General purpose shared utilities for the diffpy libraries.
The diffpy.utils package provides functions for extracting array data from variously formatted text files, an interpolation function based on the Whittaker-Shannon formula that can be used to resample a PDF or other profile function over a new grid, Diffraction_objects for conveniently manipulating diffraction data, and some wx GUI utilities used by the PDFgui program.
If you use this program for a scientific research that leads to publication, we ask that you acknowledge use of the program by citing the following paper in your publication:
P. Juhás, C. L. Farrow, X. Yang, K. R. Knox and S. J. L. Billinge, Complex modeling: a strategy and software program for combining multiple information sources to solve ill posed structure and nanostructure inverse problems, Acta Crystallogr. A 71, 562-568 (2015).
Documentation may be found at, https://diffpy.github.io/diffpy.utils
The preferred method is to use Miniconda Python and install from the "conda-forge" channel of Conda packages.
To add "conda-forge" to the conda channels, run the following in a terminal.
conda config --add channels conda-forge
We want to install our packages in a suitable conda environment.
The following creates and activates a new environment named diffpy.utils_env
conda create -n diffpy.utils_env diffpy.utils conda activate diffpy.utils_env
To confirm that the installation was successful, type
python -c "import diffpy.utils; print(diffpy.utils.__version__)"
The output should print the latest version displayed on the badges above.
If the above does not work, you can use pip to download and install the latest release from
Python Package Index.
To install using pip into your diffpy.utils_env environment, type
pip install diffpy.utils
If you prefer to install from sources, after installing the dependencies, obtain the source archive from
GitHub. Once installed, cd into your diffpy.utils directory
and run the following
pip install .
You may consult our online documentation for tutorials and API references.
Diffpy user group is the discussion forum for general questions and discussions about the use of diffpy.utils. Please join the diffpy.utils users community by joining the Google group. The diffpy.utils project welcomes your expertise and enthusiasm!
If you see a bug or want to request a feature, please report it as an issue and/or submit a fix as a PR. You can also post it to the Diffpy user group.
Feel free to fork the project and contribute. To install diffpy.utils in a development mode, with its sources being directly used by Python rather than copied to a package directory, use the following in the root directory
pip install -e .
To ensure code quality and to prevent accidental commits into the default branch, please set up the use of our pre-commit hooks.
- Install pre-commit in your working environment by running
conda install pre-commit. - Initialize pre-commit (one time only)
pre-commit install.
Thereafter your code will be linted by black and isort and checked against flake8 before you can commit. If it fails by black or isort, just rerun and it should pass (black and isort will modify the files so should pass after they are modified). If the flake8 test fails please see the error messages and fix them manually before trying to commit again.
Improvements and fixes are always appreciated.
Before contributing, please read our Code of Conduct.
For more information on diffpy.utils please visit the project web-page or email Prof. Simon Billinge at sb2896@columbia.edu.