Upload 17 files

training_trf/model-best/config.cfg

@@ -28,8 +28,8 @@ factory = "torch_ner"
 @architectures = "TorchEntityRecognizer.v1"
 hidden_width = 48
 nO = 11
-dropout = 0.1
 width = 768
+dropout = 0.1
 
 [components.torch_ner.model.tok2vec]
 @architectures = "spacy-transformers.TransformerListener.v1"
@@ -79,12 +79,13 @@ dropout = 0.1
 accumulate_gradient = 1
 patience = 1600000
 max_epochs = 0
-max_steps = 2
+max_steps = 20000
 eval_frequency = 100
 frozen_components = []
 dev_corpus = "corpora.dev"
 train_corpus = "corpora.train"
 before_to_disk = null
+annotating_components = []
 
 [training.batcher]
 @batchers = "spacy.batch_by_padded.v1"
@@ -110,14 +111,14 @@ eps = 0.00000001
 [training.optimizer.learn_rate]
 @schedules = "warmup_linear.v1"
 warmup_steps = 250
-total_steps = 2
+total_steps = 20000
 initial_rate = 0.00005
 
 [training.score_weights]
-ents_per_type = null
 ents_f = 1.0
 ents_p = 0.0
 ents_r = 0.0
+ents_per_type = null
 
 [pretraining]
 

training_trf/model-best/meta.json

@@ -2,13 +2,13 @@
   "lang":"en",
   "name":"pipeline",
   "version":"0.0.0",
-  "spacy_version":">=3.0.5,<3.1.0",
+  "spacy_version":">=3.1.1,<3.2.0",
   "description":"",
   "author":"",
   "email":"",
   "url":"",
   "license":"",
-  "spacy_git_version":"53a3b967a",
+  "spacy_git_version":"ffaead8fe",
   "vectors":{
     "width":0,
     "vectors":0,
@@ -45,37 +45,37 @@
 
   ],
   "performance":{
+    "ents_f":0.8339137593,
+    "ents_p":0.8182157058,
+    "ents_r":0.8502259522,
     "ents_per_type":{
       "test":{
-        "p":0.7299306244,
-        "r":0.8519375361,
-        "f":0.7862289832
-      },
-      "treatment":{
-        "p":0.6986449864,
-        "r":0.8397394137,
-        "f":0.7627218935
+        "p":0.8082727781,
+        "r":0.8363215732,
+        "f":0.8220579875
       },
       "pronoun":{
-        "p":0.9867021277,
-        "r":0.9867021277,
-        "f":0.9867021277
+        "p":0.9892473118,
+        "r":0.9787234043,
+        "f":0.9839572193
       },
       "person":{
-        "p":0.8752107926,
-        "r":0.8932874355,
-        "f":0.8841567291
+        "p":0.9094579008,
+        "r":0.9047619048,
+        "f":0.9071038251
       },
       "problem":{
-        "p":0.7603921569,
-        "r":0.8209144793,
-        "f":0.789495114
+        "p":0.744809362,
+        "r":0.8353090601,
+        "f":0.7874675713
+      },
+      "treatment":{
+        "p":0.8118351064,
+        "r":0.7954397394,
+        "f":0.8035538006
       }
     },
-    "ents_f":0.8127260467,
-    "ents_p":0.7736928105,
-    "ents_r":0.8559070368,
-    "transformer_loss":0.0232139751,
-    "torch_ner_loss":2.7205681801
+    "transformer_loss":0.3640895431,
+    "torch_ner_loss":404.4625749518
   }
 }

training_trf/model-best/transformer/model/config.json

@@ -1,5 +1,5 @@
 {
-  "_name_or_path": "/notebooks/Clinical_NER/training_trf/model-last/transformer/model",
+  "_name_or_path": "roberta-base",
   "architectures": [
     "RobertaForMaskedLM"
   ],

training_trf/model-best/transformer/model/pytorch_model.bin

@@ -1,3 +1,3 @@
 version https://git-lfs.github.com/spec/v1
-oid sha256:514af47af71092773f76def3e67f3bd3b56709d95b4310aac8fa1386b242eae5
-size 498669047
+oid sha256:96ad2bf189ddf1ab1345f9cc17577a02acb5e225d79951b1d777910a13002107
+size 498667479

training_trf/model-best/transformer/model/tokenizer_config.json

@@ -1 +1 @@
-{"unk_token": "<unk>", "bos_token": "<s>", "eos_token": "</s>", "add_prefix_space": false, "errors": "replace", "sep_token": "</s>", "cls_token": "<s>", "pad_token": "<pad>", "mask_token": "<mask>", "model_max_length": 512, "special_tokens_map_file": null, "name_or_path": "/notebooks/Clinical_NER/training_trf/model-last/transformer/model", "tokenizer_class": "RobertaTokenizer"}
+{"unk_token": "<unk>", "bos_token": "<s>", "eos_token": "</s>", "add_prefix_space": false, "errors": "replace", "sep_token": "</s>", "cls_token": "<s>", "pad_token": "<pad>", "mask_token": "<mask>", "model_max_length": 512, "special_tokens_map_file": null, "name_or_path": "roberta-base", "tokenizer_class": "RobertaTokenizer"}