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Rearchitect and Reinstate GPU #114

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Rearchitect and Reinstate GPU #114

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Commits on Mar 1, 2023

  1. Bump NiftyReg version

    @onurulgen
    onurulgen committed Mar 1, 2023
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Commits on Mar 2, 2023

  1. Generate coverage and upload it to Coveralls

    @onurulgen
    onurulgen committed Mar 2, 2023
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  2. Add badge for the coverage

    @onurulgen
    onurulgen committed Mar 2, 2023
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Commits on Mar 6, 2023

  1. Add RNifti library

    @onurulgen
    onurulgen committed Mar 6, 2023
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Commits on Mar 7, 2023

  1. Add NiftiImageData::Iterator::reset() to reset the iterator

    @onurulgen
    onurulgen committed Mar 7, 2023
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  2. Add move constructor and assignment operator for NiftiImage

    @onurulgen
    onurulgen committed Mar 7, 2023
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  3. Refactorise NiftiImage

    @onurulgen
    onurulgen committed Mar 7, 2023
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Commits on Mar 13, 2023

  1. Add utility functions to NiftiImage

    @onurulgen
    onurulgen committed Mar 13, 2023
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  2. Fix dimensions after initialisation of NiftiImage

    @onurulgen
    onurulgen committed Mar 13, 2023
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  3. Fix a bug causing accessing freed memory in reg_io_WriteImageFile()

    @onurulgen
    onurulgen committed Mar 13, 2023
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  4. Refactorisations

    @onurulgen
    onurulgen committed Mar 13, 2023
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  5. Refactor reg_createControlPointGrid() using automatic memory management

    @onurulgen
    onurulgen committed Mar 13, 2023
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  6. Refactor reg_createSymmetricControlPointGrids() using automatic memor… 

    …y management
    @onurulgen
    onurulgen committed Mar 13, 2023
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  7. Refactor reg_createImagePyramid() using automatic memory management

    @onurulgen
    onurulgen committed Mar 13, 2023
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  8. Refactor reg_createMaskPyramid() using automatic memory management

    @onurulgen
    onurulgen committed Mar 13, 2023
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  9. Refactor reg_aladin class using automatic memory management

    @onurulgen
    onurulgen committed Mar 13, 2023
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  10. Refactor reg_aladin_sym class using automatic memory management

    @onurulgen
    onurulgen committed Mar 13, 2023
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  11. Refactor reg_aladin app using automatic memory management

    @onurulgen
    onurulgen committed Mar 13, 2023
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  12. Refactor reg_base class using automatic memory management

    @onurulgen
    onurulgen committed Mar 13, 2023
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  13. Refactor reg_f3d class using automatic memory management

    @onurulgen
    onurulgen committed Mar 13, 2023
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  14. Refactor reg_f3d2 class using automatic memory management

    @onurulgen
    onurulgen committed Mar 13, 2023
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  15. Refactor reg_f3d app using automatic memory management

    @onurulgen
    onurulgen committed Mar 13, 2023
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  16. Refactor reg_test_imageGradient using NiftiImage

    @onurulgen
    onurulgen committed Mar 13, 2023
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  17. Small fixes

    @onurulgen
    onurulgen committed Mar 13, 2023
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Commits on Mar 14, 2023

  1. Add NiftiImage::disown() to release the wrapped pointer

    @onurulgen
    onurulgen committed Mar 14, 2023
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  2. Use NiftiImage::disown() in reg_test_imageGradient

    @onurulgen
    onurulgen committed Mar 14, 2023
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  3. Refactor reg_test_interpolation using NiftiImage

    @onurulgen
    onurulgen committed Mar 14, 2023
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  4. Add NiftiImage::realloc() to reallocate the image data

    @onurulgen
    onurulgen committed Mar 14, 2023
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  5. Add NiftiImage::setDim() to set a dimension of the image

    @onurulgen
    onurulgen committed Mar 14, 2023
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  6. Add ability to NiftiImage for copying only image info

    @onurulgen
    onurulgen committed Mar 14, 2023
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  7. Update tests to leverage new abilities of NiftiImage

    @onurulgen
    onurulgen committed Mar 14, 2023
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Commits on Mar 15, 2023

  1. Add an enum for NiftiImage dimensions

    @onurulgen
    onurulgen committed Mar 15, 2023
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  2. Small fixes

