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NA-MIC All Hands Meeting - 1/9/2006

NA-MIC All Hands Meeting - 1/9/2006. GE Research Status Report Bill Lorensen Jim Miller Dan Blezek Xiaodong Tao. GE Research engineering activities are distributed in three areas. Foundation (ITK). Structure (Slicer). Building codes (Dart). Orientations (ITK)

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NA-MIC All Hands Meeting - 1/9/2006

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  1. NA-MIC All Hands Meeting - 1/9/2006 GE Research Status Report Bill Lorensen Jim Miller Dan Blezek Xiaodong Tao

  2. GE Research engineering activities are distributed in three areas Foundation (ITK) Structure (Slicer) Building codes (Dart) Orientations (ITK) Probability distributions (Sandbox) Tensor estimation (Sandbox) IO – DICOM, Transforms (ITK) Fiber format conversion (Slicer  FiberViewer) Future: fMRI MRF solvers Graph cuts DW smoothing/interpolation • IO – Archetype, DICOM • Orientations • Registration • Slicer 3 architecture design • Future: • Slicer 3 • Architecture • Data model • Execution model Reimplementation of Dart Single Java jar file Embedded database Embedded web server/servlet engine Archival Tasks XML-RPC submissions Temporal analysis Beta releases 0.4, 0.5, 0.6, 0.7 Future: Release 1.0 – 2/1/2006

  3. Image orientation • Original ITK design: image orientation handled at application level • but ITK lacked the hooks to allow the application to handle orientation • Algorithms assumed images had the same orientation • Orientations now stored within an itk::Image • itk::OrientedImage uses the orientation information is computing transformations between index space and physical space • itk::OrientImageFilter and itk::ResampleImageFilter can be used to transform images to different orientations. • Registration algorithms can operate directly on OrientedImages

  4. Probability distributions • ITK lacked standard statistical tests: t-Test, chi-squared tests, etc. • New distribution library to evaluate the PDF, CDF, and inverse CDF • Can be extended to non-parametric distributions

  5. Other • Tensor estimation • ITK code to construct diffusion tensors from N diffusion weighted images • IO • DICOM • Transforms (factory IO) • Fiber format conversion • Slicer  FiberViewer

  6. Slicer 3 • Architecture • Data model • Execution model

  7. Dart • Software testing and reporting system • Distributed cross platform testing sent to a central server for reporting • Open access to submit and review • Nightly, Continuous, Experimental

  8. Dart 2 • Simplify server installation • Single jar file that contains everything a Dart server needs • Communication protocol implementations, web server, database, scheduling, reporting • Improve resource management • Reduce storage and duplication • Archival mechanism to age out data • Computational load • Reports generated on request • Extend reporting • Temporal analysis • Custom reports and queries • http://www.na-mic.org/Wiki/index.php/Dart2Summary

  9. Dart 2 architecture Servlets Jaxor object relational bridge Digester xml parsing Apache XML-RPC Jetty servlet engine log4j Quartz scheduler DB Connection Pooling Freemarker template engine Virtual Filesystem Tasks Derby Archival JFreeChart plotting Events

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