[Insight-developers] [Insight-users] Problems with ITK
Cory Quammen
cquammen at cs.unc.edu
Tue Oct 23 15:17:11 EDT 2012
To help you further, I'll need to see your CMakeLists.txt and source files.
Cory
On Tue, Oct 23, 2012 at 2:28 PM, Gabriel Santiago
<santiago.eletrica at gmail.com> wrote:
> By the way, I don't know if this is relevant, but I am actually using Cuda
> 5.0 with Nsight as editor/ debugger.
>
> Even if I use pure C++, I get the very same error message as if I use some
> Cuda code.
>
> Regards,
>
> On 23 October 2012 15:49, Gabriel Santiago <santiago.eletrica at gmail.com>
> wrote:
>>
>> Still not working... The problem happens when CMake/ ITK comes into
>> scene...
>>
>> I get this error message:
>>
>> CMake Error at Proj_generated_loadVar_Cuda.cu.o.cmake:256 (message):
>> Error generating file
>>
>> /home/gabriel/cuda-workspace/Proj/CMakeFiles/teste6.dir//./Proj_generated_loadVar_Cuda.cu.o
>>
>> My CMakeLists.txt is the same as the example. Also, I've found this page:
>>
>>
>> https://gforge.sci.utah.edu/gf/project/findcuda/scmsvn/?action=browse&path=%2F*checkout*%2Ftrunk%2FFindCuda.html
>>
>> But nothing...
>>
>> On 23 October 2012 14:01, Cory Quammen <cquammen at cs.unc.edu> wrote:
>>>
>>> By including your .cuh and .cu files like that, your standard C++
>>> compiler is going to try to compile the CUDA code in those source
>>> files. Since it doesn't know anything about CUDA, you are getting
>>> errors.
>>>
>>> This is off the top of my head, and I haven't tried to compile it, but
>>> your source files will look something like this:
>>>
>>> In my_cuda.h:
>>>
>>> extern "C"
>>> void someCudaFunction();
>>>
>>> In my_cuda.cu:
>>>
>>> __global__ void someCudaFunction()
>>> {
>>> }
>>>
>>> In my_main.cpp:
>>>
>>> #include "my_cuda.h"
>>> #include <itkMyFavoriteFilter.h>
>>>
>>> int main(int argc, char*argv[])
>>> {
>>> // Do some ITK stuff here
>>>
>>> // Do some CUDA stuff here.
>>> someCudaFunction<<<block,grid>>>();
>>> }
>>>
>>> In CMakeLists.txt:
>>>
>>> PROJECT( PROJECT_NAME )
>>> CMAKE_MINIMUM_REQUIRED(VERSION 2.8)
>>> FIND_PACKAGE ( ITK REQUIRED )
>>> FIND_PACKAGE(CUDA)
>>> INCLUDE(FindCUDA)
>>> IF ( ITK_FOUND )
>>> INCLUDE( ${ITK_USE_FILE} )
>>> ENDIF( ITK_FOUND )
>>> CUDA_ADD_EXECUTABLE( PROJECT_NAME my_cuda.cu my_main.cpp )
>>> TARGET_LINK_LIBRARIES ( PROJECT_NAME ITKCommon ITKIO)
>>>
>>> Hope that helps,
>>> Cory
>>>
>>> On Tue, Oct 23, 2012 at 11:19 AM, Gabriel Santiago
>>> <santiago.eletrica at gmail.com> wrote:
>>> > Thank you for your attention, Cory. But this can sound very stupid, but
>>> > *how* exactly do I do that?
>>> >
>>> > I packed everything in a .cuh and a .cu file and than included then in
>>> > my
>>> > main.cpp file, but the compiler complains about my cuda functions,
>>> > saying
>>> > that the qualifier __global__ does not name a type.
>>> >
>>> > Could you please, give me a quick example on how my files should look
>>> > like?
>>> > I would be very grateful.
>>> >
>>> >
>>> > On 23 October 2012 11:56, Cory Quammen <cquammen at cs.unc.edu> wrote:
>>> >>
>>> >> Gabriel,
>>> >>
>>> >> You must be trying to use CUDA in your project. I wouldn't be
>>> >> surprised if the CUDA compiler has trouble with all the features of
>>> >> C++ that ITK uses.
>>> >>
>>> >> The good news is that you don't need to define your main function
>>> >> inside a CUDA source file. You can instead compile only your CUDA
>>> >> source with the CUDA compiler, and all your regular C++ code as C++
>>> >> files. Just put the CUDA code in a .cu file, put your main C++ code in
>>> >> a .cpp file, then add all the source files to your call to
>>> >> CUDA_ADD_EXECUTABLE. CMake should figure out how to compile them
>>> >> automatically.
>>> >>
>>> >> Hope that helps,
>>> >> Cory
>>> >>
>>> >> On Tue, Oct 23, 2012 at 9:45 AM, Bill Lorensen
>>> >> <bill.lorensen at gmail.com>
>>> >> wrote:
>>> >> > Why are you using .cu?
