1. The SCIRun and BioPSE Problem Solving Environments
Chris Johnson, Rob MacLeod, and David Weinstein
Scientific Computing and Imaging Institute
University of Utah

3. Background PSE background BioPSE/ SCIRun history map3d history
Role of the NCRR Center

4. Integration and Interaction
Modeling
Simulation
Visualization
What If?
user
guides

5. Computational Workbench
SCIRun
Computational Workbench
Problem Solving Environment
Computational Steering
Visual Supercomputing
Interactive Computing
Interactive Computational Science

6. SCIRun

7. SCIRun/BioPSE PSE

8. BioPSE – A Computational Workbench
Common Framework for Bioelectric Field Research
- Exchanging tools and datasets
- Presenting results
- Comparing methods

9. “Minor” Challenges
Accommodating parallelism
Large data sets
Existing code
3D user interaction
Efficiency
Robustness
Usability

10. SCI Institute PSEs
Uintah
BioPSE
SCIRun

11. PSE Relationships

12. Elements of BioPSE
Visual programming Environment

13. BioPSE BioPSE Interactivity Model Sim Vis Core Program Design
Portability
User
Interface
Integration
Data
Management
Extensibility

14. Extensibility Leverage existing utilities
Extensibility through bridges
GENESIS
Matlab
libimage
SQL
socket
lib
BioPSE
Teem
mpeg
lib
lib

15. BioPSE Build more bridges - IDL - ITK - VTK - VisPak - Insight
- Others…?
BioPSE

16. BioPSE Software Engineering
Project management
Technical Manager
Software Engineer
Technical Manager
Software Engineer
Research,
Requests,
Contribs
Possible
Features
Modules
Nets
Packages
Microsoft
Project
BioPSE Exec Committee
External Advisory Board
Quarterly releases

17. map3d History and Concepts

18. map3d History 1990: First SGI, first GL, first map3d
1992/3: First papers:
Visualization in Biomedical Computing 1992
IEEE Visualization Conference 1992
Visualizing Bioelectric Fields (Comp. Graphics and Appl.m 1993
IEEE EMBS Conference, 1993
1999: Started conversion to OpenGL
2000: First release (Version 5.0)

19. Mapping: the driving application
Why map3d?
Mapping: the driving application
Spatiotemporal signals
Electrophysiology of the heart
Graphics hardware and GL
Interactivity is essential
GL is (was) simple

20. What Does map3d Need? Geometry Data Computer Surface or pseudo-surface
Connectivity and facets
Data
Time signal for each point in geometry
Computer
SGI, Windows, Linux
Mac/OSX, Sun coming soon

21. Relationship to NCRR Center
NCRR Center for Bioelectric Field Modeling, Simulation, and Visualization

22. Develop and Implement :
Aims of NCRR Center
Develop and Implement :
An integrated, extensible, problem-solving environment (BioPSE)
Geometric modeling tools
Bioelectric field simulation tools
Visualization methods and tools

23. Objectives of NCRR Center
Disseminate or Provide:
State-of-the-art software developed within the Center
An on-line database of geometric models and simulation data
Short courses on the use of Center software tools
Workshops on bioelectric field research

24. BioPSE BioPSE Interactivity Model Sim Vis Core Program Design
Portability
User
Interface
Integration
Data
Management
Extensibility

25. Scalar Field Visualization
Summary
Goals
Proposed research
Spatiotemporal view
map3d
Model
Provide quantitative feedback
Interactive
interrogation
Core
Sim
Vis
BioPSE
Leverage
commodity
hardware
Interactive performance

26. Scientific Computing and Imaging