    @onurulgen
    onurulgen committed Mar 15, 2023
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  3. Add ability to NiftiImageData for extracting volume data

    @onurulgen
    onurulgen committed Mar 15, 2023
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  4. Handle optimise* variables in Compute::NormaliseGradient()

    @onurulgen
    onurulgen committed Mar 15, 2023
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Commits on Mar 17, 2023

  1. Refactorisations

    @onurulgen
    onurulgen committed Mar 17, 2023
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  2. Add NiftiImage::copyData() to copy the pixel data from another image

    @onurulgen
    onurulgen committed Mar 17, 2023
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  3. Extend NiftiImage constructor to optionally allocate image data

    @onurulgen
    onurulgen committed Mar 17, 2023
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  4. Add NiftiImage::totalBytes() to return the total size of the image da… 

    …ta in bytes
    @onurulgen
    onurulgen committed Mar 17, 2023
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  5. Add move constructor and assignment operator to NiftiImageData

    @onurulgen
    onurulgen committed Mar 17, 2023
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  6. Remove nodeNumber parameter from GetMaximalLength() and NormaliseGrad… 

    …ient() of *Compute classes
    @onurulgen
    onurulgen committed Mar 17, 2023
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  7. Fix possible bugs causing accessing freed memory

    @onurulgen
    onurulgen committed Mar 17, 2023
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Commits on Mar 19, 2023

  1. Add tests for *Compute::GetMaximalLength() and *Compute::NormaliseGra… 

    …dient()
    @onurulgen
    onurulgen committed Mar 19, 2023
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  2. Fix a bug in tests causing wrong voxel count calculation

    @onurulgen
    onurulgen committed Mar 19, 2023
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Commits on Mar 20, 2023

  1. Fix HAVE_ZLIB definition

    @onurulgen
    onurulgen committed Mar 20, 2023
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  2. Refactor CMakeLists

    @onurulgen
    onurulgen committed Mar 20, 2023
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Commits on Mar 24, 2023

  1. Refactorisations

    @onurulgen
    onurulgen committed Mar 24, 2023
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  2. Add NormaliseGradient() for CUDA and refactor GetMaximalLength()

    @onurulgen
    onurulgen committed Mar 24, 2023
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  3. Extend tests for *Compute::GetMaximalLength() and *Compute::Normalise… 

    …Gradient() to handle optimise* parameters
    @onurulgen
    onurulgen committed Mar 24, 2023
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  4. Move platform and measure initialisation into reg_base::SetPlatformTy… 

    …pe()
    @onurulgen
    onurulgen committed Mar 24, 2023
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Commits on Mar 27, 2023

  1. Refactor NR_CUDA_SAFE_CALL() and NR_CUDA_CHECK_KERNEL()

    @onurulgen
    onurulgen committed Mar 27, 2023
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Commits on Mar 28, 2023

  1. Refactorisations

    @onurulgen
    onurulgen committed Mar 28, 2023
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Commits on Mar 29, 2023

  1. Modernise CUDA conjugate gradient functions 

    - Ditch old texture objects and use up-to-date ones
- Make texture objects managed
- Ditch CUDA symbols and pass them as kernel function parameters
- Extend reg_updateControlPointPosition_gpu() to handle optimise* parameters
    @onurulgen
    onurulgen committed Mar 29, 2023
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  2. Remove unnecessary testing functions

    @onurulgen
    onurulgen committed Mar 29, 2023
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Commits on Mar 30, 2023

  1. Add tests for conjugate gradient

    @onurulgen
    onurulgen committed Mar 30, 2023
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Commits on Apr 3, 2023

  1. Refactorisations 

     - Rename CudaContextSingleton as CudaContext, and move it into NiftyReg namespace
 - Rename NiftyReg_CudaBlock100 as BlockSize, and move it into NiftyReg namespace
 - Move BlockSize implementation into the header
 - Change the type of BlockSize members as unsigned
 - Move BlockSize instance into CudaContext
 - Use unsigned instead of size_t in CUDA kernels
 - Initialise the CUDA or OpenCL device in Platform's constructor
 - Rename `unsigned int`s as `unsigned`
    @onurulgen
    onurulgen committed Apr 3, 2023
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  2. Generate test data only once for NormaliseGradientTest

    @onurulgen
    onurulgen committed Apr 3, 2023
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Commits on Apr 5, 2023

