[Insight-users] Has anyone successfully compiled ITK3 from CVS with CableSWIG-ITK3, with wrapITK, with python, on OSX?

Dan White dan at chalkie.org.uk
Tue Dec 5 15:32:41 EST 2006


Dear all,

I'm trying to compile ITK3 from CVS with wrapITK on using python  
wrapping, with CableSwig-ITK-3.0.0

I'm using intel compilers on OSX intel (macbook pro) with flags -xP - 
fno-common -export

I used cmake 2.4.3 (configure fails with 2.4.5, Cannot find  
gcc_platform.cmake)

this is as far as i get:

[ 32%] Building CXX object Utilities/vxl/core/vnl/CMakeFiles/ 
itkvnl.dir/Templates/vnl_fortran_copy+double-.o
/Users/dan/Desktop/Insight/Utilities/vxl/core/vnl/Templates/ 
vnl_c_vector+double-.cxx(3): internal error: assertion failed at:  
"shared/edgcpfe/symbol_tbl.c", line 11663


compilation aborted for /Users/dan/Desktop/Insight/Utilities/vxl/core/ 
vnl/Templates/vnl_fortran_copy+double-.cxx (code 4)
make[2]: *** [Utilities/vxl/core/vnl/CMakeFiles/itkvnl.dir/Templates/ 
vnl_fortran_copy+double-.o] Error 4
make[1]: *** [Utilities/vxl/core/vnl/CMakeFiles/itkvnl.dir/all] Error 2
make: *** [all] Error 2
daniel-whites-computer:~/Desktop/Insight dan$

anyone having any success on OSX, with gcc or intel compilers?

here is my CMakeCache.txt , well the external part ....

cheers

Dan (BioImageXD team)

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# For build in directory: /Users/dan/Desktop/Insight
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# If you do want to change a value, simply edit, save, and exit the  
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NIFTILIB_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/nifti/ 
niftilib

//Value Computed by CMake
NIFTILIB_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/nifti/ 
niftilib

//Value Computed by CMake
NIFTI_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/nifti

//Value Computed by CMake
NIFTI_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/nifti

//Value Computed by CMake
NumericsExamples_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/ 
Examples/Numerics

//Value Computed by CMake
NumericsExamples_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/ 
Examples/Numerics

//Python Framework
PYTHON_DEBUG_LIBRARY:FILEPATH=-framework Python

//Path to a program.
PYTHON_EXECUTABLE:FILEPATH=/Library/Frameworks/Python.framework/ 
Versions/2.5/bin/python2.5

//Path to a file.
PYTHON_INCLUDE_PATH:PATH=/Library/Frameworks/Python.framework/ 
Versions/2.5/include/python2.5

//Python Framework
PYTHON_LIBRARY:FILEPATH=-framework Python

//Python site-packages directory to install a .pth file pointing
// at WrapITK Python modules.
PY_SITE_PACKAGES_PATH:PATH=/Library/Frameworks/Python.framework/ 
Versions/2.5/lib/python2.5/site-packages

//Value Computed by CMake
PathExamples_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Examples/ 
DataRepresentation/Path

//Value Computed by CMake
PathExamples_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Examples/ 
DataRepresentation/Path

//Dependencies for the target
PixelMathJava_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimeJava;

//Dependencies for the target
PixelMathTcl_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimeTcl;/Library/ 
Frameworks/tcl.framework;

//Dependencies for the target
RegistrationJava_LIB_DEPENDS:STATIC=ITKCommon;ITKNumerics;SwigRuntimeJav 
a;

//Dependencies for the target
RegistrationTcl_LIB_DEPENDS:STATIC=ITKCommon;ITKNumerics;SwigRuntimeTcl; 
/Library/Frameworks/tcl.framework;

//Dependencies for the target
ResizeJava_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimeJava;

//Dependencies for the target
ResizeTcl_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimeTcl;/Library/ 
Frameworks/tcl.framework;

