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CU-8699049kf MedCAT v2 support - #20

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mart-r wants to merge 85 commits into

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CU-8699049kf-mct-v2

Commits on May 13, 2025
- CU-8699049kf: Bump requirement to v2 (0.3.3)
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  d56154d
- CU-8698up3x0: Add optional extras needed for WWC
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  dcdd984
- CU-8699049kf: Update requirements to work with newer packages.
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- CU-8699049kf: Add compatibility layer as a package
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- CU-8699049kf: Install compatibility layer with requirements
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- CU-8699049kf: Run workflow on Ubuntu 24.04 instead of EoL 20.04
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- CU-8699049kf: Run wokrflow on 3.9>=python>=3.12
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- CU-8699049kf: Add type ignoring in compatibility package
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- CU-8699049kf: Add custom test runner
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- CU-8699049kf: Update custom runner to allow for specific test locations
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  232cebd
- CU-8699049kf: Use custom test runner in workflow
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  027fc92
- CU-8699049kf: Fix custom test runner name in workflow
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- CU-8699049kf: Move test runner to a different folder to fix issues
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- CU-8699049kf: Remove redundant code / imports
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  8edb65c
Commits on May 14, 2025
Commits on May 15, 2025
- CU-8699049kf: Update unsupervised training script to v2
  mart-r
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- CU-8699049kf: Update supervised training script to v2
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  c4fe9b8
- CU-8699049kf: Update MetaCAT notebook to v2
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  b4434a4
- CU-8699049kf: Update 2-phase learning MetaCAT notebook to v2 to the best of my ability
  mart-r
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  40fc838
- CU-8699049kf: Update run_model script for v2
  mart-r
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  ab45464
- CU-8699049kf: Update run_model script for v2 (remove unavailable keyword arguments)
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  1755848
- CU-8699049kf: Update run_model notebook for v2 as best as possible
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  3cb57cd
- CU-8699049kf: Update (most of) mct_analysis to v2
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  149f5b1
- CU-8699049kf: Fix a few minor typing issues
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  58aaebc
Commits on Jun 9, 2025
- CU-8699049kf: Update to latest v2 release (0.5.0)
  mart-r
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  09ca315
- CU-8699049kf: Remove compatibility layer (no longer needed)
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- Merge branch 'main' into CU-8699049kf-mct-v2
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  bf99043
- CU-8699049kf: Update for legacy CDB/Vocab load
  mart-r
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  2ec14ae
- CU-8699049kf: Fix imports when creating CDBs
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  2249cd2
- CU-8699049kf: Fix imports in MCT analysis
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  29e3c9d
- CU-8699049kf: Remove accidental force-deserialisation
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  595f30d
- CU-8699049kf: Fix typo in Vocab load path
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  3e0b7ec
- CU-8699049kf: Bump to latest v2 release (v0.5.1)
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  3d2269d
Commits on Jun 10, 2025
- CU-8699049kf: Update requirements to v0.6.0
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  d0813e5
Commits on Jun 11, 2025
- CU-8699049kf: Update requirements to v0.6.1
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  322de49
Commits on Jun 12, 2025
- CU-8699049kf: Update dependency to 0.7.0
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  3b84efa
- CU-8699049kf: Update ents property after name change
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  c88dbe5
- CU-8699049kf: Update for use of convenience method for CDB/Vocab loading
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  de0be55
Commits on Jun 13, 2025
- CU-8699049kf: Update to v0.8.0
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  26ee9f2
Commits on Jul 16, 2025
- CU-8699049kf: Update dependency to latest (PyPI beta) release
  mart-r
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  a2e9726
- CU-8699049kf: Fix a few v2 vs v2 access issues
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  423dab9
- CU-8699049kf: Fix a few more v2 vs v2 access issues
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  73d343f
- CU-8699049kf: Fix a few more v2 vs v2 access issues (unsup training)
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  10e4bb3
- CU-8699049kf: Fix a few more v2 vs v2 access issues (mct_analysis)
  mart-r
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  6ed23e0
- CU-8699049kf: Fix a few more type issues in mct_analysis
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  474c8c1
- CU-8699049kf: Add TODO comment
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  f0a3874
- CU-8699049kf: Fix MetaCAT related notebooks
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  cabcfee
- CU-8699049kf: Update MetaCAT notebooks with overhaul by Shubham
  mart-r
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  95911cc
- CU-8699049kf: Fix a few simple import issues
  mart-r
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  133e047
Commits on Jul 17, 2025
- CU-8699049kf: Add a few more comments regarding get_entities_multi_texts output
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  298ede0
- CU-8699049kf: Allow saving multiproccessing results.
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  ff8eed5
Commits on Jul 19, 2025
- CU-8699049kf: Update dependency to latest release
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  e68d91b
Commits on Aug 21, 2025
- CU-8699049kf: Specify full v2 release in requirements
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  69bf3a1
- Merge branch 'main' into CU-8699049kf-mct-v2
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  90abefc
- CU-8699049kf: Comment out eland dependency
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  e46a4f8
Commits on Sep 18, 2025
- Bump MedCAT requirement
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  740ad9f
- CU-8699049kf: Fix MetaCAT model card access (new on 2.1.0)
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  cead7da

Commits

Commits on May 13, 2025

Commits on May 14, 2025

Commits on May 15, 2025

Commits on Jun 9, 2025

Commits on Jun 10, 2025

Commits on Jun 11, 2025

Commits on Jun 12, 2025

Commits on Jun 13, 2025

Commits on Jul 16, 2025

Commits on Jul 17, 2025

Commits on Jul 19, 2025

Commits on Aug 21, 2025

Commits on Sep 18, 2025