Develop

[garrettwrong]

Tentative release notes below.

---

ASPIRE v0.14.0 is minor release, adding scientific features, bug fixes, and many updates.

This release provides the following features:

• Fast Polar Fourier Rotational Alignment for 2D class averages
• IRLS Common Lines Algorithm
• LUD Common Lines Algorithm
• MATLAB reproducing legacy downsample flag option
• MATLAB reproducing legacy normalize_background flag option
• Load pixel_size from STAR file for RelionSource
• Add optional pixel_size to initializer CoordinateSource
• Icosahedral I symmetry
• Migrate from error to warning on incorrect Volume.rotate dtypes
• Permit corrupt MRC files in RelionSource and CoordinateSource

Bug fixes:

• Fix flaky LUD unit test
• Admit rectangular micrographs in CoordinateSource
• Fix flakey BOT_align unit test
• Fix OrientedSource save_mode=single
• Continuous patching of evolving Numpy2 casting behavior changes
• Resolve ambiguous dtype in image.downsample

Updates and Cleanup:

• Remove Numpy2 experimental feature warning
• Update registry hash for emdb_14621
• Add scheduled downloader unit test
• Deduplicate coor_trans and rotation code
• Use scipy's create_group for SymmetryGroups
• Migrate finufft and cufinufft to v2.4.0
• Pipeline demo tutorial updates

Systems/CI Updates:

• Flake8 updates
• PyProject packaging updates
• Ubuntu OS CI platform upgrade
• Windows CI platform upgrade

[j-c-c]

Looks good 🚀

Need to add "LUD Common Lines Algorithm" to the release notes. Otherwise, the release notes look good to me.

[garrettwrong]

Oh my bad, was LUD this release? I thought it was in the last one. I'll add

[j-c-c]

Oh my bad, was LUD this release? I thought it was in the last one. I'll add

No worries. It just missed the last release. Thanks

[codecov]

Codecov Report

Attention: Patch coverage is 96.35158% with 22 lines in your changes missing coverage. Please review.

Project coverage is 90.60%. Comparing base (d0f3d09) to head (60d1db6).

Files with missing lines	Patch %	Lines
src/aspire/abinitio/commonline_lud.py	97.05%	6 Missing ⚠️
src/aspire/denoising/class_avg.py	58.33%	5 Missing ⚠️
src/aspire/downloader/data_fetcher.py	50.00%	4 Missing ⚠️
src/aspire/classification/averager2d.py	96.47%	3 Missing ⚠️
src/aspire/volume/volume_synthesis.py	66.66%	2 Missing ⚠️
src/aspire/abinitio/commonline_irls.py	99.18%	1 Missing ⚠️
src/aspire/operators/polar_ft.py	96.77%	1 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##             main    #1300      +/-   ##
==========================================
+ Coverage   90.43%   90.60%   +0.17%     
==========================================
  Files         132      133       +1     
  Lines       13941    14346     +405     
==========================================
+ Hits        12607    12998     +391     
- Misses       1334     1348      +14     

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