  1. Refactorisations

    @onurulgen
    onurulgen committed Apr 5, 2023
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  2. Add *Content::UpdateWarped() to transfer warped image to the CUDA device

    @onurulgen
    onurulgen committed Apr 5, 2023
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  3. Use CPU for GetWarpedImage()

    @onurulgen
    onurulgen committed Apr 5, 2023
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Commits on Apr 6, 2023

  1. Use CPU for reg_f3d2::GetWarpedImage()

    @onurulgen
    onurulgen committed Apr 6, 2023
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Commits on Jun 8, 2023

  1. Handle NiftiImage copy options with an enum

    @onurulgen
    onurulgen committed Jun 8, 2023
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Commits on Jun 9, 2023

  1. Fix GPU version of ResampleImage() to make on a par with CPU version

    @onurulgen
    onurulgen committed Jun 9, 2023
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  2. Fix GPU version of GetImageGradient() to make on a par with CPU version

    @onurulgen
    onurulgen committed Jun 9, 2023
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  3. Refactor cudaCommon_createTextureObject()

    @onurulgen
    onurulgen committed Jun 9, 2023
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Commits on Jun 12, 2023

  1. Move EPS value into reg_test_common.h

    @onurulgen
    onurulgen committed Jun 12, 2023
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  2. Refactor reg_localTransformation_kernels.cu

    @onurulgen
    onurulgen committed Jun 12, 2023
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  3. Refactor reg_localTransformation_gpu.cu

    @onurulgen
    onurulgen committed Jun 12, 2023
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Commits on Jun 16, 2023

  1. Fix GPU version of GetDeformationField() to make on a par with CPU ve… 

    …rsion
    @onurulgen
    onurulgen committed Jun 16, 2023
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  2. Add tests for *Compute::GetDeformationField()

    @onurulgen
    onurulgen committed Jun 16, 2023
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Commits on Jun 21, 2023

  1. Refactorisations

    @onurulgen
    onurulgen committed Jun 21, 2023
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  2. Add tests for *Compute::VoxelCentricToNodeCentric()

    @onurulgen
    onurulgen committed Jun 21, 2023
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  3. Fix GPU version of VoxelCentricToNodeCentric() to make on a par with … 

    …CPU version
    @onurulgen
    onurulgen committed Jun 21, 2023
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Commits on Jun 22, 2023

  1. Fix macOS compilation errors

    @onurulgen
    onurulgen committed Jun 22, 2023
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  2. Fix the precision bug of reg_lncc

    @onurulgen
    onurulgen committed Jun 22, 2023
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Commits on Jun 23, 2023

  1. Optimise reg_voxelCentric2NodeCentric_kernel()

    @onurulgen
    onurulgen committed Jun 23, 2023
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  2. Issue #92: Added LNCC unit tests

    @mmodat
    mmodat committed Jun 23, 2023
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  3. Merge branch 'rearchitect-and-reinstate-gpu' of https://github.com/KC… 

    …L-BMEIS/niftyreg into rearchitect-and-reinstate-gpu
    @mmodat
    mmodat committed Jun 23, 2023
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Commits on Jun 28, 2023

  1. Refactorisations

    @onurulgen
    onurulgen committed Jun 28, 2023
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  2. Fix a bug causing wrong calculation of the affine transformation matrix

    @onurulgen
    onurulgen committed Jun 28, 2023
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Commits on Jul 7, 2023

  1. Issue #92: fix affine initialisation in f3d. matrix went out of scope… 

    … during refactoring.
    @mmodat
    mmodat committed Jul 7, 2023
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Commits on Jul 11, 2023

  1. Copy affine transformation into reg_base instead of linking

    @onurulgen
    onurulgen committed Jul 11, 2023
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  2. Make affine transformation memory managed in reg_aladin*

    @onurulgen
    onurulgen committed Jul 11, 2023
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  3. Fix CUDA 12 incompatibilities

    @onurulgen
    onurulgen committed Jul 11, 2023
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  4. Fix a memory leak

    @onurulgen
    onurulgen committed Jul 11, 2023
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Commits on Jul 14, 2023

  1. #92: block match & LTS CPU/CUDA regression tests

    @mmodat
    mmodat committed Jul 14, 2023
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  2. Refactor the LTS regression test

    @onurulgen
    onurulgen committed Jul 14, 2023
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  3. Refactor the BlockMatching regression test

    @onurulgen
    onurulgen committed Jul 14, 2023
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Commits on Jul 17, 2023

