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

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

Integration and Interaction Modeling Simulation Visualization What If? user guides

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

SCIRun

SCIRun/BioPSE PSE

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

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

SCI Institute PSEs Uintah BioPSE SCIRun

PSE Relationships

Elements of BioPSE Visual programming Environment

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

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

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

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

map3d History and Concepts

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)

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

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

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

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

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

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

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

Scientific Computing and Imaging