[Insight-developers] New Remote Module: SkullStrip

[Bradley Lowekamp]

JC,

ITK module don't support compilation outside of ITK.

However, many of ITK modules don't actually need to be compiled or configured, just included.

In my IASEM Slicer module I have a couple branches which add some of my ITK Modules in a "External" directory as a git submodule. This has work pretty good for my cases, just doing some conditional cmake include directories.

I'd like to avoid copying files. What do you think of using sub-modules for ITK extensions in Slicer extension? Any other options/suggestion for establishing best practice recommendations for using Slicer and ITK modules together?

Brad

On Jan 16, 2014, at 1:18 PM, Jean-Christophe Fillion-Robin <jchris.fillionr at kitware.com> wrote:

> Hi Bill, 
> 
> This is great.
> 
> Would it be possible to update the SkullStripper extension so that it externally build the ITK remote module and use it ? Alternatively, you could copy the files "itkStripTsImageFilter.*" specifying from which revision of the remote module they are based of. Shell script to do so should probably be generalized and made available ... 
> 
> That would avoid code duplication and ease maintenance.
> 
> Thanks
> Jc
> 
> 
> 
> On Thu, Jan 16, 2014 at 12:28 PM, Bill Lorensen <bill.lorensen at gmail.com> wrote:
> A Skull Stripping filter that removes face/skull from MRI data and
> creates a mask for the brain. This is a common preprocessing step for
> segmenting MRI brains and their contents.
> 
> NOTE: This algorithm is also availiable as a Slicer extension:
> https://www.slicer.org/slicerWiki/index.php/Documentation/4.2/Extensions
> 
> Following the process here:
> http://www.itk.org/Wiki/ITK/Policy_and_Procedures_for_Adding_Remote_Modules
> 
> 1) A Skull-Stripping Filter for ITK Bauer S., Fejes T., Reyes M.
> http://www.insight-journal.org/browse/publication/859
> 
> 2) Nightly Dashboard
> http://open.cdash.org/index.php?project=Insight&filtercount=2&showfilters=1&filtercombine=and&field1=site/string&compare1=63&value1=BillsAmazon&field2=buildname/string&compare2=63&value2=SkullStrip
> 
> 3) Gerrit patch
> http://review.source.kitware.com/#/c/14054/
> 
> 4) Notify list
> 
> Bill
> 
> 
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