From 563e156be9d469df5f9ee5b815415fcfd3edf2c3 Mon Sep 17 00:00:00 2001 From: Mart Ratas Date: Tue, 25 Jun 2024 18:03:43 +0300 Subject: [PATCH] CU-8694vxcyx MedCAT 1.12 support (#22) * CU-8693v4mx1: Update ICD10 and OPCS4 mappings in SNOMED CDB preprocessing * CU-8694vxcyx: Remove deprecated method usage and reference * CU-8694vxcyx: Bump medcat requirement to 1.12 --- ...ervised_Training_and_Meta_annotations.html | 50 +++++++++---------- ...rvised_Training_and_Meta_annotations.ipynb | 14 +++--- requirements-dev.txt | 4 +- 3 files changed, 34 insertions(+), 34 deletions(-) diff --git a/notebooks/introductory/Part_4_2_Supervised_Training_and_Meta_annotations.html b/notebooks/introductory/Part_4_2_Supervised_Training_and_Meta_annotations.html index 132a77e..0d8d8a9 100644 --- a/notebooks/introductory/Part_4_2_Supervised_Training_and_Meta_annotations.html +++ b/notebooks/introductory/Part_4_2_Supervised_Training_and_Meta_annotations.html @@ -13799,7 +13799,7 @@

Fine-tuning the NER+L model
-

To fine-tune the existing models we use the train_supervised() method from MedCAT. The method has the following options:

+

To fine-tune the existing models we use the train_supervised_from_json() method from MedCAT. The method has the following options:

data_path - Path to the JSON file exported from MedCATtrainer

reset_cui_count - Each cui has an internal counter that is used for weight decay, this will reset it.

@@ -13823,11 +13823,11 @@

Fine-tuning the NER+L modelIn [11]:

-
cat.train_supervised(data_path=DATA_DIR + "MedCAT_Export.json", 
-                     nepochs=1,
-                     reset_cui_count=False,
-                     print_stats=True, 
-                     use_filters=True) 
+
cat.train_supervised_from_json(data_path=DATA_DIR + "MedCAT_Export.json", 
+                               nepochs=1,
+                               reset_cui_count=False,
+                               print_stats=True, 
+                               use_filters=True)
@@ -13859,10 +13859,10 @@

Fine-tuning the NER+L model

+