Engineering:TCON 2010

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2010-03-25

Attendees: wendy, nicole, dominik, vince, tina, jim, dave, luis, katie, steve, ron, xiaodong, stephen, jj, jc, j2

• MIDAS Feedback from John M./Tina
• Slicer 3.6
  • Documentation
  • testing and code coverage
  • VTK status
• Slicer 4.0
  • Community process (Stephen Aylward)
    • Superbuild status (Dave)
    • qt status (Julien)
    • Module acceptance process
      • From Nitrc
      • With Slicer
  • Educating the community about the benefits of Qt (Steve Pieper)

Notes

• Slicer Extensions
  • Reuse Statistics functionalities from MIDAS to report on downloads from
  • http://ext.slicer.org/ext/trunk/
  • Building Slicer extensions and submit them to the Slicer Dashboard
  • Where are they located ? (it is described in the .s3ext files:)
    • http://ext.slicer.org/ext/trunk/12465-linux-x86_64/VmtkSlicerModule.s3ext
  • Maybe build them only when their source code is actually modified ?
  • Label extensions by a level of compliance with NAMIC practices ?
    • E.g. Gold, Silver, Bronze,... Coal.
      • Gold: have > 80% coverage, 0 Valgrind errors, documentation and tutorial
      • Silver: have > 70% coverage, < 10 Valgrind errors, and tutorial
      • Bronze: have > 60% coverage, < 50 Valgrind errors, and tutorial
      • Coal: have < 10% coverage, > 1000 Valgrind errors, no documentation, no tutorial
  • Web of trust
    • Have gatekeepers who review the extension and label them accordingly.
    • Define a Testing procedure for Slicer 4.0. (Check lists)
  • Community Support
    • Provide User Ratings (based on the Insight Journal / MIDAS functionality)
    • Use current MIDAS C++ API to Upload/Download data.
    • Create MIDAS Plugins to manage data / code for Slicer extensions
• Slicer Release 3.6
  • VTK Release 5.6 : March 26th 2010
  • Immediately after, switching Slicer to use VTK 5.6.
  • Sorting out KWWidget issues on Windows 7 with VTK 5.6 (VTK CVS HEAD).
• Slicer Release 4.0
  • Git: Conversion of CMake, VTK, Paraview
  • Moving Slicer to Git ?

2010-03-18

Attendees: Andriy (ran out of the room before he could take notes) Nicole, Dominik Wendy, Steve, Stephen, Jim, Katie

• Andriy question about plots coming back from command line modules.
• Updated Download page
  • Images have been added.
  • Lesion data still missing.
• Tracking downloads of extensions
  • Use publication database? We can ask Julien next week.
  • (See http://ext.slicer.org/ext/ for current layout - look in the trunk directory).
  • Jim could use this functionality for renewal proposal
• DICOM Discussion
  • http://www.slicer.org/slicerWiki/index.php/DICOM:Database
  • Drag and Drop image files?
  • DICOM sorter (osirix is useful for this)
• Slicer3.6 release planning
  • Next release of ITK (3.18) should be in a couple of weeks
  • http://www.slicer.org/slicerWiki/index.php/Slicer3:3.6Release

2010-03-11

Attendees: Dan, Tina, Vince, Xiaodong, Wendy, Nicole, Katie, Kurt, Dominic, John

• Updated Download page
  • Do we want to add images?
    • Yes, please. And also to format this into a table. Thanks.

• XNAT Workshop (June 28-30)
  • Include a NAMIC presentation? TBD
  • http://nrg.wikispaces.com/2010+XNAT+Workshop

• OpenIGT and Medtronic Navigation
  • Consider a joint grant to fund the development

• Ron can kill 18 birds with one stone.

2010-03-04

Attendees: jim, ron, nicole, vince, dan, katie, wendy, dominic, tina

• GetNodesByName leaking the collection from Tcl ( set foo [$::slicer3::MRMLScene GetNodesByName bar] )
• VTK GPU Mapper - Mac driver issue. But otherwise is working well with compositing. Dual 3D issue tabled for now.
• Store the Collapse of the SliceController in the Layout node?
• Should the layout of the modules (left verses right) be stored in the scene? Not for now.
• DICOM databases. See discussion on mailing list.
  • DICOM Schemas. Jim tried searching for Osirix's schema. What about the XNAT schema? What about ClearCanvas?
  • Extend Schemas for MRML, Project views, NRRD, VTK files, etc.

