The Iris File Extension
Ryan Erik Landvater, Michael David Olp, Mustafa Yousif, Ulysses Balis
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- github.com/IrisDigitalPathology/Iris-File-ExtensionOfficialIn papernone★ 0
- github.com/irisdigitalpathology/iris-example-filesOfficialIn papernone★ 0
- github.com/irisdigitalpathology/iris-codecOfficialIn papernone★ 0
Abstract
A modern digital pathology vendor-agnostic binary slide format specifically targeting the unmet need of efficient real-time transfer and display has not yet been established. The growing adoption of digital pathology only intensifies the need for an intermediary digital slide format that emphasizes performance for use between slide servers and image management software. The DICOM standard is a well-established format widely used for the long-term storage of both images and associated critical metadata. However, it was inherently designed for radiology rather than digital pathology, a discipline that imposes a unique set of performance requirements due to high-speed multi-pyramidal rendering within whole slide viewer applications. Here we introduce the Iris file extension, a binary container specification explicitly designed for performance-oriented whole slide image viewer systems. The Iris file extension specification is explicit and straightforward, adding modern compression support, a dynamic structure with fully optional metadata features, computationally trivial deep file validation, corruption recovery capabilities, and slide annotations. In addition to the file specification document, we provide source code to allow for (de)serialization and validation of a binary stream against the standard. We also provide corresponding binary builds with C++, Python, and JavaScript language support. Finally, we provide full encoder and decoder implementation source code, as well as binary builds (part of the separate Iris Codec Community module), with language bindings for C++ and Python, allowing for easy integration with existing WSI solutions. We provide the Iris File Extension specification openly to the community in the form of a Creative Commons Attribution-No Derivative 4.0 International license.