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🆕 Define MultiTaskSegmentor #981

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@shaneahmed shaneahmed commented Jan 8, 2026

  • Define MultiTaskSegmentor based on new engine design

@shaneahmed shaneahmed self-assigned this Jan 8, 2026
@shaneahmed shaneahmed added the enhancement New feature or request label Jan 8, 2026
@shaneahmed shaneahmed added this to the Release v2.0.0 milestone Jan 8, 2026
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Codecov Report

✅ All modified and coverable lines are covered by tests.
✅ Project coverage is 96.49%. Comparing base (a20ec2b) to head (8cd457c).

Additional details and impacted files 
@@                    Coverage Diff                     @@
##           dev-define-engines-abc     #981      +/-   ##
==========================================================
+ Coverage                   95.30%   96.49%   +1.18%     
==========================================================
  Files                          79       79              
  Lines                        9954    10239     +285     
  Branches                     1280     1336      +56     
==========================================================
+ Hits                         9487     9880     +393     
+ Misses                        431      323     -108     
  Partials                       36       36

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@shaneahmed
🚧 Add functionalities
fef42ea
@shaneahmed
🔥 Remove previous codes
ab5cf7c
@shaneahmed
🔥 Remove previous codes
eab6db0
@shaneahmed
✅ Add initialization test
f8ff99c
@shaneahmed
💥 Add patch segmentation test
17c7a8a
@shaneahmed
💥 Update loop for postprocessing
ced4924
@shaneahmed
💥 Work in progress
8ea1056
@shaneahmed
Merge branch 'dev-define-engines-abc' into dev-define-multitask-segme…
1b9d254 
…ntor
@shaneahmed
🚧 Update multitask post processing outputs.
335aa07
@shaneahmed
🚧 Update postprocessing to incorporate dictionary outputs
3447495
@shaneahmed
✅ Add test for dictionary output
84a717d
@shaneahmed
🐛 Fix hovernet and hovernetplus tests
6065409
@shaneahmed
Merge branch 'dev-define-engines-abc' into dev-define-multitask-segme…
1c6619b 
…ntor

# Conflicts:
#	requirements/requirements.txt
@shaneahmed
✅ Add tests for zarr output
bd6d4b7
@shaneahmed
🐛 Fix deepsource errors
c7238b2
@shaneahmed
✅ Add test for single output.
fa3dcc1
@shaneahmed
✅ Add test for save_dir and None output_type
b042e86
@shaneahmed
✅ Improve test coverage.
47efdd1
@shaneahmed
Merge branch 'dev-define-engines-abc' into dev-define-multitask-segme…
618f123 
…ntor
@shaneahmed
✅ Add test for annotationstore single output.
645986d
@shaneahmed
Merge branch 'dev-define-engines-abc' into dev-define-multitask-segme…
d9953cc 
…ntor
@shaneahmed
✅ Add tests for multitask annotation store
e86e176
@shaneahmed
✅ Test output of layer and nuclei segmentation for annotationstore
4247afa
@shaneahmed
✅ Test output of layer and nuclei segmentation for annotationstore
94f427e
@shaneahmed
🐛 Read image at correct resolution
b16b57b
shaneahmed and others added 19 commits January 13, 2026 22:57
@shaneahmed
🐛 Fix saving annotationstore using zarr
8aebbaf
@shaneahmed
✅ Add test for logger.
e4392c9
@shaneahmed
🐛 Fix deepsource error PTC-W0060
f9f5f69
@shaneahmed
✅ Use file paths for a test
84a4611
@shaneahmed
🐛 Fix paths to input files in test
6e1b55f
@shaneahmed
Merge branch 'dev-define-engines-abc' into dev-define-multitask-segme…
99e2352 
…ntor
@shaneahmed
🚧 Add zarr output for WSIs
ff804db
@shaneahmed
🐛 Fix deepsource error
04dada4
@shaneahmed
🐛 Fix deepsource error
a8ca393
@Jiaqi-Lv
add type annotation utils.transforms.py
a336569
@shaneahmed
✨ Add WSI AnnotationStore support
5717512
@shaneahmed
✅ Add check for single task and class_dict
568964d
@shaneahmed
✅ Add check for single task and class_dict support
943aebf
@shaneahmed
🐛 Fix PY-W0070 deep source error
e3830b1
@shaneahmed
⚡ Use smaller images for faster test runs.
528b72e
@shaneahmed
🐛 Fix memory check for saving arrays
8e5578a
@shaneahmed
💄 Update logic for better readability
60faab5
@shaneahmed
🐛 Remove residual canvas and count keys
ddc2a54
@shaneahmed
🐛 Fix deepsource errors
8cd457c
@shaneahmed shaneahmed added documentation Improvements or additions to documentation and removed documentation Improvements or additions to documentation labels Jan 22, 2026
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