AHM2010:Non-interactive-tools

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CMake / CPack

Summary

• Release candidate 2.9
• 1200 downloads per day
• Users: KDE, Blizzard, NVidia, ...

Features added

• Library support: Qt, R, ...
• Superbuild: single run to download and install multiple libraries and executables

Use cases

• 3DSlicer, Teem, CLI Modules, MRML, ...

Related funding

• ARL, ITK, LANL, Sandia, ...

CDash / CTest

Summary

• CDash rewritten
  • Php, Mysql
• 100 projects freely hosted on cdash.org
• Over 1,000 submissions to ITK's dashboard on ITK's 10th birthday

Features added

• CDash
  • New statistics generated
  • Compression
• CTest
  • Parallel test (ctest -j)
  • Dependencies

Use cases

• Over 100 tests added to Slicer
• Increasing code coverage
• Nightly testing on linux, Mac, windows

Related funding

• ARL, ITK, Sandia, LANL, ...

XNAT

• XNAT 1.4 RC3 available
• More robust QC modeling via xnat:qcManualAssessorData.
• New 'columns' variable for REST based listings.
• LDAP support.
• Improved memory footprint and efficiency.
• Refactored Search UI in the listing engine.
• Prebuilt XNAT images using VMWare and Virtualbox
• xnatfs provides WebDav access to XNAT instances

Grid Wizard Engine

Features added

• Interactive experiments' results browser.
• CSV and generated commands dumps and preview.
• Support for LSF and Lava cluster DRMs.
• Ability to override auto-discovered DRMs with configured ones.
• Ability to override default database installation location.
• Function to extract experiments' parameters from text files.
• Operations to delete, pause and resume experiments.
• Recommended to watch: 5 minutes demo video.
• Record set explorer

BatchMake

Summary

• Scripted description of a processing pipeline that can be applied to a large collection of images or to a large collection of parameter values.

Use cases

• UNC SBIR, see below
• Registration module testing

Related funding

• UNC, Phase 2 SBIR with Kitware: High throughput murine image analysis
  • Slicer modules executed on a grid when mouse MRI are uploaded to a MIDAS server
  • DTI analysis, atlas-based segmentation, brain morphormetry

Renewal

Centralized Testing

• CDash operates as a master for CTest slaves
  • slaves set their availability and resources
  • CDash server allocates tests to the slaves
  • Ensures testing of important configurations
  • More efficient use of available resources
  • Test combinations can change nightly to cover complex combinations

Integrated project tracking

• SVN, CMake, CPack, CTest, CDash, Wiki, and BugTracker will be extended to report to a central server
• Generates a comprehensive timeline of a project.
• Example use cases
  • Commit a code change and a report is sent to the server indicating
    • files changed, by whom, on what date,
    • changes to the dashboard that resulted from the commit,
    • wiki page changes made by that author around that date/time,
    • bug associated with that commit

iPython for distributed computing

• Python chosen as a favored scripting language for Slicer
  • VTK and Qt are well supported by python
  • ITK v4 will have python as a target language
  • Considered perl (biologists), tcl (comp sci), BatchMake, JavaScript, ...
• iPython contains extensions to python for threaded, grid, and distributed computing
  • Reduced setup and learning curve
  • Broad support