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Tomography code based on the Fast Adaptive Shrinkage Thresholding Algorithm (FASTA)

This tomography code is based on the FASTA implementation of the Fast Forward-Backward Splitting algorithm and the ASTRA library for forward and backward ray-transform operators. The FASTA paper talks about all the implementation details like adaptive stepsizes, accelerated convergence, and so on.

Installation

  • install ASTRA from source to enable GPU capabilities
  • install pytorch (tested with pytorch v1.5 and 1.6)
  • install the Operator Discretization Library ODL conda install -c odlgroup odl
  • 'python setup.py install' in this folder
  • [optional] 'python setup.py develop' for developer mode

Getting started

  • run ./tests/test_kates_data.py or ./tests/test_kates_data_multiscale.py

Possible coding projects to get up to speed with the code base

  • interface Total General Variation regularization from the CCPi regularisation toolkit and write a Plug-and-Play regularizer to use in FASTA
  • port subpixel registration to the GPU, this is probably easiest with the CuPy package, since it has exactly the same interface as numpy. The code is in ./fastatomography/util/register_translation.py, and is copied from skimage

TODO (in no particular order)

  • implement higher-order TV regularisation, see above

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