Release v0.5.1

• Package renamed lutuflow
• New lung detection model (YOLOv26n-sem) for usage in the tracking workflow
• Tracking part of "Run all workflows" removed; better tracking in Napari instead
• Reorganized "OMERO interface" panel layout
• New function to upload a new scan to OMERO from an image loaded in Napari
• Python version bumped from 3.9 to 3.11.

Release v0.4.8

Bump mousetumorpy version to >=0.0.6

Release v0.4.7

Fix Napari version to <0.7.

Release v0.4.6

• Fixes a bug where the prediction pipeline would stop unexpectedly.

Release v0.4.4

Update mousetumorpy versions

Release v0.4.3

Patch release

• Fixes a bug where the "scan time" would not be detected correctly when uploading new datasets.

Release v0.4.2

Patch release

• Fixes a bug where the "oct24" model wouldn't run successfully.

Release v0.4.1

What's changed

In short:

• Tracking tables now report all tracked tumors, not only those tracked across all scans.

• Utility functions are accessible from Plugins > Mousetumorpy. OMERO interface from Plugins > OMERO interface.

• New function for manually cropping 3D images in Napari (Plugins > Mousetumorpy > Manual cropping).

• Summary with "warning" messages printed in the terminal after scanning a project.

Reorganization between related projects

This release implements some reorganization to better separate the image processing functions, Napari functions, and OMERO functions.

• The segmentation and tracking functions are part of the mousetumorpy package, which can be installed and used independently.
• The Napari UI for these functions and utility functions (data table, remove objects, color display, etc.) are part of the napari-mousetumorpy plugin, which can be installed and used independently.
• The OMERO-related functions remain part of this project (depalma-napari-omero) along with the executable builds via PyApp / GitHub Actions, etc.

Technical notes

The source code of depalma-napari-omero was further refactored and is now organized as follows:

• OmeroWidget: Implements all of the PyQt logic, handles events, and manages tasks via thread workers.
• OmeroClient: Implements all of the OMERO I/O logic based on ezomero.
• OmeroProjectManager: Implements batch processing logic and functions to download / upload a project.
• ProjectScanner: Responsible for scanning an OMERO project and constructing a local representation of the data in that project.
• ProjectDataView: Stores a DataFrame from the scanner's state and implements all of the Pandas logic to return extracts from the project data in the correct format.

Release v0.4.0

This is a test release (do not use it).

All release notes are detailed in the next version (0.4.1).

Release v0.3.8

What's changed

• Code refactoring for easier maintainability (add SpecimenContext, ImageContext, TagsProcessor, etc.)
• We keep only tooling related to OMERO. Image processing, visualization, and manipulation tools were moved to be part of napari-mousetumorpy, which is a dependency.