[Insight-users] Problems with ITK and Linux

[Gabriel Santiago]

I did that too.. It is not working...

The library that is missing is not in "Includes" files when I run CMake.
Could that be a problem?

Thanks,

On 26 September 2012 17:05, Matt McCormick <matt.mccormick at kitware.com>wrote:

> Hi Gabriel,
>
> I do not have much experience with Eclipse.  Could you please try the
> Unix Makefiles first to see if that works?
>
> Thanks,
> Matt
>
> On Wed, Sep 26, 2012 at 1:29 PM, Gabriel Santiago
> <santiago.eletrica at gmail.com> wrote:
> > I don't know if it is important, but in "Includes" folder in Eclipse, the
> > path "/usrlocal//include/ITK-4.2" is not there.
> >
> > On 26 September 2012 14:12, Gabriel Santiago <
> santiago.eletrica at gmail.com>
> > wrote:
> >>
> >> Well, I did use "Eclipse CDT 4" option, but still not working.
> >>
> >> Actually, I am using Eclipse Indigo. Could this be a problem?
> >>
> >>
> >> On 26 September 2012 14:03, Matt McCormick <matt.mccormick at kitware.com>
> >> wrote:
> >>>
> >>> PS.  Please reply-to-all so the messages are archived on the mailing
> >>> list.
> >>>
> >>> On Wed, Sep 26, 2012 at 12:59 PM, Matt McCormick
> >>> <matt.mccormick at kitware.com> wrote:
> >>> > Hi Gabriel,
> >>> >
> >>> > You must use CMake to generate the Makefiles/Project Files.  Then,
> use
> >>> > your build system of choice to run the Makefiles/Project Files.  The
> >>> > CMake default "generator" on Linux is "Unix Makefiles".  If you use
> >>> > this, then run the "make" command in the CMake binary directory.  If
> >>> > you want to use Eclipse, you must specify the "Eclipse CDT4 - Unix
> >>> > Makefiles" generator.  This will create Eclipse CDT 4.9 projects
> >>> > files.  You need to use these when you try to build, so Eclipse will
> >>> > not
> >>> > know where to look for the header files, libraries.
> >>> >
> >>> > HTH,
> >>> > Matt
> >>> >
> >>> > On Wed, Sep 26, 2012 at 12:43 PM, Gabriel Santiago
> >>> > <santiago.eletrica at gmail.com> wrote:
> >>> >> Ok, I just run the example and got the same error:
> >>> >>
> >>> >> fatal error: vcl_config_manual.h: No such file or directory
> >>> >> ComputeGradientMagnitudeOfGrayscaleImage        line 242, external
> >>> >> location:
> >>> >> /usr/local/include/ITK-4.2/vcl_compiler.h    C/C++ Problem
> >>> >>
> >>> >>
> >>> >>
> >>> >> On 26 September 2012 13:31, Gabriel Santiago
> >>> >> <santiago.eletrica at gmail.com>
> >>> >> wrote:
> >>> >>>
> >>> >>> In fact, when I import those files to Eclipse, it shows that every
> >>> >>> single
> >>> >>> line of the code has some kind of error and I can not build it.
> >>> >>>
> >>> >>>
> >>> >>> On 26 September 2012 13:28, Gabriel Santiago
> >>> >>> <santiago.eletrica at gmail.com>
> >>> >>> wrote:
> >>> >>>>
> >>> >>>> Yes, that's correct. That's the the ITK_DIR:
> >>> >>>> /usr/local/lib/cmake/ITK-4.2/
> >>> >>>> I am trying to run the example you told me. But no success up to
> >>> >>>> now...
> >>> >>>> What should I do?
> >>> >>>>
> >>> >>>> thx!
> >>> >>>>
> >>> >>>>
> >>> >>>> On 26 September 2012 13:24, Matt McCormick
> >>> >>>> <matt.mccormick at kitware.com>
> >>> >>>> wrote:
> >>> >>>>>
> >>> >>>>> Hi Gabriel,
> >>> >>>>>
> >>> >>>>> On Wed, Sep 26, 2012 at 12:02 PM, Gabriel Santiago
