Upload folder using huggingface_hub
Browse files- .gitattributes +1 -0
- eval_metrics.json +12 -0
- eval_metrics_first.json +11 -0
- final_checkpoint/config.json +37 -0
- final_checkpoint/model.safetensors +3 -0
- final_checkpoint/special_tokens_map.json +7 -0
- final_checkpoint/tokenizer.json +0 -0
- final_checkpoint/tokenizer_config.json +58 -0
- final_checkpoint/training_args.bin +3 -0
- final_checkpoint/vocab.txt +0 -0
- test_metrics.json +34 -0
- test_metrics_first.json +32 -0
- test_predictions.tsv +3 -0
- train_metrics.json +10 -0
- train_metrics_first.json +9 -0
.gitattributes
CHANGED
|
@@ -33,3 +33,4 @@ saved_model/**/* filter=lfs diff=lfs merge=lfs -text
|
|
| 33 |
*.zip filter=lfs diff=lfs merge=lfs -text
|
| 34 |
*.zst filter=lfs diff=lfs merge=lfs -text
|
| 35 |
*tfevents* filter=lfs diff=lfs merge=lfs -text
|
|
|
|
|
|
| 33 |
*.zip filter=lfs diff=lfs merge=lfs -text
|
| 34 |
*.zst filter=lfs diff=lfs merge=lfs -text
|
| 35 |
*tfevents* filter=lfs diff=lfs merge=lfs -text
|
| 36 |
+
test_predictions.tsv filter=lfs diff=lfs merge=lfs -text
|
eval_metrics.json
ADDED
|
@@ -0,0 +1,12 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"eval_loss": 0.08838225156068802,
|
| 3 |
+
"eval_precision_micro": 0.9137209057196792,
|
| 4 |
+
"eval_recall_micro": 0.92101958814666,
|
| 5 |
+
"eval_f1_macro": 0.9173557296852678,
|
| 6 |
+
"eval_runtime": 203.9297,
|
| 7 |
+
"eval_samples_per_second": 173.241,
|
| 8 |
+
"eval_steps_per_second": 5.419,
|
| 9 |
+
"epoch": 5.0,
|
| 10 |
+
"eval_time_sec": 203.94711804389954,
|
| 11 |
+
"seed": 42
|
| 12 |
+
}
|
eval_metrics_first.json
ADDED
|
@@ -0,0 +1,11 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"eval_loss": 0.05052988976240158,
|
| 3 |
+
"eval_precision": 0.9132909943929511,
|
| 4 |
+
"eval_recall": 0.925076304910559,
|
| 5 |
+
"eval_f1": 0.9191458733205373,
|
| 6 |
+
"eval_runtime": 195.042,
|
| 7 |
+
"eval_samples_per_second": 181.135,
|
| 8 |
+
"eval_steps_per_second": 5.665,
|
| 9 |
+
"epoch": 2.0,
|
| 10 |
+
"eval_time_sec": 195.07488226890564
|
| 11 |
+
}
|
final_checkpoint/config.json
ADDED
|
@@ -0,0 +1,37 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"_name_or_path": "alvaroalon2/biobert_genetic_ner",
|
| 3 |
+
"_num_labels": 3,
|
| 4 |
+
"architectures": [
|
| 5 |
+
"BertForTokenClassification"
|
| 6 |
+
],
|
| 7 |
+
"attention_probs_dropout_prob": 0.1,
|
| 8 |
+
"classifier_dropout": null,
|
| 9 |
+
"gradient_checkpointing": false,
|
| 10 |
+
"hidden_act": "gelu",
|
| 11 |
+
"hidden_dropout_prob": 0.1,
|
| 12 |
+
"hidden_size": 768,
|
| 13 |
+
"id2label": {
|
| 14 |
+
"0": "B",
|
| 15 |
+
"1": "I",
|
| 16 |
+
"2": "O"
|
| 17 |
+
},
|
| 18 |
+
"initializer_range": 0.02,
|
| 19 |
+
"intermediate_size": 3072,
|
| 20 |
+
"label2id": {
|
| 21 |
+
"B": 0,
|
| 22 |
+
"I": 1,
|
| 23 |
+
"O": 2
|
| 24 |
+
},
|
| 25 |
+
"layer_norm_eps": 1e-12,
|
| 26 |
+
"max_position_embeddings": 512,
|
| 27 |
+
"model_type": "bert",
|
| 28 |
+
"num_attention_heads": 12,
|
| 29 |
+
"num_hidden_layers": 12,
|
| 30 |
+
"pad_token_id": 0,
|
| 31 |
+
"position_embedding_type": "absolute",
|
| 32 |
+
"torch_dtype": "float32",
|
| 33 |
+
"transformers_version": "4.45.2",
|
| 34 |
+
"type_vocab_size": 2,
|
| 35 |
+
"use_cache": true,
|
| 36 |
+
"vocab_size": 28996
|
| 37 |
+
}
|
final_checkpoint/model.safetensors
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:5da5a0d170bf24bf3d3465b4f735e90a5f67fa31b0cae02efad36fc0d4575eec
|
| 3 |
+
size 430911284
|
final_checkpoint/special_tokens_map.json
ADDED
|
@@ -0,0 +1,7 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"cls_token": "[CLS]",
|
| 3 |
+
"mask_token": "[MASK]",
|
| 4 |
+
"pad_token": "[PAD]",
|
| 5 |
+
"sep_token": "[SEP]",
|
| 6 |
+
"unk_token": "[UNK]"
|
| 7 |
+
}
|
final_checkpoint/tokenizer.json
ADDED
|
The diff for this file is too large to render.
