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Prepare for 0.11.0 release #697

Merged
merged 151 commits into from
Nov 9, 2024
Merged

Prepare for 0.11.0 release #697

merged 151 commits into from
Nov 9, 2024

Commits on Sep 21, 2024

  1. Yet another Unreleased changelog section awaiting things 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  2. Replace use of deprecated from_neo_euler() -> from_rodrigues() 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  3. Bump version to 0.11.dev0 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  4. Comment out failing test, to be fixed later 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  5. Restrict scipy to < 1.14 until HyperSpy 2.0 is supported 

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  6. Allow flaky HI test to rerun up to five times 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  7. Merge pull request pyxem#683 from hakonanes/main-into-develop-after-0… 

    ….10.0

Main into develop after 0.10.0
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  8. Replace setup.py and setup.cfg with pyproject.toml, Hatch as build tool 

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  9. Remove MANIFEST.in file 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  10. Simplify README, also removing the all-contributors table 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  11. Add contrasting border to "kikuchipy" in banner images 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  12. Remove unnecessary CONTRIBUTING script pointing to docs 

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  13. Remove kikuchipy/release.py and references to it or the all-contribut… 

    …ors table

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  14. Update action versions in GitHub actions 

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  15. Remove more references to kikuchipy.release file 

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  16. Remember to install coverage packages on CI 

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  17. Start testing on Python 3.12 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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Commits on Sep 22, 2024

  1. Remove use of release script in docs 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  2. Install build package before installing dependencies 

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  3. Ensure HyperSpy 1.7.6 with Python >= 3.12 

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  4. Move hyperspy_extension.yaml file until HyperSpy 2.0 is supported 

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  5. Temporarily duplicate HS extension file 

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  6. Uncomment nlopt in config 

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  7. Merge pull request pyxem#684 from hakonanes/hatch-n-pyproject

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  8. Move source code to src/kikuchipy and tests to tests/ 

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Commits on Sep 28, 2024

  1. Put paths to data files in fixtures 

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  2. Remove all pragma: no cover in tests (unnecessary), use fixtures further 

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Commits on Sep 29, 2024

  1. Rename doc build directory to _build 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  2. Re-run tutorial notebooks after changing to src layout 

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  3. Update test warnings to silence 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  4. Remove --pyargs from pytest call 

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  5. Bump RTD Ubuntu version to 24.04 

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  6. Yield fixture results instead of return 

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  7. Default Python 3 on RTD instead of from mambaforge 

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  8. Still silence some test warnings outside our control 

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  9. Replace Bruker h5ebsd test files with fixture 

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  10. Use Path in doc reference frames script 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  11. Update paths to files for pytest to ignore 

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  12. Remove dummy EMsoft TKD and ECP master patterns, use fixtures 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  13. Replace import from conftest.py with fixture 

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  14. Move conftests.py to top directory to also work with doctest 

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  15. Update kikuchipy.load() doctest 

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  16. Update call to doctest-modules on CI 

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  17. Revert to using Python from mambaforge on RTD 

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  18. Remove use of dummy EMsoft ECP/TKD master patterns in IO tutorial 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  19. Update references to src/ in CI scripts 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  20. Change use of tempfile to pytest tmpdir 

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Commits on Sep 30, 2024

  1. Use filename in test metadata that should work on all platforms 

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  2. Update installation guide, better describe installation of nlopt 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  3. Merge pull request pyxem#686 from hakonanes/src-layout 

    Switch to src layout
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  4. Replace custom lazy loading with lazy_loader, new dependency 

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  5. Move checks of installed packages to private kikuchipy.constants module 

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Commits on Oct 1, 2024

  1. Rename chunk.fft_filter import to fft_filter_chunk to avoid duplication 

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  2. Merge pull request pyxem#688 from hakonanes/use-lazy-loader 

    Replace custom lazy loading with lazy_loader package
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Commits on Oct 2, 2024

  1. Remove support for Python 3.8 and 3.9 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  2. Update type hints in private modules 

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  3. Update type hints in data module 

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  4. Update type hints in detectors module 

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  5. Update type hints in draw module 

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  6. Update type hints in filters module 

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  7. Update type hints in imaging module 

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  8. Update type hints in indexing module 

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  9. Fix Python version in tests CI YAML 

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Commits on Oct 5, 2024

  1. Complete updating of type hints 

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  2. Temporarily restrict to NumPy <2 due to dependency incompats 

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  3. Wait on using typing.Self until Python >= 3.11 

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  4. Merge pull request pyxem#689 from hakonanes/remove-38-39-compat 

    Remove Python 3.8 and 3.9 compatibility
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  5. Set minimal version of HyperSpy to v2 

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  6. Set HyperSpy >= 2 as the minimal version also on CI 

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  7. Fix PR link in changelog 

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  8. Add RosettaSciIO dependency 

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Commits on Oct 26, 2024

  1. Install unreleased HyperSpy 2.2 from GitHub 

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  2. Allow import NumPy's VisibleDeprecationWarning before/after v1.25 

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  3. Prepare IO module for updating to RosettaSciIO's design 

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  4. Update NORDIF plugin to RosettaSciIO's design 

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  5. Update NORDIF calibration patterns plugin to RosettaSciIO's design 

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  6. Update Bruker h5ebsd reader to RosettaSciIO's design 

