HEDM-Toolkit 0.3.1

Tools for High Energy Diffraction Microscopy (HEDM) analysis

HEDM Pre-processing

This Python package provides tools for pre-processing data for High Energy Diffraction Microscopy (HEDM) analysis.

Features

• Conversion between different file formats (.ge, .tiff, .hdf5)
• Background subtraction
• Processing with ilastik
• Conversion to HEDM formats

Installation

Before installing this package, you need to install hexrd first. Follow the link for the guide, https://github.com/HEXRD/hexrd.

Then you need to downgrade numpy to version: numpy-1.22.4:

pip install numpy==1.22.4

Use pip to install this package:

pip install hedm_pre

Usage

The package provides several classes, including FileConverter, Standardize_format, Subtract_background, Process_with_ilastik, and Convert_to_hedm_formats.

Each class can be instantiated with a dictionary of parameters and then the convert method can be called to perform the operation.

Here is a basic example:

from hedm_pre import FileConverter

params = {
    'input_file': 'input.tif',
    'output_file': 'output.h5',
    'bgsub': True,
    ...
}

converter = FileConverter(**params)
converter.convert()

For more detailed usage, please refer to the source code and comments.

License hedm_pre is distributed under the terms of the BSD 3-Clause license. All new contributions must be made under this license.

Contact For any question, please contact [e-mail].