Quick Start

On your desktop/laptop without paralell HDF5 library

Install Dependencies

With pipenv

This is supposed to be the simpliest. Run following command:

pipenv install
pipenv shell

Run the test scripts

  1. Create a fake system matrix and store in hdf5 format.

python dev/generate_sysmat_hdf5.py

  1. Create the projection of the hotrod(derenzo) phantom.

python pyrecon/tests/test_projection_nonmpi.py

  1. Reconstruct from the newly-created projection.

python pyrecon/tests/test_recon_nonmpi.py

Visulization Jupyter notebooks

There are three Jupyter notebooks in /dev folder.

  • read_sysmat_npz.ipynb plots the system matrix

  • read_projection_npz.ipynb plots the projection as a sinogram

  • read_reconstructed_npz.ipynb plots the reconstructed image