See raw diff
|
|
|
final_checkpoint/tokenizer_config.json
ADDED
|
@@ -0,0 +1,58 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"added_tokens_decoder": {
|
| 3 |
+
"0": {
|
| 4 |
+
"content": "[PAD]",
|
| 5 |
+
"lstrip": false,
|
| 6 |
+
"normalized": false,
|
| 7 |
+
"rstrip": false,
|
| 8 |
+
"single_word": false,
|
| 9 |
+
"special": true
|
| 10 |
+
},
|
| 11 |
+
"100": {
|
| 12 |
+
"content": "[UNK]",
|
| 13 |
+
"lstrip": false,
|
| 14 |
+
"normalized": false,
|
| 15 |
+
"rstrip": false,
|
| 16 |
+
"single_word": false,
|
| 17 |
+
"special": true
|
| 18 |
+
},
|
| 19 |
+
"101": {
|
| 20 |
+
"content": "[CLS]",
|
| 21 |
+
"lstrip": false,
|
| 22 |
+
"normalized": false,
|
| 23 |
+
"rstrip": false,
|
| 24 |
+
"single_word": false,
|
| 25 |
+
"special": true
|
| 26 |
+
},
|
| 27 |
+
"102": {
|
| 28 |
+
"content": "[SEP]",
|
| 29 |
+
"lstrip": false,
|
| 30 |
+
"normalized": false,
|
| 31 |
+
"rstrip": false,
|
| 32 |
+
"single_word": false,
|
| 33 |
+
"special": true
|
| 34 |
+
},
|
| 35 |
+
"103": {
|
| 36 |
+
"content": "[MASK]",
|
| 37 |
+
"lstrip": false,
|
| 38 |
+
"normalized": false,
|
| 39 |
+
"rstrip": false,
|
| 40 |
+
"single_word": false,
|
| 41 |
+
"special": true
|
| 42 |
+
}
|
| 43 |
+
},
|
| 44 |
+
"clean_up_tokenization_spaces": true,
|
| 45 |
+
"cls_token": "[CLS]",
|
| 46 |
+
"do_basic_tokenize": true,
|
| 47 |
+
"do_lower_case": false,
|
| 48 |
+
"mask_token": "[MASK]",
|
| 49 |
+
"max_len": 512,
|
| 50 |
+
"model_max_length": 512,
|
| 51 |
+
"never_split": null,
|
| 52 |
+
"pad_token": "[PAD]",
|
| 53 |
+
"sep_token": "[SEP]",
|
| 54 |
+
"strip_accents": null,
|
| 55 |
+
"tokenize_chinese_chars": true,
|
| 56 |
+
"tokenizer_class": "BertTokenizer",
|
| 57 |
+
"unk_token": "[UNK]"
|
| 58 |
+
}
|
final_checkpoint/training_args.bin
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:328951f9d3ed651c94d20659b0ecebfde97a0d12959e2f83ecad51a5c4235cc7
|
| 3 |
+
size 5585
|
final_checkpoint/vocab.txt
ADDED
|
The diff for this file is too large to render.
