v1.4.0 🌈

Fix windows installation, GUI updates and automatic tracking

This release includes three main changes:

• Preliminary support for automatic tracking via Trackastra integration.
• Changes in the GUI to make the model names more informative
• Much easier installation on windows

Changes

• New release @constantinpape (#971)
• Minor update to environment file and other docs @anwai98 (#972)
• Fix automatic tracking with dask @constantinpape (#970)
• Update model combination tooltips and adapt other GUIs @anwai98 (#964)
• Better preservation for committed objects @constantinpape (#967)
• Update benchmark.py @YonghaoZhao722 (#966)
• Update commit to file @constantinpape (#959)
• Validate model type with model state instead of state @caroteu (#962)
• Minor update to training CLI @anwai98 (#957)
• Add scripts for annotating data on OMERO server @anwai98 (#941)
• Fix dependencies @constantinpape (#955)
• Add checks for valid values parsed to finetuning CLI arguments @anwai98 (#944)
• Omero support for TiM workshop @constantinpape (#946)
• Merge master into dev @constantinpape (#947)
• Start preparation for TIM2025 workshop @anwai98 (#925)
• Minor updates to embedding widget @anwai98 (#938)
• Tracking layer @constantinpape (#913)
• Fix issues in the image series annotator and load existing segmentati… @constantinpape (#936)
• Add download progress bar to napari info log @anwai98 (#933)
• Make GUI default model choice depend on micro_sam defaults @anwai98 (#934)
• Add validation window for avoiding recomputing embeddings @anwai98 (#790)
• Allow flexible loading of mismatching checkpoint-model type combination @anwai98 (#886)
• Add implementation for Late PEFT @caroteu (#916)
• Save outputs of automatic segmentation CLI in stages @anwai98 (#928)
• Implement batched prediction for the AIS segmentation decoder @constantinpape (#932)
• Update model choice design in annotator tools @anwai98 (#927)
• Add evaluation CLI mentions to usage FAQ @anwai98 (#930)
• Update GUI to avoid replicating existing label / prompt layers @anwai98 (#929)
• Implement batched embedding computation @constantinpape (#926)
• End: ensure the return of _to_image is a np.array (allows dask layers to work) @psobolewskiPhD (#922)
• Add support for avoiding to overwrite trained model @anwai98 (#919)
• Add information CLI @anwai98 (#911)
• Update environment file for installation @anwai98 (#912)
• Update embedding widget to pop dialog box for no images @anwai98 (#910)
• Support multiple images in automatic segmentation CLI @anwai98 (#904)
• Start implementation for automated tracking @constantinpape (#678)
• Add evaluation CLI for segmentations @anwai98 (#899)
• Update training section in doc with finetuning CLI mention @anwai98 (#900)
• Update example notebooks with comments on tiling-based inference @anwai98 (#901)
• Update default prompt propagation mode for multidimensional data @anwai98 (#903)
• Move automatic segmentation mode @constantinpape (#898)
• Remove exclusive yaml file for windows @anwai98 (#895)
• Update win installation WIP @constantinpape (#869)