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BUG: KellyKapowski could not infer dimensionality from input #1698

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merged 2 commits into from
Mar 19, 2024
Merged

BUG: KellyKapowski could not infer dimensionality from input #1698

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b60be48
BUG: KellyKapowski could not infer dimensionality from input
cookpa Mar 13, 2024
44f6263
ENH: Check for ImageIO creation, exit cleanly with error if imageio c…
cookpa Mar 18, 2024
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19 changes: 13 additions & 6 deletions Examples/KellyKapowski.cxx
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Original file line number Diff line number Diff line change
Expand Up @@ -154,7 +154,7 @@ DiReCT(itk::ants::CommandLineParser * parser)
if (verbose)
{
std::cout << " Grey matter probability image not specified. "
<< "Creating one from the segmentation image using label value "
<< "Creating one from the segmentation image using label value "
<< direct->GetGrayMatterLabel() << std::endl;
}

Expand Down Expand Up @@ -192,7 +192,7 @@ DiReCT(itk::ants::CommandLineParser * parser)
if (verbose)
{
std::cout << " White matter probability image not specified. "
<< "Creating one from the segmentation image using label value "
<< "Creating one from the segmentation image using label value "
<< direct->GetWhiteMatterLabel() << std::endl;
}

Expand Down Expand Up @@ -376,7 +376,7 @@ DiReCT(itk::ants::CommandLineParser * parser)
if (outputOption->GetFunction(0)->GetNumberOfParameters() > 1)
{
direct->SetIncludeCumulativeVelocityFields(true);
}
}
}


Expand Down Expand Up @@ -418,9 +418,9 @@ DiReCT(itk::ants::CommandLineParser * parser)
if (outputOption->GetFunction(0)->GetNumberOfParameters() > 1)
{
direct->GetForwardCumulativeVelocityField()->Print(std::cout, 3);
ANTs::WriteImage<typename DiReCTFilterType::CumulativeVelocityFieldType>(direct->GetForwardCumulativeVelocityField(),
ANTs::WriteImage<typename DiReCTFilterType::CumulativeVelocityFieldType>(direct->GetForwardCumulativeVelocityField(),
(outputOption->GetFunction(0)->GetParameter(1) + "ForwardVelocityField.nii.gz").c_str());
ANTs::WriteImage<typename DiReCTFilterType::CumulativeVelocityFieldType>(direct->GetInverseCumulativeVelocityField(),
ANTs::WriteImage<typename DiReCTFilterType::CumulativeVelocityFieldType>(direct->GetInverseCumulativeVelocityField(),
(outputOption->GetFunction(0)->GetParameter(1) + "InverseVelocityField.nii.gz").c_str());
}
}
Expand Down Expand Up @@ -782,7 +782,7 @@ KellyKapowski(std::vector<std::string> args, std::ostream * /*out_stream = nullp
// Read in the first intensity image to get the image dimension.
std::string filename;

itk::ants::CommandLineParser::OptionType::Pointer imageOption = parser->GetOption("input-image");
itk::ants::CommandLineParser::OptionType::Pointer imageOption = parser->GetOption("segmentation-image");
if (imageOption && imageOption->GetNumberOfFunctions() > 0)
{
if (imageOption->GetFunction(0)->GetNumberOfParameters() > 0)
Expand All @@ -800,8 +800,15 @@ KellyKapowski(std::vector<std::string> args, std::ostream * /*out_stream = nullp
<< " segmentation image with the -s option" << std::endl;
return EXIT_FAILURE;
}

itk::ImageIOBase::Pointer imageIO =
itk::ImageIOFactory::CreateImageIO(filename.c_str(), itk::IOFileModeEnum::ReadMode);
if (!imageIO)
{
std::cout << "Could not create ImageIO object for file " << filename.c_str() << std::endl;
return EXIT_FAILURE;
}

dimension = imageIO->GetNumberOfDimensions();
}

Expand Down