See raw diff
|
|
|
test_metrics.json
ADDED
|
@@ -0,0 +1,34 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"precision": 0.9323169988588396,
|
| 3 |
+
"recall": 0.9191196548522745,
|
| 4 |
+
"f1_micro": 0.9256712904396801,
|
| 5 |
+
"f1_macro": 0.9256712904396801,
|
| 6 |
+
"classification_report": {
|
| 7 |
+
"_": {
|
| 8 |
+
"precision": 0.9323169988588396,
|
| 9 |
+
"recall": 0.9191196548522745,
|
| 10 |
+
"f1-score": 0.9256712904396801,
|
| 11 |
+
"support": 91555
|
| 12 |
+
},
|
| 13 |
+
"micro avg": {
|
| 14 |
+
"precision": 0.9323169988588396,
|
| 15 |
+
"recall": 0.9191196548522745,
|
| 16 |
+
"f1-score": 0.9256712904396801,
|
| 17 |
+
"support": 91555
|
| 18 |
+
},
|
| 19 |
+
"macro avg": {
|
| 20 |
+
"precision": 0.9323169988588396,
|
| 21 |
+
"recall": 0.9191196548522745,
|
| 22 |
+
"f1-score": 0.9256712904396801,
|
| 23 |
+
"support": 91555
|
| 24 |
+
},
|
| 25 |
+
"weighted avg": {
|
| 26 |
+
"precision": 0.9323169988588396,
|
| 27 |
+
"recall": 0.9191196548522745,
|
| 28 |
+
"f1-score": 0.9256712904396801,
|
| 29 |
+
"support": 91555
|
| 30 |
+
}
|
| 31 |
+
},
|
| 32 |
+
"pred_time_sec": 180.53782844543457,
|
| 33 |
+
"seed": 42
|
| 34 |
+
}
|
test_metrics_first.json
ADDED
|
@@ -0,0 +1,32 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"precision": 0.9310599464350663,
|
| 3 |
+
"recall": 0.9226803560701218,
|
| 4 |
+
"f1": 0.9268512118319564,
|
| 5 |
+
"classification_report": {
|
| 6 |
+
"_": {
|
| 7 |
+
"precision": 0.9310599464350663,
|
| 8 |
+
"recall": 0.9226803560701218,
|
| 9 |
+
"f1-score": 0.9268512118319564,
|
| 10 |
+
"support": 91555
|
| 11 |
+
},
|
| 12 |
+
"micro avg": {
|
| 13 |
+
"precision": 0.9310599464350663,
|
| 14 |
+
"recall": 0.9226803560701218,
|
| 15 |
+
"f1-score": 0.9268512118319564,
|
| 16 |
+
"support": 91555
|
| 17 |
+
},
|
| 18 |
+
"macro avg": {
|
| 19 |
+
"precision": 0.9310599464350663,
|
| 20 |
+
"recall": 0.9226803560701218,
|
| 21 |
+
"f1-score": 0.9268512118319564,
|
| 22 |
+
"support": 91555
|
| 23 |
+
},
|
| 24 |
+
"weighted avg": {
|
| 25 |
+
"precision": 0.9310599464350662,
|
| 26 |
+
"recall": 0.9226803560701218,
|
| 27 |
+
"f1-score": 0.9268512118319565,
|
| 28 |
+
"support": 91555
|
| 29 |
+
}
|
| 30 |
+
},
|
| 31 |
+
"pred_time_sec": 173.10948252677917
|
| 32 |
+
}
|
test_predictions.tsv
ADDED
|
@@ -0,0 +1,3 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
version https://git-lfs.github.com/spec/v1
|
| 2 |
+
oid sha256:8659a9c6c5d3629da8b5ac79cb7cb6801e8930964fc1d80b281d6380dfeb9424
|
| 3 |
+
size 22966921
|
train_metrics.json
ADDED
|
@@ -0,0 +1,10 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"train_runtime": 4122.4685,
|
| 3 |
+
"train_samples_per_second": 43.258,
|
| 4 |
+
"train_steps_per_second": 2.705,
|
| 5 |
+
"total_flos": 4.659747190981632e+16,
|
| 6 |
+
"train_loss": 0.01937991304782474,
|
| 7 |
+
"epoch": 5.0,
|
| 8 |
+
"train_time_sec": 4123.80143737793,
|
| 9 |
+
"seed": 42
|
| 10 |
+
}
|
train_metrics_first.json
ADDED
|
@@ -0,0 +1,9 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"train_runtime": 1643.2986,
|
| 3 |
+
"train_samples_per_second": 43.408,
|
| 4 |
+
"train_steps_per_second": 2.714,
|
| 5 |
+
"total_flos": 1.863898876392653e+16,
|
| 6 |
+
"train_loss": 0.03703516288723112,
|
| 7 |
+
"epoch": 2.0,
|
| 8 |
+
"train_time_sec": 1644.5519206523895
|
| 9 |
+
}
|