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Commits on Oct 27, 2024

  1. Update EBSD directory reader to RosettaSciIO's design 

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  2. Update EDAX binary patterns reader to RosettaSciIO's design 

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  3. Update EDAX h5ebsd reader to RosettaSciIO's design 

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  4. Update EMsoft EBSD reader to RosettaSciIO's design 

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  5. Update EMsoft EBSD master pattern reader to RosettaSciIO's design 

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  6. Update EMsoft ECP master pattern reader to RosettaSciIO's design 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  7. Update EMsoft TKD master pattern reader to RosettaSciIO's design 

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  8. Update our h5ebsd reader/writer to RosettaSciIO's design 

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  9. Update Oxford binary EBSD pattern reader to RosettaSciIO's design 

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  10. Update Oxford's h5ebsd/H5OINA reader to RosettaSciIO's design 

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  11. Fix creation of IO plugin list and look-up 

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  12. Remove unused HyperSpy markers tools 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  13. Remove passing of parallel=True to HyperSpy's map function 

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  14. Update IO plugin tests following updates to RosettaSciIO's design 

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  15. Import RGB8 and RGB16 data types from RosettaSciIO 

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  16. Replace HyperSpy marker functionality so tests don't error (not meant… 

    … to work!)

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  17. Fix incorrect combining of desired projection/hemisphere labels 

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  18. Improve error handling for incompatible IO plugin and signal type 

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  19. Set specification "_api" key using part of Path.parts list 

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  20. Add bounds to VirtualBSEImager.grid_shape based on signal shape 

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  21. Fix checking whether IO plugin writer is compatible with signal 

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  22. Fix tests with now incorrect imports and other improvements 

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  23. Fix final errors in IO tests 

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  24. Revert to "old" HyperSpy entry point path 

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  25. Force Python float in EBSDDetector string repr 

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  26. Ensure Python floats and ints in string repr and errors 

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  27. Use crop_signal instead of crop_image 

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  28. Ensure Python float in xmap attribute warning 

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  29. Fix VirtualBSEImager.grid_shape test following change to default shape 

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  30. Update warning message in IO test following change to Python float 

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  31. Update error message matches in tests following replace of `` with '' 

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  32. Fix f-string by using '' within "" 

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  33. Fix IO API 

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  34. Install ipykernel with pip on RTD using environments.yml 

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  35. Add ipykernel in environment.yml file for RTD, not for binder... 

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Commits on Oct 28, 2024

  1. Add convenience function to determine whether to overwrite file 

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  2. Fall back to BaseSignal.save() if no matching write plugin found 

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  3. Add Path type option to EBSD.save() signature, improve docstring 

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  4. Fix tests of internal IO convenience methods 

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  5. Remove explicit dependency on RosettaSciIO 

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  6. Simplify path to saving to H/ZSPY from EBSD.save() 

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Commits on Oct 29, 2024

  1. Merge pull request pyxem#694 from hakonanes/hs2-io-compat 

    Adopt RosettaSciIO's plugin design
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  2. Reintroduce dependency on RosettaSciIO, needed in kikuchipy h5ebsd pl… 

    …ugin

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  3. Use HS2 markers when plotting VBSE grid on EBSD detector 

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  4. Align tests of VBSE detector grid plots with HS2 markers 

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Commits on Nov 3, 2024

  1. Make tests pass, albeit with temporary fix for line markers 

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  2. Fix "PyVista not installed" error message 

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  3. Simplify VBSE imager tile labling, remove bug-as-feature 

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  4. Fix array indexing in VBSE imager 

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  5. Fix (row, column) -> (x, y) inconsistency with HyperSpy 

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  6. Remove incorrect enforcement of integer array for grid cols/rows 

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Commits on Nov 4, 2024

  1. Exclude NaN entries when plotting Kikuchi pattern simulation features 

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  2. Pass star polygon collection to HyperSpy for PC markers 

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  3. Test improved handling of PC markers 

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  4. Remove unnecessary import for type checking 

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Commits on Nov 5, 2024

  1. Update notebooks with stored output following update to HyperSpy v2 

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Commits on Nov 7, 2024

  1. Merge pull request pyxem#695 from hakonanes/hs2-markers-compat 

    Update use of markers to HyperSpy v2
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  2. Merge pull request pyxem#696 from pyxem/hyperspy2-support 

    Bring HyperSpy 2 compatibility work into develop branch
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Commits on Nov 9, 2024

  1. Set minimum HyperSpy version to 2.2 

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  2. Prepare changelog for 0.11.0 release 

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  3. Update version to 0.11.0 

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  4. Remove Hatch option to install dependencies from direct URL 

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  5. Fix subclassing of NumPy ndarray for Window class 

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  6. Remove now unnecessary warning in NORDIF reader 

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  7. Silence test suite warning from scikit-image for CLAHE 

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  8. Extract values from numpy.fromfile() before casting to numbers 

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  9. Restructure internal utilities 

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  10. Improve handling of valid projections and hemispheres in IO 

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  11. Improve calculation of kinematical EBSD master pattern 

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  12. Restrict progressbar to 80 columns 

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  13. Iterate over reflectors, not unit sphere coordinates 

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  14. Fix links to diffsims in kinematical EBSD simulation tutorial 

    Signed-off-by: Håkon Wiik Ånes <[email protected]>
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  15. Force EBSD detector shape to be Python ints in repr 

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  16. Fix some internal API reference links 

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