[Insight-developers] Adding and External Module: Lesion Sizing Toolkit

[Wes Turner]

Thanks Bill!

- Wes

On Mon, Jun 20, 2011 at 11:37 AM, Bill Lorensen <bill.lorensen at gmail.com>wrote:

> I decided to try the instructions to add an external module:
>
> http://itk.org/Wiki/ITK_Release_4/Modularization/Add_an_external_module_%28external_module%29
> and followed further instructions to add the Lesion Sizing Toolkit as
> an external module:
>
> http://public.kitware.com/LesionSizingKit/index.php/Users/Build_LST_as_ITK_module
>
> The process worked great! As instructed I:
> cd ITK/Modules/External
> git clone git://public.kitware.com/LesionSizingToolkit.git
>
> Then I ran cmake and make. The toolkit was discovered and built.
>
> So far, I have found a couple of problems, not with the process, but
> with LST itself.
>
> 1) I think there is an incorrect test dependency.
> SET_TESTS_PROPERTIES(
> itkGeodesicActiveContourLevelSetSegmentationModuleTest1
>  PROPERTIES DEPENDS itkConfidenceConnectedSegmentationModuleTest1)
> should be:
> SET_TESTS_PROPERTIES(
> itkGeodesicActiveContourLevelSetSegmentationModuleTest1
>  PROPERTIES DEPENDS itkConfidenceConnectedSegmentationModuleTest1
> itkGradientMagnitudeSigmoidFeatureGeneratorTest1)
>
> also
> SET_TESTS_PROPERTIES( itkShapeDetectionLevelSetSegmentationModuleTest1
>  PROPERTIES DEPENDS itkConfidenceConnectedSegmentationModuleTest1
> itkGradientMagnitudeSigmoidFeatureGeneratorTest1)
>
> 2) These files do not exist and some tests fail
> LesionSizingToolkit/Data/Baseline/CannyEdgeDetectionImageFilterTest4_1.mha
> LesionSizingToolkit/Data/Baseline/CannyEdgeDetectionImageFilterTest5_1.mha
> LesionSizingToolkit/Data/Baseline/CannyEdgeDetectionImageFilterTest6_1.mha
>
> 3) I found an iterator bug while running this test:
> itkRegionCompetitionImageFilterTest1
> 8:
> /usr/lib/gcc/i686-redhat-linux/4.4.5/../../../../include/c++/4.4.5/debug/safe_iterator.h:175:
> 8:     error: attempt to dereference a past-the-end iterator.
> 8:
> 8: Objects involved in the operation:
> 8: iterator "this" @ 0x0xbfece8a0 {
> 8: type =
> N11__gnu_debug14_Safe_iteratorIN9__gnu_cxx17__normal_iteratorIPKmNSt6__norm6vectorImSaImEEEEENSt7__debug6vectorImS7_EEEE
> (constant iterator);
> 8:   state = past-the-end;
> 8:   references sequence with type `NSt7__debug6vectorImSaImEEE' @
> 0x0xbfece8a0
>
> I'll have to track it down later. My ITK build uses these flags to
> detect stl errors.
> CMAKE_CXX_FLAGS:STRING=-Wall -Wshadow -Wcast-qual -Wno-deprecated
> -D_GLIBCXX_DEBUG -D_GLIBCXX_DEBUG_PEDANTIC -fstack-protector
>
> Finally,
> 4) The test itkFastMarchingSegmentationModuleTest1-PartSolidLesion1
> ran over night and never completed.
>
> Hope this helps,
>
> Bill
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-- 
Wesley D. Turner, Ph.D.
Kitware, Inc.
Technical Leader
28 Corporate Drive
Clifton Park, NY 12065-8662
Phone: 518-881-4920
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