Difference between revisions of "2012 Summer Project Week:EditorExtensions"
| (2 intermediate revisions by the same user not shown) | |||
| Line 3: | Line 3: | ||
Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]] | Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]] | ||
Image:Slicer-GrowCutCL.png|OpenCL Implementation of GrowCut running in the Editor Module. (See [http://www.youtube.com/watch?v=dfu2gugHLHs&feature=plcp demo video]) | Image:Slicer-GrowCutCL.png|OpenCL Implementation of GrowCut running in the Editor Module. (See [http://www.youtube.com/watch?v=dfu2gugHLHs&feature=plcp demo video]) | ||
| − | + | IMAGE:Slicer-WatershedMarkers.png|Input into the ITK's morphological watershed from markers. | |
| + | Image:Slicer-WatershedFromMarkers.png|Resulting segmentation by morphological watershed from markers. | ||
</gallery> | </gallery> | ||
| Line 50: | Line 51: | ||
*** Binary watershed to split object [1] | *** Binary watershed to split object [1] | ||
*** DoubleThresholding | *** DoubleThresholding | ||
| + | *** Current prototypes are on [https://github.com/blowekamp/Slicer-IASEM github]. | ||
** Porting of CLI tools to run as steered segmenters (Yi, Ivan) | ** Porting of CLI tools to run as steered segmenters (Yi, Ivan) | ||
* Productive discussions with other developers about future strategies and uses of OpenCL (pyopencl) | * Productive discussions with other developers about future strategies and uses of OpenCL (pyopencl) | ||
Latest revision as of 13:51, 22 June 2012
Home < 2012 Summer Project Week:EditorExtensions
OpenCL Implementation of GrowCut running in the Editor Module. (See demo video)
Input into the ITK's morphological watershed from markers.
Resulting segmentation by morphological watershed from markers.
Key Investigators
- Isomics: Steve Pieper
- GI: Jim Miller
- BWH: Yi Gao
- GaTech: Ivan Kolasev
- NIH: Brad Lowekamp (C)
Objective
Provide a framework for Streered Segmentation in the Editor Module.
Approach, Plan
An example implementation of GrowCut has been implemented as a test.
During project week we would like to:
- Discuss the implementation with potential users and developers in order to generalize the approach and improve the interface.
- Discuss other algorithms suitable for this apuproach
- Possibly test this module on multiple CPU/GPU options to compare performance. (may be tricking since installation is not automated)
- Identify OpenCL/GPU programming experts to help evaluate and improve the implementation.
See the repository for more information: https://github.com/pieper/SlicerCL
(Note that use of this module requires installation of PyOpenCL into the slicer python build tree - see this example script. Also note that the current implementation depends on some changes to the Editor module that only exist in a threeDEditor branch.)
Progress
- Topic was generalized to include editor effects based on ITK and VTK
- SimpleITK tools (Brad)
- Marker based watersheds [1]
- Binary watershed to split object [1]
- DoubleThresholding
- Current prototypes are on github.
- Porting of CLI tools to run as steered segmenters (Yi, Ivan)
- SimpleITK tools (Brad)
- Productive discussions with other developers about future strategies and uses of OpenCL (pyopencl)
Delivery Mechanism
This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)
- ITK Module
- Slicer Module - YES
- Built-in - YES
- Extension -- commandline
- Extension -- loadable
- Other (Please specify)
References
[1] Beare R., Lehmann G. (2006). The watershed transform in ITK - discussion and new development. http://hdl.handle.net/1926/202
