View source for EMSegmenter-CreateTask

[[EMSegmenter-Tasks|Return to EMSegmenter Task Overview Page]]


=Task creation process - for developer=
The goal is to create a task with the name 'Hello World'

After following the instructions below the new task will consist of following files:
 ./Slicer3/Modules/EMSegment/Tasks/Hello-World.mrml
 ./Slicer3/Modules/EMSegment/Tasks/Hello-World.tcl
 ./Slicer3/Modules/EMSegment/Tasks/Hello-World/<atlas_file_1>
 ./Slicer3/Modules/EMSegment/Tasks/Hello-World/<atlas_file_2>
 [...]
 ./Slicer3/Modules/EMSegment/Tasks/Hello-World/<atlas_file_i>
 [...]
 ./Slicer3/Modules/EMSegment/Tasks/Hello-World/<atlas_file_N>


* Create a new directory ./Slicer3/Modules/EMSegment/Tasks/Hello-World

* Copy the atlas files for air, GM, T1 into this directory.

* Start Slicer
* Switch to the EMSegmenter module
* Create new task
**  Name:           Hello World
**  Pre-processing: None
* Basically follow our EMSegmenter advanced tutorial, but create a simple tree
** load ./Slicer3/Modules/EMSegment/Testing/TestData/MiscVolumeData/MRIHumanBrain_T1_aligned.nrrd
** Add a channel, call it T1, assign MRIHumanBrain_T1_aligned
**  Create a simple anatomical tree (air and GM)
**  Load atlas files only from ./Slicer3/Modules/EMSegment/Tasks/Hello-World/
**  generate mean and covariance values
**  specify node weights
* At step 9/9. click on 'Create Template File'
**  Save the file under ./Slicer3/Modules/EMSegment/Tasks/Hello-World.mrml
**  The target node and some other unneeded nodes will be removed from the mrml scene and written to disk.
* Close Slicer
* Copy our standard tcl file ./Slicer3/Modules/EMSegment/Tasks/Template.tcl to ./Slicer3/Modules/EMSegment/Tasks/Hello-World.tcl
* Adjust this tcl file to include your pre-processing pipeline.
* edit ./Slicer3/Modules/EMSegment/Tasks/Hello-World.tcl to specify your own pre-processing
* edit ./Slicer3/Modules/EMSegment/Tasks/Hello-World.mrml to use your own pre-processing
** - <EMS TclTaskFilename="GenericTask.tcl" ></EMS>
** + <EMS TclTaskFilename="Hello-World.tcl" ></EMS>
* touch ../Slicer3/Modules/EMSegment/CMakeLists.txt and do a 'make' to copy the new files into the binary directory


The result of the process above can also be downloaded here:
After Installing both files this 'Hello World' task will appear in the task list under the name 'Hello World'.

=EMSegmenter-Task Template=
Please use this [[EMSegmenter-Tasks:Template| wiki page]] as a template for you task specific Wiki page.