//Path to scp command, used by CTest for submitting results to
// a Dart server
SCPCOMMAND:FILEPATH=/usr/bin/scp

//Name of the computer/site where compile is being run
SITE:STRING=daniel-whites-computer.local

//Path to a program.
SVNCOMMAND:FILEPATH=/usr/local/bin/svn

//Value Computed by CMake
SWIG_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/CableSwig/ 
SWIG

//Build some examples
SWIG_BUILD_EXAMPLES:BOOL=OFF

//Value Computed by CMake
SWIG_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/CableSwig/ 
SWIG

//Dependencies for the target
SegmentationAndThresholdJava_LIB_DEPENDS:STATIC=ITKCommon;ITKStatistics; 
ITKAlgorithms;SwigRuntimeJava;

//Dependencies for the target
SegmentationAndThresholdTcl_LIB_DEPENDS:STATIC=ITKCommon;ITKStatistics;I 
TKAlgorithms;SwigRuntimeTcl;/Library/Frameworks/tcl.framework;

//Dependencies for the target
SegmentationValidationJava_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimeJava;

//Dependencies for the target
SegmentationValidationTcl_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimeTcl;/L 
ibrary/Frameworks/tcl.framework;

//Dependencies for the target
SimpleFiltersJava_LIB_DEPENDS:STATIC=ITKCommon;ITKBasicFilters;SwigRunti 
meJava;

//Dependencies for the target
SimpleFiltersTcl_LIB_DEPENDS:STATIC=ITKCommon;ITKBasicFilters;SwigRuntim 
eTcl;/Library/Frameworks/tcl.framework;

//Value Computed by CMake
SpatialObjectsExamples_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/ 
Examples/SpatialObjects

//Value Computed by CMake
SpatialObjectsExamples_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/ 
Examples/SpatialObjects

//Value Computed by CMake
StatisticsExamples_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/ 
Examples/Statistics

//Value Computed by CMake
StatisticsExamples_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/ 
Examples/Statistics

//Dependencies for target
SwigRuntimeJava_LIB_DEPENDS:STATIC=

//Dependencies for the target
SwigRuntimePython_LIB_DEPENDS:STATIC=-framework Python;

//Dependencies for the target
SwigRuntimeTcl_LIB_DEPENDS:STATIC=/Library/Frameworks/tcl.framework;

//Path to a file.
TCL_INCLUDE_PATH:PATH=/Library/Frameworks/Tcl.framework/Headers

//Path to a library.
TCL_LIBRARY:FILEPATH=/Library/Frameworks/tcl.framework

//Path to a program.
TCL_TCLSH:FILEPATH=/usr/bin/tclsh

//Path to a file.
TK_INCLUDE_PATH:PATH=/Library/Frameworks/Tk.framework/Headers

//Path to a library.
TK_LIBRARY:FILEPATH=/Library/Frameworks/tk.framework

//Use double precision FFTW if found
USE_FFTWD:BOOL=OFF

//Use single precision FFTW if found
USE_FFTWF:BOOL=OFF

//Use the SGI SCSL High Performance Computing math library
USE_SCSL:BOOL=OFF

//Build external languages support
USE_WRAP_ITK:BOOL=ON

//Dependencies for the target
UnaryPixelMathJava_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimeJava;

//Dependencies for the target
UnaryPixelMathTcl_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimeTcl;/ 
Library/Frameworks/tcl.framework;

//Whether vnl_vector/vnl_matrix accessor methods check index bounds.
//
VNL_CONFIG_CHECK_BOUNDS:BOOL=ON

//Whether backward-compatibility methods are provided by vnl.
VNL_CONFIG_LEGACY_METHODS:BOOL=OFF

//Whether thread-safe vnl implementations are used.
VNL_CONFIG_THREAD_SAFE:BOOL=ON

//Path to a file.
VW_RAW_DATA_PATH:PATH=VW_RAW_DATA_PATH-NOTFOUND

//Dependencies for the target
VXLNumericsJava_LIB_DEPENDS:STATIC=itkvnl;itkvnl_inst;SwigRuntimeJava;

