NAC Grid Enabled ITK - Revision history

Pieper: /* Tasks */

2007-09-24T21:45:35Z

Tasks

Pieper: /* Workplan */

2007-09-24T21:43:32Z

Workplan

Pieper: /* Workplan */

2007-09-24T21:43:12Z

Workplan

Aylward: /* Tasks */

2007-09-24T19:52:45Z

Tasks

Aylward at 18:28, 24 September 2007

2007-09-24T18:28:27Z

Aylward at 14:37, 6 August 2007

2007-08-06T14:37:10Z

Aylward at 14:34, 6 August 2007

2007-08-06T14:34:30Z

Aylward at 14:32, 6 August 2007

2007-08-06T14:32:54Z

Aylward at 14:32, 6 August 2007

2007-08-06T14:32:33Z

Aylward: /* Adjunct Tasks */

2007-08-06T14:31:36Z

Adjunct Tasks

@@ Line 49: / Line 49: @@
 ##* Record processing steps for journaling, publication, and experiment replication
 ##* Characterize data for upload to repository and future access/processing
-##* Chosen providence paradigm: MBIRN/XCede : http://www.nbirn.net/tools/bxh_tools/index.shtm
+##* Chosen provenance paradigm: MBIRN/XCede : http://www.nbirn.net/tools/bxh_tools/index.shtm
 == Administration ==

@@ Line 2: / Line 2: @@
 == Workplan ==
-# Extend ITK to support batch processing in distributed environments.  We will provide a framework for wrapping ITK’s filters so that they can run as services in a distributed processing environment.  Specific examples will also be developed to demonstrate the use of that framework to run ITK segmentation and registrations methods on a Condor grid ([http://www.cs.wisc.edu/condor]).  The Condor grid computations will be directed by the open-source, freely available BatchMake system (www.batchmake.org).
+# Extend ITK to support batch processing in distributed environments.  We will provide a framework for wrapping ITK’s filters so that they can run as services in a distributed processing environment.  Specific examples will also be developed to demonstrate the use of that framework to run ITK segmentation and registrations methods on a Condor grid ([http://www.cs.wisc.edu/condor]).  The Condor grid computations will be directed by the open-source, freely available BatchMake system ([http://www.batchmake.org]).
 # Provide a development environment that integrates method compilation, testing, monitoring, and comparison.  The CMake and CTest tools of ITK ensure cross-platform compilation and consistent test results during method development.  Consistency testing for an ITK method, however, is typically accomplished by determining success or failure on a single dataset.  Such consistency testing does not promote incremental method improvement or quantitative method comparison.  We propose to leverage the framework proposed in Aim 1 and to integrate BatchMake with CMake so that routinely testing on hundreds of datasets will become an inherent part of the ITK method development process.  In that manner, developers will be able to track the subtle as well as the acute effects of code changes.  Furthermore, by processing massive collections of data, statistically significant comparisons between methods can be made.
 # Demonstrate the use and utility of the technologies of Aim 1 and 2 by developing user-friendly grid modules for ITK method parameter tuning.  To effectively use a method, it is essential to understand its parameter space in the context of the application domain.  Such understanding is gained via factor analysis.  Experience with ITK and other toolkits has shown that factor analysis is particularly important when applying deformable registration strategies, including the parallelized registration methods that were developed during the previous (8/1/2006 to 7/31/2007) funding period on this grant.  We propose to develop stand-alone modules as well as 3D Slicer-based modules that provide intuitive interfaces for conducting factor analysis experiments using batch processing.  We will apply those modules to the registration methods developed during the previous funding period in the domain of inter-subject head MRI registration for atlas-based segmentation.

@@ Line 2: / Line 2: @@
 == Workplan ==
-# Extend ITK to support batch processing in distributed environments.  We will provide a framework for wrapping ITK’s filters so that they can run as services in a distributed processing environment.  Specific examples will also be developed to demonstrate the use of that framework to run ITK segmentation and registrations methods on a Condor grid (www.cs.wisc.edu/condor).  The Condor grid computations will be directed by the open-source, freely available BatchMake system (www.batchmake.org).
+# Extend ITK to support batch processing in distributed environments.  We will provide a framework for wrapping ITK’s filters so that they can run as services in a distributed processing environment.  Specific examples will also be developed to demonstrate the use of that framework to run ITK segmentation and registrations methods on a Condor grid ([http://www.cs.wisc.edu/condor]).  The Condor grid computations will be directed by the open-source, freely available BatchMake system (www.batchmake.org).
 # Provide a development environment that integrates method compilation, testing, monitoring, and comparison.  The CMake and CTest tools of ITK ensure cross-platform compilation and consistent test results during method development.  Consistency testing for an ITK method, however, is typically accomplished by determining success or failure on a single dataset.  Such consistency testing does not promote incremental method improvement or quantitative method comparison.  We propose to leverage the framework proposed in Aim 1 and to integrate BatchMake with CMake so that routinely testing on hundreds of datasets will become an inherent part of the ITK method development process.  In that manner, developers will be able to track the subtle as well as the acute effects of code changes.  Furthermore, by processing massive collections of data, statistically significant comparisons between methods can be made.
 # Demonstrate the use and utility of the technologies of Aim 1 and 2 by developing user-friendly grid modules for ITK method parameter tuning.  To effectively use a method, it is essential to understand its parameter space in the context of the application domain.  Such understanding is gained via factor analysis.  Experience with ITK and other toolkits has shown that factor analysis is particularly important when applying deformable registration strategies, including the parallelized registration methods that were developed during the previous (8/1/2006 to 7/31/2007) funding period on this grant.  We propose to develop stand-alone modules as well as 3D Slicer-based modules that provide intuitive interfaces for conducting factor analysis experiments using batch processing.  We will apply those modules to the registration methods developed during the previous funding period in the domain of inter-subject head MRI registration for atlas-based segmentation.

@@ Line 11: / Line 11: @@
 In no particular order at this time
 # Batch processing from within Slicer
 ## BatchMake for specific Slicer modules (Otsu, ...)
 ## BatchMake atlas building with Martin Styner, Brad D., Paulina, ...

@@ Line 8: / Line 8: @@
 # Final Report. We will submit a final report describing the technologies, their uses, and their benefits.
-== Adjunct Tasks ==
+== Tasks ==
-# Validation
+In no particular order at this time
 ## STAPLE
 ##* Parallelize EM framework of ITK
@@ Line 15: / Line 35: @@
 ##* RIRE: http://www.insight-journal.org/nlm
 ##* MIDAS for Modules: http://www.insight-journal.org/midas/view_collection.php?collectionid=36
 # Registration
 ## [[ITK_Registration_Optimization/Testing_And_Backward_Forward_Compatibility | Integrate threaded registration modules from 2006-2007 NAC with ITK]]
@@ Line 21: / Line 42: @@
 ## Registration for EMSegmenter
 # Data handling
-## IO streaming
+## IO streaming (input and output)
 ## Data providence
-##* MBIRN/XCede : http://www.nbirn.net/tools/bxh_tools/index.shtm
+##* Characterize search results for future processing
 == Administration ==

@@ Line 16: / Line 16: @@
 ##* MIDAS for Modules: http://www.insight-journal.org/midas/view_collection.php?collectionid=36
 # Registration
 ## Group-wise registration
 ## Fluid registration

← Older revision		Revision as of 14:32, 6 August 2007
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−	Back to ITK_Registration_Optimization	+	Back to [[ITK_Registration_Optimization]]