[ITK Community] Some questions about RegionGrowingSegmentation

Jon Haitz Legarreta jhlegarreta at vicomtech.org
Fri Feb 7 07:26:51 EST 2014 

Dear Ruturaj,
if you don't need FLTK (as you mentioned, you don't need a GUI), then you
need to modify the CMakeLists accordingly, i.e. remove all FLTK-related
CMake variables in your new, fresh CMakeLists.txt

You will just need to tell CMake that your projects depends only on ITK.

In the ITK wiki, you will find quite a few examples on how to do this [1].
You even have a segmentation section there.

HTH,
JON HAITZ

[1] http://www.itk.org/Wiki/ITK/Examples#About_the_Examples



On 7 February 2014 12:36, Girish, Gavaskar Ruturaj <
gavaskar.ruturaj.girish at philips.com> wrote:

>  Dear Friends,
>
>
>
> I am not able to build the app RegionGrowingSegmentation separately
> without using Superbuild. I have already installed Superbuild once. Here is
> what I did:
>
>
>
> In cmake, I gave the source directory as ITKApps/RegionGrowingSegmentation
> and hit 'Configure', upon which CMake showed me the following error.
>
>
>
>
>
> *CMake Error: Error required internal CMake variable not set, cmake may be
> not be built correctly. Missing variable is: FLTK_FLUID_EXECUTABLE*
>
>
>
> *CMake Error: Error required internal CMake variable not set, cmake may be
> not be built correctly. Missing variable is: FLTK_FLUID_EXECUTABLE*
>
>
> *CMake Error at CMakeLists.txt:42 (ITK_DISABLE_FLTK_GENERATED_WARNINGS):
> Unknown CMake command "ITK_DISABLE_FLTK_GENERATED_WARNINGS".*
>
>
>
>
>
>
>
>
>
> *CMake Warning (dev) in CMakeLists.txt: No cmake_minimum_required command
> is present. A line of code such as cmake_minimum_required(VERSION 2.8)
> should be added at the top of the file. The version specified may be lower
> if you wish to support older CMake versions for this project. For more
> information run "cmake --help-policy CMP0000". This warning is for project
> developers. Use -Wno-dev to suppress it.*
>
> *FLTK_WRAP_UI was called with a target that was never created:
> RegionGrowingSegmentation. The problem was found while processing the
> source directory: D:/ITKApps-27-01-2014/RegionGrowingSegmentation. This
> FLTK_WRAP_UI call will be ignored.*
>
> *FLTK_WRAP_UI was called with a target that was never created:
> RegionGrowingSegmentation2D. The problem was found while processing the
> source directory: D:/ITKApps-27-01-2014/RegionGrowingSegmentation. This
> FLTK_WRAP_UI call will be ignored.*
>
> *Configuring incomplete, errors occurred!*
>
> *See also "D:/RegionGrowingSegmentation-Build/CMakeFiles/CMakeOutput.log".*
>
>
>
> So I added the following 3 commands to CMakeLists.txt:
>
>
>
> 1)      SET(FLTK_FLUID_EXECUTABLE "C:/Program Files/FLTK/bin/fluid.exe")
>
> 2)      CMAKE_MINIMUM_REQUIRED(VERSION 2.8)
>
> 3)      (*Copied from ITKApps/CMakeLists.txt*)
>
> MACRO(ITK_DISABLE_FLTK_GENERATED_WARNINGS files)
>
>   IF(CMAKE_COMPILER_IS_GNUCXX)
>
>     FOREACH(f ${files})
>
>       STRING(REGEX REPLACE "\\.fl$" ".cxx" SRC "${f}")
>
>       STRING(REGEX REPLACE ".*/([^/]*)$" "\\1" SRC "${SRC}")
>
>       SET_SOURCE_FILES_PROPERTIES(${SRC} PROPERTIES COMPILE_FLAGS -w)
>
>     ENDFOREACH(f)
>
>   ENDIF(CMAKE_COMPILER_IS_GNUCXX)
>
>   IF(MSVC)
>
>     FOREACH(f ${files})
>
>       STRING(REGEX REPLACE "\\.fl$" ".cxx" SRC "${f}")
>
>       STRING(REGEX REPLACE ".*/([^/]*)$" "\\1" SRC "${SRC}")
>
>       SET_SOURCE_FILES_PROPERTIES(${SRC} PROPERTIES COMPILE_FLAGS /w)
>
>     ENDFOREACH(f)
>
>   ENDIF(MSVC)
>
> ENDMACRO(ITK_DISABLE_FLTK_GENERATED_WARNINGS)
>
>
>
> Then I got the following error in cmake:
>
>
>
>
> *CMake Error at CMakeLists.txt:82 (ADD_GUI_EXECUTABLE): Unknown CMake
> command "ADD_GUI_EXECUTABLE".*
>
> *FLTK_WRAP_UI was called with a target that was never created:
> RegionGrowingSegmentation. The problem was found while processing the
> source directory: D:/ITKApps-27-01-2014/RegionGrowingSegmentation. This