  1. Refactor the LNCC test

    @onurulgen
    onurulgen committed Jul 17, 2023
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  2. Rename OptimiseKernel to LtsKernel

    @onurulgen
    onurulgen committed Jul 17, 2023
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Commits on Jul 18, 2023

  1. Issue#92: Added BM unit test and fix mask handling

    @mmodat
    mmodat committed Jul 18, 2023
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  2. Refactorisations

    @onurulgen
    onurulgen committed Jul 18, 2023
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Commits on Jul 19, 2023

  1. #92 fixed shared mem race condition in block match

    @mmodat
    mmodat committed Jul 19, 2023
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Commits on Jul 20, 2023

  1. Add NiftiImage::getDataType() returning the current data type

    @onurulgen
    onurulgen committed Jul 20, 2023
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  2. Refactor _reg_resampling

    @onurulgen
    onurulgen committed Jul 20, 2023
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  3. Fix memory leaks in Content

    @onurulgen
    onurulgen committed Jul 20, 2023
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  4. Refactor reg_nmi

    @onurulgen
    onurulgen committed Jul 20, 2023
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  5. Add symmetric scheme support for reg_nmi_gpu #92

    @onurulgen
    onurulgen committed Jul 20, 2023
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  6. Add NMI regression tests #92

    @onurulgen
    onurulgen committed Jul 20, 2023
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Commits on Jul 24, 2023

  1. #92: Set the test seed to constant for reproducibility

    @mmodat
    mmodat committed Jul 24, 2023
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  2. Issue #92: added a unit test for nmi

    @mmodat
    mmodat committed Jul 24, 2023
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  3. Issue #92: activate CUDA for NMI test

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  4. #72 #92 Added an error message when ln is set to 0

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  5. Add symmetric scheme support for reg_optimiser_gpu and reg_conjugateG… 

    …radient_gpu #92
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  6. Add symmetric scheme support for reg_test_conjugateGradient #92

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Commits on Jul 25, 2023

  1. #92: added bending energy tests

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  2. Issue #68: checks for exising folder before saving

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  1. Refactorisations

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  2. Rearchitect reg_measure to handle forward and backward similarity mea… 

    …sure values #92
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  3. Disable OpenMP for coverage

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  1. Rearchitect reg_measure to handle forward and backward voxel-based si… 

    …milarity measure gradient computation #92

- Add symmetric scheme support for reg_ssd_gpu
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  1. Remove the symmetric scheme warning from reg_ssd_gpu

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  2. Rearchitect Content classes #92

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Commits on Aug 23, 2023

  1. Add Debug header to handle errors and logging #92 

     - Handle errors and throw exception instead of exiting the app
 - Print errors, warnings and infos with NR_ERROR, NR_WARN and NR_INFO macros respectively
 - Print verbose messages with NR_VERBOSE
 - Print function names with NR_FUNC_CALLED() macro
 - Convert all *printf to NR_COUT or NR_CERR
 - Get rid of NDEBUGs and use NR_DEBUG instead
 - Replace C-style string manipulation with C++-style
 - Ditch reg_stringFormat()
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Commits on Aug 24, 2023

  1. Refactor _reg_common_cuda #92

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  2. Convert NMI regression test to a multi-measure regression test #92

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Commits on Aug 29, 2023

  1. Refactor Cuda::TransferNiftiToDevice and remove Cuda::TransferNiftiTo… 

    …DeviceSimple
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  2. Make SSD GPU on a par with the CPU version #92

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  1. #92 Added nmi gradient test

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  2. #92 Added nmi gradient test + pull

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  3. #92 removed readwritebinary as not needed

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  4. #92 changed the def field test to be a unit test against known output

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  5. #92 Added spine composition to the unit test

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  6. Add NiftiImage::setPixDim()

    @onurulgen
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  7. Fix test errors

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  8. Turn math macros into inline functions #92

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  1. #92 addded test for composition of DF. CPU only for now

    @mmodat
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  2. Fix a bug causing shrunk output images

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Commits on Sep 1, 2023

  1. Refactor Compute::GetApproximatedGradient()

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  1. Add NiftiImage::setIntentName()

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  1. Refactorisations

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  2. Add more float* operations

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  3. Add CUDA image operations

    @onurulgen
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  4. Add reg_getMinValue_gpu() and reg_getMaxValue_gpu()

