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Relation extraction #173

Merged
merged 119 commits into from
May 1, 2024
Merged

Relation extraction #173

merged 119 commits into from
May 1, 2024

Commits on Aug 24, 2021

  1. Added files.

    @vladd-bit
    vladd-bit committed Aug 24, 2021
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Commits on Aug 31, 2021

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Aug 31, 2021
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Commits on Sep 1, 2021

  1. More additions to rel extraction.

    @vladd-bit
    vladd-bit committed Sep 1, 2021
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Commits on Sep 3, 2021

  1. Rel base.

    @vladd-bit
    vladd-bit committed Sep 3, 2021
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Commits on Sep 6, 2021

  1. Update.

    @vladd-bit
    vladd-bit committed Sep 6, 2021
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Commits on Sep 10, 2021

  1. Updates.

    @vladd-bit
    vladd-bit committed Sep 10, 2021
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Commits on Oct 1, 2021

  1. Dependency parsing.

    @vladd-bit
    vladd-bit committed Oct 1, 2021
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Commits on Oct 13, 2021

  1. Updates.

    @vladd-bit
    vladd-bit committed Oct 13, 2021
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Commits on Oct 15, 2021

  1. Added pre-training steps.

    @vladd-bit
    vladd-bit committed Oct 15, 2021
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Commits on Oct 18, 2021

  1. Added training & model utils.

    @vladd-bit
    vladd-bit committed Oct 18, 2021
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Commits on Oct 19, 2021

  1. Cleanup & fixes.

    @vladd-bit
    vladd-bit committed Oct 19, 2021
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Commits on Oct 21, 2021

  1. Update.

    @vladd-bit
    vladd-bit committed Oct 21, 2021
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Commits on Oct 27, 2021

  1. Evaluation updates for pretraining.

    @vladd-bit
    vladd-bit committed Oct 27, 2021
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Commits on Nov 9, 2021

  1. Removed duplicate relation storage.

    @vladd-bit
    vladd-bit committed Nov 9, 2021
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  2. Merged master.

    @vladd-bit
    vladd-bit committed Nov 9, 2021
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Commits on Nov 12, 2021

  1. Moved RE model file location.

    @vladd-bit
    vladd-bit committed Nov 12, 2021
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Commits on Nov 16, 2021

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Nov 16, 2021
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Commits on Nov 22, 2021

  1. Structure revisions.

    @vladd-bit
    vladd-bit committed Nov 22, 2021
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Commits on Dec 13, 2021

  1. Added custom config for RE.

    @vladd-bit
    vladd-bit committed Dec 13, 2021
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  2. Implemented custom dataset loader for RE.

    @vladd-bit
    vladd-bit committed Dec 13, 2021
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  3. More changes.

    @vladd-bit
    vladd-bit committed Dec 13, 2021
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  4. Small fix.

    @vladd-bit
    vladd-bit committed Dec 13, 2021
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Commits on Jan 19, 2022

  1. Latest additions to RelCAT (pipe + predictions)

    @vladd-bit
    vladd-bit committed Jan 19, 2022
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  2. Setup.py fix.

    @vladd-bit
    vladd-bit committed Jan 19, 2022
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  3. RE utils update.

    @vladd-bit
    vladd-bit committed Jan 19, 2022
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  4. rel model update.

    @vladd-bit
    vladd-bit committed Jan 19, 2022
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  5. rel dataset + tokenizer improvements.

    @vladd-bit
    vladd-bit committed Jan 19, 2022
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  6. RelCAT updates.

    @vladd-bit
    vladd-bit committed Jan 19, 2022
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Commits on Jan 21, 2022

  1. RelCAT saving/loading improvements.

    @vladd-bit
    vladd-bit committed Jan 21, 2022
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  2. RelCAT saving/loading improvements.

    @vladd-bit
    vladd-bit committed Jan 21, 2022
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  3. RelCAT model fixes.

    @vladd-bit
    vladd-bit committed Jan 21, 2022
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  4. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Jan 21, 2022
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Commits on Jan 24, 2022

  1. Attempted gpu learning fix. Dataset label generation fixes.

    @vladd-bit
    vladd-bit committed Jan 24, 2022
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  2. Minor train dataset gen fix.

    @vladd-bit
    vladd-bit committed Jan 24, 2022
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  3. Minor train dataset gen fix No.2.

    @vladd-bit
    vladd-bit committed Jan 24, 2022
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Commits on Jan 25, 2022

  1. Config updates.

    @vladd-bit
    vladd-bit committed Jan 25, 2022
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  2. Gpu support fixes. Added label stats.

    @vladd-bit
    vladd-bit committed Jan 25, 2022
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Commits on Jan 26, 2022

  1. Evaluation stat fixes.

    @vladd-bit
    vladd-bit committed Jan 26, 2022
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  2. Cleaned stat output mode during training.

