[Insight-users] Problem when running wiki example ITK/Examples/IO/ImageFileReader

Fri Jun 3 17:06:43 EDT 2011

I've been doing manual tests. I'll try through ctest.

On Fri, Jun 3, 2011 at 5:01 PM, Bill Lorensen <bill.lorensen at gmail.com> wrote:
> But, can you run some of the ITK Examples (those in the checkout). Now
> through ctest, but manually?
>
> On Fri, Jun 3, 2011 at 4:42 PM, Cory Quammen <cquammen at cs.unc.edu> wrote:
>> Ok, still doesn't work. I've tried both static and shared builds.
>>
>> On Fri, Jun 3, 2011 at 4:18 PM, Bill Lorensen <bill.lorensen at gmail.com> wrote:
>>> You need not set ITK_AUTOLOAD_PATH.
>>>
>>> On Fri, Jun 3, 2011 at 11:46 AM, Cory Quammen <cquammen at cs.unc.edu> wrote:
>>>> Bill,
>>>>
>>>> Thanks for trying it.
>>>>
>>>> Am I missing anything obvious?
>>>>
>>>> I've got ITK_AUTOLOAD_PATH set, and DYLD_LIBRARY_PATH set for good
>>>> measure. Adding the library directory to PATH doesn't help.
>>>>
>>>> If I've got all the bases covered, I'll delve deeper to try to figure
>>>> out why the libraries aren't loading.
>>>>
>>>> Thanks,
>>>> Cory
>>>>
>>>> On Fri, Jun 3, 2011 at 11:42 AM, Bill Lorensen <bill.lorensen at gmail.com> wrote:
>>>>> Works for me.
>>>>>
>>>>> Looks like none of the io factories are loaded.
>>>>>
>>>>> On Fri, Jun 3, 2011 at 11:15 AM, Cory Quammen <cquammen at cs.unc.edu> wrote:
>>>>>> When running a slightly modified version of the example at
>>>>>> http://www.itk.org/Wiki/ITK/Examples/IO/ImageFileReader as
>>>>>>
>>>>>> ./ImageFileReader
>>>>>> /Users/cquammen/dev/packages/ITK/Testing/Data/Input/cthead1.bmp
>>>>>>
>>>>>> I get the error:
>>>>>>
>>>>>> terminate called after throwing an instance of 'itk::ImageFileReaderException'
>>>>>>  what():  /Users/cquammen/dev/packages/ITK/Modules/IO/Base/include/itkImageFileReader.txx:144:
>>>>>>  Could not create IO object for file
>>>>>> /Users/cquammen/dev/packages/ITK/Testing/Data/Input/cthead1.bmp
>>>>>>  Tried to create one of the following:
>>>>>>  You probably failed to set a file suffix, or
>>>>>>    set the suffix to an unsupported type.
>>>>>>
>>>>>>
>>>>>>
>>>>>> The exact code I am running is:
>>>>>>
>>>>>> #include "itkImage.h"
>>>>>> #include "itkImageFileReader.h"
>>>>>>
>>>>>> //#include "QuickView.h"
>>>>>>
>>>>>> int main(int argc, char *argv[])
>>>>>> {
>>>>>>  if( argc < 2 )
>>>>>>    {
>>>>>>    std::cerr << "Usage: " << std::endl;
>>>>>>    std::cerr << argv[0] << " inputImageFile" << std::endl;
>>>>>>    return EXIT_FAILURE;
>>>>>>    }
>>>>>>
>>>>>>  typedef itk::Image< double, 2 >         ImageType;
>>>>>>  typedef itk::ImageFileReader<ImageType> ReaderType;
>>>>>>
>>>>>>  ReaderType::Pointer reader = ReaderType::New();
>>>>>>  reader->SetFileName(argv[1]);
>>>>>>  reader->Update();
>>>>>>
>>>>>>  //QuickView viewer;
>>>>>>  //viewer.AddImage<ImageType>(reader->GetOutput());
>>>>>>  //viewer.Visualize();
>>>>>>
>>>>>>  return EXIT_SUCCESS;
>>>>>> }
>>>>>>
>>>>>>
>>>>>>
>>>>>> I am compiling the example against a recent git repository version of ITK:
>>>>>>
>>>>>> commit cd5aba8402fe36654fb457e23a3161fc2fd3a1eb
>>>>>> Merge: 723e12d 213d010
>>>>>> Author: Brad King <brad.king at kitware.com>
>>>>>> Date:   Wed Jun 1 13:01:11 2011 -0400
>>>>>>
>>>>>> System: Mac OS X 10.6.6
>>>>>> Compiler:
>>>>>> i686-apple-darwin10-gcc-4.2.1 (GCC) 4.2.1 (Apple Inc. build 5664)
>>>>>> Copyright (C) 2007 Free Software Foundation, Inc.
>>>>>> This is free software; see the source for copying conditions.  There is NO
>>>>>> warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
>>>>>>
>>>>>>
>>>>>>
>>>>>> I've compiled ITK with the following non-default options:
>>>>>>
