1. IS&T Scientific Visualization Tutorial – Spring 2010 Scientific Visualization Tutorial

2. IS&T Scientific Visualization Tutorial – Spring 2010 Erik Brisson Raymond Gasser Robert Putnam Aaron Fuegi Visualization Tutorial Winter 2010 ebrisson@bu.edu rayg@bu.edu putnam@bu.edu aarondf@bu.edu

3. Topics Intro / overview (Erik) Matlab for Visualization (Ray) VTK and Paraview (Ray) Plotting (Robert) Image files for sci vis, and making animations (Aaron) OpenGL, OpenSceneGraph, Maya, DAFFIE and the display wall (Erik) IS&T Scientific Visualization Tutorial – Spring 2010

4. BU Scientific Computing & Visualization IS&T Scientific Visualization Tutorial – Spring 2010

5. SCV Provides High-performance, parallel computing systems and networks Scientific code parallelization and optimization Scientific data visualization High-performance and high-resolution interactive three-dimensional graphics Virtual environments/virtual reality Consulting and training Network-based video conferencing and collaboration tools IS&T Scientific Visualization Tutorial – Spring 2010

6. What is sci-vis? Could mean many things (e.g., plotting, illustration) Combination of 3-D graphics technology and human perception of objects in space IS&T Scientific Visualization Tutorial – Spring 2010

7. Technique: Cutplanes IS&T Scientific Visualization Tutorial – Spring 2010

8. Technique: Isosurfaces IS&T Scientific Visualization Tutorial – Spring 2010

9. Technique: Vector glyphs IS&T Scientific Visualization Tutorial – Spring 2010

10. Technique: Vector field streaklines IS&T Scientific Visualization Tutorial – Spring 2010

11. The Visualization Pipeline IS&T Scientific Visualization Tutorial – Spring 2010 Math Proc Scientific visualization Computer Graphics 191 214 206 113 134 135 101 120 135 102 119 147 113 129 165 117 131 170 125 138 170 158 168 195 219 227 246 244 251 255 249 254 255 197 202 222 157 163 187 156 161 190 165 172 200 218 224 246 250 255 255 252 255 251 251 255 252 245 249 250 251 255 255 188 192 204 196 200 212 234 238 250 177 181 192 111 114 133 122 121 155 154 151 194 182 176 220 243 240 255 253 252 255 250 251 246 254 254 252 255 255 255 255 255 255 254 254 254 255 255 255 255 255 255 254 254 254 255 255 255 249 249 249 249 249 249 252 252 252 255 221 155 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 255 253 253 253 252 252 252 252 252 252 253 253 253 255 255 255 255 255 255 255 255 255

12. The Visualization Pipeline - Hardware Visualization with SCV – Dec 2008 Field instruments Scientists/programmers  Supercomputers  Graphics machines  Publications, movies/DVDs, web Demos, educational software

13. The Visualization Pipeline - Software Visualization with SCV – Dec 2008 Data acquisition and preparation  Sci-vis tools  Geometric Representation  Rendering  Post-processing

14. Many possible workflows Visualization with SCV – Dec 2008 DataMatlabVTKOpenGLMaya IDLParaviewOSGPhotoshop GnuplotDAFFIEPerformerPremier Xmgrace Excel

15. Example using IDL Visualization with SCV – Dec 2008

16. Your Project Describe your work in visual / geometric way? What is goal, e.g., web, publication, presentation? What is the time line? How much learning time can you invest? How much do you expect to use? Visualization with SCV – Dec 2008

17. Example workflow – molecular dynamics Visualization with SCV – Dec 2008 Simulation creates data files Molecule x,y,z + type  colored spheres (C program) Electron density as volume data  isosurfaces (IDL) .obj files Rendered in Maya

18. Example workflow – pressure on turbine Visualization with SCV – Dec 2008 Simulation run on supercomputer Produced many Plot3d files C code transforms data to.obj files Rendered in Maya Processed using Imagemagick for DVD Wall movies

19. Example workflow – showing entropy Visualization with SCV – Dec 2008 Isosurfaces in IDL Convert output into.obj Render in Maya, with transparency View in 3D on Wall

20. Example workflow – stretched water Visualization with SCV – Dec 2008 Given positions of atoms in water How to show “holes”? Construct volume data of distance Use volume visualization

21. Example workflow – CISM Visualization with SCV – Dec 2008 Researchers used OpenDX SCV staff modified OpenDX networks Produced wall movies and demos

22. Example workflow – Corporate Connections Visualization with SCV – Dec 2008 Researchers provided data SCV staff wrote custom viewing code

23. Artworld “family portrait” IS&T Scientific Visualization Tutorial – Spring 2010

24. …

25. Example - stereo protein visualization 1 IS&T Scientific Visualization Tutorial – Spring 2010

26. Example - stereo protein visualization 2 IS&T Scientific Visualization Tutorial – Spring 2010

27. Example - magnetosphere IS&T Scientific Visualization Tutorial – Spring 2010

28. Example - CFD IS&T Scientific Visualization Tutorial – Spring 2010

29. Example – medical illustration IS&T Scientific Visualization Tutorial – Spring 2010

30. Example – medical visualization IS&T Scientific Visualization Tutorial – Spring 2010

31. Example – bat flight IS&T Scientific Visualization Tutorial – Spring 2010

32. Example – GIS IS&T Scientific Visualization Tutorial – Spring 2010

33. Examples – Tornado animations http://access.ncsa.uiuc.edu/Stories/supertwister/ page3.htm http://access.ncsa.uiuc.edu/Stories/supertwister/ page3.htm http://access.ncsa.uiuc.edu/Stories/supertwister/i ndex.htm http://access.ncsa.uiuc.edu/Stories/supertwister/i ndex.htm IS&T Scientific Visualization Tutorial – Spring 2010

34. Image credits ArtWorld Family Portrait –Kat Curry / SCV Stereo protein visualization 1 and 2 –Dr Bernhard Rupp, Lawrence Livermore National Laboratory and Dr Karl H Weisgraber, Gladstone Institute of Cardiovascular Disease http://www.answers.com/topic/scientific-visualization Visualization Pipeline diagram –http://www.infovis- wiki.net/index.php/Visualization_Pipelinehttp://www.infovis- wiki.net/index.php/Visualization_Pipeline Magnetosphere IS&T Scientific Visualization Tutorial – Spring 2010

35. Image credits, continued Magnetosphere –AICT Research Support Group, Univ. of Alberta Medical illustration, standing male figure –www.posemaniacs.comwww.posemaniacs.com Medical illustration, synapse –Graham Johnson, Graham Johnson Medical Media, Boulder, Colorado Medical Visualization –Dr, Kai-hung Fung, Pamela Youde Nethersole Eastern Hospital, Hong Kong IS&T Scientific Visualization Tutorial – Spring 2010

36. Image credits, continued Bat flight –D J Willis (Brown, MIT) –M Kostandov, D K Riskin, D H Laidlaw, S M Swartz, K S Breuer (Brown) –J Peraire (MIT) Example – GIS of radio transmission –ESRI GIS and Mapping Software, www.esri.com IS&T Scientific Visualization Tutorial – Spring 2010