Release Version 3.5.0 · BiaPyX/BiaPy

Major

Move from Pytorch 2.2.0 to 2.4.0
Increase loss options
Add options to choose train/test metrics to measure (TRAIN.METRICS/TEST.METRICS). Also added more metrics to measure in Super-resolution, Image to Image and Self-supervised workflows. Closes #86
Allow central point to use an ellipse footprint in Detection workflow
Add U-NeXt V1 model
Update BMZ code to import, finetune and export v0_4 and v0_5 spec models. Move to bioimageio.core version 0.6.7
Avoid loading entire data when creating instance labels
Add TEST.DET_IGNORE_POINTS_OUTSIDE_BOX option for Detection workflow
Remove data clipping during DA so the user is aware of the transformations
Add LOSS.CLASS_REBALANCE option
Update all notebooks with more visualization cells and descriptions.

Remove TEST.EVALUATE option
Organize better semantic segmentation output
Add zoom as preprocessing in test data (only available TEST.BY_CHUNKS == True)
Reorganize median filter post-processing by creating TEST.POST_PROCESSING.MEDIAN_FILTER, TEST.POST_PROCESSING.MEDIAN_FILTER_AXIS and TEST.POST_PROCESSING.MEDIAN_FILTER_SIZE. Removing TEST.POST_PROCESSING.YZ_FILTERING, TEST.POST_PROCESSING.YZ_FILTERING_SIZE, TEST.POST_PROCESSING.Z_FILTERING and TEST.POST_PROCESSING.Z_FILTERING_SIZE
Go back to use channel 0 as semantic mask to grow the instances in BC channels. Also fix resolution and channel order in edt() call in BP.
Remove contrast/brightness EM transformations as they were not used
Be more permissive with provided csv file during point mask creation in detection workflow
Add -v option to consult BiaPy's version

Fix resunet++ issue. Closes #95
Number of residual groups in RCAN.
Correctly read result images when reusing results. Closes #94
Avoid loading entire data when creating instance labels. Closes #92
Add load checkpoint after training again (last epoch training model has been using before)

Full Changelog: v3.4.6...v3.5.0