//Dependencies for the target
VXLNumericsTcl_LIB_DEPENDS:STATIC=itkvnl;itkvnl_inst;SwigRuntimeTcl;/ 
Library/Frameworks/tcl.framework;

//Re-run the configuration tests?
VXL_UPDATE_CONFIGURATION:BOOL=OFF

//Build BinaryMorphology module.
WRAP_BinaryMorphology:BOOL=ON

//Build Calculators module.
WRAP_Calculators:BOOL=ON

//Build Compose module.
WRAP_Compose:BOOL=ON

//Build DeformableTransforms module.
WRAP_DeformableTransforms:BOOL=ON

//Build Denoising module.
WRAP_Denoising:BOOL=ON

//Build DistanceMap module.
WRAP_DistanceMap:BOOL=ON

//Build EdgesAndContours module.
WRAP_EdgesAndContours:BOOL=ON

//Build FFT module.
WRAP_FFT:BOOL=ON

//Build FFTW module.
WRAP_FFTW:BOOL=OFF

//Build Filtering module.
WRAP_Filtering:BOOL=ON

//Build IO module.
WRAP_IO:BOOL=ON

//dimensions available separated by semicolons (;)
WRAP_ITK_DIMS:STRING=2;3

//subpath where where most of WrapITK files will be installed
WRAP_ITK_INSTALL_PREFIX:PATH=/lib/InsightToolkit/WrapITK

//Build cswig Java wrapper support.
WRAP_ITK_JAVA:BOOL=OFF

//Build cswig Python wrapper support.
WRAP_ITK_PYTHON:BOOL=ON

//Build cswig Tcl wrapper support.
WRAP_ITK_TCL:BOOL=OFF

//Build IntensityFilters module.
WRAP_IntensityFilters:BOOL=ON

//Build Interpolators module.
WRAP_Interpolators:BOOL=ON

//Build Iterators module.
WRAP_Iterators:BOOL=OFF

//Build LevelSet module.
WRAP_LevelSet:BOOL=ON

//Build Morphology module.
WRAP_Morphology:BOOL=ON

//Build PixelMath module.
WRAP_PixelMath:BOOL=ON

//Build Registration module.
WRAP_Registration:BOOL=ON

//Build Resize module.
WRAP_Resize:BOOL=ON

//Build SegmentationAndThreshold module.
WRAP_SegmentationAndThreshold:BOOL=ON

//Build SegmentationValidation module.
WRAP_SegmentationValidation:BOOL=ON

//Build SimpleFilters module.
WRAP_SimpleFilters:BOOL=ON

//Build UnaryPixelMath module.
WRAP_UnaryPixelMath:BOOL=ON

//Wrap complex<double> type
WRAP_complex_double:BOOL=OFF

//Wrap complex<float> type
WRAP_complex_float:BOOL=ON

//Wrap covariant vector double type
WRAP_covariant_vector_double:BOOL=OFF

//Wrap covariant vector float type
WRAP_covariant_vector_float:BOOL=ON

//Wrap double type
WRAP_double:BOOL=OFF

//Wrap float type
WRAP_float:BOOL=ON

//Wrap RGB< unsigned char > type
WRAP_rgb_unsigned_char:BOOL=OFF

//Wrap RGB< unsigned short > type
WRAP_rgb_unsigned_short:BOOL=ON

//Wrap signed char type
WRAP_signed_char:BOOL=OFF

//Wrap signed long type
WRAP_signed_long:BOOL=OFF

//Wrap signed short type
WRAP_signed_short:BOOL=OFF

//Wrap unsigned char type
WRAP_unsigned_char:BOOL=ON

//Wrap unsigned long type
WRAP_unsigned_long:BOOL=ON

//Wrap unsigned short type
WRAP_unsigned_short:BOOL=ON

//Wrap vector double type
WRAP_vector_double:BOOL=OFF

//Wrap vector float type
WRAP_vector_float:BOOL=ON

//Value Computed by CMake
WrapITK_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Wrapping/WrapITK

