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Many changes to code base

Alexander Prescott requested to merge alexprescott_email.arizona.edu/fluvparticle:main into main

This merge request includes the following changes/updates:

  • new testing methods to increase test coverage
  • compressed gif image sizes
  • fixes for Sphinx autodocs
  • completion of docstrings in all modules
  • migrated utility functions from init.py to Helpers.py
  • added support for input hydrodynamic meshes as NumPy .npz files
  • added conversion functions for output HDF5 files to .vtk (mesh) or .csv (particles) files
  • some improvements to class variable setter/getter functions

Closes #10 (closed) #11 (closed) #12 (closed) Includes checklist items in #6

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