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  5. Implement CudaCompute::GetDefFieldFromVelocityGrid() #92

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  6. #92: fix issue in reg_resample - fix failing test - fix output display

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  7. Merge branch 'rearchitect-and-reinstate-gpu' of https://github.com/KC… 

    …L-BMEIS/niftyreg into rearchitect-and-reinstate-gpu
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  8. Fix a bug causing early freeing of the image data 

    Passing a nifti_image pointer to a NiftiImage causes unwanted freeing of the nifti_image pointer
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  9. Refactorisations

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Commits on Sep 12, 2023

  1. Fix precision of GetBasisSplineValue() and GetBasisSplineDerivativeVa… 

    …lue()
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Commits on Sep 14, 2023

  1. Fix a bug causing inconsistent results in successive runs of 2D f3d r… 

    …egistration #92
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  2. Refactorisations

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  3. Fix wrong calculation of CUDA ApproxLinearEnergyGradient(), GetLandma… 

    …rkDistance(), and LandmarkDistanceGradient() #92
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Commits on Sep 18, 2023

  1. Refactorisations

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  2. Implement CudaCompute::ApproxLinearEnergyGradient() #92

    @onurulgen
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  3. Fixes for CUDA 12

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  4. Add approximate linear energy gradient regression test #92

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Commits on Sep 21, 2023

  1. Implement CudaCompute::ApproxLinearEnergy() #92 

    Also refactor CudaCompute::ApproxLinearEnergyGradient()
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  2. Add approximate linear energy regression test #92

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Commits on Oct 5, 2023

  1. Fix a bug in reg_spline_approxLinearEnergyGradient_gpu()

    @onurulgen
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  2. Refactorisations

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Commits on Oct 6, 2023

  1. Implement the kernel convolution for CUDA #92

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Commits on Oct 9, 2023

  1. Add regression tests for kernel convolution #92

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  1. Use ConvKernelType instead of NREG_CONV_KERNEL_TYPE

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Commits on Oct 11, 2023

  1. Fix a bug in the kernel convolution regression test

    @onurulgen
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  2. Optimise Cuda::KernelConvolution()

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Commits on Oct 12, 2023

  1. Optimise reg_getMinMaxValue_gpu()

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  2. Update compose deformation field test to include CUDA

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Commits on Oct 13, 2023

  1. Add composition support for CudaCompute::GetDeformationField() #92

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Commits on Oct 18, 2023

  1. Refactorisations

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Commits on Oct 19, 2023

  1. Enable CUDA for NMI gradient unit test

    @onurulgen
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  2. Add content creator for f3d2 #92 

    This fixes incorrect NMI calculation for CUDA by sharing reference and floating CUDA arrays between contents
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Commits on Oct 23, 2023

  1. Refactorisations

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  2. Add regression tests for Compute::GetDeformationField() #92

    @onurulgen
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  3. Remove identifiers starting with a single underscore 

    Identifiers in global scope starting with a single underscore are reserved and isn't allowed to use
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Commits on Oct 30, 2023

  1. Refactorisations

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  2. Fix a bug in CudaCompute::VoxelCentricToNodeCentric() #92

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  3. Make CudaCompute::ResampleImage() on a par with CPU #92

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  4. Make CudaCompute::GetDeformationField() on a par with CPU #92

    @onurulgen
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  5. Temporarily disable GetDeformationFieldTest

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Commits on Oct 31, 2023

  1. Make CudaCompute::NormaliseGradient() on a par with CPU #92

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  2. Optimise CudaCompute::GetMaximalLength() #92

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Commits on Nov 1, 2023

  1. Update tests

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Commits on Nov 6, 2023

  1. Make CudaCompute::ApproxBendingEnergyGradient() on a par with CPU #92

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  2. Add regression tests for approximate bending energy and approximate b… 

    …ending energy gradient #92
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Commits on Nov 14, 2023

  1. Refactorisations

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  2. Implement reg_getNmiValue for CUDA #92

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Commits on Nov 15, 2023

  1. Make reg_getVoxelBasedNmiGradient_gpu() on a par with CPU #92 

    - Optimise reg_getVoxelBasedNmiGradient_gpu()
- Get the function ready for multi-timepoint support
    @onurulgen
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  2. Add multi-timepoint support for MeasureTest #92