2010-02-25

Attendees: john, marco, dominik jim, steve, wendy, tina, nicole, ron, vince, dan, katie

• MIDAS handles - fixed
• GWE's RSE ("Record Set Explorer") version 0.6.1.alpha released:
  • Project site
  • YouTube demo video
• Slicer Release 3.6 Feature Freeze on April 1
• Japanese Slicer workshop in 2 weeks
• CTK workshop last week - went well

2010-02-18

Attendees: Jim, Steve, Wendy, Dan, Dominik, Katie, Nicole

• Discussion of whole body CT/MR data (Dan)
• Discussion of the "Spit Kidney"
• Dominik's registration case library data for download
• Discussion of download data for each module (like in ChangeTracker currently)
• Tutorials and Datasets
• Discussion of slicer 3.6 release schedule.

2010-02-11

Attendees: Jim, Katie, Curt, Casey, Tina, Xiaodong, Steve, Wendy, Dan, John, Dominik, Nicole

Agenda:

• NA-MIC data migration is complete and the Downloads page has been brought out to the Wiki sidebar (http://www.na-mic.org/Wiki/index.php/Downloads)
  • Feedback is requested on the sidebar
  • Feedback is requested on the Downloads page
  • Feature request to track the downloads like it is done on the publication database. (Julien reports it is already available to administrators).
  • Curt will work with John to add Meshing Module tutorial.
  • Dominik will try putting some data in midas to see how much context can be added.
  • John will check with Marek about Harvard data that had been on BIRN.
• Review of DBP2 webpages, which need updating
  • Ron has contacted the parties directly
• Dan: XNAT workshop this summer (possibly June 28, 29, 30 in St. Louis)?
• Discussion of entry behavior on
• New Volume features from Xiaodong for viewing image sets in a directory (cool!)

2010-02-04

Attendees: Xiaodong, Tina, Casey, John, Dan, Vince, Stephen, Nicole

Agenda:

• http://www.na-mic.org/Wiki/index.php/Downloads
• Head MRI, MRA, DTI from 100 healthy volunteers

DBP Tutorials should be listed at the top. Software should point to Slicer and the NA-MIC Kit. Data hosting is available on XNAT and Midas.

2010-01-28

Attendees: Xiaodong, Tina, John M, Katie, Nicole, Dominik, Vince, Casey

Agenda

• data update (john m): Discussion of Data & Tutorials on the following page. Discussion of where to put the data (XNAT or Midas).
  • example downloadable resources page: http://www.ncigt.org/pages/Downloads

• Iowa Data
  • Visible Human Datasets https://mri.radiology.uiowa.edu//visible_human_datasets.html

• Project Sikuli from CSAIL
  • Scripted UI interaction -- GUI testing http://groups.csail.mit.edu/uid/sikuli/

2010-01-21

Attendees: Jim, Katie, Nicole, Wendy, Curt, Ron, Dominic, Steve, Dan

• Update wiki pages in preparation for the review of the NA-MIC renewal

2010-01-14

Attendees: Katie Ben Casey Yin Tina Vince Jim Satra Nicole Lauren Hiro Fernando Chris Brian Dominik Ron

• Discussion of parallel processing using ipython for use with NA-MIC CT Colonography collaboration project. (confirmed).
  • As a follow up people may be interested in the Enthought webinar on this topic 3pm eastern on Jan 22, 2010.
  • Need real time processing speed. 10 fps for volume rendering. 5 minutes of image processing (down from 30 minutes)
  • 512x512x1000 voxels
  • GPU solutions or ipython solutions
  • Python package for accessing to Slicer internals in a headless mode, i.e. run Slicer internals from Python instead of running Python from within Slicer
  • iPython distinct from MPI (meet different needs)
  • Microsoft interest in iPython
• Jim fell on the sword to take minutes
• Follow up information from Fernando about the new version of ipython in development:
  • the docs for the in-testing ipython are at: http://ipython.scipy.org/doc/bzr.r1321/
  • and downloads in various formats are at: http://ipython.scipy.org/dist/testing/
  • Note: the files with .bzr.r1321 in the names are the relevant ones for today's call, NOT the 'nightly' ones.