2011 Winter Project Week: Python and Slicer4

• 

  Projects List

Key Investigators

• Jc, Danielle - Kitware
• Jim - GE
• Steve - Isomics
• Demian - BWH

Objective

Develop scripting patterns for implementing workflows in slicer4 to port slicer3 functionality and streamline implementation of new functionality.

Approach, Plan

• Review initial experiences with PythonQt in slicer4
  • Editor and SWidgets
  • TubeTK-based Interactive PDF Segmenter
  • Endoscopy
• Consider general architecture for creating module GUIs (scripted widgets)
  • allow adaptive re-use of widgets in different modules such as:
    • embed subset of painting tools inside interactive segmenters
    • embed small model maker interface in segmentation tools
    • embed some annotation (e.g. fiducial) for landmarking in registration
    • embed CLI interfaces in workflow wizards
  • define inheritance for PythonQt implementations to provide consistency across module GUI implementaitons
• Consider use cases for (scripted) slicer modules - can one implementation pattern cover all use cases?
  • embed GUI in slicer interface (parent is slicer module panel)
  • run as part of a workflow (parent is one step of workflow)
  • run GUI stand-alone (module's widget is top level window)- call this Slicelet mode.
  • run without GUI (parameters passed on command line CLI-style)

Progress

Slicer4 developer beta supports PythonQt scripted modules.

References

Example LabelStatistics module source code.

Label Statistics running stand-alone as a Slicelet .

Label Statistics running as a slicer module .

Command line to run "Slicelet" from Slicer4 build directory:

% Slicer4 lib/Slicer3/QTScriptedModules/LabelStatistics.py

• TODO Items:
  • pass command line options to slicelets (use tclap-style --xml like the CLI modules)
  • optimize startup time for the interpreter
  • expose remaining parts of the Qt/qSlicer API to Python
  • progress and status output
  • wrapper to run non-scripted modules in slicelet mode

• Architectural Issues
  • Object inheritance plan for scripted modules and slicelets
  • Utilities needed to make it easy for developers/users to put together pipelines that mix module types