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Commits on Nov 16, 2023

  1. Refactorisations

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Commits on Nov 17, 2023

  1. Convert reference and floating images to float arrays from cudaArrays #… 

    …92

 - Eliminate unnecessary Cuda::* functions
 - Refactor Cuda::CreateTextureObject()
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Commits on Nov 20, 2023

  1. Refactorisations

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Commits on Nov 21, 2023

  1. Implement multi-timepoint support for CUDA #92

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Commits on Nov 23, 2023

  1. Implement reg_optimiser_gpu::Perturbation() #92

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Commits on Nov 24, 2023

  1. Refactor Optimiser #92

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  2. Optimise Optimiser #92

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  3. Refactorisations

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Commits on Nov 27, 2023

  1. Use float gam instead of double in CudaOptimiser 

    Even though tests show otherwise, using float gets better results in real world scenarios.
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Commits on Nov 28, 2023

  1. Optimise CudaResampling #92

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  1. Combine GitHub Actions workflows for testing into a single file

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  2. Update GitHub Actions workflow for coverage

    @onurulgen
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  3. Refactor CudaLocalTransformation

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Commits on Nov 30, 2023

  1. Optimise Cuda::ApproxLinearEnergyGradient() #92

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Commits on Dec 1, 2023

  1. Refactorisations

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  2. Optimise Cuda::GetDeformationField() #92

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Commits on Jan 8, 2024

  1. Refactor CudaTools #92

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  1. Optimise Cuda::VoxelCentricToNodeCentric() #92

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Commits on Jan 10, 2024

  1. Optimise Cuda::DefFieldCompose() #92

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Commits on Jan 15, 2024

  1. Implement CudaCompute::SymmetriseVelocityFields() #92

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  2. Add symmetrise velocity fields regression test #92

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Commits on Jan 16, 2024

  1. Implement CudaCompute::UpdateVelocityField() #92

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  2. Add update velocity field regression test #92

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    onurulgen committed Jan 16, 2024
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  3. Print the version info

    @onurulgen
    onurulgen committed Jan 16, 2024
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Commits on Jan 22, 2024

  1. Implement Cuda::ResampleGradient() #92

    @onurulgen
    onurulgen committed Jan 22, 2024
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  2. Add resample gradient regression test #92

    @onurulgen
    onurulgen committed Jan 22, 2024
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Commits on Jan 23, 2024

  1. Refactorisations

    @onurulgen
    onurulgen committed Jan 23, 2024
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  2. Add Cuda::GetIntermediateDefFieldFromVelGrid() #92

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    onurulgen committed Jan 23, 2024
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Commits on Jan 24, 2024

  1. Implement CudaCompute::ExponentiateGradient() #92

    @onurulgen
    onurulgen committed Jan 24, 2024
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  2. Add exponentiate gradient regression test #92

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    onurulgen committed Jan 24, 2024
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Commits on Jan 25, 2024

  1. Refactor Cuda::GetAffineDeformationField() #92

    @onurulgen
    onurulgen committed Jan 25, 2024
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Commits on Jan 26, 2024

  1. Refactor affine deformation field unit test #92

    @onurulgen
    onurulgen committed Jan 26, 2024
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  2. Add composition to affine deformation field unit test #92

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    onurulgen committed Jan 26, 2024
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Commits on Jan 29, 2024

  1. Add testing for compute to affine deformation field unit test #92

    @onurulgen
    onurulgen committed Jan 29, 2024
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Commits on Jan 30, 2024

  1. Use real index numbers returned from maskCuda in deformationFieldCuda… 

    … and warpedGradientCuda #92
    @onurulgen
    onurulgen committed Jan 30, 2024
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Commits on Jan 31, 2024

  1. Use Codecov for coverage

    @onurulgen
    onurulgen committed Jan 31, 2024
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Commits on Feb 6, 2024

  1. Update minimum CMake version and use the new CUDA method

    @onurulgen
    onurulgen committed Feb 6, 2024
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Commits on Feb 7, 2024

  1. Add a GitHub Action to build executables on a release #92

    @onurulgen
    onurulgen committed Feb 7, 2024
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Commits on Feb 8, 2024

  1. Use self-hosted runners to enable CUDA for coverage

    @onurulgen
    onurulgen committed Feb 8, 2024
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Commits on Feb 13, 2024

  1. Add a GitHub Action for static code analysis

    @onurulgen
    onurulgen committed Feb 13, 2024
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Commits on Feb 14, 2024