//Value Computed by CMake
WrapITK_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Wrapping/WrapITK

//Path to a file.
X11_X11_INCLUDE_PATH:PATH=

//Path to a library.
X11_X11_LIB:FILEPATH=

//Path to a library.
X11_Xext_LIB:FILEPATH=

//Path to a file.
X11_Xlib_INCLUDE_PATH:PATH=

//Path to a file.
X11_Xutil_INCLUDE_PATH:PATH=

//Value Computed by CMake
ZNZLIB_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/nifti/ 
znzlib

//Value Computed by CMake
ZNZLIB_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/nifti/ 
znzlib

//Dependencies for the target
_BaseNumericsPython_LIB_DEPENDS:STATIC=ITKCommon;ITKNumerics;ITKStatisti 
cs;SwigRuntimePython;-framework Python;

//Dependencies for the target
_BasePython_LIB_DEPENDS:STATIC=ITKCommon;ITKNumerics;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_BaseSpatialObjectPython_LIB_DEPENDS:STATIC=ITKCommon;ITKSpatialObject;S 
wigRuntimePython;-framework Python;

//Dependencies for the target
_BaseTransformsPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_BinaryMorphologyPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_CalculatorsPython_LIB_DEPENDS:STATIC=ITKCommon;ITKStatistics;SwigRuntim 
ePython;-framework Python;

//Dependencies for the target
_ComposePython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_DeformableTransformsPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePyth 
on;-framework Python;

//Dependencies for the target
_DenoisingPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_DistanceMapPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_EdgesAndContoursPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_FFTPython_LIB_DEPENDS:STATIC=ITKCommon;ITKAlgorithms;SwigRuntimePython; 
-framework Python;

//Dependencies for the target
_FilteringPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_IOPython_LIB_DEPENDS:STATIC=ITKCommon;ITKIO;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_ITKAlgorithmsPython_LIB_DEPENDS:STATIC=ITKAlgorithms;SwigRuntimePython; 
-framework Python;

//Dependencies for the target
_ITKBasicFiltersAPython_LIB_DEPENDS:STATIC=ITKBasicFilters;SwigRuntimePy 
thon;-framework Python;

//Dependencies for the target
_ITKBasicFiltersBPython_LIB_DEPENDS:STATIC=ITKBasicFilters;SwigRuntimePy 
thon;-framework Python;

//Dependencies for the target
_ITKCommonAPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_ITKCommonBPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_ITKIOPython_LIB_DEPENDS:STATIC=ITKIO;SwigRuntimePython;-framework  
Python;

//Dependencies for the target
_ITKNumericsPython_LIB_DEPENDS:STATIC=ITKNumerics;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_ITKPyUtilsPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_IntensityFiltersPython_LIB_DEPENDS:STATIC=ITKCommon;ITKStatistics;SwigR 
untimePython;-framework Python;

//Dependencies for the target
_InterpolatorsPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_LevelSetPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_MorphologyPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_PixelMathPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_RegistrationPython_LIB_DEPENDS:STATIC=ITKCommon;ITKNumerics;SwigRuntime 
Python;-framework Python;

//Dependencies for the target
_ResizePython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_SegmentationAndThresholdPython_LIB_DEPENDS:STATIC=ITKCommon;ITKStatisti 
cs;ITKAlgorithms;SwigRuntimePython;-framework Python;

//Dependencies for the target
_SegmentationValidationPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePy 
thon;-framework Python;

//Dependencies for the target
_SimpleFiltersPython_LIB_DEPENDS:STATIC=ITKCommon;ITKBasicFilters;SwigRu 
ntimePython;-framework Python;

//Dependencies for the target
_UnaryPixelMathPython_LIB_DEPENDS:STATIC=ITKCommon;SwigRuntimePython;- 
framework Python;

