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Python implementation refactor, numba kernel optimizations, some GPU implementations #8

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Python implementation refactor, numba kernel optimizations, some GPU implementations #8

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Commits on Apr 28, 2021

  1. started python implementation

    @din14970
    din14970 committed Apr 28, 2021
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  2. changed zero to empty

    @din14970
    din14970 committed Apr 28, 2021
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Commits on May 4, 2021

  1. added gradient function

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    din14970 committed May 4, 2021
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Commits on Jan 3, 2022

  1. fixed initialization of an array

    @berkels
    berkels committed Jan 3, 2022
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  2. added a main to show that the registration energy and its gradient do… 

    … work
    @berkels
    berkels committed Jan 3, 2022
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  3. typo fixes

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    berkels committed Jan 3, 2022
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  4. group some variables into arrays

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    berkels committed Jan 3, 2022
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  5. formatting with "black -l 120"

    @berkels
    berkels committed Jan 3, 2022
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  6. changed the implementation of the gradient to make it easier to reuse… 

    … the code for different energy functionals
    @berkels
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  7. iterate over cells instead of nodes, which gets rid off all "if"s in … 

    …_integrate_pd_over_cells_single and is how one typically iterates in FE
    @berkels
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  8. formatting with "black -l 120"

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Commits on Jan 4, 2022

  1. replaced the image interpolation code with an implementation I had at… 

    … hand that does "constant in normal direction" extension
    @berkels
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  2. added a residual function as preparation to reformulate the minimizat… 

    …ion problem as non-linear least squares problem
    @berkels
    berkels committed Jan 4, 2022
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  3. minor change to make some variable names more accurate

    @berkels
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Commits on Jan 5, 2022

  1. added the gradient of the residual function and reformulated the mini… 

    …mization problem as non-linear least squares problem
    @berkels
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  2. precompute the constant matrix that corresponds to the gradient of th… 

    …e regularizer part of the residual
    @berkels
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  3. the regularizer part of the residual itself is now implemented as mat… 

    …rix vector mutliplication with a constant matrix and a constant shift
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Commits on Jan 6, 2022

  1. minor simplifications

    @berkels
    berkels committed Jan 6, 2022
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  2. started to organize the code from main into a class

    @berkels
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  3. continued to organize the code from main into a class

    @berkels
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  4. continued to organize the code from main into a class

    @berkels
    berkels committed Jan 6, 2022
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  5. continued to organize the code from main into a class

    @berkels
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  6. finished to organize the code from main into a class

    @berkels
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  7. the degrees of freedom are now the displacement instead of the deform… 

    …ation
    @berkels
    berkels committed Jan 6, 2022
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  8. small improvements

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  9. normalize the integration domain so that its longest axis has length … 

    …1 (will make the multi level descent easier)
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  10. the degrees of freedom of the displacement are now relative to the no… 

    …rmalized integration domain instead of in pixels (will make the multi level descent easier)
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Commits on Jan 7, 2022

  1. implemented multi level optimization in main

    @berkels
    berkels committed Jan 7, 2022
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  2. increased resolution of the example images

    @berkels
    berkels committed Jan 7, 2022
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  3. fixed a deprecation warning

    @berkels
    berkels committed Jan 7, 2022
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  4. added a custom non-linear least squares solver based on sparseqr

    @berkels
    berkels committed Jan 7, 2022
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Commits on Jan 9, 2022

  1. use CHOLMOD to solve the sparse normal equations instead of sparseqr … 

    …for the linear least squares problem
    @berkels
    berkels committed Jan 9, 2022
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  2. Merge pull request #4 from berkels/testing 

    Added first working python implementation match-series
    @din14970
    din14970 authored Jan 9, 2022
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Commits on Jun 5, 2022

  1. updated gitignore

    @din14970
    din14970 committed Jun 5, 2022
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  2. update example

    @din14970
    din14970 committed Jun 5, 2022
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  3. small changes

    @din14970
    din14970 committed Jun 5, 2022
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  4. black formating

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    din14970 committed Jun 5, 2022
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Commits on Jun 23, 2022

  1. refactoring implementation

    @din14970
    din14970 committed Jun 23, 2022
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Commits on Nov 27, 2022

  1. moved solver to own module

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    din14970 committed Nov 27, 2022
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Commits on Dec 19, 2022

  1. implemented fast interpolation

    @din14970
    din14970 committed Dec 19, 2022
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  2. minor modification interpolation parameters

    @din14970
    din14970 committed Dec 19, 2022
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Commits on Dec 27, 2022

  1. functioning evaluation and pd evaluation kernels cpu gpu

    @din14970
    din14970 committed Dec 27, 2022
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Commits on Dec 28, 2022

  1. fixed up quadrature and objective functions

    @din14970
    din14970 committed Dec 28, 2022
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Commits on Dec 29, 2022

  1. registrationobjectivefunction appears to work

    @din14970
    din14970 committed Dec 29, 2022
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Commits on Dec 30, 2022

  1. working tests quadrature

    @din14970
    din14970 committed Dec 30, 2022
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  2. added test data and tests for objective functions

    @din14970
    din14970 committed Dec 30, 2022
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  3. added basic test for solver

    @din14970
    din14970 committed Dec 30, 2022
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  4. added gpu test for solver

    @din14970
    din14970 committed Dec 30, 2022
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Commits on Jan 1, 2023

  1. updated implementation, gave shape to jnnr class

    @din14970
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Commits on Jan 2, 2023

  1. functioning tests and first version of implementation user interface

    @din14970
    din14970 committed Jan 2, 2023
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  2. code quality/deployment stuff

    @din14970
    din14970 committed Jan 2, 2023
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Commits on Jan 3, 2023

  1. updated python versions

    @din14970
    din14970 committed Jan 3, 2023
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  2. small edit

    @din14970
    din14970 committed Jan 3, 2023
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  3. fixed setup.py

    @din14970
    din14970 committed Jan 3, 2023
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  4. updating install dependencies in build.yml

    @din14970
    din14970 committed Jan 3, 2023
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  5. updated test command

    @din14970
    din14970 committed Jan 3, 2023
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  6. fixing typing and test issues

    @din14970
    din14970 committed Jan 3, 2023
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  7. additional fixes

    @din14970
    din14970 committed Jan 3, 2023
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  8. fixing issues with jit

    @din14970
    din14970 committed Jan 3, 2023
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  9. fixing jit decorator issues

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    din14970 committed Jan 3, 2023
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