> >>> >>>>> <santiago.eletrica at gmail.com> wrote:
> >>> >>>>> > Thank you, Matt. But can you please, tell step by step exactly
> >>> >>>>> > what
> >>> >>>>> > should I
> >>> >>>>> > do? I am a beginner to this CMake thing. What should be the
> >>> >>>>> > ITK_DIR
> >>> >>>>> > correct
> >>> >>>>> > configuration?
> >>> >>>>>
> >>> >>>>> ITK_DIR should be the directory containing the file
> >>> >>>>> ITKConfig.cmake.
> >>> >>>>> If ITK is not install, it is the location of the binary build
> >>> >>>>> directory.  If ITK is installed, I believe in your case it would
> be
> >>> >>>>> /usr/local/lib/cmake/ITK-4.2/
> >>> >>>>>
> >>> >>>>> HTH,
> >>> >>>>> Matt
> >>> >>>>>
> >>> >>>>>
> >>> >>>>> >
> >>> >>>>> > Thanks again,
> >>> >>>>> >
> >>> >>>>> >
> >>> >>>>> > On 26 September 2012 12:35, Matt McCormick
> >>> >>>>> > <matt.mccormick at kitware.com>
> >>> >>>>> > wrote:
> >>> >>>>> >>
> >>> >>>>> >> On Wed, Sep 26, 2012 at 10:37 AM, Gabriel Santiago
> >>> >>>>> >> <santiago.eletrica at gmail.com> wrote:
> >>> >>>>> >> > Hi Matt,
> >>> >>>>> >> >
> >>> >>>>> >> > Thanks for your reply.
> >>> >>>>> >> >
> >>> >>>>> >> > Here it is:
> >>> >>>>> >> > //- File name: myProject.cpp in myProject folder.
> >>> >>>>> >> > // -- Code:
> >>> >>>>> >> >
> >>> >>>>> >> > #include "/usr/local/include/ITK-4.2/itkImage.h"
> >>> >>>>> >> > #include "/usr/local/include/ITK-4.2/itkImageFileReader.h"
> >>> >>>>> >> > #include
> >>> >>>>> >> >
> "/usr/local/include/ITK-4.2/itkGradientMagnitudeImageFilter.h"
> >>> >>>>> >> >
> >>> >>>>> >> > int main(int arcg, char** argv)
> >>> >>>>> >> > {
> >>> >>>>> >> >     typedef itk::Image<unsigned short, 2> ImageType;
> >>> >>>>> >> >     typedef itk::ImageFileReader<ImageType> ReaderType;
> >>> >>>>> >> >     typedef itk::GradientMagnitudeImageFilter<ImageType,
> >>> >>>>> >> > ImageType>
> >>> >>>>> >> > FilterType;
> >>> >>>>> >> >
> >>> >>>>> >> >     ReaderType::Pointer reader = ReaderType::New();
> >>> >>>>> >> >     FilterType::Pointer filter = FilterType::New();
> >>> >>>>> >> >
> >>> >>>>> >> >     reader->SetFileName(argv[1]);
> >>> >>>>> >> >     filter->SetInput(reader->GetOutput());
> >>> >>>>> >> >     filter->Update();
> >>> >>>>> >> >
> >>> >>>>> >> >     return 0;
> >>> >>>>> >> >
> >>> >>>>> >> > }
> >>> >>>>> >> >
> >>> >>>>> >> > // -- CMakeLists.txt in myProject folder.
> >>> >>>>> >> >
> >>> >>>>> >> > PROJECT( myProject )
> >>> >>>>> >> > FIND_PACKAGE ( ITK REQUIRED )
> >>> >>>>> >> > IF ( ITK_FOUND )
> >>> >>>>> >> > INCLUDE( ${ITK_USE_FILE} )
> >>> >>>>> >> > ENDIF( ITK_FOUND )
> >>> >>>>> >> > ADD_EXECUTABLE( myProject myProject.cpp )
> >>> >>>>> >> > TARGET_LINK_LIBRARIES ( myProject ITKCommon ITKIO)
> >>> >>>>> >> >
> >>> >>>>> >> >
> >>> >>>>> >> > Ow! And I forgot to mention that in order to make things
> work,
> >>> >>>>> >> > I
> >>> >>>>> >> > had to
> >>> >>>>> >> > include the whole path to itk libraries.
> >>> >>>>> >>
> >>> >>>>> >> Yes, that should not be necessary.  It should be '#include
> >>> >>>>> >> "itkImage.h"', etc.   The "INCLUDE" statement of your
> >>> >>>>> >> CMakeLists.txt
> >>> >>>>> >> should be calling the CMake "include_directories" statement,
> >>> >>>>> >> which
> >>> >>>>> >> sets up the right include "-I" flags when building.
> >>> >>>>> >>
> >>> >>>>> >> Some sanity checks:
> >>> >>>>> >>
> >>> >>>>> >> *  Make sure ITK_DIR is set correctly in the CMake
> >>> >>>>> >> configuration.
> >>> >>>>> >> *  build with "make VERBOSE=1" and make use there is a
> >>> >>>>> >> "-I/usr/local/include/ITK-4.2"
> >>> >>>>> >>
> >>> >>>>> >> Try this example (code downloadable in the sidebar on the
> left):
> >>> >>>>> >>
> >>> >>>>> >>
> >>> >>>>> >>
> >>> >>>>> >>
> >>> >>>>> >>
> http://itk.org/ITKExamples/Examples/Filtering/ImageGradient/ComputeGradientMagnitudeOfGrayscaleImage/ComputeGradientMagnitudeOfGrayscaleImage.html
> >>> >>>>> >>
> >>> >>>>> >> Hope this helps,
> >>> >>>>> >> Matt
> >>> >>>>> >>
> >>> >>>>> >>
> >>> >>>>> >> >
> >>> >>>>> >> >
> >>> >>>>> >> > On 26 September 2012 11:34, Matt McCormick
> >>> >>>>> >> > <matt.mccormick at kitware.com>
> >>> >>>>> >> > wrote:
> >>> >>>>> >> >>
> >>> >>>>> >> >> Hi Gabriel,
> >>> >>>>> >> >>
> >>> >>>>> >> >> Could you please share the source code you are using for
> the
> >>> >>>>> >> >> project.
> >>> >>>>> >> >>
> >>> >>>>> >> >> Thanks,
> >>> >>>>> >> >> Matt
> >>> >>>>> >> >>
> >>> >>>>> >> >> On Wed, Sep 26, 2012 at 10:12 AM, Gabriel Santiago
> >>> >>>>> >> >> <santiago.eletrica at gmail.com> wrote:
> >>> >>>>> >> >> > Hi guys,
> >>> >>>>> >> >> >
> >>> >>>>> >> >> > I am trying to run ITK on my Ubuntu 12.04.1. I did
> exactly
> >>> >>>>> >> >> > what
> >>> >>>>> >> >> > the
> >>> >>>>> >> >> > tutorial
> >>> >>>>> >> >> > says, except that my Cmake and ITK are the most recent
> >>> >>>>> >> >> > versions.
> >>> >>>>> >> >> > I also installed the CMake gui interface, which does
> >>> >>>>> >> >> > exactly
> >>> >>>>> >> >> > what the
> >>> >>>>> >> >> > ccmake
> >>> >>>>> >> >> > does and has the same interface that the Windows version.
> >>> >>>>> >> >> >
> >>> >>>>> >> >> > After I installed ITK on my linux, I tried myProject
> >>> >>>>> >> >> > example, as
> >>> >>>>> >> >> > described
> >>> >>>>> >> >> > in the tutorial. After I made the .cpp (or .cxx) file and
> >>> >>>>> >> >> > the
> >>> >>>>> >> >> > CMakeLists.txt
> >>> >>>>> >> >> > with the same code found in "Getting Started I", I used
> >>> >>>>> >> >> > CMake,
> >>> >>>>> >> >> > choosing
> >>> >>>>> >> >> > my
> >>> >>>>> >> >> > /workspace/myProject as source folder and
> >>> >>>>> >> >> > /workspace/myProject/bin as
> >>> >>>>> >> >> > binary
> >>> >>>>> >> >> > directory. Everything seems to work fine, until I try to
> >>> >>>>> >> >> > build
> >>> >>>>> >> >> > it.
> >>> >>>>> >> >> >
> >>> >>>>> >> >> > I get the following error message:
> >>> >>>>> >> >> >
> >>> >>>>> >> >> > fatal error: vcl_config_manual.h: No such file or
> directory
> >>> >>>>> >> >> > myProject
> >>> >>>>> >> >> > line 242, external location:
> >>> >>>>> >> >> > /usr/local/include/ITK-4.2/vcl_compiler.h
> >>> >>>>> >> >> > C/C++ Problem
> >>> >>>>> >> >> >
> >>> >>>>> >> >> > Can anyone, please, help me?
> >>> >>>>> >> >> >
> >>> >>>>> >> >> > Thanks in advance,
> >>> >>>>> >> >> >
> >>> >>>>> >> >> > --
> >>> >>>>> >> >> > Gabriel Santiago
> >>> >>>>> >> >> >
> >>> >>>>> >> >
> >>> >>>>> >> >
> >>> >>>>> >> >
> >>> >>>>> >> >
> >>> >>>>> >
> >>> >>>>> >
> >>> >>>>> >
> >>> >>>>> >
> >>> >>>>> > --
> >>>
> >>>
> >>
> >
>



-- 
Gabriel Santiago
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