//Dependencies for the target
_VXLNumericsPython_LIB_DEPENDS:STATIC=itkvnl;itkvnl_inst;SwigRuntimePyth 
on;-framework Python;

//Dependencies for target
backend_LIB_DEPENDS:STATIC=

//Dependencies for target
cpp_LIB_DEPENDS:STATIC=

//Value Computed by CMake
gxsys_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/ 
CableSwig/GCC_XML/KWSys

//Dependencies for target
gxsys_LIB_DEPENDS:STATIC=

//Value Computed by CMake
gxsys_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/ 
CableSwig/GCC_XML/KWSys

//Dependencies for target
iberty_LIB_DEPENDS:STATIC=

//Value Computed by CMake
itkdicomparser_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/ 
DICOMParser

//Value Computed by CMake
itkdicomparser_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/ 
DICOMParser

//Dependencies for the target
itkgdcm_LIB_DEPENDS:STATIC=itkjpeg8;itkjpeg12;itkjpeg16;itkopenjpeg;

//Dependencies for target
itkjpeg12_LIB_DEPENDS:STATIC=

//Dependencies for target
itkjpeg16_LIB_DEPENDS:STATIC=

//Dependencies for target
itkjpeg8_LIB_DEPENDS:STATIC=

//Dependencies for target
itkopenjpeg_LIB_DEPENDS:STATIC=

//Dependencies for the target
itkpng_LIB_DEPENDS:STATIC=itkzlib;

//Value Computed by CMake
itksys_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/kwsys

//Dependencies for target
itksys_LIB_DEPENDS:STATIC=

//Value Computed by CMake
itksys_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/kwsys

//Dependencies for the target
itktestlib_LIB_DEPENDS:STATIC=itkvcl;

//Dependencies for the target
itktiff_LIB_DEPENDS:STATIC=itkzlib;itkjpeg8;-lm;

//Dependencies for the target
itkv3p_netlib_LIB_DEPENDS:STATIC=m;

//Dependencies for the target
itkvcl_LIB_DEPENDS:STATIC=m;

//Dependencies for the target
itkvnl_LIB_DEPENDS:STATIC=itkvcl;

//Dependencies for the target
itkvnl_algo_LIB_DEPENDS:STATIC=itkv3p_netlib;itkvnl;

//Dependencies for the target
itkvnl_inst_LIB_DEPENDS:STATIC=itkvnl;itkvnl_algo;itkvcl;

//Dependencies for target
itkzlib_LIB_DEPENDS:STATIC=

//Value Computed by CMake
netlib_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl/v3p/ 
netlib

//Value Computed by CMake
netlib_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl/v3p/ 
netlib

//Dependencies for target
swigLib_LIB_DEPENDS:STATIC=

//Value Computed by CMake
vcl_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl/vcl

//Value Computed by CMake
vcl_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl/vcl

//Value Computed by CMake
vthreep_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl/v3p

//Value Computed by CMake
vthreep_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl/v3p

//Value Computed by CMake
vxl_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl

//Value Computed by CMake
vxl_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl

//Value Computed by CMake
vxl_config_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl/ 
config/cmake/config

//Value Computed by CMake
vxl_config_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl/ 
config/cmake/config

//Value Computed by CMake
vxlcore_BINARY_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl/core

//Value Computed by CMake
vxlcore_SOURCE_DIR:STATIC=/Users/dan/Desktop/Insight/Utilities/vxl/core




Dr. Daniel James White BSc. (Hons.) PhD
Bioimaging Coordinator
Nanoscience Centre and Department of Biological and Environmental  
Sciences
Division of Molecular Recognition
Ambiotica C242
PO Box 35
University of Jyväskylä
Jyväskylä
FIN 40014
Finland

+358 14 260 4183 (work)
+358 468102840 (mobile)
http://www.bioimagexd.org
http://www.chalkie.org.uk
dan at chalkie.org.uk
white at cc.jyu.fi





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