user-friendly and reliable system for cancer researchers.
- To leverage agile methodologies for efficient software development and testing.
Main Methods:
- Developed the Comprehensive Oncology Research Environment (CORE) Browser, an open-source web application.
- Utilized a microservices and hypermedia-based architecture.
- Integrated Test-Driven Development (TDD) with parameterized test templates for hypermedia architectures.
Main Results:
- The CORE Browser backend achieved 78% code coverage.
- 121 test templates and 875 custom tests were executed 3031 times.
- Hypermedia architecture facilitated test reuse and efficient development.
Conclusions:
- A hypermedia approach to architecture significantly enhances testing efficiency and code coverage.
- Integrating software engineering practices like TDD is vital for successful informatics projects.
- The CORE Browser offers a stable data management solution, enabling faster advancements in analysis methods.
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