BoneJ2 - refactoring established research software

Wellcome Open Research

article

Richard Domander¹  Alessandro A Felder¹  Michael Doube¹ 

[1] Department of Comparative Biomedical Sciences, The Royal Veterinary College, University of London;Research Software Development Group, University College London;Department of Infectious Diseases and Public Health, City University of Hong Kong

关键词: Open-source;    Java;    Bone;    Biology;    Morphometry;    ImageJ;    FIJI;    BoneJ;    Image analysis;    Software engineering;    Programming;   

DOI  :  10.12688/wellcomeopenres.16619.2

学科分类：内科医学

来源: Wellcome

【 摘 要 】

Research software is often developed with expedience as a core development objective because experimental results, but not the software, are specified and resourced as a project output. While such code can help find answers to specific research questions, it may lack longevity and flexibility to make it reusable. We reimplemented BoneJ, our software for skeletal biology image analysis, to address design limitations that put it at risk of becoming unusable. We improved the quality of BoneJ code by following contemporary best programming practices. These include separation of concerns, dependency management, thorough testing, continuous integration and deployment, source code management, code reviews, issue and task ticketing, and user and developer documentation. The resulting BoneJ2 represents a generational shift in development technology and integrates with the ImageJ2 plugin ecosystem.

【 授权许可】

CC BY