Release version 0.9.1

New minor release, adding the following features and fixing the following bugs:

Added

• Overall improvements to ProjectionGeometry in the module models:
  • Initial support for cone-beam geometry, including Parker weights for FDK
  • Support for detector tilts
  • Better support for detector VU shifts (respecting axes orientation)
• Function to fit scale and bias of an image against data (possibly in a different space)
• Wavelet-Fourier method for the destriping of sinograms
• Ghost Imaging / Structured Illumination:
  • Resolution estimation
  • Mask binning support
• Linear attenuation coefficient computation for a given material

Fixed

• Bug introduced with scikit-image 0.22
• Alignment and solvers tests

Release version 0.9.0

New major release, adding quite a few new features and fixing the following bugs:

Added

• QR decomposition for structured illumination
• Background computation function from projection edges
• Basic alignment routines:
  • Simple pre-alignment methods, for projection alignment
  • Stack shift tracking, for correcting image drifts
• Experimental astra-toolbox backend support (direct FP and BP)
• Basic phase contrast support:
  • Computing and plotting delta-over-beta
  • Computing TIE and CTF phase propagation functions
• MLEM solver (thanks to J. Lesaint #20)

Fixed

• Multi-platform pip conda package building
• Type hinting fixes
• Full-field transmission flat-fielding

Release version 0.8.1

Hotfix release adding the following features and fixing the following bugs:

Added

• Power spectrum calculation function.

Fixed

• Pypi package creation.

Release version 0.8.0

New major release, mainly adding support for Ghost Imaging (structured illumination).
In particular, this release adds the following features and fixes the following bugs:

Added

• Ghost imaging support (structured illumination):
  • Theoretical mask generation (incl. MURA, Half-Gaussian, Bernoulli)
  • Dedicated projector (CPU based).

Fixed

• Circular mask initialization

Release version 0.7.2

New minor release, adding the following features and fixing the following bugs:

Added

• Default VolumeGeometry creation from volume.
• Tapering border size support in volume mask.
• 1D gradient-based regularizer shortcut.
• Isotropic undecimented wavelet regularizer support.

Fixed

• Fluorescence line selection case-sensitive bug.
• Verbose feedback in parabolic fitting for parameter tuning.

Release version 0.7.1

New minor release, adding the following features and fixing the following bugs:

Added

• More documentation / tutorial content.
• Energy conversion functions (keV to m, and viceversa).
• Tapering for truncated volumes in FSC computation.

Fixed

• Typo that preventing using ProjectionGeometry from models.
• Shape dimensions (XYZ vs ZXY) interpretation in VolumeGeometry and other functions.
• Cross-validation data term initialization in solvers.
• Tapering to circular masks.

Release version 0.7.0

New major release, adding the following features and fixing the following bugs:

Added

• Wide API refactoring: renamed various modules, and moved processing routines to sub-package.
• Initial draft of tutorial. More documentation on the way.
• Line intersection computation.
• Plotting of FRCs.
• Tests: initial support for projectors.

Fixed

• Typo in function name.
• Simplified examples 01 and 02.
• FRC/FSC axes selection.

In particular, the API change breaks compatibility with the past, and it thus required a major version bump.

The scikit-image and astra-toolbox backend still present an inconsistent rotation center position definition. There is now a PR to fix the rotation center position in scikit-image: scikit-image/scikit-image#6489

Release version 0.6.0

New major release, adding the following features and fixing the following bugs:

Added

• Multi-channel (collaborative) regularization (including TNV - Total Nuclear Variation).
• Support for custom (external, user defined) projection backends.
• Dedicated FBP filters module.
• Parallelization of guided regularization functions.
• A lot of work towards full type hinting usage.

Fixed

• Potential memory leak in astra-toolbox projector backend.
• Gradient and laplacian implementations for arbitrary directions.
• Output and consistency from tests for solver classes.
• Residual norm computation in the weighted least squares data term.
• Dimension mismatch in projector, when using only one angle.
• Back-projection normalization in scikit-image projector backend.

The scikit-image and astra-toolbox backend still present an inconsistent rotation center position definition. There is now a PR to fix the rotation center position in scikit-image: scikit-image/scikit-image#6489

Release version 0.5.1

New minor release, adding the following features and fixing the following bugs:

Added

• Better support for FBP:
  • Dedicated solver class.
  • Support for 3D geometries.
  • Use of scikit-image's filters, with rfft.
  • Support for various padding modes (constant, edge, etc).
• Support for various padding modes in gradient, Laplacian and convolution operators.
• Support for Lorentzian and sech^2 beam shapes.
• Computation of Center-of-Mass for volume.

Fixed

• Border behavior in convolution operator.
• Sanitized projector's angle input.
• Denoising / deconvolution method.
• Models: handling of astra-toolbox's 2D rotation direction.

Release version 0.5.0

New major release, adding the following features and fixing the following bugs:

Added

• New module called models:
  • VolumeGeometry: description of the volume.
  • ProjectionGeometry: description / manipulation of the projection geometry.
  • Support for unmatched pixel-voxel size, cone beam geometry, uneven volume shape.
  • Arbitrary geometry, including tilted detector.
• Convolution operator and deconvolution support.
• Support for rotating projection stack.
• Support for computing cross-correlation curves.
• Computation of PSF for pencil beam scanning with gaussian beam.
• Support for computing attenuation maps outside the corrected projector.

Fixed

• Pixel weights, when having small outliers.
• Volume mask generation
• Dimension bug in azimuthal integration.
• Inconsistency between astra-toolbox and scikit-image backends.

Warning

• Some interfaces and some internal properties have been refactored / renamed.
• There is still an inconsistency between the scikit-image and astra-toolbox backends, regarding the volume center definition.