  1. Fix GPU ID parsing error in reg_f3d

    @onurulgen
    onurulgen committed Feb 14, 2024
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Commits on Feb 15, 2024

  1. Upgrade libpng to 1.6.42

    @onurulgen
    onurulgen committed Feb 15, 2024
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  2. Upgrade zlib to 1.3.1

    @onurulgen
    onurulgen committed Feb 15, 2024
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Commits on Feb 16, 2024

  1. Upgrade RNifti and dependencies

    @onurulgen
    onurulgen committed Feb 16, 2024
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  2. Fix zlib compilation error

    @onurulgen
    onurulgen committed Feb 16, 2024
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Commits on Feb 19, 2024

  1. Fix linting issues of reg_png

    @onurulgen
    onurulgen committed Feb 19, 2024
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  2. Fix linting issues of nifti1_io

    @onurulgen
    onurulgen committed Feb 19, 2024
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  3. Enable inline suppressions for static code analysis

    @onurulgen
    onurulgen committed Feb 19, 2024
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  4. Exclude Eigen library from static code analysis

    @onurulgen
    onurulgen committed Feb 19, 2024
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  5. Enable CRT secure warnings

    @onurulgen
    onurulgen committed Feb 19, 2024
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Commits on Feb 20, 2024

  1. Fix linting issues

    @onurulgen
    onurulgen committed Feb 20, 2024
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Commits on Feb 22, 2024

  1. Eliminate dead code

    @onurulgen
    onurulgen committed Feb 22, 2024
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  2. Use git to download Eigen library 

    Also, upgrade Eigen library to 3.3.*
    @onurulgen
    onurulgen committed Feb 22, 2024
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Commits on Feb 23, 2024

  1. Refactorisations

    @onurulgen
    onurulgen committed Feb 23, 2024
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  2. Rename Measure as MeasureCreator

    @onurulgen
    onurulgen committed Feb 23, 2024
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Commits on Mar 5, 2024

  1. Refactor _reg_maths* and _reg_common_cuda_kernels

    @onurulgen
    onurulgen committed Mar 5, 2024
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Commits on Mar 6, 2024

  1. Embed Eigen library

    @onurulgen
    onurulgen committed Mar 6, 2024
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  2. Replace Divide() with IndexToDims()

    @onurulgen
    onurulgen committed Mar 6, 2024
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Commits on Mar 8, 2024

  1. Add include directories for OpenMP

    @onurulgen
    onurulgen committed Mar 8, 2024
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Commits on Jun 1, 2024

  1. Refactorisations

    @onurulgen
    onurulgen committed Jun 1, 2024
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Commits on Jun 12, 2024

  1. Update macOS images in GitHub Actions

    @onurulgen
    onurulgen committed Jun 12, 2024
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  2. Update the OS image for Coverage

    @onurulgen
    onurulgen committed Jun 12, 2024
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  3. Fix linting issues

    @onurulgen
    onurulgen committed Jun 12, 2024
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Commits on Jul 12, 2024

  1. Use NiftiImage instead of nifti_image in _reg_ReadWriteImage 

    Delete duplicate reg_io_ReadImageHeader() and add this ability to reg_io_ReadImageFile()
    @onurulgen
    onurulgen committed Jul 12, 2024
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  2. Change the image acquisition behaviour of NiftiImage 

    Don't own the image pointer if it's constructed by using a nifti_image pointer
    @onurulgen
    onurulgen committed Jul 12, 2024
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Commits on Aug 19, 2024

  1. Revert "Enable CRT secure warnings" 

    This reverts commit 6cbbccd.
    @onurulgen
    onurulgen committed Aug 19, 2024
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Commits on Aug 24, 2024

  1. Fix *Content::CastImageData() and eliminate its duplicates

    @onurulgen
    onurulgen committed Aug 24, 2024
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Commits on Aug 27, 2024

  1. Use NiftiImage in Content classes

    @onurulgen
    onurulgen committed Aug 27, 2024
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  2. Revert "Use float gam instead of double in CudaOptimiser" 

    This reverts commit b9c9bec.
    @onurulgen
    onurulgen committed Aug 27, 2024
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  3. Fix Floor(), Ceil(), and Round() functions

    @onurulgen
    onurulgen committed Aug 27, 2024
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Commits on Aug 29, 2024

  1. Merge branch 'master' into rearchitect-and-reinstate-gpu

    @onurulgen
    onurulgen authored Aug 29, 2024
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