Slicer3:Transition of Slicer2.x Modules

Summary Page

Goal/Questions/Answers slide from AHM 2006

Plan of Attack

In Slicer2:

• Slicer:Slicer2_Porting_to_VTK5
  • Compiling with changes to the C++ code, maintaining backward compatibility with VTK 4.x and Slicer 2
  • Editing the Tcl interface to work with the ported C++ code
  • Write test cases to define the gold standard we will compare Slicer3 against see [1]

In Slicer3:

• Port the threads of control in the modules from Tcl to C++
• Dynamic discovery and loading of modules
• Write a template for a Slicer3 module Template Notes
  • Illustrate coding and documentation standards and style
• Write test templates in C++ and tcl
  • Will have different styles of tests, some that render images and some that produce numerical output, one template for each

Done:

• ModelMaker

In Progress:

• Fiducials

Preliminary Notes

• Focus on the data handling first, not the UI
  • Each module expects to be handed a frame to populate
  • Call the new data model functions
  • Replace global arrays with the new data model
  • The data model can be quiered by pipes or shared memory, but the API will be C++
• Try to come up with a semi automatic translation method
• First modules to transition:
  • Kilians segmenter
  • Ibrowser
  • fMRI engine
  • DTI engine
• TBD:
  • List all the modules and rate difficulty in transition, UI vs data level
  • Migrate old mrml into new coordinate manager space
    • Look at the ITK visitor functionality to traverse a tree and get transforms
    • xpath

List of Modules

Currently in Base

• Alignments.tcl
• Anatomy.tcl
• Anno.tcl
• Colors.tcl
• CrossSection.tcl
• Custom.tcl
• CustomCsys.tcl
• Data.tcl
• Editor/
  • EdChangeIsland.tcl
  • EdChangeLabel.tcl
  • EdDraw.tcl
  • EdDraw2.tcl
  • EdErode.tcl
  • EdIdentifyIslands.tcl
  • EdLabelVOI.tcl
  • EdMeasureIsland.tcl
  • EdNone.tcl
  • EdPhaseWire.tcl
  • EdRemoveIslands.tcl
  • EdSaveIsland.tcl
  • EdThreshold.tcl
• Editor.tcl
• Endoscopic.tcl
• Fiducials.tcl
• Guidance.tcl
• Locator.tcl
• Measure.tcl
• MeasureVol.tcl
• ModelCompare.tcl
• ModelHierarchy.tcl
• ModelMaker.tcl
• Models.tcl
• Navigator.tcl
• Options.tcl
• OsteoPlan.tcl
• PathPlanning.tcl
• Realtime.tcl
• SessionLog.tcl
• Slices.tcl
• Tester.tcl
• TetraMesh.tcl
• TwinDisplay.tcl
• View.tcl
• VolRend.tcl
• VolumeMath.tcl
• Volumes/
  • VolBasic.tcl
  • VolDicom.tcl
  • VolHeader.tcl
  • VolTensor.tcl
• Volumes.tcl

Currently in Modules

Tcl and Cxx code:

• BIRNDUP
• LDMMViewer
• MultiVolumeReader
• iSlicer
• vtkAG
• vtkAffineSegment
• vtkAnalyze
• vtkBXH
• vtkCISGFile
• vtkCompareModule
• vtkCorCTA
• vtkDTMRI
• vtkEMAtlasBrainClassifier
• vtkEMLocalSegment
• vtkEditorGeometryDraw
• vtkFMRIEngine
• vtkFSLReader
• vtkFastMarching
• vtkFluxDiffusion
• vtkFreeSurferReaders
• vtkITK
• vtkIbrowser
• vtkImageSmooth
• vtkLevelSets
• vtkMorphometrics
• vtkNormalize
• vtkQueryAtlas
• vtkRealignResample
• vtkRigidIntensityRegistration
• vtkTeem
• vtkTensorUtil
• vtkVolumeTextureMapping

Only tcl code:

Module Name	Notes
vtkTransformVolume
vtkSiemensMosaicReader
vtkSubVolume
vtkMIRIADSegment
vtkCustomModule

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