> FLTK_WRAP_UI call will be ignored.*
>
> *FLTK_WRAP_UI was called with a target that was never created:
> RegionGrowingSegmentation2D. The problem was found while processing the
> source directory: D:/ITKApps-27-01-2014/RegionGrowingSegmentation. This
> FLTK_WRAP_UI call will be ignored.*
>
> *Configuring incomplete, errors occurred!*
>
>
>
> Please tell me if I did anything wrong and what I need to do to build this
> app. I need to find a way to build it separately since I wish to modify it
> a little. Thanks.
>
>
>
> Regards
>
> Ruturaj
>
>
>
>
>
> *From:* Community [mailto:community-bounces at itk.org] *On Behalf Of *Girish,
> Gavaskar Ruturaj
> *Sent:* Friday, February 07, 2014 1:37 PM
> *To:* Jon Haitz Legarreta
>
> *Cc:* community at itk.org
> *Subject:* Re: [ITK Community] Some questions about
> RegionGrowingSegmentation
>
>
>
> Dear Jon,
>
>
>
> Thanks for your suggestion. I am looking to modify the source code to
> accept multiple seed points so that more than one region can be segmented.
> I find it much easier without a GUI as I never worked with developing a GUI
> before. I will go through the links you posted.
>
>
>
> Regards
>
> Ruturaj
>
>
>
>
>
> *From:* Jon Haitz Legarreta [mailto:jhlegarreta at vicomtech.org<jhlegarreta at vicomtech.org>]
>
> *Sent:* Friday, February 07, 2014 1:15 PM
> *To:* Girish, Gavaskar Ruturaj
> *Cc:* community at itk.org
> *Subject:* Re: [ITK Community] Some questions about
> RegionGrowingSegmentation
>
>
>
> Dear Ruturaj,
>
> 1.- Haven't got the example with me, but if you intend to use a region
> growing segmentation filter a good point to start is the ITK software
> guide, chapter 9.1 [1]. There, you will be able to see which are the
> available build-in algorithms/strategies, and you will see which are the
> methods you need to call in order to make them work. Please, bear in mind
> that segmentation is highly application-specific, and you may need to at
> least adjust the parameters, when it's not to develop your own strategy
> based on what's available in ITK, for example. Nevertheless, the available
> examples in ITK are quite useful.
>
> 2.- Sure. The seed point can be read from wherever you need (user
> interaction, program arguments, external file). The seed-setting method (or
> whichever method actually requiring the seed point) will only require a
> vector/array or individual coordinates, regardless of where you picked up
> them.
>
> 3.- As said, haven't got the app in front of me, but surely you will be
> able to build your own application for region growing segmentation without
> any GUI. ITK is independent of any GUI (now, the apps may use a specific
> one); you can just build an application with the GUI library that you most
> like. Having said, that, may be the most common and easiest choice is Qt
> [2], which has an open source version.
>
>
>
> [1] http://www.itk.org/ItkSoftwareGuide.pdf
> [2] http://qt-project.org/
>
>
>
> On 7 February 2014 06:27, Girish, Gavaskar Ruturaj <
> gavaskar.ruturaj.girish at philips.com> wrote:
>
> Hello All,
>
>
>
> I am new to ITK & C++ and I have some questions related to the ITK app
> RegionGrowingSegmentation:
>
> 1.       Please explain to me the purpose of the function
> RegionGrowingSegmentation:: ClickSelectCallback(float x, float y, float z,
> float itkNotUsed(value), void * args), along with the meaning of the
> arguments (Line 451 in RegionGrowingSegmentation.cxx)
>
> 2.       Is it possible to pass the coordinates of the seed point without
> user interaction (for example, as arguments or by storing them in a file
> etc.) ?
>
> 3.       Can this app be built without a GUI, so that the coordinates of
> the seed point, along with other parameters, can be directly passed from
> the command line? If yes, what is the procedure to build it?
>
>
>
> Thanks.
>
>
>
> Regards
>
> Ruturaj
>
>
>
>
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