>>> >> >
>>> >> > On Tue, Oct 23, 2012 at 9:37 AM, Gabriel Santiago
>>> >> > <santiago.eletrica at gmail.com> wrote:
>>> >> >>
>>> >> >> I am using 3.20.1 version.
>>> >> >>
>>> >> >> If I change to .cpp instead of .cu everything works fine.
>>> >> >>
>>> >> >>
>>> >> >> On 23 October 2012 11:34, Bill Lorensen <bill.lorensen at gmail.com>
>>> >> >> wrote:
>>> >> >>>
>>> >> >>> Please keep on list....
>>> >> >>>
>>> >> >>> What version of ITK? And what happens if you define it as a .cxx
>>> >> >>> rather
>>> >> >>> than .cu?
>>> >> >>>
>>> >> >>>
>>> >> >>> On Tue, Oct 23, 2012 at 9:17 AM, Gabriel Santiago
>>> >> >>> <santiago.eletrica at gmail.com> wrote:
>>> >> >>>>
>>> >> >>>> Sure!
>>> >> >>>>
>>> >> >>>> In my main.cu file:
>>> >> >>>>
>>> >> >>>> #include <iostream>
>>> >> >>>> #include <string>
>>> >> >>>> #include "itkImageFileReader.h"
>>> >> >>>>
>>> >> >>>> using std::cout;
>>> >> >>>> using std::string;
>>> >> >>>>
>>> >> >>>> int main(void){
>>> >> >>>>
>>> >> >>>> string filename = "dicom_file.dcm";
>>> >> >>>>
>>> >> >>>> typedef signed int InputPixelType;
>>> >> >>>> typedef itk::Image<InputPixelType, 3> InputImageType;
>>> >> >>>> typedef itk::ImageFileReader<InputImageType> ReaderType;
>>> >> >>>> ReaderType::Pointer reader = ReaderType::New();
>>> >> >>>> reader->SetFileName(filename.c_str());
>>> >> >>>>
>>> >> >>>> return 0;
>>> >> >>>>
>>> >> >>>> }
>>> >> >>>>
>>> >> >>>> My CMakeLists.txt file conatins:
>>> >> >>>>
>>> >> >>>> PROJECT( PROJECT_NAME )
>>> >> >>>> CMAKE_MINIMUM_REQUIRED(VERSION 2.8)
>>> >> >>>> FIND_PACKAGE ( ITK REQUIRED )
>>> >> >>>> FIND_PACKAGE(CUDA)
>>> >> >>>> INCLUDE(FindCUDA)
>>> >> >>>> IF ( ITK_FOUND )
>>> >> >>>> INCLUDE( ${ITK_USE_FILE} )
>>> >> >>>> ENDIF( ITK_FOUND )
>>> >> >>>> CUDA_ADD_EXECUTABLE( PROJECT_NAME main.cu )
>>> >> >>>> TARGET_LINK_LIBRARIES ( PROJECT_NAME ITKCommon ITKIO)
>>> >> >>>>
>>> >> >>>> Thank you for your reply,
>>> >> >>>>
>>> >> >>>> On 23 October 2012 11:08, Bill Lorensen <bill.lorensen at gmail.com>
>>> >> >>>> wrote:
>>> >> >>>>>
>>> >> >>>>> Gabriel,
>>> >> >>>>>
>>> >> >>>>> Can you provide a small compilable example to illustrate your
>>> >> >>>>> problem?
>>> >> >>>>>
>>> >> >>>>> Bill
>>> >> >>>>>
>>> >> >>>>> On Mon, Oct 22, 2012 at 7:35 AM, Gabriel Santiago
>>> >> >>>>> <santiago.eletrica at gmail.com> wrote:
>>> >> >>>>>>
>>> >> >>>>>> Hi guys,
>>> >> >>>>>>
>>> >> >>>>>> I am trying to read a DICOM file using ITK. I am doing exactly
>>> >> >>>>>> what
>>> >> >>>>>> is
>>> >> >>>>>> described in the ITK User Guide but I am getting some weird
>>> >> >>>>>> error
>>> >> >>>>>> messages.
>>> >> >>>>>> Here they are:
>>> >> >>>>>>
>>> >> >>>>>> overriding ‘itk::ImageBase<VImageDimension>::Pointer
>>> >> >>>>>> itk::ImageBase<VImageDimension>::CreateAnother() const [with
>>> >> >>>>>> unsigned int
>>> >> >>>>>> VImageDimension = 3u, itk::ImageBase<VImageDimension>::Pointer
>>> >> >>>>>> =
>>> >> >>>>>> itk::SmartPointer<itk::ImageBase<3u> >]’
>>> >> >>>>>>
>>> >> >>>>>> overriding ‘virtual itk::LightObject::Pointer
>>> >> >>>>>> itk::Object::CreateAnother() const’
>>> >> >>>>>>
>>> >> >>>>>> invalid covariant return type for
>>> >> >>>>>> ‘itk::ImageBase<VImageDimension>::Pointer
>>> >> >>>>>> itk::ImageBase<VImageDimension>::CreateAnother() const [with
>>> >> >>>>>> unsigned int
>>> >> >>>>>> VImageDimension = 3u, itk::ImageBase<VImageDimension>::Pointer
>>> >> >>>>>> =
>>> >> >>>>>> itk::SmartPointer<itk::ImageBase<3u> >]’
>>> >> >>>>>>
>>> >> >>>>>> invalid covariant return type for ‘itk::LightObject::Pointer
>>> >> >>>>>> itk::Image<TPixel, VImageDimension>::CreateAnother() const
>>> >> >>>>>> [with
>>> >> >>>>>> TPixel =
>>> >> >>>>>> int, unsigned int VImageDimension = 3u,
>>> >> >>>>>> itk::LightObject::Pointer =
>>> >> >>>>>> itk::SmartPointer<itk::LightObject>]’
>>> >> >>>>>>
>>> >> >>>>>> All of them are not in my code. Can anyone here, please tell me
>>> >> >>>>>> what
>>> >> >>>>>> is going on?