>>>>>> BUILD_TESTING=OFF
>>>>>> CMAKE_BUILD_TYPE=Debug
>>>>>> ITK_BUILD_ALL_MODULES=ON
>>>>>>
>>>>>>
>>>>>>
>>>>>> I've set the following environment variables:
>>>>>> ITK_AUTOLOAD_PATH="/Users/cquammen/dev/build/ITK-Git-IO-Test/lib/"
>>>>>> DYLD_LIBRARY_PATH="/Users/cquammen/dev/build/ITK-Git-IO-Test/lib/"
>>>>>>
>>>>>>
>>>>>>
>>>>>> ls -1 $ITK_AUTOLOAD_PATH yields
>>>>>>
>>>>>> cmake
>>>>>> libITK-BiasCorrection-4.0.a
>>>>>> libITK-BioCell-4.0.a
>>>>>> libITK-Blox-4.0.a
>>>>>> libITK-Common-4.0.a
>>>>>> libITK-Deprecated-4.0.a
>>>>>> libITK-FEM-4.0.a
>>>>>> libITK-FFT-4.0.a
>>>>>> libITK-IO-BMP-4.0.a
>>>>>> libITK-IO-Base-4.0.a
>>>>>> libITK-IO-BioRad-4.0.a
>>>>>> libITK-IO-GDCM-4.0.a
>>>>>> libITK-IO-GE-4.0.a
>>>>>> libITK-IO-GIPL-4.0.a
>>>>>> libITK-IO-HDF5-4.0.a
>>>>>> libITK-IO-IPL-4.0.a
>>>>>> libITK-IO-JPEG-4.0.a
>>>>>> libITK-IO-LSM-4.0.a
>>>>>> libITK-IO-Meta-4.0.a
>>>>>> libITK-IO-NIFTI-4.0.a
>>>>>> libITK-IO-NRRD-4.0.a
>>>>>> libITK-IO-PNG-4.0.a
>>>>>> libITK-IO-Siemens-4.0.a
>>>>>> libITK-IO-SpatialObjects-4.0.a
>>>>>> libITK-IO-Stimulate-4.0.a
>>>>>> libITK-IO-TIFF-4.0.a
>>>>>> libITK-IO-VTK-4.0.a
>>>>>> libITK-IO-XML-4.0.a
>>>>>> libITK-KLMRegionGrowing-4.0.a
>>>>>> libITK-Mesh-4.0.a
>>>>>> libITK-Optimizers-4.0.a
>>>>>> libITK-Path-4.0.a
>>>>>> libITK-Polynomials-4.0.a
>>>>>> libITK-QuadEdgeMesh-4.0.a
>>>>>> libITK-Review-4.0.a
>>>>>> libITK-SpatialObjects-4.0.a
>>>>>> libITK-Statistics-4.0.a
>>>>>> libITK-Transform-4.0.a
>>>>>> libITK-VNLInstantiation-4.0.a
>>>>>> libITK-VTK-4.0.a
>>>>>> libITK-Watersheds-4.0.a
>>>>>> libITKDICOMParser-4.0.a
>>>>>> libITKEXPAT-4.0.a
>>>>>> libITKMetaIO-4.0.a
>>>>>> libITKNrrdIO-4.0.a
>>>>>> libITKniftiio-4.0.a
>>>>>> libITKznz-4.0.a
>>>>>> libitkNetlibSlatec-4.0.a
>>>>>> libitkgdcmCommon-4.0.a
>>>>>> libitkgdcmDICT-4.0.a
>>>>>> libitkgdcmDSED-4.0.a
>>>>>> libitkgdcmIOD-4.0.a
>>>>>> libitkgdcmMSFF-4.0.a
>>>>>> libitkgdcmjpeg12-4.0.a
>>>>>> libitkgdcmjpeg16-4.0.a
>>>>>> libitkgdcmjpeg8-4.0.a
>>>>>> libitkgdcmuuid-4.0.a
>>>>>> libitkhdf5-4.0.a
>>>>>> libitkhdf5_cpp-4.0.a
>>>>>> libitkjpeg-4.0.a
>>>>>> libitkopenjpeg-4.0.a
>>>>>> libitkpng-4.0.a
>>>>>> libitksys-4.0.a
>>>>>> libitktestlib-4.0.a
>>>>>> libitktiff-4.0.a
>>>>>> libitkv3p_lsqr-4.0.a
>>>>>> libitkv3p_netlib-4.0.a
>>>>>> libitkvcl-4.0.a
>>>>>> libitkvnl-4.0.a
>>>>>> libitkvnl_algo-4.0.a
>>>>>> libitkzlib-4.0.a
>>>>>>
>>>>>>
>>>>>> This should be a piece of cake to get to run. What am I missing?
>>>>>>
>>>>>> By the way, in a different build of the same ITK source file with
>>>>>> BUILD_TESTING on, ITK tests that read images work fine, so I am
>>>>>> stymied.
>>>>>>
>>>>>> Cory
>>>>>>
>>>>>> --
>>>>>> Cory Quammen
>>>>>> Computer Integrated Systems for Microscopy and Manipulation (CISMM)
>>>>>> Department of Computer Science
>>>>>> University of North Carolina at Chapel Hill
>>>>>> http://www.cs.unc.edu/~cquammen
>>>>>> _____________________________________
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>>>>>>
>>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> Cory Quammen
>>>> Computer Integrated Systems for Microscopy and Manipulation (CISMM)
>>>> Department of Computer Science
>>>> University of North Carolina at Chapel Hill
>>>> http://www.cs.unc.edu/~cquammen
>>>>
>>>
>>
>>
>>
>> --
>> Cory Quammen
>> Computer Integrated Systems for Microscopy and Manipulation (CISMM)
>> Department of Computer Science
>> University of North Carolina at Chapel Hill
>> http://www.cs.unc.edu/~cquammen
>>
>

-- 
Cory Quammen
Computer Integrated Systems for Microscopy and Manipulation (CISMM)
Department of Computer Science
University of North Carolina at Chapel Hill
http://www.cs.unc.edu/~cquammen