[Insight-users] Simple ITK vs Scripted ITK vs full ITK

Fri Jan 13 10:39:24 EST 2012

Hi Michel,

Le 13 janv. 12 à 16:16, Audette, Michel A. a écrit :

> Hello again,
>
> in the end, and after further thought, I've decided that this will  
> hinge on the response of the biologists at my university. If there  
> is a demand from them for script-based, I'll add the script-based,  
> so that my course will be an adaptation of John's, which will be  
> dual-stream (part tailored for C++ programmers, part tailored for  
> script users). If not, I may opt for Simple and Classic ITK.
>
> In the former case, there may come a point where I need advice on  
> wrapping some useful classes that are not part of the usual WrapITK.

Everything useful should be there!

More seriously, the few non wrapped classes are usually not wrapped  
because of the lack of knowledge about how to properly use them.
If some of your favorite filters or classes are not there, the most  
efficient way to go is probably to work together to add them.

Regards,

Gaëtan

>
> Oh, and Best wishes for the New Year,
>
> Michel
>
> Michel Audette, Ph.D.
> Assistant Professor,
> Department of Modeling, Simulation and Visualization Engineering,
> Old Dominion University,
> Norfolk, VA.
> ________________________________________
> From: Audette, Michel A.
> Sent: Friday, January 13, 2012 9:45 AM
> To: insight-users at itk.org
> Subject: RE: [Insight-users] Simple ITK vs Scripted ITK vs full ITK
>
> Dear gents (Matt, Dan, Alex...),
>
> Thanks for all of your answers. I think that this 70% figure is what  
> I was looking for. In my opinion, I have to be careful about how  
> much programming I have to cover in the class, since this will be  
> foremost an imaanalysis class, where ITK is a means to an end. It  
> may be feasible to do both Simple and Classic ITK, since the  
> progression is probably natural, from non-templated to templated.  
> But adding wrapping to that really makes it an ITK course rather  
> than one where the emphasis will be on the algorithms.
>
> In my opinion, John Galeotti has struck a good balance between the  
> two, where ITK is used to empower the students to learn and refine  
> algorithms. Adding another week or two on wrapping would take away  
> from time better spent on demons registration or level sets (and  
> hopefully simplex, right Alex ;-) ) surface models.
>
> Cheers,
>
> Michel
>
> Michel Audette, Ph.D.
> Assistant Professor,
> Department of Modeling, Simulation and Visualization Engineering,
> Old Dominion University,
> Norfolk, VA.
> ________________________________________
> From: Dan Mueller [dan.muel at gmail.com]
> Sent: Friday, January 13, 2012 12:42 AM
> To: Audette, Michel A.
> Cc: insight-users at itk.org
> Subject: Re: [Insight-users] Simple ITK vs Scripted ITK vs full ITK
>
> Hi Michel,
>
> Your email seems to have posed the question as SimpleITK xor WrapITK
> xor ITK. Have you considered SimpleITK _and_ WrapITK _and_ ITK? IMHO
> the tools make a nice progression: simple/less features to more
> complex/fully featured. Concepts learnt in SimpleITK are transferable
> to WrapITK, and concepts learnt in WrapITK are transferable to pure
> C++ ITK.
>
> For example:
>
> SimpleITK could be used to introduced the notion of an n-D image with
> configurable pixel type, file types supported by ITK, common filters,
> etc.
> WrapITK could introduce pipeline execution, events/progress reporting,
> additional functionality not available (yet) in SimpleITK (e.g.
> registration).
> Finally ITK topics could include CMake/building, generic
> programming/templates, writing custom filters, etc.
> (Of course these topics are on top of the general medical image
> analysis topics.)
>
> Anyhow, just an idea that perhaps you hadn't considered...
>
> To answer some of your more specific questions:
> SimpleITK currently supports the following first tier languages:
> Python, Tcl, Java. Other "second" tier languages include R, Lua, C#.
> WrapITK also supports a number of different languages, including:
> Python, Tcl, Java, Perl, Ruby. I don't know the exact figure, but
> WrapITK would cover roughly 70% of available ITK filters.
> Also, AFAIK SimpleITK can be integrated with both WrapITK and classic
> ITK (depending on the wrapping language i.e. Python).
>
> HTH
>
> Cheers, Dan
>
> On 13 January 2012 15:13, Matt McCormick  
> <matt.mccormick at kitware.com> wrote:
>> Hi Michel,
>>
>> Another ITK based course would be great!
>>
>> SimpleITK is probably your best bet at this point.  It will remove
>> language hurtles that may cloud the learning process, and it still
>> provides a basis for what can easily be a full course.  The most
>> notable drawback right now with SimpleITK is a lack of registration
>> interfaces.  There is good Doxygen documentation, and the SimpleITK
>> developers are working on a user's guide and better in-language help.
>>
>> The script-based ITK (WrapITK) is available, and it would not be a  
>> bad
>> choice either.  It removes the high programming bar for understanding
>> C++, templates, writing typedefs, ...  You can build the python
>> interface by setting ITK_WRAP_PYTHON to ON in the CMake  
>> configuration.
>>
>> Of course, there is nothing wrong with ITK classic, either.  However,
>> the other interfaces may be more effective as a gateway drug other
>> than direct access to "the good stuff".
>>
>> Best regards,
>> Matt
>>
>> On Thu, Jan 12, 2012 at 4:41 PM, Audette, Michel A.  
>> <maudette at odu.edu> wrote:
>>> Dear ITK users and developers,
>>>
>>> I'm giving thought to producing a course similar to John  
>>> Galeotti's at CMU, i.e. medical image analysis based on ITK, but  
>>> I'm also considering whether to use Simple ITK, or scripted ITK  
>>> (you guys are working on that, right?), vs ITK Classic.
>>>
>>> I want to give the students the full breadth of possibilities, but  
>>> at the same time, if I can attract biology students to the class  
>>> on the basis of a script-based course, that might a justification  
>>> for opting for the scripting-based version.
>>>
>>> Can anyone give me a sense of how much ITK functionality I would  
>>> be sacrificing if I opt for script-based ITK (what is it: python?)  
>>> vs what will be available via C++-based ITK, Simple or otherwise?
>>>
>>> Thanks for your kind consideration.
>>>
>>> Cheers,
>>>
>>> Michel
>>>
>>> Michel Audette, Ph.D.
>>> Assistant Professor,
>>> Department of Modeling, Simulation and Visualization Engineering,
>>> Old Dominion University,
>>> Norfolk, VA.
>>> _____________________________________
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-- 
Gaëtan Lehmann
Biologie du Développement et de la Reproduction
INRA de Jouy-en-Josas (France)
tel: +33 1 34 65 29 66    fax: 01 34 65 29 09
http://mima2.jouy.inra.fr  http://www.itk.org
http://www.bepo.fr

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