>>> >> >>>>>>
>>> >> >>>>>> Thank you all,
>>> >> >>>>>>
>>> >> >>>>>> --
>>> >> >>>>>> Gabriel Santiago
>>> >> >>>>>>
>>> >> >>>>>> ~"As long as I live so long do I learn"~
>>> >> >>>>>> Ramakhrishna
>>> >> >>>>>>
>>> >> >>>>>>
>>> >> >>>>>> _____________________________________
>>> >> >>>>>> Powered by www.kitware.com
>>> >> >>>>>>
>>> >> >>>>>> Visit other Kitware open-source projects at
>>> >> >>>>>> http://www.kitware.com/opensource/opensource.html
>>> >> >>>>>>
>>> >> >>>>>> Kitware offers ITK Training Courses, for more information
>>> >> >>>>>> visit:
>>> >> >>>>>> http://www.kitware.com/products/protraining.php
>>> >> >>>>>>
>>> >> >>>>>> Please keep messages on-topic and check the ITK FAQ at:
>>> >> >>>>>> http://www.itk.org/Wiki/ITK_FAQ
>>> >> >>>>>>
>>> >> >>>>>> Follow this link to subscribe/unsubscribe:
>>> >> >>>>>> http://www.itk.org/mailman/listinfo/insight-users
>>> >> >>>>>>
>>> >> >>>>>
>>> >> >>>>>
>>> >> >>>>>
>>> >> >>>>> --
>>> >> >>>>> Unpaid intern in BillsBasement at noware dot com
>>> >> >>>>>
>>> >> >>>>
>>> >> >>>>
>>> >> >>>>
>>> >> >>>> --
>>> >> >>>> Gabriel Santiago
>>> >> >>>>
>>> >> >>>>
>>> >> >>>> ~"As long as I live so long do I learn"~
>>> >> >>>> Ramakhrishna
>>> >> >>>>
>>> >> >>>
>>> >> >>>
>>> >> >>>
>>> >> >>> --
>>> >> >>> Unpaid intern in BillsBasement at noware dot com
>>> >> >>>
>>> >> >>
>>> >> >>
>>> >> >>
>>> >> >> --
>>> >> >> Gabriel Santiago
>>> >> >>
>>> >> >> ~"As long as I live so long do I learn"~
>>> >> >> Ramakhrishna
>>> >> >>
>>> >> >
>>> >> >
>>> >> >
>>> >> > --
>>> >> > Unpaid intern in BillsBasement at noware dot com
>>> >> >
>>> >> >
>>> >> > _______________________________________________
>>> >> > Powered by www.kitware.com
>>> >> >
>>> >> > Visit other Kitware open-source projects at
>>> >> > http://www.kitware.com/opensource/opensource.html
>>> >> >
>>> >> > Kitware offers ITK Training Courses, for more information visit:
>>> >> > http://kitware.com/products/protraining.php
>>> >> >
>>> >> > Please keep messages on-topic and check the ITK FAQ at:
>>> >> > http://www.itk.org/Wiki/ITK_FAQ
>>> >> >
>>> >> > Follow this link to subscribe/unsubscribe:
>>> >> > http://www.itk.org/mailman/listinfo/insight-developers
>>> >> >
>>> >>
>>> >>
>>> >>
>>> >> --
>>> >> Cory Quammen
>>> >> Research Associate
>>> >> Department of Computer Science
>>> >> The University of North Carolina at Chapel Hill
>>> >
>>> >
>>> >
>>> >
>>> > --
>>> > Gabriel Santiago
>>> >
>>> > ~"As long as I live so long do I learn"~
>>> > Ramakhrishna
>>> >
>>>
>>>
>>>
>>> --
>>> Cory Quammen
>>> Research Associate
>>> Department of Computer Science
>>> The University of North Carolina at Chapel Hill
>>
>>
>>
>>
>> --
>> Gabriel Santiago
>>
>> ~"As long as I live so long do I learn"~
>> Ramakhrishna
>>
>
>
>
> --
> Gabriel Santiago
>
> ~"As long as I live so long do I learn"~
> Ramakhrishna
>
--
Cory Quammen
Research Associate
Department of Computer Science
The University of North Carolina at Chapel Hill
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