01 Sep 14:23

github-actions

01bf507

medcat/v2.1.0 Latest

Latest

Minor release.

Highlighted features:

Offline loading of BERT based MetaCATs (#67, #85)
Allow loading models with config dicts (applied before pipe init) again (#53)
Simplified access and imports (#112, #119), e.g:
- CAT.pipe instead of CAT._pipeline
- from medcat.stats import get_stats instead of from medcat.stats.stats import get_stats
Improved supervised training flexibility by logging issues (#121)

Important bug fixes

Stats edge cases for 0 precion and recall (#109)
Fix issue with model pack removal upon save in some situations (#115)

What's Changed

Add permissions for MedCAT release by @mart-r in #42
Remove install bundles before pushing to PyPI by @mart-r in #44
Allow patch releases for pre-releases by @mart-r in #43
Update to valid classifiers by @mart-r in #45
CU-8699twteb: Update docs links to point to up to date page by @mart-r in #48
Fix license in pyproject.toml by @mart-r in #49
Improve some logging in MetaCAT when no suitable category is found by @mart-r in #50
CU-8699upt9a Allow saving output onto disk when multiprocessing by @mart-r in #52
CU-8699vkmu4: Allow load with merging config(s) by @mart-r in #53
CU-8699vq0he: Improve addon access from CAT by @mart-r in #55
CU-8699vnuwf Ignore hidden files when loading model packs by @mart-r in #54
CU-8699zxxnt: Fix v2 tutorials link to point to correct version by @mart-r in #61
Adding functionality for offline loading by @shubham-s-agarwal in #67
Remove unnecessary method from tutorial example by @mart-r in #73
CU-8698x63kt: Add v2 migration guide by @mart-r in #66
CU-8699mrvup docs: update urls throughout to point to new cogstack-nlp repo by @alhendrickson in #71
Update dependabot.yml to update github actions by @alhendrickson in #81
Avoid v2 release workflow run in case of v1 release by @mart-r in #83
CU-8699wc4zb Port offline BERT MetaCAT load to v2 by @mart-r in #85
build: Update dependabot config by @alhendrickson in #91
build: Update dependabot config. Add commit prefix by @alhendrickson in #93
CU-869a6w9c7 Fix stats on 0 prec and 0 rec by @mart-r in #109
CU-869a6v8qd: Fix tutorial links by @mart-r in #108
Explicitly specify an empty HF cache during testing of offline load by @mart-r in #106
CU-869a71q73: Rename multi-text method and deprecate old one by @mart-r in #110
CU-869a2kpv0 Add method for model card load off disk by @mart-r in #111
build: bump the actions-deps group with 6 updates by @dependabot[bot] in #94
chore(medcat): CU-869a971xa: Update readme by @tomolopolis in #116
CU-869a95nu1 Fix spacy model cleanup by @mart-r in #115
CU-8699qzfdk Improve optional part checks by @mart-r in #113
CU-869a7mjaa: Add simplified method of getting pipe from CAT object by @mart-r in #112
chore(medcat): CU-869a98zwq: use old name by @tomolopolis in #118
CU-869a9mten Improve duplicate name imports by @mart-r in #119
CU-869a9q6rm: Include MetaCAT model cards in overall model card by @mart-r in #120
CU-869a9w9v8: Allow a warning instead of a raised exception when doing supervised training by @mart-r in #121
Medcat conversion model name hotfix by @mart-r in #122

New Contributors

@shubham-s-agarwal made their first contribution in #67
@dependabot[bot] made their first contribution in #94

Full Changelog: medcat/v2.0.0...medcat/v2.1.0

Contributors

tomolopolis, mart-r, and 3 other contributors

Assets 8

18 Aug 12:51

github-actions

medcat/v2.0.0

df6a628

medcat/v2.0.0

We’re excited to announce the release of MedCAT v2. This is a major refactor that brings a more modular, flexible, and maintainable foundation for clinical NLP, while staying compatible with existing v1 models.

This release focuses on:

Refactored structure for lower coupling and greater extensibility
Modularity via optional install extras (install only what you need)
Improved flexibility in tokenization, NER, and annotation pipelines
Backwards compatibility for v1 models, with automatic conversion

✨ What’s New

Decoupled from spacy → now possible to use lightweight regex tokenizer or other (custom) backends
Optional extras: install support only for the components you need (spacy, meta-cat, deid, rel-cat, dict-ner)
Training is now structured around dedicated classes for clearer workflows
Tutorials and scripts have been rebuilt from the ground up for v2
Added support for a supervised training web service (experimental, under development)

⚠️ Breaking Changes

Saving/Loading:
- Save method has a new name (CAT.save_model_pack)
- v2 saves models in a new format (but still loads v1 models, with slower load times due to conversion)
Training:
- Training APIs now go through separate trainer classes
Defaults:
- Default install no longer includes spacy or advanced components (see migration guide for how to enable them)

For a complete list, see: BREAKING_CHANGES.md

📖 Migration Guide

If you’re upgrading from v1, please read the dedicated Migration Guide. It covers:

Installation instructions
Changes to saving/loading
v1 model compatibility notes
Updated tutorials and example scripts
FAQ and troubleshooting

🔗 Useful Links

📦 PyPI

📘 Documentation

🧩 Migration Guide

💬 Discussion Forum

🛠️ Repository

Feedback

v2 is a big step forward, and we’d love your input!
Please open a GitHub issue or join the discussion forum for:

Missing documentation
Bugs or breaking behaviour
Feedback on error/log messages
Suggestions for future improvements

Assets 8

12 Aug 08:26

mart-r

medcat/v1.16.5

22ba8a0

MedCAT v1.16.5

Mostly workflow changes to release #67 .

What's Changed

Adding functionality for offline loading by @shubham-s-agarwal in #67
Fix typo in v1 production workflow by @mart-r in #80

Full Changelog: medcat/v1.16.0...medcat/v1.16.5

Contributors

mart-r and shubham-s-agarwal

Assets 2

18 Jul 14:10

github-actions

medcat/v2.0.0b4

c9e6c52

medcat/v2.0.0b4

There's a fair few fixes in this patch / beta release.
Most notably, some bug fixes for multiprocessing and some quality of life changes for that as well as well as other QoL changes.

What's Changed

CU-8699twteb: Update docs links to point to up to date page by @mart-r in #48
CU-8699rvhe9 Refer to PyPI medcat v2 by @mart-r in #46
CU-8699td0xq: Move to v2 model pack by @mart-r in #47
Fix license in pyproject.toml by @mart-r in #49
Improve some logging in MetaCAT when no suitable category is found by @mart-r in #50
CU-8699upt9a Allow saving output onto disk when multiprocessing by @mart-r in #52
CU-8699vkmu4: Allow load with merging config(s) by @mart-r in #53
CU-8699vq0he: Improve addon access from CAT by @mart-r in #55
CU-8699vnuwf Ignore hidden files when loading model packs by @mart-r in #54