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Slicer 5

Organizers

• Sam Horvath (Kitware Inc.)

Attendees

• Adam Rankin (Robarts Research Institute)
• Andras Lasso (Queen’s University)
• Csaba Pinter (Ebatin S.L)
• Jean-Christophe Fillion-Robin (Kitware Inc.)
• Kyle Sunderland (Queen’s University)
• Steve Pieper (Isomics Inc.)
• Sonia Pujol (Brigham and Women’s Hospital and Harvard Medical School)

Breakout Description

This breakout aims to plan the next major version of Slicer and assigns action items.

Agenda

1. Review roadmap and identify remaining tasks

Background and References

• https://www.slicer.org/wiki/Documentation/Labs/Slicer5-roadmap

Results of Discussion

Release planning

Action items (Jc):

• Review list of issues and re-target them to 5.1
• Add missing issues
• Update Slicer roadmap page.

Coordinate System in Files: RAS to LPS

Notes:

• All medical tools uses LPS
• Andras already has a branch: ??

Action items (Andras):

• Test and integrate changes

Ideas:

• We could probably switch Slicer to internally use LPS. Challenge is to know if we need to switch the normal and displacement field

References:

• https://www.slicer.org/wiki/Documentation/Labs/Slicer5-roadmap#Coordinate_system_in_files
• https://issues.slicer.org/view.php?id=4445

Legacy Modules

Notes:

• Move all legacy module into a Slicer extension
• There is already a repository https://github.com/Slicer/SlicerLegacyModules

Action items (Jc):

• Add Editor, ResampleScalarVolume, ExpertAutomatedRegistration
• Create corresponding Slicer extension

GitHub transition

Notes:

• release more often -> release number picked during core team meeting

Action Items (Jc):

• Rename Slicer -> SlicerGitSVNArchive
• Publish updated history as SlicerGit
  • when ready to switch: Rename SlicerGit to Slicer
• Transition scripts
  • Update commit message to change link from https://github.com/Slicer/Slicer/pull/N to https://github.com/Slicer/SlicerGitSVNArchive/pull/N
  • Add new trailer called: svn-url: http://viewvc.slicer.org/viewvc.cgi/Slicer4?view=revision&revision=REV
• Create FAQ document to explain how and why to re-fork, etc …
• Extract list of all contributors and ask on discourse which emails is preferred
• Mantis:
  • Create redirect from mantisarchive.slicer.org/view.php?id=4681 to https://issues.slicer.org/view.php?id=4681

Post-release Action items:

• Mantis:
  • Create static website with archived mantis issues
  • Ensure mantisarchive.slicer.org/view.php?id=4681 redirects to that website
• SVN:
  • Question: Should we create a static website for http://viewvc.slicer.org/viewvc.cgi/Slicer4?view=revision&revision=28742 or have redirect to the corresponding commit on GitHub

web: Landing page for slicer.org

Notes:

• we would like consistency between landing page and download page
• design similar to what is done on https://salt.slicer.org/ or https://jupyter.org would be ideal

Action items (Jc):

• Setup an other meeting to evaluate which information we want to highlight

download.slicer.org

Notes:

• webserver and backend processing need to be on the same machine
• list of packages is generated from a template file -> website is not fully static

Action items (Mike Halle):

• Coordindate with Greg to relocate server from BWH to Digital Ocean
• Sync deployment from https://github.com/Slicer/download.slicer.org/

Slicer documentation

Notes:

• after Github migration, we will transition to readthedocs and markdown

Action items (Andras, Jc):

• integrate https://github.com/Slicer/Slicer/pull/686

Slicer Training and Tutorials

Notes:

• readthedocs/markdown/… could contain the training so that it is versionned
• Powerpoint slides have the advantage of allowing easy copy/paste
• two use cases for tutorials
  • at home: website works well. For example, https://lassoan.github.io/SlicerSegmentationRecipes/
  • teaching: slides works well

Ideas:

• every tutorial could have a discourse thread to post comment but on youtube video there is a comment section but there are no comments
• generation of PDF from PPT slides could be automated

Action items:

• create shared Google drive to collect all powerpoints (Jc): DONE
  • Shared Drive: While non-kitware member can be added, the team drive can not be publicly visible. See https://support.google.com/a/thread/13540273?hl=en
  • Shared Folder: This can be visible by anyone with the link and non-kitware member can be added. Click here to access the folder
• update power point slides into shared folder. Create one folder per Slicer version (e.g 3.6, 4.0, 4.1, …) (Sonia)

Default Theme

Notes:

• Dark theme could be the default for Slicer
• This would make the Slicer 5 transition obvious

Action items (Andras, Jc):

• Confirm and update default

Integrate Sequences module into core

Notes:

• Sequences module is now a very useful module and should be integrated into the code

Questions:

• Should the module be integrated as a Slicer Remote module or do we want to cherry pick the complete history ?

Action items (Andras, 2 to 3 weeks):

• Revisit MRML Copy API
• Integrate Sequences

Extension description file

Notes:

• s4ext -> .slicer.extension.json
• Two steps:
  • (1) Update extension index changing format and extension. For now, keep backend working with s4ext
  • (2) de-duplication of metadata in CMakeLists.txt vs description file. Metadata will be extracted from the json file using CMake function

Action items (Jc, Sam):

• Implement step 1