Documentation/Labs/DeprecatedModules

This page is here to capture the list of modules we would like to bundle into a Slicer extension named "DeprecatedModules".

Action plan

All these modules would be added to their own git repository:

• History should be extracted and conserved.
• Data should be added to Midas.

Then, two approaches:

1) A git repository named "DeprecatedModulesExtension" could combine them using the "git submodule" approach".

2) The concept of meta extension could be introduced (similar to what is down with apt-get), the extension would appear in the catalog and would simply allow to install all its dependent extensions.

Jc: Approach 2 is preferred.

Modules

I propose to include all the module belonging to the CLI "Legacy" category: See also http://www.slicer.org/slicerWiki/index.php/Developer_Meetings/20130226#Listing_of_Modules

• AffineRegistration (it's just a simple registration example, BRAINS registration provides all its functionality)
• BSplineDeformableRegistration (it's just a simple registration example, BRAINS registration provides all its functionality)
• BSplineToDeformationField => Needed by EMSegment; very useful in general, as the BSpline transform is not usable by external programs, but the conversion result (deformation field) can be processed and visualized in ParaView etc.
• DiffusionTensorTest
• ExpertAutomatedRegistration => Needed by TubeTK. - Can it be replaced by BRAINS?
• FiducialRegistration => Needed by SlicerIGT. It's the most effective semi-automatic rigid registration method, so don't remove without replacement (or at least don't put it in an extension that collects useless modules only)
• LinearRegistration (it's just a simple registration example, BRAINS registration provides all its functionality)
• MultiResolutionAffineRegistration
• OtsuThresholdImageFilter
• OtsuThresholdSegmentation
• ResampleScalarVolume => Essential feature (typically high-resolution data is downsampled with this filter to conserve memory and increase execution speed; e.g., for registration), don't remove without replacement (or at least don't put it in an extension that collects useless modules only)
• RigidRegistration (it's just a simple registration example, BRAINS registration provides all its functionality)
• TestGridTransformRegistration
• MRIBiasFieldCorrection => Essential feature for MRI registration, don't remove without replacement (or at least don't put it in an extension that collects useless modules only)
  • There is this module that is more up to date and arguable is more easy to use: http://wiki.slicer.org/slicerWiki/index.php/Documentation/Nightly/Modules/N4ITKBiasFieldCorrection. This module remains in the main application.

Are the following modules used:

• MIDASApplications
• BatchMakeApplications

Links

Mailing list thread: http://slicer-devel.65872.n3.nabble.com/Listing-of-Modules-in-Slicer-tp4027711p4027723.html

Issues

• http://na-mic.org/Mantis/view.php?id=3401