ITK/Tcons/Agendas/2010 12 21

How to Join the Tcon

Number to Call

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

Webex

• Meeting link
• https://emeetings.webex.com/emeetings/j.php?ED=138191182&UID=482060457&PW=NNzJiNDk1ZGU3

Project Management

February Meeting in Boston

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

• • http://www.events.harvard.edu/web/2281
  • http://www.itk.org/Wiki/Winter_ITKv4_2011_Meeting

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

• http://www.events.harvard.edu/30325

Changing Tcon Day/Time

We ran a survey:

• http://www.scheduleonce.com/MeetingProposal.aspx?param=TT0zNTg2Ny5UPTEuVT0tMQqualqual

Wednesday at 10am EST seems to be the time that matches all the people who responded the survey.

Technical Topics

Dashboard

• Dashboard Status - Today's Dashboard

Lingering Failing Tests ( Feet + Heat )

• DICOM Tests tkGDCMSeriesStreamReadImageWrite3 and tkGDCMSeriesStreamReadImageWrite4
  • Malaterre/Roden status update
  • Able to reproduce the problem?
  • resolution?

• LabelMap tests failing on certain Windows systems
  • http://www.cdash.org/CDash/viewTest.php?onlyfailed&buildid=805695
  • Who is responsible to address?

• KWStyle failing
  • FFT related failure Completed
  • Add KWStyle tests to CDash@Home

• JPEG2000 on BigEndian
  • Kitware/Harvard/Malaterre status update
  • Anticipated resolution? Completed

• VXL vcl-test_atomic_count
  • Kitware status update? Completed

New Year's Resolutions

• Bring Valgrind errors to Zero.
  • Almost 1/2 of the defective tests are meta related - 15 out of 31 failing tests

1. itkMetaArrowConverterTest http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001634
2. itkGE4 http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001633
3. itkSiemans http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001632
4. itkGE4 http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001633
5. itkGEAdw http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001631
6. itkGE5 http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001630
7. itkReadWriteSpatialObjectTest1 http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001629
8. testMetaLine http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001627
9. itkImageFileReaderDimensionsTest_MHD http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001625
10. itkMetaImageStreamingWriterIOTest http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001624
11. itkImageFileWriterPastingTest1 http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001620
12. itkReadWriteImageWithDictionaryTest1 http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001619
13. itkMetaImageIOMetaDataTest http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001618
14. itkMetaImageStreamingWriterIOTest2 http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001617
15. itkMetaImageIOTest http://www.cdash.org/CDash/viewDynamicAnalysisFile.php?id=1001616

One patch for metaObject in Gerrit

• http://review.source.kitware.com/#change,590

Schedule

ITKv4-A03

• Was tagged.
  • http://itk.org/gitweb?p=ITK.git;a=tag;h=e98c2f22feceea2ea3481e83e9b01dae9a67d19e

ITKv4-A04

• Date: January 7th

Major topics to be merged

• Fixing Windows 64bits problem with "long"...
  • Patch submitted to Gerrit: http://review.source.kitware.com/#change,578
• Data class additions/hierarchies?
• TimeStamps?

ITKv4 A05

• Date: January 28th ( hard deadline before Winter Design Meeting )

Major topics to be completed

• GPU Draft Implementation
• SimpleITK Draft Implementation

Outreach

• MICCAI 2011 Call for Workshops and Tutorials
  • Suggested Tutorials for MICCAI 2011
• Note that we already have an accepted tutorial for CVPR 2011 on the use of ITK+OpenCV

Redmine demo

• Project management software
• SimpleITK Redmine instance on EC2

Gerrit Reviews

• http://review.source.kitware.com/#q,status:open,n,z

Doxygen Nightly

• • http://www.itk.org/Wiki/ITK_Documentation

ITK Data

We had a tcon on December 16th.

Summary here:

Data Collection

Use Cases

Cone Beam CT

• Use case with Cone Beam CT datasets uploaded to MIDAS.
• Downloading through web interface is at the item level, for larger data sets (collections/communities) kitware is developing a desktop application.

BrainWeb

Gerrit patch intended to facilitate the use of BrainWeb datasets:

 http://review.source.kitware.com/#change,605

Migration Guide Process

• Users Migration Guide (Gabe Hart)
  • What Developers Must Do To Contribute to the Users Migration Guide
  • Developer Tutorial
• Example XML
  • http://review.source.kitware.com/#patch,sidebyside,224,2,Migration/DecoupleNumericTraitsFromContainers.xml

Simple ITK

• Code generations
  • Using Lua and JSON

• Interfacing to
  • ImageJ / Fiji
  • CellProfiler

GPU

• Summary of tcon with NVIDIA from Monday Nov 22 at 1pm EST (Won Ki)
• GPU Acceleration - V4
  • Tcon 2010-11-22

DICOM

Dan and Mathieu to report

• Beginnings of a requirements document. Comments welcome.
• Proposed TConf

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

• Refactoring page
  • Refactoring Level-Set framework - V4

Time Stamp Proposal

• Time Stamp

Modularization

• Had a Tcon about modularization on Dec 3 [1].

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

• OTB
  • http://dash.orfeo-toolbox.org/buildSummary.php?buildid=29602
• GoFigure2
  • Nightly build use the current ITKv4.
  • http://my.cdash.org/index.php?project=GoFigure2

Pending

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

Wrapping

• Status (Alex)
• 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.