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Related Experiment Videos

HotSwap for bioinformatics: a STRAP tutorial.

Christoph Gille1, Peter N Robinson

  • 1Institute for Biochemistry, Charité University Hospital, Humboldt University, Berlin, Germany. christoph.gille@charite.de

BMC Bioinformatics
|February 14, 2006
PubMed
Summary
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Bioinformatics developers can speed up application development using the HotSwap technique within the STRAP protein workbench. This method allows for efficient plugin creation and updates without recompiling large datasets, saving valuable time.

Area of Science:

  • Bioinformatics
  • Computational Biology
  • Software Development

Background:

  • Bioinformatics applications handle large datasets, making development cycles of optimization, compiling, and testing lengthy.
  • Repeatedly loading large datasets significantly slows down the development process for bioinformatics tools.
  • The STRAP protein workbench now integrates HotSwap functionality for streamlined plugin development.

Purpose of the Study:

  • To introduce and demonstrate the utility of the Java HotSwap technique for bioinformatics application development.
  • To enable developers to create and update plugins for the STRAP protein workbench efficiently.
  • To reduce development time by eliminating the need to recompile the entire application or reload large datasets.

Main Methods:

Related Experiment Videos

  • Incorporation of Java HotSwap functionality into the STRAP protein workbench.
  • Development of plugins using external editors (e.g., Emacs) while STRAP is running.
  • Automatic recompilation and UI update of plugins upon saving changes to Java files.

    • Main Results:

    • Developers can simultaneously develop plugins and interact with protein sequences/structures in STRAP.
    • Saving Java file changes triggers automatic plugin recompilation and STRAP UI updates.
    • Eliminates the need for STRAP recompilation or protein data reloading during plugin development.

    Conclusions:

    • HotSwap is a valuable and time-saving technique for bioinformatics developers.
    • Efficient development of data-intensive bioinformatics applications is achievable with HotSwap.
    • STRAP facilitates efficient bioinformatics application development through HotSwap plugin functionality.