v1.0.0.b5

What's Changed

• Write IMOD mod file without IMOD command by @hanjinliu in #97
• Fix FutureWarnings by @hanjinliu in #98
• Plugin system by @hanjinliu in #100
• Fix coverage not correctly calculated by @hanjinliu in #101
• Improve coverage by @hanjinliu in #102
• Cookiecutter template for creating plugins by @hanjinliu in #103
• implement drop_molecules by @hanjinliu in #104
• Refactoring and new implementation of landscape/annealing methods by @hanjinliu in #106
• Use evaluable string for distance parameters of constrained alignment by @hanjinliu in #107
• Find image by relative path by @hanjinliu in #109
• fix some CLI by @hanjinliu in #110
• Spherical mask creation by @hanjinliu in #111
• Fix the behavior of id argument by @hanjinliu in #112
• update show_reconstruction by @hanjinliu in #113
• Bump actions/download-artifact from 3 to 4.1.7 in /.github/workflows by @dependabot in #115
• Update bounding_box design and fix related bugs by @hanjinliu in #114
• fix rise angle null values of calculate_lattice_structure by @hanjinliu in #117
• Fix molecule positions when scales mismatch between projects by @hanjinliu in #119
• Updates for the latest acryo by @hanjinliu in #120
• View up-sampled cylindrical power spectrum by @hanjinliu in #118
• Add NCC alignment option by @hanjinliu in #116
• Add a SplineFitter method to auto-center along spline by @hanjinliu in #121
• Fixes for polars=1.7.0 by @hanjinliu in #122

New Contributors

• @dependabot made their first contribution in #115

Full Changelog: v1.0.0.b4...v1.0.0.b5

v1.0.0.b4

This is a small bug-fix release.

What's Changed

• Initialize visibility of project viewer by @hanjinliu in #93
• Updates for latest griffe by @hanjinliu in #95
• Fix simulated annealer construction with non-regular shape by @hanjinliu in #96

Full Changelog: v1.0.0.b3...v1.0.0.b4

v1.0.0.b3

What's Changed

• Fix undo operation of align_averaged by @hanjinliu in #91
• minor updates for napari=0.5 by @hanjinliu in #92

Full Changelog: v1.0.0.b2...v1.0.0.b3

v1.0.0.b2

Highlights

• The spectra inspector widget is implemented in #78 #90, as described in the documentation. This widget is useful for manually checking the cylindric power spectra to confirm that the analysis went well.
• The Rust implementation of RMA was optimized in #87 so its performance was greatly improved. The calculation time is nearly the half of the previous versions.

What's Changed

• Widget for validation of CFT by @hanjinliu in #78
• fix symbols for orientation by @hanjinliu in #79
• Add max_radius arguments by @hanjinliu in #80
• Update PyO3 and polars by @hanjinliu in #82
• support int8 and int16 by @hanjinliu in #84
• Optimize the performance of lazy-loading projects by @hanjinliu in #85
• Add bin_size parameter to landscape functions by @hanjinliu in #86
• Use Array2 instead of HashMap to speed up RMA by @hanjinliu in #87
• Fix random seed problem by @hanjinliu in #88
• Fix inspector by @hanjinliu in #90

Full Changelog: v1.0.0.b1...v1.0.0.b2

v1.0.0.b1

What's Changed

• Open as a napari plugin by @hanjinliu in #75
• Improve coverage by @hanjinliu in #76
• Simulate projection by @hanjinliu in #77

Full Changelog: v1.0.0.b0...v1.0.0.b1

v1.0.0.b0 (first public version)

What's Changed

• Update docs by @hanjinliu in #59
• Disconnect close/hide button events by @hanjinliu in #62
• Update Rust crate versions by @hanjinliu in #61
• Use pydantic v2 by @hanjinliu in #64
• Better UI/UX by @hanjinliu in #66
• Allow reading projects with image path that doesn't exist. by @hanjinliu in #67
• Support IO for RELION by @hanjinliu in #65
• Read pdb/csv by @hanjinliu in #72
• Implement alignment function to extend protofilaments by @hanjinliu in #73

Full Changelog: v1.0.0.a9...v1.0.0.b0

v1.0.0.a9 (biorxiv version)

This is the version used for the biorxiv preprint.

What's Changed

• Refactor spline properties to the property props by @hanjinliu in #54
• Implement regionprops functions by @hanjinliu in #55
• Add a global variable to define the sign of rise angle by @hanjinliu in #56
• Improve spline fitting by @hanjinliu in #58

Full Changelog: v0.13.3...v1.0.0.a9

v0.13.3

Changes

• Save script as a runnable file.
• Add update_variable method to global variable widget.
• Fix workflow normalization to allow tab.

v0.13.2

New Features

• Implement overwrite_project
• Implement workflow (custom runnable functions) architecture.
• Functions to measure local radii.
• Record monomer mapping offsets after calling align_averaged.
• Implement some specific widgets (CheckBoxes, RandomSeedEdit etc).
• New methods for analysis with project object.
• Improvement of binding potential model. Add angle constraint to annealing model.
• Implement backend low-level API for Viterbi alignment and annealing.

Changed

• fix workflow.
• Refactor config.
• Refactor non-recordable methods to child widgets.
• Do not use projection to determine peaks in local DFT.
• Calculate projection images lazily for performance improvement.
• Use list[T]() since python<3.8 is dropped.
• Record window size of local properties.
• Mask irrelevant requency during infer_polarity.

Bug Fixes

• Project description was not initialized.
• Fix displacement of cylinder model.

v0.13.1

Bug Fixes

• Fix save_project when some of the spline properties are missing and add tests for this.
• Fix the output of align_averaged.