v0.13.0

Changes

• Keep source spline object in each molecules layer.
• Don't rely on reshaping if possible (#29).
• Refactoring using latest acryo.
• Reimplement all the intensive functions in Rust (#39).
• Implement simulated annealing.
• Renew simulator widget (#41).
• Change the default project structure (#42).
• Refactor impl_preview and setup_function_gui in a separate file.
• Spline linear extrapolation (#44).
• Make the tilt_range parameter tomogram specific, not to reside in the subtomogram analysis widget (#45).
• Make the spline orientation and molecules orientation consistent.
• Add 2D plotting.
• Batchize alignment methods.
• Use ColormapEdit.
• Change spline properties architecture.
• Change global variable architecture.
• More comprehensive tests.
• Implement undo/redo.
• Make spline semi-immutable.

Bug Fixes

• Fix plain clip widget.
• Fix conversion from molecules to IMOD mod file (#31).
• Cylindric monomor mapping had subtle error.
• Fix spline shortening on fitting after clipping.
• Fix recursion error of alleviate().

v0.12.2

New Features

• Protofilament-wise extend molecules.
• Update command palette.

Bug Fixes

• Fix polars dtype casting errors.
• Spline-fitter widget was not reproducible (#28).
• Fix open_logger.
• Fix Viterbi alignment.
• Fix seam search without mask images.

v0.12.1

Major Updates

• Behavior of extend_molecules is completely changed.
• load_project_for_reanalysis
• Use global logger widget (#27).
• Threading bug fixes.

Dependency

This version requires following dependencies.

• magic-class==0.6.14
• acryo==0.2.1
• impy-array==2.2.1

v0.12.0

New Features

• Spectra measurement in GUI (#17)
• Spline clipper function (#18).
• Functions for molecules (#21).
• More STA related features (#24).
• Batch STA analysis GUI (#26).

Changes

• Apply linear weight ramping during fitting (#16).
• Use acryo>=0.2.0.
• Remove polarity check and implement new one.
• Split and reorganize the namespace of the main widget (#20).
• Use custom points layer for molecules (#22)
• Use polars in spline properties (#23).
• Use acryo.pipe as much as possible (#25).
• Use magicclass.logging (#27).

v0.11.3

Changes

• Do not use List and Tuple.
• Implement flip and confirmation to image processor.
• Implement DataFrameList and its widget.
• Use abstractapi from magic-class>=0.6.13.

v0.11.2

• Fix fatal bug in project model.
• Add IO functions.

v0.11.1

New Features

GUI

• Sweeper widget.
• Tomogram simulator widget.
• Project viewer.

Algorithms

• Implement rotation to Viterbi alignment.
• Improved cylinder model.
• Add Radon model to describe Radon transformation.
• Use user directory to store global variables.

Bug Fixes

• Bug fix in spline deletion.

v0.11.0

New Features

• Do not automatically read header in the image loader.
• Show polarity markers in the image.
• Use CylinderModel to describe structure. This model includes cylindric shaped molecules generation.
• New C++ function alleviate for convolution of molecule positions.

Bug Fixes

• Spline ID did not match the index, which caused many errors.

v0.10.1

Changes

• Simplify seam search outputs.
• Add cutoff argument to seam search for much better results.
• Dynamic doc generation.
• Delete napari.yaml and add console entry point.

Bug Fixes

• Minor bug fix in layer feature evaluation.
• Fix silent index error on spline change.
• Bug fix in reading global properties from csv.
• Bug fix in reset_choices in volume menu of sub viewer.

v0.10.0

Improvements

• Use rotated auto correlation to improve reference free rough alignment.
• Consider bin size in local- and global-CFT.

Others

• Use latest magic-class
  • Use FieldGroup to refactor widgets.
  • Use docstrings for tooltip creation.
  • Bug fix in confirmation.
  • Use new type annotations.
  • Use thread_worker.to_callback to refactor large part of codes.
• Use latest impy-array
  • Use slicer as much as possible.
• Add napari.yaml