AutodiffCTWorkflows

Installation

To create an environment, and install the required packages to install this package, run:

conda create -n autodiffCT
conda activate autodiffCT
./install.sh

Extra installation instructions to run notebooks

If you want to additionally be able to run notebooks, run:

conda install -c anaconda ipykernel jupyter

To register the environment as a kernel you can select in a notebook:

python -m ipykernel install --user --name=autodiffCT

Extra installation instructions for Walnut rotation axis alignment

Walnut rotation axis requires flexcalc (which requires flexdata and flextomo):

1. install flexdata pip install flexdata
2. install flextomo pip install flextomo
3. install flexcalc pip install flexcalc

Extra installation instructions for Fuelcell phase retrieval

To load the tomobank dataset of the PSI fuelcell, run:

conda install h5py dxchange tomopy -c anaconda -c conda-forge

Notebooks

1. BH simulated -- DONE
2. BH playdoh -- DONE
3. phase simulated
4. phase fuelcell -- DONE
5. rot axis simulated -- DONE
6. rot axis walnut -- DONE
7. TV+CNN foam -- DONE