Installation

First, you must have Conda installed and create a dedicated conda environment:

(base)$ conda create -n tile

and:

(base)$ conda activate tile
(tile)$

then install all requirements with:

(tile)$ conda install  -c conda-forge dxchange dxfile

and install tile

(tile)$ git clone https://github.com/xray-imaging/tile.git
(tile)$ cd tile
(tile)$ python setup.py install

Requirements

Besides the packases listed in requirements, tile uses tomopy or, if you have a GPU available in your system, tomocupy to perform the tomographic reconstruction after the stitching step.

Install tomocupy

Follow the tomocupu installation intruction:

(tile)$ conda install cupy scikit-build swig pywavelets numexpr astropy olefile opencv

  1. Install the pytorch pywavelets package for ring removal

(tile)$ git clone https://github.com/fbcotter/pytorch_wavelets
(tile)$ cd pytorch_wavelets
(tile)$ pip install .
(tile)$ cd -

  1. Set path to the nvcc profiler (e.g. /local/cuda-11.4/bin/nvcc)

export CUDACXX=/local/cuda-11.4/bin/nvcc

  1. Install tomocupy

(tile)$ git clone https://github.com/nikitinvv/tomocupy-cli
(tile)$ cd tomocupy-cli
(tile)$ python setup.py install

Install tomopy

To install tomopy tomopy/tomopy cli follow the tomopy install/tomopycli install instructions.

(tile)$ conda install -c conda-forge tomopy