develop ~~> main v0.12.1

[garrettwrong]

Drafting release notes below. Still need to run the integration tests.

---

ASPIRE v0.12.1 is bugfix release, adding a mix of new features and cleanup.

This release provides the following features:

• Interoperable 2D basis (covar2d, class averaging)
• Improved Relion interoperability
• Common Line SDP method
• Shared 2D Basis tests
• Common Lines optional fuzzy mask
• Add Coef class
• Nearest rotation (SVD) util method
• FRC and FSC plotting option (disable cutoff)

Bug fixes:

• Enforce grid conventions
• FLE expand unit test convergence
• Sync voting unit test patch
• Whitening extremal value patch
• Adds improved image projection tests
• Adds improved volume rotation tests
• FBBasis3D NaN values for large resolution
• {F}PSWF basis float32 patch
• Extend eval_coords to many volumes
• Enforce block dtypes on assignment
• Reduce package import resource util

Systems/CI Updates:

• Flake8 Style Updates
• Add public Issue template
• Docstring cleanup
• Adds docstring linting util to CI
• Additional pytest conversions
• Removes parameterized_class
• Workaround Ray/pydantic dependency conflict

Documentation:

• Adds Relion interoperability gallery
• Adds Weighted spectral volume gallery
• Update public facing Code of Conduct
• Add K2 camera note to CTF estimator module
• Removes deprecated legacy example scripts

[j-c-c]

🚀

[codecov]

Codecov Report

Attention: 58 lines in your changes are missing coverage. Please review.

Comparison is base (dcedb21) 88.93% compared to head (8f94a24) 88.76%.

Files	Patch %	Lines
src/aspire/covariance/covar2d.py	93.03%	14 Missing ⚠️
src/aspire/downloader/data_fetcher.py	0.00%	12 Missing ⚠️
src/aspire/basis/steerable.py	93.70%	8 Missing ⚠️
src/aspire/basis/fspca.py	82.35%	6 Missing ⚠️
src/aspire/basis/basis.py	97.45%	3 Missing ⚠️
src/aspire/basis/fle_2d.py	95.89%	3 Missing ⚠️
src/aspire/basis/basis_utils.py	66.66%	2 Missing ⚠️
src/aspire/classification/rir_class2d.py	88.23%	2 Missing ⚠️
src/aspire/commands/denoise.py	0.00%	2 Missing ⚠️
src/aspire/__init__.py	85.71%	1 Missing ⚠️
... and 5 more

Additional details and impacted files

@@            Coverage Diff             @@
##             main    #1068      +/-   ##
==========================================
- Coverage   88.93%   88.76%   -0.18%     
==========================================
  Files         127      126       -1     
  Lines       11471    11969     +498     
==========================================
+ Hits        10202    10624     +422     
- Misses       1269     1345      +76     

☔ View full report in Codecov by Sentry.
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[garrettwrong]

Integration tests look similar to last release. Testing 10073 with higher reolutions to get an idea what FSC resolution it is achieving as a baseline.

[janden]

Looks good. Except the release notes should say “bugfix release”, not “minor release”.

[garrettwrong]

Looks good. Except the release notes should say “bugfix release”, not “minor release”.

RIght, fixed. Thanks.