    @vladd-bit
    vladd-bit committed Jan 26, 2022
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  3. Build fix.

    @vladd-bit
    vladd-bit committed Jan 26, 2022
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  4. removed unused dependencies and fixed code formatting

    @vladd-bit
    vladd-bit committed Jan 26, 2022
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  5. Mypy compliance.

    @vladd-bit
    vladd-bit committed Jan 26, 2022
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Commits on Jan 27, 2022

  1. Fixed linting.

    @vladd-bit
    vladd-bit committed Jan 27, 2022
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Commits on Jan 28, 2022

  1. More Gpu mode train fixes.

    @vladd-bit
    vladd-bit committed Jan 28, 2022
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  2. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Jan 28, 2022
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Commits on Jan 31, 2022

  1. Fixed model saving/loading issues when using other baes models.

    @vladd-bit
    vladd-bit committed Jan 31, 2022
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Commits on Feb 3, 2022

  1. More fixes to stat evaluation. Added proper CAT integration of RelCAT.

    @vladd-bit
    vladd-bit committed Feb 3, 2022
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  2. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Feb 3, 2022
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Commits on Mar 11, 2022

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Mar 11, 2022
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Commits on Mar 14, 2022

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Mar 14, 2022
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Commits on Mar 28, 2022

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Mar 28, 2022
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Commits on Apr 4, 2022

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Apr 4, 2022
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Commits on Apr 8, 2022

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Apr 8, 2022
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  2. Setup.py typo fix.

    @vladd-bit
    vladd-bit committed Apr 8, 2022
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  3. Merge branch 'relation_extraction' of https://github.com/CogStack/MedCAT 

     into relation_extraction
    @vladd-bit
    vladd-bit committed Apr 8, 2022
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Commits on May 10, 2022

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed May 10, 2022
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  2. RelCAT loading fix.

    @vladd-bit
    vladd-bit committed May 10, 2022
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Commits on Jul 21, 2022

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Jul 21, 2022
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Commits on Aug 1, 2022

  1. RelCAT Config changes.

    @vladd-bit
    vladd-bit committed Aug 1, 2022
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  2. Type fix. Minor additions to RelCAT model.

    @vladd-bit
    vladd-bit committed Aug 1, 2022
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  3. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Aug 1, 2022
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  4. Type fixes.

    @vladd-bit
    vladd-bit committed Aug 1, 2022
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Commits on Aug 2, 2022

  1. Type corrections.

    @vladd-bit
    vladd-bit committed Aug 2, 2022
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Commits on Mar 21, 2023

  1. RelCAT update.

    @vladd-bit
    vladd-bit committed Mar 21, 2023
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  2. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Mar 21, 2023
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Commits on May 22, 2023

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed May 22, 2023
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Commits on Dec 11, 2023

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Dec 11, 2023
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Commits on Dec 12, 2023

  1. Type fixes.

    @vladd-bit
    vladd-bit committed Dec 12, 2023
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Commits on Dec 13, 2023

  1. Merge branch 'relation_extraction' of https://github.com/CogStack/MedCAT 

     into relation_extraction
    @vladd-bit
    vladd-bit committed Dec 13, 2023
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  2. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Dec 13, 2023
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  3. Fixed type issue.

    @vladd-bit
    vladd-bit committed Dec 13, 2023
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  4. RelCATConfig: added seed param.

    @vladd-bit
    vladd-bit committed Dec 13, 2023
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Commits on Dec 15, 2023

  1. Adaptations to the new codebase + type fixes..

    @vladd-bit
    vladd-bit committed Dec 15, 2023
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Commits on Dec 19, 2023

  1. Doc/type fixes.

    @vladd-bit
    vladd-bit committed Dec 19, 2023
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Commits on Dec 20, 2023

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Dec 20, 2023
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Commits on Jan 8, 2024

  1. Fixed input size issue for model.

    @vladd-bit
    vladd-bit committed Jan 8, 2024
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Commits on Jan 16, 2024

  1. Fixed issue(s) with model size and config.

    @vladd-bit
    vladd-bit committed Jan 16, 2024
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  2. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Jan 16, 2024
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Commits on Jan 19, 2024

  1. RelCAT: updated configs to new style.

    @vladd-bit
    vladd-bit committed Jan 19, 2024
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  2. RelCAT: removed old refs to logging.

    @vladd-bit
    vladd-bit committed Jan 19, 2024
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Commits on Jan 29, 2024

  1. Merge branches 'relation_extraction' and 'master' of https://github.c… 

    …om/CogStack/MedCAT into relation_extraction
    @vladd-bit
    vladd-bit committed Jan 29, 2024
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Commits on Feb 7, 2024

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Feb 7, 2024
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  2. Fixed GPU training + added extra stat print for train set.

    @vladd-bit
    vladd-bit committed Feb 7, 2024
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  3. Type fixes.

