ITK/Tcons/Agendas/2010 12 14

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How to Join the Tcon

Number to Call

  • 1-800-728-9607 (in the US) or
  • +1 9139049873 (international)
  • access code 6815251

Webex

Project Management

February Meeting in Boston

  • Set for February 2-3, 2011 in Boston at Harvard Medical School.

Please register for the meeting ASAP. Here is the link for the registration:

Technical Topics

Dashboard

Lingering Failing Tests ( Feet + Heat )

  • JPEG2000 on BigEndian
    • Kitware/Harvard/Malaterre status update
    • Able to reproduce problem?
    • Anticipated resolution?
  • DICOM Tests tkGDCMSeriesStreamReadImageWrite3 and tkGDCMSeriesStreamReadImageWrite4
    • Malaterre/Roden status update
    • Able to reproduce the problem?
    • resolution?
  • VXL vcl-test_atomic_count
    • Kitware status update?
  • KWStyle failing
    • FFT related failure

ITKv4-A04

  • Fixing Windows 64bits problem with "long"...

Outreach

Redmine demo

Gerrit Reviews

Doxygen Nightly

ITK Data

Three levels of data :

  1. Testing - a select set of data sets that are used for regression testing - exists in MIDAS.
  2. Examples - datasets that are part of the itk examples - exists but didn't see on MIDAS
  3. Development - a large collection of various image data sets and segmentations used by the ITK developers and the community to tune algorithm parameters and select optimal combinations of components in pipelines.

A data set will include:

  1. image(s)
  2. additional data file(s) - optional
  3. segmentation(s) - optional
  4. detailed description of the data

Questions

  1. Should this be hosted via MIDAS? NCI has a large, open, repository of various images (DICOM) with a very nice front end [1], perhaps possible to leverage this?
  2. Will kitware be willing to host such a large repository (I suspect this will be many Terabytes of data)?
  3. What should we use as the file format for image(s), segmentation(s)? [smallest possible set of file formats that support the desired functionality].


Migration Guide Process

Simple ITK

  • Code generations
    • Using Lua and JSON
  • Interfacing to
    • ImageJ / Fiji
    • CellProfiler

GPU

DICOM

Dan and Mathieu to report

Image Registration Revision

  • Start sending patches to Gerrit
    • New CompositeTransform class is underway
    • New DeformationFieldTransform class is underway
    • Transform IO will be adjusted accordingly

Level Set

Time Stamp Proposal

Modularization

  • Had a Tcon about modularization on Dec 3 [2].

The initial partition seems to be good to start with.

  • Brad King worked on cmake packaging prototypes
  • Xiaoxiao Liu (Kitware) is working on scripts to migrate monolithic ITK to modular ITK

TIFF Update

  • Brad King addressed the int issues
  • Currently at
 git fetch git://kwsource.kitwarein.com/~bradking/itk/bradkings-itk.git +libtiff4beta6:libtiff4beta6

Sequestered Reference Applications

We have already made significant changes, and they are not being recorded yet. It is time to setup these reference applications.

Ongoing

  • V3D Plugins
  • Slicer
  • VV
  • Insight Applications now submitting
    • Broken: need to use it as an example for the Migration Guide.

Development Versions following ITKv4

Pending

  • IGSTK, after SPIE'11 (IGSTK5.0)
  • Insight Applications (ITKApps from v3.20)
  • ITK tests from v3.20

Wrapping


ITK Readers for Microscopy formats

  • There's a need for readers in the microscopy community in order to be able to use ITK
    • Zeiss (LSM and ZVI)
    • Leica (LIF)
    • Olympus (OIB)
    • Nikon ()
  • BioFormats has readers and example files for these. It is Java with C++ bindings for ITK, BUT it's GPL.