    @vladd-bit
    vladd-bit committed Feb 7, 2024
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  4. Updated dev requirements.

    @vladd-bit
    vladd-bit committed Feb 7, 2024
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  5. Linting.

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    vladd-bit committed Feb 7, 2024
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Commits on Feb 9, 2024

  1. Merge branches 'relation_extraction' and 'master' of https://github.c… 

    …om/CogStack/MedCAT into relation_extraction
    @vladd-bit
    vladd-bit committed Feb 9, 2024
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  2. Fixed pin_memory issue when training on CPU.

    @vladd-bit
    vladd-bit committed Feb 9, 2024
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Commits on Mar 8, 2024

  1. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Mar 8, 2024
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Commits on Mar 21, 2024

  1. Updated RelCAT dataset get + default config.

    @vladd-bit
    vladd-bit committed Mar 21, 2024
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Commits on Mar 25, 2024

  1. Updated RelDS generator + default config

    @vladd-bit
    vladd-bit committed Mar 25, 2024
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  2. Linting.

    @vladd-bit
    vladd-bit committed Mar 25, 2024
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Commits on Apr 3, 2024

  1. Updated RelDatset + config.

    @vladd-bit
    vladd-bit committed Apr 3, 2024
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  2. Merge branch 'relation_extraction' of https://github.com/CogStack/MedCAT 

     into relation_extraction
    @vladd-bit
    vladd-bit committed Apr 3, 2024
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Commits on Apr 8, 2024

  1. Pushing updates to model 

    Made changes to:
1) Extracting given number of context tokens left and right of the entities
2) Extracting hidden state from bert for all the tokens of the entities and performing max pooling on them
    @shubham-s-agarwal
    shubham-s-agarwal committed Apr 8, 2024
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  2. Fixing formatting

    @shubham-s-agarwal
    shubham-s-agarwal committed Apr 8, 2024
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  3. Update rel_dataset.py

    @shubham-s-agarwal
    shubham-s-agarwal committed Apr 8, 2024
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  4. Update rel_dataset.py

    @shubham-s-agarwal
    shubham-s-agarwal committed Apr 8, 2024
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  5. Update rel_dataset.py

    @shubham-s-agarwal
    shubham-s-agarwal committed Apr 8, 2024
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Commits on Apr 9, 2024

  1. RelCAT: added test resource files.

    @vladd-bit
    vladd-bit committed Apr 9, 2024
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Commits on Apr 10, 2024

  1. RelCAT: Fixed model load/checkpointing.

    @vladd-bit
    vladd-bit committed Apr 10, 2024
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Commits on Apr 12, 2024

  1. RelCAT: updated to pipe spacy doc call.

    @vladd-bit
    vladd-bit committed Apr 12, 2024
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  2. RelCAT: added tests.

    @vladd-bit
    vladd-bit committed Apr 12, 2024
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  3. Merge branch 'relation_extraction' of https://github.com/CogStack/MedCAT 

     into relation_extraction
    @vladd-bit
    vladd-bit committed Apr 12, 2024
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Commits on Apr 15, 2024

  1. Fixed lint/type issues & added rel tag to test DS.

    @vladd-bit
    vladd-bit committed Apr 15, 2024
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  2. Fixed ann id to token issue.

    @vladd-bit
    vladd-bit committed Apr 15, 2024
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Commits on Apr 18, 2024

  1. RelCAT: updated test dataset + tests.

    @vladd-bit
    vladd-bit committed Apr 18, 2024
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  2. RelCAT: updates to requested changes + dataset improvements.

    @vladd-bit
    vladd-bit committed Apr 18, 2024
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  3. RelCAT: updated docs/logs according to commends.

    @vladd-bit
    vladd-bit committed Apr 18, 2024
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  4. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Apr 18, 2024
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  5. RelCAT: type fix.

    @vladd-bit
    vladd-bit committed Apr 18, 2024
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Commits on Apr 19, 2024

  1. RelCAT: mct export dataset updates.

    @vladd-bit
    vladd-bit committed Apr 19, 2024
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  2. RelCAT: test updates + requested changes p2.

    @vladd-bit
    vladd-bit committed Apr 19, 2024
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  3. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Apr 19, 2024
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  4. RelCAT: log for MCT export train.

    @vladd-bit
    vladd-bit committed Apr 19, 2024
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Commits on Apr 26, 2024

  1. Updated docs + split train_test & dataset for benchmarks.

    @vladd-bit
    vladd-bit committed Apr 26, 2024
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  2. type fixes.

    @vladd-bit
    vladd-bit committed Apr 26, 2024
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  3. Merge branch 'master' of https://github.com/CogStack/MedCAT into rela… 

    …tion_extraction
    @vladd-bit
    vladd-bit committed Apr 26, 2024
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Commits on Apr 29, 2024

  1. Merge branch 'master' into relation_extraction

    @mart-r
    mart-r committed Apr 29, 2024
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